Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold42
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 3911082
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
Warning! 18191 characters in sequence are not A, C, G, or T
File 18 of 24
Found at i:2718255 original size:32 final size:32
Alignment explanation
Indices: 2718214--2718276 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
2718204 TAGCTAATTA
*
2718214 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
2718246 TGTATCGATACAAAACTTATGTATCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
2718277 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:2719590 original size:13 final size:13
Alignment explanation
Indices: 2719572--2719597 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2719562 CAATTTTTTG
2719572 TGTATCGATACAT
1 TGTATCGATACAT
2719585 TGTATCGATACAT
1 TGTATCGATACAT
2719598 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2722313 original size:22 final size:22
Alignment explanation
Indices: 2722270--2722324 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 22
2722260 CAACAACTCC
* * *
2722270 AACACCAGCAGTAATTCCAGCA
1 AACACCAACAGCAACTCCAGCA
*
2722292 AACACCAACAGCAACTCTAGCA
1 AACACCAACAGCAACTCCAGCA
* *
2722314 AGCTCCAACAG
1 AACACCAACAG
2722325 TAGCAAACAC
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.42, C:0.35, G:0.13, T:0.11
Consensus pattern (22 bp):
AACACCAACAGCAACTCCAGCA
Found at i:2724685 original size:157 final size:156
Alignment explanation
Indices: 2723992--2724942 Score: 850
Period size: 156 Copynumber: 6.1 Consensus size: 156
2723982 CATACCTATC
* * * * ***
2723992 CTTTTTAAGTCCTTTAGGGGTACCGAGATACTTTCACGTCGAAGGTA-ACTCC-TGGGGGTATTT
1 CTTTTTAGGTCCTTTAGGGTTACCGGGATACTTTTACGTCGAAGGTATAC-CCATAAAGGTATTT
* ** * * * ** ** * * * *
2724055 TTGTAATTTTTTTAGAATCGAGTCCTAGGTCATCACCGAATCCGCTTTTATGTCAAAGGTTGGCA
65 TCGTAA-TTTCCTAAAACCAAGTCCTAGGTTGTCACCGGGTCTGCTTTTATGCCGAAGGTAGGCA
*
2724120 TTTAGGATAGGTTCACCCCTTTTCTAGT
129 TTTAGGATAGGTTCATCCCTTTTCTAGT
* * * *
2724148 CTTTTTAGGTCCTTTAGGG-TACCGAGATACTTTCACGTCGAAAGTAT-CCCTTAAAGGTATTTT
1 CTTTTTAGGTCCTTTAGGGTTACCGGGATACTTTTACGTCGAAGGTATACCCATAAAGGTATTTT
* * * * * * *
2724211 CATAATTTTTCTAAAACCAACTCCTAGGTCGTCATCTGGTCCGCTTTTATGCCGAAGGT--G---
66 CGTAA-TTTCCTAAAACCAAGTCCTAGGTTGTCACCGGGTCTGCTTTTATGCCGAAGGTAGGCAT
* *
2724271 TTAAGATAGGTTCA-CCGTTTTTCTAGT
130 TTAGGATAGGTTCATCC-CTTTTCTAGT
** * * * * ** *
2724298 CTTTTTAGGTATTTTAGGGTTACCGGGGTACTTTTACGTCAAAGGTATACTCGTAGGGGCATTTT
1 CTTTTTAGGTCCTTTAGGGTTACCGGGATACTTTTACGTCGAAGGTATACCCATAAAGGTATTTT
* * * * *
2724363 TGTAATTTCTTAAAATCGAGTCCTAGGTTGTCACCGGGTTTGCTTTTATGCCGAAGGTAGGCATT
66 CGTAATTTCCTAAAACCAAGTCCTAGGTTGTCACCGGGTCTGCTTTTATGCCGAAGGTAGGCATT
*
2724428 TAAGATAGGTTCATCCCTTTTCTAGT
131 TAGGATAGGTTCATCCCTTTTCTAGT
* * ** * * * * * **
2724454 CTTTTTAAGTCTTTTAGGGTTGTCGGGATACTTCTACGTTGAAAGTATACCTAGAGCGGTATTTT
1 CTTTTTAGGTCCTTTAGGGTTACCGGGATACTTTTACGTCGAAGGTATACCCATAAAGGTATTTT
* * *** * ** * * * *
2724519 TGTAATTTCCTAGAATTGAGTCTTAGGTTGTCGTCGAGTCTACTTTTATACTGAAGGTAGGCATT
66 CGTAATTTCCTAAAACCAAGTCCTAGGTTGTCACCGGGTCTGCTTTTATGCCGAAGGTAGGCATT
2724584 TAGGATAGGTTCATCCCTTTTTCTAGT
131 TAGGATAGGTTCATCCC-TTTTCTAGT
* * *
2724611 CTTTTTAGGTCCTTTAGTGTTGCCGGGGTACTTTTACGTCGAAGGTATACCCATAAAGGTATTTT
1 CTTTTTAGGTCCTTTAGGGTTACCGGGATACTTTTACGTCGAAGGTATACCCATAAAGGTATTTT
* * * * *
2724676 CATAATTTCCTAAAACCAAGTCCTAGATTATCACCGGGTCTGCTTTTATGCC-ACAAGTGGGCAT
66 CGTAATTTCCTAAAACCAAGTCCTAGGTTGTCACCGGGTCTGCTTTTATGCCGA-AGGTAGGCAT
*
2724740 TTAGGATAGGTTCATCACCATTTCTAGT
130 TTAGGATAGGTTCATC-CCTTTTCTAGT
* ** * * * * * *
2724768 CTTTTTAAGTCCTTTAGGG-TACCAAGATACTTTCATGTCGAAGGTAT-CTCTTAAGGGCA-TTT
1 CTTTTTAGGTCCTTTAGGGTTACCGGGATACTTTTACGTCGAAGGTATACCCATAAAGGTATTTT
* * * * * *
2724830 CGTAATTTTTCTAAAACCAACTCTTAGGTTGTCACTGGGTCCGCTTTTATGCCGAAGGTGGGCAT
66 CGTAA-TTTCCTAAAACCAAGTCCTAGGTTGTCACCGGGTCTGCTTTTATGCCGAAGGTAGGCAT
*
2724895 TTAGGATAGGTTCATCCATTTTCTAGT
130 TTAGGATAGGTTCATCCCTTTTCTAGT
2724922 CTTTTTAGGTCCTTTAGGGTT
1 CTTTTTAGGTCCTTTAGGGTT
2724943 GCTGAGTACT
Statistics
Matches: 651, Mismatches: 127, Indels: 35
0.80 0.16 0.04
Matches are distributed among these distances:
149 2 0.00
150 39 0.06
151 66 0.10
152 14 0.02
153 2 0.00
154 36 0.06
155 155 0.24
156 185 0.28
157 150 0.23
158 2 0.00
ACGTcount: A:0.22, C:0.18, G:0.21, T:0.38
Consensus pattern (156 bp):
CTTTTTAGGTCCTTTAGGGTTACCGGGATACTTTTACGTCGAAGGTATACCCATAAAGGTATTTT
CGTAATTTCCTAAAACCAAGTCCTAGGTTGTCACCGGGTCTGCTTTTATGCCGAAGGTAGGCATT
TAGGATAGGTTCATCCCTTTTCTAGT
Found at i:2725353 original size:19 final size:20
Alignment explanation
Indices: 2725308--2725360 Score: 81
Period size: 20 Copynumber: 2.7 Consensus size: 20
2725298 ATTTCAACGA
2725308 TTTGTATCGATACATAAGGT
1 TTTGTATCGATACATAAGGT
*
2725328 GTTGTATCGATACATAA-GT
1 TTTGTATCGATACATAAGGT
*
2725347 TTTGTATTGATACA
1 TTTGTATCGATACA
2725361 ATTTAGGCTA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 14 0.47
20 16 0.53
ACGTcount: A:0.30, C:0.09, G:0.19, T:0.42
Consensus pattern (20 bp):
TTTGTATCGATACATAAGGT
Found at i:2725421 original size:13 final size:13
Alignment explanation
Indices: 2725403--2725427 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2725393 ATTACTCAAA
2725403 TGTATCGATACAT
1 TGTATCGATACAT
2725416 TGTATCGATACA
1 TGTATCGATACA
2725428 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2725480 original size:52 final size:52
Alignment explanation
Indices: 2725436--2725564 Score: 195
Period size: 52 Copynumber: 2.5 Consensus size: 52
2725426 CACTGATCTT
* *
2725436 TGTATCGATACATGCAGGCAAATTTGCCTAGATGTATCGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAAATGTATCGATACACTATAAAA
* * *
2725488 TGTATCGATACATGCAAGCAAATTTGCCCAAATATATCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAAATGTATCGATACACTATAAAA
* *
2725540 TGTATCGATACGTGCAGGCGAATTT
1 TGTATCGATACATGCAGGCAAATTT
2725565 TCATATTTCG
Statistics
Matches: 69, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
52 69 1.00
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAAATGTATCGATACACTATAAAA
Found at i:2736011 original size:24 final size:26
Alignment explanation
Indices: 2735984--2736034 Score: 61
Period size: 27 Copynumber: 2.0 Consensus size: 26
2735974 TCAGAATTTT
2735984 ATTCAT-C-GGAGACACTCCAACCCC
1 ATTCATCCAGGAGACACTCCAACCCC
* *
2736008 ATTCCTCCGAGGGGACACTCCAACCCC
1 ATTCATCC-AGGAGACACTCCAACCCC
2736035 GTTTTCAATC
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
24 5 0.23
25 1 0.05
27 16 0.73
ACGTcount: A:0.25, C:0.43, G:0.16, T:0.16
Consensus pattern (26 bp):
ATTCATCCAGGAGACACTCCAACCCC
Found at i:2740339 original size:15 final size:14
Alignment explanation
Indices: 2740314--2740349 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 14
2740304 TTCTCTAGAA
2740314 AAAAGAAGAAAAAGG
1 AAAA-AAGAAAAAGG
2740329 AAGAAAAGAAAAAGG
1 AA-AAAAGAAAAAGG
2740344 AAAAAA
1 AAAAAA
2740350 CATGAAATGA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
14 4 0.20
15 14 0.70
16 2 0.10
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (14 bp):
AAAAAAGAAAAAGG
Found at i:2740648 original size:18 final size:18
Alignment explanation
Indices: 2740621--2740661 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
2740611 GGAAAGGTTG
*
2740621 TGAAAGAGAAGAAAAAAA
1 TGAAAAAGAAGAAAAAAA
2740639 TGAAAAAGAAGAAAAAAA
1 TGAAAAAGAAGAAAAAAA
*
2740657 AGAAA
1 TGAAA
2740662 TGGAAAAAGG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.20, T:0.05
Consensus pattern (18 bp):
TGAAAAAGAAGAAAAAAA
Found at i:2744491 original size:32 final size:32
Alignment explanation
Indices: 2744450--2744552 Score: 170
Period size: 32 Copynumber: 3.2 Consensus size: 32
2744440 AGCTTCGTAG
* *
2744450 CGATACATTGTATCGATATAAAACTTATGTAT
1 CGATACATTGTATCGATACAACACTTATGTAT
*
2744482 CGATACATTGTATCGCTACAACACTTATGTAT
1 CGATACATTGTATCGATACAACACTTATGTAT
*
2744514 CGATACATTGTATCGATACAACACTTACGTAT
1 CGATACATTGTATCGATACAACACTTATGTAT
2744546 CGATACA
1 CGATACA
2744553 ACACTTATGT
Statistics
Matches: 66, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 66 1.00
ACGTcount: A:0.35, C:0.19, G:0.13, T:0.33
Consensus pattern (32 bp):
CGATACATTGTATCGATACAACACTTATGTAT
Found at i:2744495 original size:13 final size:13
Alignment explanation
Indices: 2744477--2744533 Score: 51
Period size: 13 Copynumber: 3.9 Consensus size: 13
2744467 ATAAAACTTA
2744477 TGTATCGATACAT
1 TGTATCGATACAT
*
2744490 TGTATCGCTACAACACTT
1 TGTATCG--A-TACA--T
2744508 ATGTATCGATACAT
1 -TGTATCGATACAT
2744522 TGTATCGATACA
1 TGTATCGATACA
2744534 ACACTTACGT
Statistics
Matches: 36, Mismatches: 2, Indels: 12
0.72 0.04 0.24
Matches are distributed among these distances:
13 19 0.53
14 1 0.03
15 1 0.03
16 6 0.17
17 1 0.03
18 1 0.03
19 7 0.19
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.35
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2744514 original size:19 final size:19
Alignment explanation
Indices: 2744458--2744571 Score: 108
Period size: 19 Copynumber: 6.6 Consensus size: 19
2744448 AGCGATACAT
* *
2744458 TGTATCGATATAAAACTTA
1 TGTATCGATACAACACTTA
2744477 TGTATCGAT---ACA--T-
1 TGTATCGATACAACACTTA
*
2744490 TGTATCGCTACAACACTTA
1 TGTATCGATACAACACTTA
2744509 TGTATCGAT---ACA--T-
1 TGTATCGATACAACACTTA
2744522 TGTATCGATACAACACTTA
1 TGTATCGATACAACACTTA
*
2744541 CGTATCGATACAACACTTA
1 TGTATCGATACAACACTTA
2744560 TGTATCGATACA
1 TGTATCGATACA
2744572 GTTACTGTTG
Statistics
Matches: 78, Mismatches: 5, Indels: 24
0.73 0.05 0.22
Matches are distributed among these distances:
13 17 0.22
14 2 0.03
16 11 0.14
18 2 0.03
19 46 0.59
ACGTcount: A:0.35, C:0.19, G:0.12, T:0.33
Consensus pattern (19 bp):
TGTATCGATACAACACTTA
Found at i:2745461 original size:21 final size:21
Alignment explanation
Indices: 2745424--2745482 Score: 82
Period size: 21 Copynumber: 2.8 Consensus size: 21
2745414 TACTGCCAAA
* *
2745424 AAATGTATCGATGCATTACTC
1 AAATATATCGATACATTACTC
*
2745445 AAATATATTGATACATTACTC
1 AAATATATCGATACATTACTC
*
2745466 AAATGTATCGATACATT
1 AAATATATCGATACATT
2745483 GTATCGATAC
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.39, C:0.15, G:0.10, T:0.36
Consensus pattern (21 bp):
AAATATATCGATACATTACTC
Found at i:2745487 original size:13 final size:13
Alignment explanation
Indices: 2745469--2745493 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2745459 ATTACTCAAA
2745469 TGTATCGATACAT
1 TGTATCGATACAT
2745482 TGTATCGATACA
1 TGTATCGATACA
2745494 CTAATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2745545 original size:52 final size:52
Alignment explanation
Indices: 2745502--2745682 Score: 344
Period size: 52 Copynumber: 3.5 Consensus size: 52
2745492 CACTAATCTT
* *
2745502 TGTATCGATACACGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
2745554 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
2745606 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
2745658 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
2745683 TCATATTTCG
Statistics
Matches: 127, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 127 1.00
ACGTcount: A:0.36, C:0.19, G:0.18, T:0.28
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:2761030 original size:29 final size:30
Alignment explanation
Indices: 2760995--2761053 Score: 93
Period size: 29 Copynumber: 2.0 Consensus size: 30
2760985 TCACCCTTTA
*
2760995 AAAGCCCACAAGTCAGTGGCA-TCTTTTTC
1 AAAGCCCACAACTCAGTGGCACTCTTTTTC
*
2761024 AAAGCCCACAACTCTGTGGCACTCTTTTTC
1 AAAGCCCACAACTCAGTGGCACTCTTTTTC
2761054 CTTCTAAGTC
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 19 0.70
30 8 0.30
ACGTcount: A:0.25, C:0.31, G:0.15, T:0.29
Consensus pattern (30 bp):
AAAGCCCACAACTCAGTGGCACTCTTTTTC
Found at i:2761070 original size:34 final size:34
Alignment explanation
Indices: 2761029--2761212 Score: 163
Period size: 34 Copynumber: 5.7 Consensus size: 34
2761019 TTTTCAAAGC
*
2761029 CCACAACTCTGTGGCACTCTTTTTCCTTCTAAGT
1 CCACAACTCCGTGGCACTCTTTTTCCTTCTAAGT
* * *
2761063 CCACAACTCTGTGGCAC-C-----CGTT-TAAGC
1 CCACAACTCCGTGGCACTCTTTTTCCTTCTAAGT
* * *
2761090 CCACGACTCCGGGGCACTTTTTTTCCTTCTAAGT
1 CCACAACTCCGTGGCACTCTTTTTCCTTCTAAGT
*
2761124 CCACAACTCCGTGGCAC-C-TTTTCCATT-TAAGC
1 CCACAACTCCGTGGCACTCTTTTTCC-TTCTAAGT
* * **
2761156 CCACAACTCCGTGGCATTCTTTCTCCTTCTGGGT
1 CCACAACTCCGTGGCACTCTTTTTCCTTCTAAGT
* *
2761190 CCACAACTCTGTGGCACCCTTTT
1 CCACAACTCCGTGGCACTCTTTT
2761213 ACGTCCACAG
Statistics
Matches: 118, Mismatches: 21, Indels: 22
0.73 0.13 0.14
Matches are distributed among these distances:
27 18 0.15
28 3 0.03
32 26 0.22
33 9 0.08
34 62 0.53
ACGTcount: A:0.17, C:0.35, G:0.15, T:0.32
Consensus pattern (34 bp):
CCACAACTCCGTGGCACTCTTTTTCCTTCTAAGT
Found at i:2761106 original size:61 final size:61
Alignment explanation
Indices: 2761025--2761243 Score: 251
Period size: 61 Copynumber: 3.5 Consensus size: 61
2761015 ATCTTTTTCA
* * *
2761025 AAGCCCACAACTCTGTGGCACTCTTTTTCCTTCTAAGTCCACAACTCTGTGGCACCCGTTT
1 AAGCCCACAACTCCGTGGCACTCTTTCTCCTTCTAAGTCCACAACTCTGTGGCACCCATTT
* * * * *
2761086 AAGCCCACGACTCCGGGGCACTTTTTTTCCTTCTAAGTCCACAACTCCGTGGCACCTTTTCCATT
1 AAGCCCACAACTCCGTGGCACTCTTTCTCCTTCTAAGTCCACAACTCTGTGGCA-C----CCATT
2761151 T
61 T
* ** *
2761152 AAGCCCACAACTCCGTGGCATTCTTTCTCCTTCTGGGTCCACAACTCTGTGGCACCCTTTT
1 AAGCCCACAACTCCGTGGCACTCTTTCTCCTTCTAAGTCCACAACTCTGTGGCACCCATTT
* * *
2761213 ACGTCCACAGCTCCGTGGCA-TCTTTCTCCTT
1 AAGCCCACAACTCCGTGGCACTCTTTCTCCTT
2761244 TTCAAAAGCC
Statistics
Matches: 135, Mismatches: 18, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
60 11 0.08
61 71 0.53
62 1 0.01
65 1 0.01
66 51 0.38
ACGTcount: A:0.17, C:0.36, G:0.16, T:0.32
Consensus pattern (61 bp):
AAGCCCACAACTCCGTGGCACTCTTTCTCCTTCTAAGTCCACAACTCTGTGGCACCCATTT
Found at i:2761351 original size:33 final size:32
Alignment explanation
Indices: 2761240--2761382 Score: 186
Period size: 33 Copynumber: 4.5 Consensus size: 32
2761230 GCATCTTTCT
*
2761240 CCTTTTCAAAAG-CC-CACAAGTCGGTGGCAA
1 CCTTTTCTAAAGCCCACACAAGTCGGTGGCAA
2761270 CCTTTTTCTCAAAGCCCACACAAGTCGGTGGCAA
1 CC-TTTTCT-AAAGCCCACACAAGTCGGTGGCAA
* * *
2761304 CCCTCTCTAAAGCCCACACAAGTTGGTGGCAA
1 CCTTTTCTAAAGCCCACACAAGTCGGTGGCAA
2761336 CCATTTTCTAAAGCCCACACAAGTCGGTGGCAA
1 CC-TTTTCTAAAGCCCACACAAGTCGGTGGCAA
*
2761369 CC-CTTCT-AAGCCCA
1 CCTTTTCTAAAGCCCA
2761383 ATATTGCTGG
Statistics
Matches: 100, Mismatches: 8, Indels: 10
0.85 0.07 0.08
Matches are distributed among these distances:
30 9 0.09
31 9 0.09
32 29 0.29
33 35 0.35
34 18 0.18
ACGTcount: A:0.28, C:0.34, G:0.17, T:0.21
Consensus pattern (32 bp):
CCTTTTCTAAAGCCCACACAAGTCGGTGGCAA
Found at i:2761367 original size:65 final size:64
Alignment explanation
Indices: 2761254--2761382 Score: 215
Period size: 65 Copynumber: 2.0 Consensus size: 64
2761244 TTCAAAAGCC
*
2761254 CACAAGTCGGTGGCAACCTTTTTCTCAAAGCCCACACAAGTCGGTGGCAACCCTCTCTAAAGCCC
1 CACAAGTCGGTGGCAACCATTTTCTCAAAGCCCACACAAGTCGGTGGCAACCCT-TCT-AAGCCC
2761319 A
64 A
*
2761320 CACAAGTTGGTGGCAACCATTTTCT-AAAGCCCACACAAGTCGGTGGCAACCCTTCTAAGCCCA
1 CACAAGTCGGTGGCAACCATTTTCTCAAAGCCCACACAAGTCGGTGGCAACCCTTCTAAGCCCA
2761383 ATATTGCTGG
Statistics
Matches: 61, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
63 7 0.11
64 3 0.05
65 28 0.46
66 23 0.38
ACGTcount: A:0.28, C:0.33, G:0.19, T:0.20
Consensus pattern (64 bp):
CACAAGTCGGTGGCAACCATTTTCTCAAAGCCCACACAAGTCGGTGGCAACCCTTCTAAGCCCA
Found at i:2761484 original size:43 final size:43
Alignment explanation
Indices: 2761370--2761889 Score: 428
Period size: 43 Copynumber: 11.1 Consensus size: 43
2761360 CGGTGGCAAC
* * *
2761370 CCTTCTAAGCCCAATATTGCTGGCCTTGAATCAGCATATTGGCA
1 CCTT-TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCA
*
2761414 TCTTCTTCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA
1 ----C--CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCA
**
2761463 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCGTATTGGCA
1 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCA
* *
2761506 TCTTCTTCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA
1 ----C--CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCA
* **
2761555 CCTTTAAGTCCAATATCGCTGGCCTTAAATCAGCGTATTGGCA
1 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCA
** *
2761598 CCTTCATCTTTAAGTCCAACGTAGCTGGCCTTGAATCAGCACATTGGCA
1 ----C--CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCA
* * *
2761647 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTAGCA
1 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCA
* *
2761690 CCTTCTTCTTTAAGCCCAATGTCGCTGGCCTTGAATCAGCACATTGGCA
1 ----C--CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCA
*
2761739 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCA
1 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATT---G-----G-CA
* * *
2761791 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCGTATTGGTATCTTTGTCA
1 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGC--------A-CATTGGCA
* *
2761843 TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCA
1 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCA
2761886 CCTT
1 CCTT
2761890 CAGCTTTAAC
Statistics
Matches: 393, Mismatches: 41, Indels: 81
0.76 0.08 0.16
Matches are distributed among these distances:
43 158 0.40
44 1 0.00
45 4 0.01
46 1 0.00
47 3 0.01
48 1 0.00
49 147 0.37
50 3 0.01
51 1 0.00
52 70 0.18
58 1 0.00
60 1 0.00
61 2 0.01
ACGTcount: A:0.23, C:0.26, G:0.18, T:0.32
Consensus pattern (43 bp):
CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCA
Found at i:2761523 original size:92 final size:92
Alignment explanation
Indices: 2761370--2761824 Score: 703
Period size: 92 Copynumber: 4.9 Consensus size: 92
2761360 CGGTGGCAAC
* * *
2761370 CCTTCTAAGCCCAATATTGCTGGCCTTGAATCAGCATATTGGCATCTTCTTCTTTAAGTCCAATA
1 CCTT-TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCTTCTTTAAGTCCAATG
2761435 TAGCTGGCCTTGAATCAGCACATTGGCA
65 TAGCTGGCCTTGAATCAGCACATTGGCA
*
2761463 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCGTATTGGCATCTTCTTCTTTAAGTCCAATGT
1 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCTTCTTTAAGTCCAATGT
2761528 AGCTGGCCTTGAATCAGCACATTGGCA
66 AGCTGGCCTTGAATCAGCACATTGGCA
* * * * *
2761555 CCTTTAAGTCCAATATCGCTGGCCTTAAATCAGCGTATTGGCACCTTCATCTTTAAGTCCAACGT
1 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCTTCTTTAAGTCCAATGT
2761620 AGCTGGCCTTGAATCAGCACATTGGCA
66 AGCTGGCCTTGAATCAGCACATTGGCA
* * * *
2761647 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTAGCACCTTCTTCTTTAAGCCCAATGT
1 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCTTCTTTAAGTCCAATGT
*
2761712 CGCTGGCCTTGAATCAGCACATTGGCA
66 AGCTGGCCTTGAATCAGCACATTGGCA
* * *
2761739 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGTCCAA
1 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATT-G-GCATCT-TCTTCTTTAAGTCCAA
* *
2761804 TATCGCTGGCCTTGAATCAGC
63 TGTAGCTGGCCTTGAATCAGC
2761825 GTATTGGTAT
Statistics
Matches: 335, Mismatches: 24, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
92 294 0.88
93 4 0.01
94 3 0.01
95 34 0.10
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.31
Consensus pattern (92 bp):
CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCTTCTTTAAGTCCAATGT
AGCTGGCCTTGAATCAGCACATTGGCA
Found at i:2761818 original size:52 final size:52
Alignment explanation
Indices: 2761740--2761889 Score: 246
Period size: 52 Copynumber: 2.9 Consensus size: 52
2761730 ACATTGGCAC
*
2761740 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCAT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCAT
* * *
2761792 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCGTATTGGTATCTTTGTCAT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCAT
* *
2761844 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT
2761890 CAGCTTTAAC
Statistics
Matches: 89, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
52 89 1.00
ACGTcount: A:0.21, C:0.25, G:0.19, T:0.35
Consensus pattern (52 bp):
CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCAT
Found at i:2762760 original size:13 final size:13
Alignment explanation
Indices: 2762742--2762769 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
2762732 TACATAAAAA
2762742 ATTGTATCGATAC
1 ATTGTATCGATAC
2762755 ATTGTATCGATAC
1 ATTGTATCGATAC
2762768 AT
1 AT
2762770 AAGTTTTGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.32, C:0.14, G:0.14, T:0.39
Consensus pattern (13 bp):
ATTGTATCGATAC
Found at i:2762831 original size:21 final size:21
Alignment explanation
Indices: 2762806--2762864 Score: 118
Period size: 21 Copynumber: 2.8 Consensus size: 21
2762796 TACTACCAAA
2762806 AAATGTATCGATACATTACTC
1 AAATGTATCGATACATTACTC
2762827 AAATGTATCGATACATTACTC
1 AAATGTATCGATACATTACTC
2762848 AAATGTATCGATACATT
1 AAATGTATCGATACATT
2762865 GTATCGATAC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 38 1.00
ACGTcount: A:0.39, C:0.17, G:0.10, T:0.34
Consensus pattern (21 bp):
AAATGTATCGATACATTACTC
Found at i:2762869 original size:13 final size:13
Alignment explanation
Indices: 2762851--2762875 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2762841 ATTACTCAAA
2762851 TGTATCGATACAT
1 TGTATCGATACAT
2762864 TGTATCGATACA
1 TGTATCGATACA
2762876 CTAATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2762940 original size:52 final size:52
Alignment explanation
Indices: 2762884--2763064 Score: 335
Period size: 52 Copynumber: 3.5 Consensus size: 52
2762874 CACTAATCTT
*
2762884 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
2762936 TGTATCGATACATGCAGGCGAATTTGCCCAGATGTATCGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
2762988 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
2763040 TGTATCGATACATGCAAGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
2763065 TCATATTTCG
Statistics
Matches: 125, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 125 1.00
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.28
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:2767011 original size:44 final size:44
Alignment explanation
Indices: 2766885--2767038 Score: 159
Period size: 44 Copynumber: 3.5 Consensus size: 44
2766875 TTCTTTCTTG
* * *
2766885 TCTGACGTATGGTTACCACCCTGGTCAGATTCTTTTCATTTCGA
1 TCTGACATATGGTTACCACCCTAGTCAGATTCTTTTCATTCCGA
* * ** * * * *
2766929 TTTAATGTATGGTTATCACCCTAGTGAAATATGC--TTCATTCCTA
1 TCTGACATATGGTTACCACCCTAGTCAGAT-T-CTTTTCATTCCGA
2766973 TCTGACATATGGTTACCACCCTAGTCAGATTCTTTTCATTCCGA
1 TCTGACATATGGTTACCACCCTAGTCAGATTCTTTTCATTCCGA
* *
2767017 TTTGACATATGTTTACCACCCT
1 TCTGACATATGGTTACCACCCT
2767039 GGCCAAACAA
Statistics
Matches: 87, Mismatches: 19, Indels: 8
0.76 0.17 0.07
Matches are distributed among these distances:
42 1 0.01
43 1 0.01
44 83 0.95
45 1 0.01
46 1 0.01
ACGTcount: A:0.23, C:0.24, G:0.14, T:0.39
Consensus pattern (44 bp):
TCTGACATATGGTTACCACCCTAGTCAGATTCTTTTCATTCCGA
Found at i:2767057 original size:88 final size:87
Alignment explanation
Indices: 2766885--2767062 Score: 214
Period size: 88 Copynumber: 2.0 Consensus size: 87
2766875 TTCTTTCTTG
* * * ** *
2766885 TCTGACGTATGGTTACCACCCTGGTCAGATTCTTTTCATTTCGATTTAATGTATGGTTATCACCC
1 TCTGACATATGGTTACCACCCTAGTCAGATTCTTTTCATTCCGATTTAACATATGGTTACCACCC
** *
2766950 TAGTGAAATATGCTTCATTCCTA
66 TAGCCAAAAAT-CTTCATTCCTA
* *
2766973 TCTGACATATGGTTACCACCCTAGTCAGATTCTTTTCATTCCGATTTGACATATGTTTACCACCC
1 TCTGACATATGGTTACCACCCTAGTCAGATTCTTTTCATTCCGATTTAACATATGGTTACCACCC
*
2767038 TGGCCAAACAAT-TTGCATTCCTA
66 TAGCCAAA-AATCTT-CATTCCTA
2767061 TC
1 TC
2767063 CGATCTAACG
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
87 2 0.03
88 72 0.95
89 2 0.03
ACGTcount: A:0.24, C:0.25, G:0.14, T:0.38
Consensus pattern (87 bp):
TCTGACATATGGTTACCACCCTAGTCAGATTCTTTTCATTCCGATTTAACATATGGTTACCACCC
TAGCCAAAAATCTTCATTCCTA
Found at i:2767240 original size:42 final size:42
Alignment explanation
Indices: 2767167--2767921 Score: 491
Period size: 42 Copynumber: 17.9 Consensus size: 42
2767157 CTTTTTTCCA
* * * *
2767167 TTTGTCTGCACGTCAGCTTAGAGCC-AGGAGACCTCTCTATCT
1 TTTGTCTGCCCGTCGGCTTAGACCCGA-GAGACTTCTCTATCT
* *** *
2767209 TTTATCTGCCCGTCGGCTTAGGTTCGAGAGACTTATCTATCT
1 TTTGTCTGCCCGTCGGCTTAGACCCGAGAGACTTCTCTATCT
* *
2767251 TTT-TCCTGCCTGTCGGCTTAGACCCGAGAGACTTCTCTATTT
1 TTTGT-CTGCCCGTCGGCTTAGACCCGAGAGACTTCTCTATCT
* * * * *
2767293 TTTGTTTGCCCATCGGCTTA-AGCCCGAAAGACTTCTTTATCC
1 TTTGTCTGCCCGTCGGCTTAGA-CCCGAGAGACTTCTCTATCT
* * * * * * *
2767335 TTTGTCTGCTCTTTGGCTTAGGCCCAAGAGACTTCTTTATCC
1 TTTGTCTGCCCGTCGGCTTAGACCCGAGAGACTTCTCTATCT
** * * *
2767377 TTCATCTGCCCGTCGGCTTAAACCCG-GAAGACTTTCTTTACCT
1 TTTGTCTGCCCGTCGGCTTAGACCCGAG-AGAC-TTCTCTATCT
* * * *
2767420 TTTGTCTGCCCGTCGGCTTAAACCTGGGAGACCTCTCTATCT
1 TTTGTCTGCCCGTCGGCTTAGACCCGAGAGACTTCTCTATCT
* * *
2767462 TTTGTCTGCCCCTCGGCTTAGACCCGGGAGACCTCTCTATCT
1 TTTGTCTGCCCGTCGGCTTAGACCCGAGAGACTTCTCTATCT
* * * * * * * *
2767504 TTTGTCTGGCCATTGGCTTAGGCTCGGGAGACTTCTTTATCC
1 TTTGTCTGCCCGTCGGCTTAGACCCGAGAGACTTCTCTATCT
* ** ** * * * * *
2767546 TTCGTCTGCTTGTCACCTTTGACTCGGGAGACTTCTTTATCC
1 TTTGTCTGCCCGTCGGCTTAGACCCGAGAGACTTCTCTATCT
* * * *
2767588 TTCGTCTGCCCATTGGCTTAGACCCGAGAGACCTCTCTATCT
1 TTTGTCTGCCCGTCGGCTTAGACCCGAGAGACTTCTCTATCT
* * * * *
2767630 TCTGTCTGCCCATCGGCGTAGA-CCTAGGAGACCTCTCTATCT
1 TTTGTCTGCCCGTCGGCTTAGACCCGA-GAGACTTCTCTATCT
*** * * * * * *
2767672 TTTGTCTGCCTACCGACTTAAACTCGGGAGACCTCTCTATCC
1 TTTGTCTGCCCGTCGGCTTAGACCCGAGAGACTTCTCTATCT
* * * * ** * * *
2767714 TTTGTTTGCCCGCCGACTTAGGCTAGGGAGACTTCTTTATCC
1 TTTGTCTGCCCGTCGGCTTAGACCCGAGAGACTTCTCTATCT
* * * *
2767756 TTTGTCTACCCGTCGGCTTAGGCTCG-GAAGACTTCTTTAT-T
1 TTTGTCTGCCCGTCGGCTTAGACCCGAG-AGACTTCTCTATCT
* * * *
2767797 CTTCGTCTACCTGT-TGCTTAGACCCGAGAGACTTTCTCTATCT
1 -TTTGTCTGCCCGTCGGCTTAGACCCGAGAGAC-TTCTCTATCT
* ** * *
2767840 TTTATCTGCATGTCAGCTTAGACCCGAGAGACCTCTCTATCT
1 TTTGTCTGCCCGTCGGCTTAGACCCGAGAGACTTCTCTATCT
* * * *
2767882 TTTGTCTACCCATTGGCTTAGACTCGAGAGACTTCCTCTA
1 TTTGTCTGCCCGTCGGCTTAGACCCGAGAGACTT-CTCTA
2767922 CCCATCGGCT
Statistics
Matches: 569, Mismatches: 127, Indels: 33
0.78 0.17 0.05
Matches are distributed among these distances:
41 20 0.04
42 487 0.86
43 61 0.11
44 1 0.00
ACGTcount: A:0.16, C:0.29, G:0.20, T:0.35
Consensus pattern (42 bp):
TTTGTCTGCCCGTCGGCTTAGACCCGAGAGACTTCTCTATCT
Found at i:2767932 original size:32 final size:32
Alignment explanation
Indices: 2767886--2767947 Score: 97
Period size: 32 Copynumber: 1.9 Consensus size: 32
2767876 CTATCTTTTG
*
2767886 TCTACCCATTGGCTTAGACTCGAGAGACTTCC
1 TCTACCCATCGGCTTAGACTCGAGAGACTTCC
* *
2767918 TCTACCCATCGGCTTAGGCTCGGGAGACTT
1 TCTACCCATCGGCTTAGACTCGAGAGACTT
2767948 ATTTATCCTT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.19, C:0.31, G:0.23, T:0.27
Consensus pattern (32 bp):
TCTACCCATCGGCTTAGACTCGAGAGACTTCC
Found at i:2768073 original size:43 final size:42
Alignment explanation
Indices: 2768026--2768365 Score: 344
Period size: 43 Copynumber: 7.9 Consensus size: 42
2768016 TAAACCCGAG
* * * *
2768026 AGACTTCCTCACCCCTAAGTCTGCCTATTGGCTTTGACCCTGA
1 AGACTTCTTC-CCCTTAAGTCTGCCTGTCGGCTTTGACCCTGA
* * *
2768069 AGACTTTTTCCCCTTTAAGTTTGCCTGTCAGCTTTGACCCT-A
1 AGACTTCTTCCCC-TTAAGTCTGCCTGTCGGCTTTGACCCTGA
** *
2768111 GAGACTTCTTCCCCTTTAAGTCTGCCTGTCAACTTTGACCCTGG
1 -AGACTTCTTCCCC-TTAAGTCTGCCTGTCGGCTTTGACCCTGA
* * *
2768155 AGACTTCTTCGCCCTTAAGTCTGCCTGTCGACTTTAACCCTGG
1 AGACTTCTTC-CCCTTAAGTCTGCCTGTCGGCTTTGACCCTGA
* * * *
2768198 AGATTTCTTCCCCTTTAAGTCTGCCTATCGGTTTTAACCCT-A
1 AGACTTCTTCCCC-TTAAGTCTGCCTGTCGGCTTTGACCCTGA
* * *
2768240 GAGACTTCTTCCCCCTTAAGTCTACCTATCGGCTTTGACCCTGG
1 -AGACTTCTT-CCCCTTAAGTCTGCCTGTCGGCTTTGACCCTGA
* * *
2768284 AGACTTCCTCGCCCTTAAATCTGCTTGTCGGCTTTGACCCT-A
1 AGACTTCTTC-CCCTTAAGTCTGCCTGTCGGCTTTGACCCTGA
*
2768326 GAGACTTCTTCGCCCTTAAGTCTGCTTGTCGGCTTTGACC
1 -AGACTTCTTC-CCCTTAAGTCTGCCTGTCGGCTTTGACC
2768366 ATGGTGTCAC
Statistics
Matches: 256, Mismatches: 31, Indels: 20
0.83 0.10 0.07
Matches are distributed among these distances:
42 8 0.03
43 241 0.94
44 7 0.03
ACGTcount: A:0.16, C:0.32, G:0.17, T:0.35
Consensus pattern (42 bp):
AGACTTCTTCCCCTTAAGTCTGCCTGTCGGCTTTGACCCTGA
Found at i:2768147 original size:86 final size:86
Alignment explanation
Indices: 2768041--2768365 Score: 404
Period size: 86 Copynumber: 3.8 Consensus size: 86
2768031 TCCTCACCCC
* * * * *
2768041 TAAGTCTGCCTATTGGCTTTGACCCT-GAAGACTTTTTC-CCCTTTAAGTTTGCCTGTCAGCTTT
1 TAAGTCTGCCTGTCGGCTTTGACCCTAG-AGACTTCTTCGCCC-TTAAGTCTGCCTGTCGGCTTT
*
2768104 GACCCTAGAGACTTCTTCCCCTT
64 GACCCTGGAGACTTCTTCCCCTT
** * * *
2768127 TAAGTCTGCCTGTCAACTTTGACCCTGGAGACTTCTTCGCCCTTAAGTCTGCCTGTCGACTTTAA
1 TAAGTCTGCCTGTCGGCTTTGACCCTAGAGACTTCTTCGCCCTTAAGTCTGCCTGTCGGCTTTGA
*
2768192 CCCTGGAGATTTCTTCCCCTT
66 CCCTGGAGACTTCTTCCCCTT
* * * * * *
2768213 TAAGTCTGCCTATCGGTTTTAACCCTAGAGACTTCTTCCCCCTTAAGTCTACCTATCGGCTTTGA
1 TAAGTCTGCCTGTCGGCTTTGACCCTAGAGACTTCTTCGCCCTTAAGTCTGCCTGTCGGCTTTGA
*
2768278 CCCTGGAGACTTCCTCGCCC-T
66 CCCTGGAGACTTCTTC-CCCTT
* * *
2768299 TAAATCTGCTTGTCGGCTTTGACCCTAGAGACTTCTTCGCCCTTAAGTCTGCTTGTCGGCTTTGA
1 TAAGTCTGCCTGTCGGCTTTGACCCTAGAGACTTCTTCGCCCTTAAGTCTGCCTGTCGGCTTTGA
2768364 CC
66 CC
2768366 ATGGTGTCAC
Statistics
Matches: 203, Mismatches: 33, Indels: 6
0.84 0.14 0.02
Matches are distributed among these distances:
86 196 0.97
87 7 0.03
ACGTcount: A:0.16, C:0.31, G:0.18, T:0.35
Consensus pattern (86 bp):
TAAGTCTGCCTGTCGGCTTTGACCCTAGAGACTTCTTCGCCCTTAAGTCTGCCTGTCGGCTTTGA
CCCTGGAGACTTCTTCCCCTT
Found at i:2768175 original size:129 final size:129
Alignment explanation
Indices: 2768025--2768365 Score: 436
Period size: 129 Copynumber: 2.6 Consensus size: 129
2768015 TTAAACCCGA
* * * * *
2768025 GAGACTTCCTCACCCCTAAGTCTGCCTATTGGCTTTGACCCTGAAGACTTTTTCCCCTTTAAGTT
1 GAGACTTCCTCGCCCTTAAGTCTGCCTGTCGGCTTTGACCCTGAAGACTTTTTCCCCTTTAAGTC
* * * *
2768090 TGCCTGTCAGCTTTGACCCTAGAGACTTCTTCCCCTTTAAGTCTGCCTGTCAACTTTGACCCTG
66 TGCCTGTCGGCTTTGACCCTAGAGACTTCTTCCCCCTTAAGTCTACCTATCAACTTTGACCCTG
* * * *
2768154 GAGACTTCTTCGCCCTTAAGTCTGCCTGTCGACTTTAACCCTGGAGA-TTTCTTCCCCTTTAAGT
1 GAGACTTCCTCGCCCTTAAGTCTGCCTGTCGGCTTTGACCCTGAAGACTTT-TTCCCCTTTAAGT
* * * **
2768218 CTGCCTATCGGTTTTAACCCTAGAGACTTCTTCCCCCTTAAGTCTACCTATCGGCTTTGACCCTG
65 CTGCCTGTCGGCTTTGACCCTAGAGACTTCTTCCCCCTTAAGTCTACCTATCAACTTTGACCCTG
* * *
2768283 GAGACTTCCTCGCCCTTAAATCTGCTTGTCGGCTTTGACCCT-AGAGACTTCTTCGCCC-TTAAG
1 GAGACTTCCTCGCCCTTAAGTCTGCCTGTCGGCTTTGACCCTGA-AGACTTTTTC-CCCTTTAAG
*
2768346 TCTGCTTGTCGGCTTTGACC
64 TCTGCCTGTCGGCTTTGACC
2768366 ATGGTGTCAC
Statistics
Matches: 179, Mismatches: 29, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
128 3 0.02
129 171 0.96
130 5 0.03
ACGTcount: A:0.16, C:0.32, G:0.17, T:0.35
Consensus pattern (129 bp):
GAGACTTCCTCGCCCTTAAGTCTGCCTGTCGGCTTTGACCCTGAAGACTTTTTCCCCTTTAAGTC
TGCCTGTCGGCTTTGACCCTAGAGACTTCTTCCCCCTTAAGTCTACCTATCAACTTTGACCCTG
Found at i:2769791 original size:154 final size:154
Alignment explanation
Indices: 2769546--2770381 Score: 742
Period size: 156 Copynumber: 5.4 Consensus size: 154
2769536 TAAGTTCAAG
* *
2769546 AAAAATTATGAAAATGCCCCTAAGGGATACCTTCGACGTAAAAGT-ACCCGATA-CCCTAAAGGA
1 AAAAATTATGAAAATACCCCTAGGGGATACCTTCGACGTAAAAGTAACCCGATACCCCTAAAGGA
* * *
2769609 GC-TAAAAAGGACTAGAAATGGTGATGAACCTATCCTAAATGCCCACCTTGGGCATAAAAGCGAA
66 -CTTAAAAAAGACTAGAAAAGG-G-TGAACCTATCCTAAATGCCCACCTTCGGCATAAAAGCGAA
* * *
2769673 CTCGGTAATCACCTAAGAGTTGGTTCT
128 CTCGGTGATCACCTAAGACTCGGTTCT
* * * * ** * * *
2769700 AAAAATTATGAAAATGCCCTTAGGGAATACATTCGTGGTTAAAGTAACCCGATGCCCCAAAAGGA
1 AAAAATTATGAAAATACCCCTAGGGGATACCTTCGACGTAAAAGTAACCCGATACCCCTAAAGGA
* * * * * *
2769765 TTTAAAAAAGACTATAAAAGGGTGAACCTATCCTAAATACCCACCTTCGACATAAAAGCGGACTT
66 CTTAAAAAAGACTAGAAAAGGGTGAACCTATCCTAAATGCCCACCTTCGGCATAAAAGCGAACTC
* * * *
2769830 AGTGATGACCTAGGACTCGATTCT
131 GGTGATCACCTAAGACTCGGTTCT
** * * * * *
2769854 AAAAATTACAAAAATACTCCTAGGGGATACTTTCGACGTGAAAGT-ACCTTGGTACCCCTAAAGG
1 AAAAATTATGAAAATACCCCTAGGGGATACCTTCGACGTAAAAGTAACC-CGATACCCCTAAAGG
* * * * * *
2769918 ATTTAAAAAATACTAGAAAAAGGGTGAACCTATCTTGAATGCCCACCTTCTGCATAAAAAC-AGA
65 ACTTAAAAAAGACTAG-AAAAGGGTGAACCTATCCTAAATGCCCACCTTCGGCATAAAAGCGA-A
* * *
2769982 CTCGATGATGACCTAAGACTCAGTTCT
128 CTCGGTGATCACCTAAGACTCGGTTCT
* * * * * * *
2770009 AGGAAATTA-CAAAAGTTCCCCTAGGGGTATACCTTCGACGTAAAAGTATCTCGACAACCCTAAA
1 A-AAAATTATGAAAA-TACCCCTAGGGG-ATACCTTCGACGTAAAAGTAACCCGATACCCCTAAA
* * * * * *
2770073 GAACTT-AAAAAGACTAGAAATGCGATGAACCTATGCTAAATGCCCACCTTTGGCATAAAAG-TA
63 GGACTTAAAAAAGACTAGAAAAG-GGTGAACCTATCCTAAATGCCCACCTTCGGCATAAAAGCGA
* * * * *
2770136 GACCCGGTGA-CAGCTTAGGAATTGGTTCT
127 -ACTCGGTGATCA-CCTAAGACTCGGTTCT
* * * * *
2770165 AGAAAATTATGAAAATACCCCTAGGGGATACCTTCGATGTGAAATTATCCCGGTACCCCTAAAGG
1 A-AAAATTATGAAAATACCCCTAGGGGATACCTTCGACGTAAAAGTAACCCGATACCCCTAAAGG
* * *
2770230 ACTT-AAAAAGGCTA-AAAATGGGGATGAACCTATCCTAAATGCCCACCTTCAGCAAAAAAGCGA
65 ACTTAAAAAAGACTAGAAAA--GGG-TGAACCTATCCTAAATGCCCACCTTCGGCATAAAAGCGA
* * * *
2770293 ACCCGGTGATAACCTAAGACTCGATTGT
127 ACTCGGTGATCACCTAAGACTCGGTTCT
* * *
2770321 AAAAAATTATGAAAATACCCCTAGAGGTATACCTTCGACATAAAAGT-ACCCAATACCCCTA
1 -AAAAATTATGAAAATACCCCTAG-GGGATACCTTCGACGTAAAAGTAACCCGATACCCCTA
2770382 GTGGACACTA
Statistics
Matches: 542, Mismatches: 119, Indels: 40
0.77 0.17 0.06
Matches are distributed among these distances:
153 3 0.01
154 156 0.29
155 122 0.23
156 206 0.38
157 54 0.10
158 1 0.00
ACGTcount: A:0.38, C:0.21, G:0.18, T:0.23
Consensus pattern (154 bp):
AAAAATTATGAAAATACCCCTAGGGGATACCTTCGACGTAAAAGTAACCCGATACCCCTAAAGGA
CTTAAAAAAGACTAGAAAAGGGTGAACCTATCCTAAATGCCCACCTTCGGCATAAAAGCGAACTC
GGTGATCACCTAAGACTCGGTTCT
Found at i:2771826 original size:19 final size:20
Alignment explanation
Indices: 2771804--2771843 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
2771794 ATTTTTCCAT
2771804 TTTTTTCCTTT-TTTCTTTC
1 TTTTTTCCTTTCTTTCTTTC
*
2771823 TTTTTTCCTTTCTTTTTTTC
1 TTTTTTCCTTTCTTTCTTTC
2771843 T
1 T
2771844 CTCTTGTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (20 bp):
TTTTTTCCTTTCTTTCTTTC
Found at i:2771827 original size:12 final size:12
Alignment explanation
Indices: 2771803--2771855 Score: 63
Period size: 12 Copynumber: 4.4 Consensus size: 12
2771793 AATTTTTCCA
*
2771803 TTTT-TTTCCTT
1 TTTTCTTTCTTT
2771814 TTTTCTTTCTTT
1 TTTTCTTTCTTT
*
2771826 TTTCCTTTCTTT
1 TTTTCTTTCTTT
*
2771838 TTTTCTCTCTTGT
1 TTTTCTTTCTT-T
2771851 TTTTC
1 TTTTC
2771856 AGTTGAACCA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
11 4 0.11
12 26 0.72
13 6 0.17
ACGTcount: A:0.00, C:0.21, G:0.02, T:0.77
Consensus pattern (12 bp):
TTTTCTTTCTTT
Found at i:2774731 original size:21 final size:21
Alignment explanation
Indices: 2774698--2774742 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
2774688 TTGCAAGTTG
*
2774698 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
2774720 AAATAATG-AGTTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
2774740 AAA
1 AAA
2774743 ATGAAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 9 0.43
22 7 0.33
ACGTcount: A:0.53, C:0.04, G:0.20, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:2776566 original size:15 final size:15
Alignment explanation
Indices: 2776546--2776576 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
2776536 TAAAAATGTC
*
2776546 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
2776561 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
2776576 C
1 C
2776577 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:2778665 original size:13 final size:13
Alignment explanation
Indices: 2778647--2778672 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2778637 ACATTTTTCT
2778647 TTGTATCGATACA
1 TTGTATCGATACA
2778660 TTGTATCGATACA
1 TTGTATCGATACA
2778673 GGGTGATTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:2779225 original size:124 final size:124
Alignment explanation
Indices: 2779005--2779252 Score: 496
Period size: 124 Copynumber: 2.0 Consensus size: 124
2778995 AGGTTTGTGG
2779005 TCTTGGTTTGCATCAAAATCGTCCTATTTTCATAATATAAGCCTCCAAAGTAGTGACCACCACCT
1 TCTTGGTTTGCATCAAAATCGTCCTATTTTCATAATATAAGCCTCCAAAGTAGTGACCACCACCT
2779070 GTTCGGCAAAAAGCCTGAACTAGCAACCCCCTAGGCAGCATCACCAAGTCGTGACCGGC
66 GTTCGGCAAAAAGCCTGAACTAGCAACCCCCTAGGCAGCATCACCAAGTCGTGACCGGC
2779129 TCTTGGTTTGCATCAAAATCGTCCTATTTTCATAATATAAGCCTCCAAAGTAGTGACCACCACCT
1 TCTTGGTTTGCATCAAAATCGTCCTATTTTCATAATATAAGCCTCCAAAGTAGTGACCACCACCT
2779194 GTTCGGCAAAAAGCCTGAACTAGCAACCCCCTAGGCAGCATCACCAAGTCGTGACCGGC
66 GTTCGGCAAAAAGCCTGAACTAGCAACCCCCTAGGCAGCATCACCAAGTCGTGACCGGC
2779253 ACTCCCAGGT
Statistics
Matches: 124, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
124 124 1.00
ACGTcount: A:0.29, C:0.30, G:0.18, T:0.23
Consensus pattern (124 bp):
TCTTGGTTTGCATCAAAATCGTCCTATTTTCATAATATAAGCCTCCAAAGTAGTGACCACCACCT
GTTCGGCAAAAAGCCTGAACTAGCAACCCCCTAGGCAGCATCACCAAGTCGTGACCGGC
Found at i:2781365 original size:13 final size:13
Alignment explanation
Indices: 2781347--2781372 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2781337 TACAGCAAGT
2781347 ATGTATCGATACA
1 ATGTATCGATACA
2781360 ATGTATCGATACA
1 ATGTATCGATACA
2781373 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2782800 original size:165 final size:166
Alignment explanation
Indices: 2782570--2783003 Score: 522
Period size: 165 Copynumber: 2.6 Consensus size: 166
2782560 AGAAAAATTC
* * * *
2782570 AAAATGAATGAATTTTTGAAAAATGAATTACTATG-AATCAAATGATGATGTTTGATGAATTTTA
1 AAAATGAATGAATTTTTGAAAACTGAATTAATATGAAAT-AAATGATAATATTTGATGAATTTTA
* * * * * *
2782634 AAAATTGAATACC-TGAAAAAATCCCCTTGAAAAAAATTAC-GAAGTAAAAAATACCGTATTTTA
65 AAAATTAAAAACCAAG-AAAAATCCCCTCGAAAAAAATTACAG-AGTAAAAAACACCGTATTTCA
*
2782697 AAAAAAG-GGAATTTCAAGAAGAAAAATTCAAAAACTCATG
128 AAAAAAGAGAAATTTCAAG--GAAAAATTCAAAAACTCATG
* *
2782737 AAAATGAATGAA-TTTT-CAAACTGAATTAATATGAAATAAATGATAATATTTTATGAATTTTAA
1 AAAATGAATGAATTTTTGAAAACTGAATTAATATGAAATAAATGATAATATTTGATGAATTTTAA
** **
2782800 AAATTAAAAACCAAGAAAAATCCCCTCGAAAAAAATTACAGAGTCGAAAACACCGTATTTCGGAA
66 AAATTAAAAACCAAGAAAAATCCCCTCGAAAAAAATTACAGAGTAAAAAACACCGTATTTCAAAA
2782865 AAAGAGAAATTTCAAGGAAAAATTCAAAAACTCATG
131 AAAGAGAAATTTCAAGGAAAAATTCAAAAACTCATG
* * * * * *
2782901 AAAATGAATTAATTTTTGAAAACTGATTTAATATAAAATAAATAATAATATGTGAAGAATTTTAA
1 AAAATGAATGAATTTTTGAAAACTGAATTAATATGAAATAAATGATAATATTTGATGAATTTTAA
** *
2782966 AAATTAAAAAAGTAAGAAAACTCCTCC-CGAAAAAAATT
66 AAATT-AAAAACCAAGAAAAATCC-CCTCGAAAAAAATT
2783004 TACGAAGAAG
Statistics
Matches: 231, Mismatches: 28, Indels: 16
0.84 0.10 0.06
Matches are distributed among these distances:
164 31 0.13
165 96 0.42
166 64 0.28
167 38 0.16
168 2 0.01
ACGTcount: A:0.51, C:0.09, G:0.12, T:0.28
Consensus pattern (166 bp):
AAAATGAATGAATTTTTGAAAACTGAATTAATATGAAATAAATGATAATATTTGATGAATTTTAA
AAATTAAAAACCAAGAAAAATCCCCTCGAAAAAAATTACAGAGTAAAAAACACCGTATTTCAAAA
AAAGAGAAATTTCAAGGAAAAATTCAAAAACTCATG
Found at i:2783550 original size:21 final size:20
Alignment explanation
Indices: 2783520--2783559 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
2783510 TTTCTTGAGT
*
2783520 TTTTCGAAAAAATATTAAAAA
1 TTTTCG-AAAAATAGTAAAAA
*
2783541 TTTTCTAAAAATAGTAAAA
1 TTTTCGAAAAATAGTAAAA
2783560 TTTACCATGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.55, C:0.05, G:0.05, T:0.35
Consensus pattern (20 bp):
TTTTCGAAAAATAGTAAAAA
Found at i:2783897 original size:43 final size:43
Alignment explanation
Indices: 2783834--2784208 Score: 421
Period size: 43 Copynumber: 8.7 Consensus size: 43
2783824 AGTGTCTACA
* * *
2783834 CTTGGAGACTTCTTCCCCCTTAAGTTTGCCTATCGGCTTTGAC
1 CTTGGAGACTTCTTCGCCCTTAAGTCTGCCTGTCGGCTTTGAC
* *
2783877 CTTGGAGACTTTTTCGCCCTTAAGTCTGCCTGTCAGCTTTGATC
1 CTTGGAGACTTCTTCGCCCTTAAGTCTGCCTGTCGGCTTTGA-C
* * * * *
2783921 C-TGGAGACTTATTTGCCCTTAAGTCTGCTTATTGGCTTTGAC
1 CTTGGAGACTTCTTCGCCCTTAAGTCTGCCTGTCGGCTTTGAC
* *
2783963 CTTAGAGACTTTTTCGCCCTTAAGTCTGCCTGTCGGCTTTGAC
1 CTTGGAGACTTCTTCGCCCTTAAGTCTGCCTGTCGGCTTTGAC
* * * * *
2784006 CCTAGAGACTTCTTCGCCTTTAAGTTTGCCTGTTGGCTTTGAC
1 CTTGGAGACTTCTTCGCCCTTAAGTCTGCCTGTCGGCTTTGAC
* *
2784049 CTTAGAGACTTCTTC-CCCTTGAAGTTTGCCTGTCGGCTTTGAC
1 CTTGGAGACTTCTTCGCCCTT-AAGTCTGCCTGTCGGCTTTGAC
* * * * * *
2784092 CCTGGAAACTTTCTTCACCTTTAAGTTTGCCTATCGGCTTTGAC
1 CTTGGAGAC-TTCTTCGCCCTTAAGTCTGCCTGTCGGCTTTGAC
* * **
2784136 CTTGGAGACTTCCTCACCCTTAAGTCTGCCTGTCTACTTTGAC
1 CTTGGAGACTTCTTCGCCCTTAAGTCTGCCTGTCGGCTTTGAC
* **
2784179 CTTGGAGACTTCTTCACTTTTAAGTCTGCC
1 CTTGGAGACTTCTTCGCCCTTAAGTCTGCC
2784209 CATCAGCTCA
Statistics
Matches: 286, Mismatches: 41, Indels: 10
0.85 0.12 0.03
Matches are distributed among these distances:
42 6 0.02
43 240 0.84
44 36 0.13
45 4 0.01
ACGTcount: A:0.15, C:0.27, G:0.19, T:0.38
Consensus pattern (43 bp):
CTTGGAGACTTCTTCGCCCTTAAGTCTGCCTGTCGGCTTTGAC
Found at i:2784269 original size:42 final size:42
Alignment explanation
Indices: 2784223--2784359 Score: 109
Period size: 42 Copynumber: 3.3 Consensus size: 42
2784213 AGCTCAAACC
*
2784223 CGAGAGACTTCTTTACCTTTTATCTGCTCGTCAGCCTAGTCT
1 CGAGAGACTTCTTTACCTTTTATCTGCTCGTCAGCCTAGACT
* * * *
2784265 CGAGAGAGTT-TTT-CATTTTTCATCTGCTTGTC-GGCTCAGACT
1 CGAGAGACTTCTTTAC-CTTTT-ATCTGCTCGTCAGCCT-AGACT
* * * * * * * *
2784307 TGAGAGACTCCTTTATCATTTGTCTACCCGTCAGCCTAGACC
1 CGAGAGACTTCTTTACCTTTTATCTGCTCGTCAGCCTAGACT
2784349 CGAGAGACTTC
1 CGAGAGACTTC
2784360 CTTCATCTTT
Statistics
Matches: 70, Mismatches: 19, Indels: 12
0.69 0.19 0.12
Matches are distributed among these distances:
40 1 0.01
41 10 0.14
42 50 0.71
43 9 0.13
ACGTcount: A:0.19, C:0.27, G:0.19, T:0.35
Consensus pattern (42 bp):
CGAGAGACTTCTTTACCTTTTATCTGCTCGTCAGCCTAGACT
Found at i:2784398 original size:84 final size:85
Alignment explanation
Indices: 2784295--2784472 Score: 204
Period size: 84 Copynumber: 2.1 Consensus size: 85
2784285 CATCTGCTTG
* *
2784295 TCGGCTCAGACTTGAGAGACTCCTTT-ATCATTT-GTCTACCCGTCAGCCT-AGACCCGAGAGAC
1 TCGGCTCAGACCTGAGAGACT-CTTTCATC-TTTCGTCTACCCGTC-GCCTCAGACCCGAGAAAC
*
2784357 TTCCTTCATC-TTTCCTTTGCCCA
63 TT-CTTCATCTTTTCATTTGCCCA
* * * * *
2784380 TCGGCTTAGACCTG-GAGACTTTTTCATCTTTCGTCTGCCCGTCGGCTCAGACCCGGGAAACTTC
1 TCGGCTCAGACCTGAGAGACTCTTTCATCTTTCGTCTACCCGTCGCCTCAGACCCGAGAAACTTC
*
2784444 TTCATCTTTTTATTTGCCCA
66 TTCATCTTTTCATTTGCCCA
2784464 TCGGCTCAG
1 TCGGCTCAG
2784473 TCCTAGGAAA
Statistics
Matches: 79, Mismatches: 10, Indels: 9
0.81 0.10 0.09
Matches are distributed among these distances:
83 16 0.20
84 51 0.65
85 12 0.15
ACGTcount: A:0.17, C:0.31, G:0.19, T:0.33
Consensus pattern (85 bp):
TCGGCTCAGACCTGAGAGACTCTTTCATCTTTCGTCTACCCGTCGCCTCAGACCCGAGAAACTTC
TTCATCTTTTCATTTGCCCA
Found at i:2784408 original size:41 final size:41
Alignment explanation
Indices: 2784343--2784469 Score: 137
Period size: 41 Copynumber: 3.0 Consensus size: 41
2784333 CCCGTCAGCC
*
2784343 TAGACCCGAGAGACTTCCTTCATCTTTCCTTTGCCCATCGGCT
1 TAGACCCG-GAGACTT-CTTCATCTTTCATTTGCCCATCGGCT
* * * * *
2784386 TAGACCTGGAGACTTTTTCATCTTTCGTCTGCCCGTCGGCT
1 TAGACCCGGAGACTTCTTCATCTTTCATTTGCCCATCGGCT
* * *
2784427 CAGACCCGGGAAACTTCTTCATCTTTTTATTTGCCCATCGGCT
1 TAGACCC-GGAGACTTCTTCATC-TTTCATTTGCCCATCGGCT
2784470 CAGTCCTAGG
Statistics
Matches: 69, Mismatches: 13, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
41 27 0.39
42 20 0.29
43 22 0.32
ACGTcount: A:0.16, C:0.31, G:0.18, T:0.35
Consensus pattern (41 bp):
TAGACCCGGAGACTTCTTCATCTTTCATTTGCCCATCGGCT
Found at i:2784482 original size:43 final size:41
Alignment explanation
Indices: 2784355--2784482 Score: 130
Period size: 41 Copynumber: 3.0 Consensus size: 41
2784345 GACCCGAGAG
* * *
2784355 ACTTCCTTCATCTTTCCTTTGCCCATCGGCTTAGACCTGGAG
1 ACTT-CTTCATCTTTCATTTGCCCATCGGCTCAGACCTGGAA
* * * * *
2784397 ACTTTTTCATCTTTCGTCTGCCCGTCGGCTCAGACCCGGGAA
1 ACTTCTTCATCTTTCATTTGCCCATCGGCTCAGA-CCTGGAA
* *
2784439 ACTTCTTCATCTTTTTATTTGCCCATCGGCTCAGTCCTAGGAA
1 ACTTCTTCATC-TTTCATTTGCCCATCGGCTCAGACCT-GGAA
2784482 A
1 A
2784483 TAACCTTCAT
Statistics
Matches: 69, Mismatches: 14, Indels: 5
0.78 0.16 0.06
Matches are distributed among these distances:
41 25 0.36
42 21 0.30
43 23 0.33
ACGTcount: A:0.16, C:0.31, G:0.17, T:0.35
Consensus pattern (41 bp):
ACTTCTTCATCTTTCATTTGCCCATCGGCTCAGACCTGGAA
Found at i:2784785 original size:42 final size:42
Alignment explanation
Indices: 2784739--2784874 Score: 132
Period size: 42 Copynumber: 3.3 Consensus size: 42
2784729 CGATCAACTT
*
2784739 TTTTATCCTTTGTTCACCTATCGATTTAGTCTCGAGTAAATC
1 TTTTATCCTTTGTTCACCTGTCGATTTAGTCTCGAGTAAATC
* * * * *
2784781 TTTTATCCATTGTTGA-CTCGTCGATTCAGTCTC-AGTCAACC
1 TTTTATCCTTTGTTCACCT-GTCGATTTAGTCTCGAGTAAATC
* * * * ** *
2784822 TTTTATCCCTTGTTTACTTGTTGGCTTAGTCTCGGGTAAATC
1 TTTTATCCTTTGTTCACCTGTCGATTTAGTCTCGAGTAAATC
2784864 TTTTATCCTTT
1 TTTTATCCTTT
2784875 CAGTCTCGAT
Statistics
Matches: 74, Mismatches: 17, Indels: 6
0.76 0.18 0.06
Matches are distributed among these distances:
41 32 0.43
42 42 0.57
ACGTcount: A:0.18, C:0.22, G:0.14, T:0.46
Consensus pattern (42 bp):
TTTTATCCTTTGTTCACCTGTCGATTTAGTCTCGAGTAAATC
Found at i:2784853 original size:41 final size:41
Alignment explanation
Indices: 2784759--2784871 Score: 111
Period size: 41 Copynumber: 2.7 Consensus size: 41
2784749 TGTTCACCTA
*
2784759 TCGATTTAGTCTCGAGTAAATCTTTTATCCATTGTTGACTCG
1 TCGA-TTAGTCTCGAGTAAACCTTTTATCCATTGTTGACTCG
* * * *
2784801 TCGATTCAGTCTC-AGTCAACCTTTTATCCCTTGTTTACTTG
1 TCGATT-AGTCTCGAGTAAACCTTTTATCCATTGTTGACTCG
* * * *
2784842 TTGGCTTAGTCTCGGGTAAATCTTTTATCC
1 -TCGATTAGTCTCGAGTAAACCTTTTATCC
2784872 TTTCAGTCTC
Statistics
Matches: 58, Mismatches: 10, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
41 31 0.53
42 27 0.47
ACGTcount: A:0.19, C:0.22, G:0.16, T:0.43
Consensus pattern (41 bp):
TCGATTAGTCTCGAGTAAACCTTTTATCCATTGTTGACTCG
Found at i:2787404 original size:24 final size:24
Alignment explanation
Indices: 2787375--2787425 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 24
2787365 GAAAAAAGGG
* *
2787375 GAATAGAAATAGCAACTGAAGA-AA
1 GAATAGAAACAG-AACAGAAGAGAA
2787399 GAATAGAAACAGAACAGAAGAGAA
1 GAATAGAAACAGAACAGAAGAGAA
2787423 GAA
1 GAA
2787426 AAATAAACAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 8 0.33
24 16 0.67
ACGTcount: A:0.61, C:0.08, G:0.24, T:0.08
Consensus pattern (24 bp):
GAATAGAAACAGAACAGAAGAGAA
Found at i:2787425 original size:28 final size:27
Alignment explanation
Indices: 2787392--2787477 Score: 80
Period size: 24 Copynumber: 3.4 Consensus size: 27
2787382 AATAGCAACT
2787392 GAAGAAAGAATAGAAACAGAACAGAAGA
1 GAAGAAAGAATAGAAACAGAACA-AAGA
2787420 GAAGAAA-AAT--AAACA-ACACCAAA-A
1 GAAGAAAGAATAGAAACAGA-A-CAAAGA
*
2787444 GAAGAAAGAA-AGAAAAAGAA-AAAGA
1 GAAGAAAGAATAGAAACAGAACAAAGA
2787469 G-AGAAAGAA
1 GAAGAAAGAA
2787478 AGTAACAATA
Statistics
Matches: 50, Mismatches: 1, Indels: 18
0.72 0.01 0.26
Matches are distributed among these distances:
24 20 0.40
25 12 0.24
26 7 0.14
27 4 0.08
28 7 0.14
ACGTcount: A:0.70, C:0.07, G:0.21, T:0.02
Consensus pattern (27 bp):
GAAGAAAGAATAGAAACAGAACAAAGA
Found at i:2787459 original size:16 final size:16
Alignment explanation
Indices: 2787440--2787474 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
2787430 AAACAACACC
2787440 AAAAGAAGAAAGAAAGA
1 AAAAGAA-AAAGAAAGA
*
2787457 AAAAGAAAAAGAGAGA
1 AAAAGAAAAAGAAAGA
2787473 AA
1 AA
2787475 GAAAGTAACA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 10 0.59
17 7 0.41
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (16 bp):
AAAAGAAAAAGAAAGA
Found at i:2787573 original size:22 final size:22
Alignment explanation
Indices: 2787530--2787574 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
2787520 CAATAACTCC
* * *
2787530 AACACTAGCAGTAGCTCCAGCA
1 AACACCAGCAGCAACTCCAGCA
*
2787552 AACACCAGCAGCAACTCTAGCA
1 AACACCAGCAGCAACTCCAGCA
2787574 A
1 A
2787575 GCTCCAATAG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.40, C:0.33, G:0.16, T:0.11
Consensus pattern (22 bp):
AACACCAGCAGCAACTCCAGCA
Found at i:2787702 original size:22 final size:22
Alignment explanation
Indices: 2787652--2787695 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
2787642 ACAGTAGCAG
2787652 GAAGCAACGCAAACAACAACCA
1 GAAGCAACGCAAACAACAACCA
* *
2787674 GAAGCAATGCAAACAGCAACCA
1 GAAGCAACGCAAACAACAACCA
2787696 TCAGCAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.52, C:0.30, G:0.16, T:0.02
Consensus pattern (22 bp):
GAAGCAACGCAAACAACAACCA
Found at i:2789590 original size:155 final size:153
Alignment explanation
Indices: 2789248--2790559 Score: 1213
Period size: 156 Copynumber: 8.5 Consensus size: 153
2789238 CATACCTATC
** * ** * * * * * * *
2789248 CTTTTTAATTCCTTTAGGGATATCAGAATACTTTCACGTCAAAGGTAACCTACAGGGGTATTTTT
1 CTTTTTAGGTCCTTTAGGG-TACCAGGGTACTTTTACGTCGAAGGTATCCCATAGGGGCATTTTC
* * * * * *
2789313 GTAATTTTTCTACAACCGAGTCCTAGGTTATCACTAGGTTTGCTTTTTTGCCGAAGGTGGGCATT
65 GTAATTTTTCTAGAACCAAGTCCTAGGTTGTCAC-CGGTTCGCTTTTATGCCGAAGGTGGGCATT
*
2789378 TAGGATAGGTTCACCCCTTTTCTAGT
129 TAGGATAGGTTCA-TCCTTTTCTAGT
* * * * * * * * *
2789404 CTTTTTAGGTCTTTTAAGGTACTAAGATACTTTTACGTCTAAGGTATCCCTTAAGGGTATTTTCG
1 CTTTTTAGGTCCTTTAGGGTACCAGGGTACTTTTACGTCGAAGGTATCCCATAGGGGCATTTTCG
* * * *
2789469 TAATTTTTCTAGAACCAACTCCTAGGTCGTCACCGGTTCGTTTTTATGTCGAAGGTGGGCATTTA
66 TAATTTTTCTAGAACCAAGTCCTAGGTTGTCACCGGTTCGCTTTTATGCCGAAGGTGGGCATTTA
2789534 GGATAGGTTCACTCCTTTTCTAGT
131 GGATAGGTTCA-TCCTTTTCTAGT
* * * * * * * **
2789558 CTTTCTAGATCTTTTAGGGTTGCCGGGGTACTTTTACATCGAAGGTATACTCATAGGGGTTTTTT
1 CTTTTTAGGTCCTTTAGGG-TACCAGGGTACTTTTACGTCGAAGGTAT-CCCATAGGGGCATTTT
* * * * * *
2789623 TGTAA-TTTCCTAGTTA-CGAGTCCTAGGTTGTCAACGGGTTCGCTTTTATGCTGAAGGTGGGCA
64 CGTAATTTTTCTAG-AACCAAGTCCTAGGTTGTC-ACCGGTTCGCTTTTATGCCGAAGGTGGGCA
* *
2789686 TTTAGGATAAGATCATCCTTTTTCTAGT
127 TTTAGGATAGGTTCATCC-TTTTCTAGT
*
2789714 CTTTTTAGGTCC-TTA---T--CAGGGTACTTTTACATCGAAGGTATACCCATAGGGGCATTTTC
1 CTTTTTAGGTCCTTTAGGGTACCAGGGTACTTTTACGTCGAAGGTAT-CCCATAGGGGCATTTTC
* * * * *
2789773 GTAATTTCT-TATAACCGAGTCCTAGGTTGTCACTGAG-TCTACTTTTATGCCGAAGGTGGGCAT
65 GTAATTTTTCTAGAACCAAGTCCTAGGTTGTCACCG-GTTC-GCTTTTATGCCGAAGGTGGGCAT
2789836 TTAGGATAGGTTCATCCCTTTTCTAGT
128 TTAGGATAGGTTCAT-CCTTTTCTAGT
** * * * * *
2789863 CTTTTTAGGTCCTTTAGGGTTGTC-GTCGTACTTTTATGTCAAAAGTATACCTATAGGGGCATTT
1 CTTTTTAGGTCCTTTAGGG-TACCAG-GGTACTTTTACGTCGAAGGTAT-CCCATAGGGGCATTT
* ** * * * * * *
2789927 TCATAATTTCAC-AAAACTAAGTCTTAGGTTGTCACCGAGTTTGCTTTTATGACAAAGGTGGGCA
63 TCGTAATTTTTCTAGAACCAAGTCCTAGGTTGTCACCG-GTTCGCTTTTATGCCGAAGGTGGGCA
*
2789991 TTTTAGTATAGGTTCATCACCATTTT-TAGT
127 -TTTAGGATAGGTTCAT--CC-TTTTCTAGT
* * * * * *
2790021 CTTTTTAAGTCTTTTAAGGTACCAAGATACTTTTACGTCGAAGGTATCCCTTTA-GGGCATTTTC
1 CTTTTTAGGTCCTTTAGGGTACCAGGGTACTTTTACGTCGAAGGTATCCC-ATAGGGGCATTTTC
* * * *
2790085 GTAATTTTTCTAGAACCAACTCTTAGGTCGTCACCAGGTTCGCTTTTATGCTGAAGGTGGGCATT
65 GTAATTTTTCTAGAACCAAGTCCTAGGTTGTCACC-GGTTCGCTTTTATGCCGAAGGTGGGCATT
2790150 TAGGATAGGTTCATCCCTTTTCTAGT
129 TAGGATAGGTTCAT-CCTTTTCTAGT
* * * *
2790176 CTTTTTAGGTCCTTTAGAGTTGCTAGGGTACTTTTACGTCGAAGGTATACCCATAGGGGTATTTT
1 CTTTTTAGGTCCTTTAG-GGTACCAGGGTACTTTTACGTCGAAGGTAT-CCCATAGGGGCATTTT
* * * *
2790241 CGTAATTTCT-TAGAACCAAGTCCTAGGTTGTCATCGGGTCTGCTTTTATGCCGAAGGTGGGCAA
64 CGTAATTTTTCTAGAACCAAGTCCTAGGTTGTCACCGGTTC-GCTTTTATGCCGAAGGTGGGCAT
*
2790305 TTAGGATAGGTTCATCACCATTTCTAGT
128 TTAGGATAGGTTCAT--CCTTTTCTAGT
* ** * * *
2790333 CTTTTTAAGTCCTTTAGGGGTA-TTGGGTACTTTTACGTCGAAAGTATCCCATAGGGGCGTTTTT
1 CTTTTTAGGTCCTTTA-GGGTACCAGGGTACTTTTACGTCGAAGGTATCCCATAGGGGCATTTTC
* ** * *
2790397 GTAA-TTTTCTAGAACCAACTCCTAGGTCATCACCGGGTCTGTTTTTATGCCGAAGGTGGGCATT
65 GTAATTTTTCTAGAACCAAGTCCTAGGTTGTCACCGGTTC-GCTTTTATGCCGAAGGTGGGCATT
*
2790461 TAGGATAGGTTCATCCCATTTCTA-T
129 TAGGATAGGTTCAT-CCTTTTCTAGT
* ** *
2790486 CCTTTTTAGGTCCTTTAGGGGTATCA-GGTACTTTTACGTTAAAGGTATCCCCTAGGGGCATTTT
1 -CTTTTTAGGTCCTTTA-GGGTACCAGGGTACTTTTACGTCGAAGGTATCCCATAGGGGCATTTT
*
2790550 CATAATTTTT
64 CGTAATTTTT
2790560 TTGAACTTAG
Statistics
Matches: 957, Mismatches: 161, Indels: 77
0.80 0.13 0.06
Matches are distributed among these distances:
148 6 0.01
149 116 0.12
150 7 0.01
151 1 0.00
153 1 0.00
154 140 0.15
155 219 0.23
156 313 0.33
157 126 0.13
158 24 0.03
159 4 0.00
ACGTcount: A:0.22, C:0.18, G:0.21, T:0.39
Consensus pattern (153 bp):
CTTTTTAGGTCCTTTAGGGTACCAGGGTACTTTTACGTCGAAGGTATCCCATAGGGGCATTTTCG
TAATTTTTCTAGAACCAAGTCCTAGGTTGTCACCGGTTCGCTTTTATGCCGAAGGTGGGCATTTA
GGATAGGTTCATCCTTTTCTAGT
Found at i:2790173 original size:313 final size:308
Alignment explanation
Indices: 2789331--2790557 Score: 1376
Period size: 313 Copynumber: 4.0 Consensus size: 308
2789321 TCTACAACCG
* * *
2789331 AGTCCTAGGTTATC-ACTAGGTTTGCTTTTTTGCCGAAGGTGGGCATTTAGGATAGGTTCA-CCC
1 AGTCCTAGGTTGTCAAC-GGGTTTGCTTTTATGCCGAAGGTGGGCATTTAGGATAGGTTCATCCC
* * * * *
2789394 CTTTTCTAGTCTTTTTAGGTCTTTTAAGGTACTAAGATACTTTTACGTCTAAGGTATCCCTTAAG
65 ATTTTCTAGTCTTTTTAAGTCTTTTAAGGTAC-AAGATACTTTTACGTCGAAGGTATCCCATAGG
* * *
2789459 GGTATTTTCGTAATTTTTCTAGAACCAACTCCTAGGTCGTCACCGGTTC-GTTTTTATGTCGAAG
129 GGCATTTTCGTAATTTTTCTAGAACCAACTCCTAGGTCGTCACCGGTTCTGCTTTTATGCCGAAG
* * * *
2789523 GTGGGCATTTAGGATAGGTTCA-CTCCTTTTCTAGTCTTTCTAGATCTTTTAGGGTTGCCGGGGT
194 GTGGGCATTTAGGATAGGTTCATC-CCTTTTCTAGTCTTTTTAGGTCCTTTAGGGTTGTC-GGGT
* * * ** ** ** *
2789587 ACTTTTACATCGAAGGTATACTCATAGGGGTTTTTTTGTAATTTCCTAGTTACG
257 ACTTTTACGTCAAAGGTATACCCATAGGGGCATTTTCATAATTTCC-A-AAACA
* * * * *
2789641 AGTCCTAGGTTGTCAACGGGTTCGCTTTTATGCTGAAGGTGGGCATTTAGGATAAGATCAT-CCT
1 AGTCCTAGGTTGTCAACGGGTTTGCTTTTATGCCGAAGGTGGGCATTTAGGATAGGTTCATCCCA
* * * * *
2789705 TTTTCTAGTCTTTTTAGGTC-CTT-A--T-CAGGGTACTTTTACATCGAAGGTATACCCATAGGG
66 TTTTCTAGTCTTTTTAAGTCTTTTAAGGTACAAGATACTTTTACGTCGAAGGTAT-CCCATAGGG
* * * * * * *
2789765 GCATTTTCGTAATTTCT-TATAACCGAGTCCTAGGTTGTCACTGAG-TCTACTTTTATGCCGAAG
130 GCATTTTCGTAATTTTTCTAGAACCAACTCCTAGGTCGTCACCG-GTTCTGCTTTTATGCCGAAG
*
2789828 GTGGGCATTTAGGATAGGTTCATCCCTTTTCTAGTCTTTTTAGGTCCTTTAGGGTTGTCGTCGTA
194 GTGGGCATTTAGGATAGGTTCATCCCTTTTCTAGTCTTTTTAGGTCCTTTAGGGTTGTCG-GGTA
* * *
2789893 CTTTTATGTCAAAAGTATACCTATAGGGGCATTTTCATAATTTCACAAAACTA
258 CTTTTACGTCAAAGGTATACCCATAGGGGCATTTTCATAATTTC-CAAAAC-A
* * * * * *
2789946 AGTCTTAGGTTGTCACCGAGTTTGCTTTTATGACAAAGGTGGGCATTTTAGTATAGGTTCATCAC
1 AGTCCTAGGTTGTCAACGGGTTTGCTTTTATGCCGAAGGTGGGCA-TTTAGGATAGGTTCATC-C
*
2790011 CATTTT-TAGTCTTTTTAAGTCTTTTAAGGTACCAAGATACTTTTACGTCGAAGGTATCCCTTTA
64 CATTTTCTAGTCTTTTTAAGTCTTTTAAGGTA-CAAGATACTTTTACGTCGAAGGTATCCC-ATA
* *
2790075 -GGGCATTTTCGTAATTTTTCTAGAACCAACTCTTAGGTCGTCACCAGGTTC-GCTTTTATGCTG
127 GGGGCATTTTCGTAATTTTTCTAGAACCAACTCCTAGGTCGTCACC-GGTTCTGCTTTTATGCCG
* *
2790138 AAGGTGGGCATTTAGGATAGGTTCATCCCTTTTCTAGTCTTTTTAGGTCCTTTAGAGTTGCTAGG
191 AAGGTGGGCATTTAGGATAGGTTCATCCCTTTTCTAGTCTTTTTAGGTCCTTTAGGGTTG-TCGG
* * * * *
2790203 GTACTTTTACGTCGAAGGTATACCCATAGGGGTATTTTCGTAATTTCTTAGAACCA
255 GTACTTTTACGTCAAAGGTATACCCATAGGGGCATTTTCATAATTTC-CA-AAACA
* * *
2790259 AGTCCTAGGTTGTCATCGGGTCTGCTTTTATGCCGAAGGTGGGCAATTAGGATAGGTTCATCACC
1 AGTCCTAGGTTGTCAACGGGTTTGCTTTTATGCCGAAGGTGGGCATTTAGGATAGGTTCATC-CC
* * *** * *
2790324 A-TTTCTAGTCTTTTTAAGTCCTTTAGGGGTATTGGGTACTTTTACGTCGAAAGTATCCCATAGG
65 ATTTTCTAGTCTTTTTAAGTCTTTTA-AGGTACAAGATACTTTTACGTCGAAGGTATCCCATAGG
* * * * *
2790388 GGCGTTTTTGTAA-TTTTCTAGAACCAACTCCTAGGTCATCACCGGGTCTGTTTTTATGCCGAAG
129 GGCATTTTCGTAATTTTTCTAGAACCAACTCCTAGGTCGTCACCGGTTCTGCTTTTATGCCGAAG
* * * *
2790452 GTGGGCATTTAGGATAGGTTCATCCCATTTCTA-TCCTTTTTAGGTCCTTTAGGGGTATCAGGTA
194 GTGGGCATTTAGGATAGGTTCATCCCTTTTCTAGT-CTTTTTAGGTCCTTTAGGGTTGTCGGGTA
* *
2790516 CTTTTACGTTAAAGGTAT-CCCCTAGGGGCATTTTCATAATTT
258 CTTTTACGTCAAAGGTATACCCATAGGGGCATTTTCATAATTT
2790558 TTTTGAACTT
Statistics
Matches: 773, Mismatches: 115, Indels: 59
0.82 0.12 0.06
Matches are distributed among these distances:
304 46 0.06
305 165 0.21
306 16 0.02
307 14 0.02
308 9 0.01
309 24 0.03
310 98 0.13
311 100 0.13
312 94 0.12
313 199 0.26
314 8 0.01
ACGTcount: A:0.21, C:0.18, G:0.22, T:0.39
Consensus pattern (308 bp):
AGTCCTAGGTTGTCAACGGGTTTGCTTTTATGCCGAAGGTGGGCATTTAGGATAGGTTCATCCCA
TTTTCTAGTCTTTTTAAGTCTTTTAAGGTACAAGATACTTTTACGTCGAAGGTATCCCATAGGGG
CATTTTCGTAATTTTTCTAGAACCAACTCCTAGGTCGTCACCGGTTCTGCTTTTATGCCGAAGGT
GGGCATTTAGGATAGGTTCATCCCTTTTCTAGTCTTTTTAGGTCCTTTAGGGTTGTCGGGTACTT
TTACGTCAAAGGTATACCCATAGGGGCATTTTCATAATTTCCAAAACA
Found at i:2802577 original size:20 final size:20
Alignment explanation
Indices: 2802530--2802604 Score: 71
Period size: 20 Copynumber: 3.8 Consensus size: 20
2802520 AAAAAGACAT
*
2802530 AATGTATCGATACATT-GTA
1 AATGTATCGATACATTCATA
*
2802549 GAATATATCGATACATTCATA
1 -AATGTATCGATACATTCATA
* * * *
2802570 CATGTATCGATATATTGAAA
1 AATGTATCGATACATTCATA
*
2802590 AATGTATTGATACAT
1 AATGTATCGATACAT
2802605 CAAGGTAAAA
Statistics
Matches: 44, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
20 42 0.95
21 2 0.05
ACGTcount: A:0.40, C:0.11, G:0.13, T:0.36
Consensus pattern (20 bp):
AATGTATCGATACATTCATA
Found at i:2802602 original size:40 final size:39
Alignment explanation
Indices: 2802527--2802604 Score: 102
Period size: 40 Copynumber: 2.0 Consensus size: 39
2802517 GGTAAAAAGA
* *
2802527 CATAATGTATCGATACATTGTAGAATATATCGATACATT
1 CATAATGTATCGATACATTGAAAAATATATCGATACATT
* * *
2802566 CATACATGTATCGATATATTGAAAAATGTATTGATACAT
1 CATA-ATGTATCGATACATTGAAAAATATATCGATACAT
2802605 CAAGGTAAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
39 4 0.12
40 29 0.88
ACGTcount: A:0.40, C:0.12, G:0.13, T:0.36
Consensus pattern (39 bp):
CATAATGTATCGATACATTGAAAAATATATCGATACATT
Found at i:2805405 original size:8 final size:8
Alignment explanation
Indices: 2805392--2805460 Score: 63
Period size: 8 Copynumber: 8.9 Consensus size: 8
2805382 TCCTCCACAA
2805392 AAAAAAAC
1 AAAAAAAC
2805400 AAAAAAAAC
1 -AAAAAAAC
*
2805409 AAACAAAC
1 AAAAAAAC
2805417 --AAAAA-
1 AAAAAAAC
* *
2805422 AAAAGAAG
1 AAAAAAAC
2805430 AAAAAAAC
1 AAAAAAAC
*
2805438 AAACAAAC
1 AAAAAAAC
*
2805446 AAACAAAC
1 AAAAAAAC
2805454 AAAAAAA
1 AAAAAAA
2805461 AACCAACAAT
Statistics
Matches: 50, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
6 4 0.08
7 4 0.08
8 34 0.68
9 8 0.16
ACGTcount: A:0.84, C:0.13, G:0.03, T:0.00
Consensus pattern (8 bp):
AAAAAAAC
Found at i:2805422 original size:29 final size:28
Alignment explanation
Indices: 2805390--2805462 Score: 101
Period size: 29 Copynumber: 2.6 Consensus size: 28
2805380 TGTCCTCCAC
*
2805390 AAAAAAAAACAAAAAAAACAAACAAACA
1 AAAAAAAAAAAAAAAAAACAAACAAACA
*
2805418 AAAAAAAAGAAGAAAAAAACAAACAAACA
1 AAAAAAAA-AAAAAAAAAACAAACAAACA
* *
2805447 AACAAACAAAAAAAAA
1 AAAAAAAAAAAAAAAA
2805463 CCAACAATAA
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
28 15 0.38
29 24 0.62
ACGTcount: A:0.85, C:0.12, G:0.03, T:0.00
Consensus pattern (28 bp):
AAAAAAAAAAAAAAAAAACAAACAAACA
Found at i:2805474 original size:14 final size:14
Alignment explanation
Indices: 2805390--2805475 Score: 83
Period size: 14 Copynumber: 6.4 Consensus size: 14
2805380 TGTCCTCCAC
2805390 AAAAAA-AAAC-AA
1 AAAAAACAAACAAA
2805402 AAAAAACAAACAAA
1 AAAAAACAAACAAA
*
2805416 CAAAAAA-AAAGAAGA
1 -AAAAAACAAACAA-A
2805431 AAAAAACAAAC--A
1 AAAAAACAAACAAA
*
2805443 AACAAACAAACAAA
1 AAAAAACAAACAAA
* *
2805457 AAAAAACCAACAAT
1 AAAAAACAAACAAA
2805471 AAAAA
1 AAAAA
2805476 GGGTTCGGAT
Statistics
Matches: 61, Mismatches: 6, Indels: 12
0.77 0.08 0.15
Matches are distributed among these distances:
12 17 0.28
13 4 0.07
14 30 0.49
15 10 0.16
ACGTcount: A:0.83, C:0.14, G:0.02, T:0.01
Consensus pattern (14 bp):
AAAAAACAAACAAA
Found at i:2805475 original size:41 final size:37
Alignment explanation
Indices: 2805388--2805463 Score: 118
Period size: 37 Copynumber: 2.1 Consensus size: 37
2805378 GATGTCCTCC
2805388 ACAAAAAAAAACAAAAAAAACAAACAAACAAAAAAAA
1 ACAAAAAAAAACAAAAAAAACAAACAAACAAAAAAAA
* *
2805425 AGAAGAAAAAAAC-AAACAAACAAACAAACAAAAAAAA
1 ACAA-AAAAAAACAAAAAAAACAAACAAACAAAAAAAA
2805462 AC
1 AC
2805464 CAACAATAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
37 27 0.77
38 8 0.23
ACGTcount: A:0.83, C:0.14, G:0.03, T:0.00
Consensus pattern (37 bp):
ACAAAAAAAAACAAAAAAAACAAACAAACAAAAAAAA
Found at i:2806970 original size:48 final size:47
Alignment explanation
Indices: 2806898--2806992 Score: 145
Period size: 48 Copynumber: 2.0 Consensus size: 47
2806888 AGCTCACAAG
* * *
2806898 TCAGTGGCATCTTTTTCAAAGCCCACAAGTCAATGGCAACCTTCAAA
1 TCAGTGGCACCTTTTCCAAAGCCCACAAATCAATGGCAACCTTCAAA
*
2806945 TCAGTGGCACCCTTTTCCAAAGCCCACAAATCAGTGGCAACCTTCAAA
1 TCAGTGGCA-CCTTTTCCAAAGCCCACAAATCAATGGCAACCTTCAAA
2806993 GCCCACAAAT
Statistics
Matches: 43, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
47 9 0.21
48 34 0.79
ACGTcount: A:0.32, C:0.31, G:0.15, T:0.23
Consensus pattern (47 bp):
TCAGTGGCACCTTTTCCAAAGCCCACAAATCAATGGCAACCTTCAAA
Found at i:2807036 original size:28 final size:27
Alignment explanation
Indices: 2806941--2807070 Score: 136
Period size: 28 Copynumber: 4.7 Consensus size: 27
2806931 TGGCAACCTT
*
2806941 CAAATCAGTGGCACCCTTTTCCAAAGCCCA
1 CAAATCAGTGGCAACC--TT-CAAAGCCCA
2806971 CAAATCAGTGGCAACCTTCAAAGCCCA
1 CAAATCAGTGGCAACCTTCAAAGCCCA
2806998 CAAATCAGTGGCAACCTTCAAAAGCCCA
1 CAAATCAGTGGCAACCTTC-AAAGCCCA
* * * * *
2807026 CAACTCCGTGGCATCCTTTTAAAGTCCA
1 CAAATCAGTGGCAACC-TTCAAAGCCCA
* *
2807054 CAACTCCGTGGC-ACCTT
1 CAAATCAGTGGCAACCTT
2807071 GTTCCTTTTA
Statistics
Matches: 91, Mismatches: 7, Indels: 8
0.86 0.07 0.08
Matches are distributed among these distances:
26 2 0.02
27 30 0.33
28 42 0.46
29 2 0.02
30 15 0.16
ACGTcount: A:0.31, C:0.35, G:0.15, T:0.20
Consensus pattern (27 bp):
CAAATCAGTGGCAACCTTCAAAGCCCA
Found at i:2807037 original size:55 final size:56
Alignment explanation
Indices: 2806941--2807070 Score: 147
Period size: 55 Copynumber: 2.3 Consensus size: 56
2806931 TGGCAACCTT
* *
2806941 CAAATCAGTGGCACCCTTTTCCAAAGCCCACAAATCAGTGGCAACC-TTCAAAGCCCA
1 CAAATCAGTGGCAACC--TTCAAAAGCCCACAAATCAGTGGCAACCTTTCAAAGCCCA
* * * * *
2806998 CAAATCAGTGGCAACCTTCAAAAGCCCACAACTCCGTGGCATCCTTTTAAAGTCCA
1 CAAATCAGTGGCAACCTTCAAAAGCCCACAAATCAGTGGCAACCTTTCAAAGCCCA
* *
2807054 CAACTCCGTGGC-ACCTT
1 CAAATCAGTGGCAACCTT
2807071 GTTCCTTTTA
Statistics
Matches: 63, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
55 29 0.46
56 19 0.30
57 15 0.24
ACGTcount: A:0.31, C:0.35, G:0.15, T:0.20
Consensus pattern (56 bp):
CAAATCAGTGGCAACCTTCAAAAGCCCACAAATCAGTGGCAACCTTTCAAAGCCCA
Found at i:2807165 original size:68 final size:67
Alignment explanation
Indices: 2807039--2807209 Score: 220
Period size: 68 Copynumber: 2.5 Consensus size: 67
2807029 CTCCGTGGCA
* *
2807039 TCCTTTTAAAGTCCACAACTCCGTGGCACCTTGTTCCTTTTAAGTCCACAACTCCGTGGCATCTT
1 TCCTTTTAAAGCCCACAACTCCGTGGCACCTTGTTCCTTTAAAGTCCACAACTCCGTGGCATCTT
*
2807104 TT
66 TC
*
2807106 TCC-TTTAAAGCCCACAACTTCGTGGCACTCTCT-TTCCCTTTAAAGTCCACAACTCCGTGGCAT
1 TCCTTTTAAAGCCCACAACTCCGTGGCAC-CT-TGTT-CCTTTAAAGTCCACAACTCCGTGGCAT
2807169 CTTTC
63 CTTTC
* *
2807174 TCCTTTTCAAAAGCCCACAAGTCAGTGGCAACCTTG
1 TCCTTTT--AAAGCCCACAACTCCGTGGC-ACCTTG
2807210 AAAAGCCCAC
Statistics
Matches: 89, Mismatches: 7, Indels: 12
0.82 0.06 0.11
Matches are distributed among these distances:
66 23 0.26
67 7 0.08
68 34 0.38
69 3 0.03
70 1 0.01
71 19 0.21
72 2 0.02
ACGTcount: A:0.22, C:0.33, G:0.13, T:0.32
Consensus pattern (67 bp):
TCCTTTTAAAGCCCACAACTCCGTGGCACCTTGTTCCTTTAAAGTCCACAACTCCGTGGCATCTT
TC
Found at i:2807202 original size:36 final size:32
Alignment explanation
Indices: 2807018--2807203 Score: 182
Period size: 33 Copynumber: 5.7 Consensus size: 32
2807008 GCAACCTTCA
*
2807018 AAAGCCCACAACTCCGTGGCATC----CTTTT
1 AAAGCCCACAACTCCGTGGCATCTTTTCCTTT
* *
2807046 AAAGTCCACAACTCCGTGGCACCTTGTTCCTTT
1 AAAGCCCACAACTCCGTGGCATCTT-TTCCTTT
* *
2807079 TAAGTCCACAACTCCGTGGCATCTTTTTCCTTT
1 AAAGCCCACAACTCCGTGGCATC-TTTTCCTTT
*
2807112 AAAGCCCACAACTTCGTGGCACTCTCTTTCCCTTT
1 AAAGCCCACAACTCCGTGGCA-TCT-TTT-CCTTT
*
2807147 AAAGTCCACAACTCCGTGGCATCTTTCTCCTTTT
1 AAAGCCCACAACTCCGTGGCATCTTT-TCC-TTT
* *
2807181 CAAAAGCCCACAAGTCAGTGGCA
1 --AAAGCCCACAACTCCGTGGCA
2807204 ACCTTGAAAA
Statistics
Matches: 132, Mismatches: 13, Indels: 18
0.81 0.08 0.11
Matches are distributed among these distances:
28 21 0.16
33 55 0.42
34 14 0.11
35 24 0.18
36 18 0.14
ACGTcount: A:0.23, C:0.33, G:0.14, T:0.30
Consensus pattern (32 bp):
AAAGCCCACAACTCCGTGGCATCTTTTCCTTT
Found at i:2807444 original size:39 final size:39
Alignment explanation
Indices: 2807385--2807462 Score: 111
Period size: 39 Copynumber: 2.0 Consensus size: 39
2807375 TTGTCATCTT
* *
2807385 TAAGACCAATGTCGTTGGCCTTGAATCAACACATTGGCA
1 TAAGACCAATATCGCTGGCCTTGAATCAACACATTGGCA
* * *
2807424 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCA
1 TAAGACCAATATCGCTGGCCTTGAATCAACACATTGGCA
2807463 CCTTTGTTTT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
39 34 1.00
ACGTcount: A:0.29, C:0.24, G:0.21, T:0.26
Consensus pattern (39 bp):
TAAGACCAATATCGCTGGCCTTGAATCAACACATTGGCA
Found at i:2807501 original size:49 final size:49
Alignment explanation
Indices: 2807424--2807869 Score: 570
Period size: 49 Copynumber: 8.9 Consensus size: 49
2807414 CACATTGGCA
* * *
2807424 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTTTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
* * * * *
2807473 TAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTAACCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
* *
2807522 TAGGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTTATCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC--T-TTATCTT
* * * *
2807574 TAAGTCCAATGTCGCTGGCCTTGAATTAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
* * *
2807623 TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
*
2807672 TAAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGCACCTTTGTCATCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC-TT-T-ATCTT
* * *
2807724 TAAGTCCAATGTCGCTGGCCTTGAATGAGCACATTGGCA-CTTTCATCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTT-ATCTT
*
2807773 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC-TT-T-ATCTT
* * *
2807825 TAAGTCTAGTATCGCTGGCCTTGAATCAGCATATTGGCATCTTTA
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTA
2807870 ACATTCCTAA
Statistics
Matches: 351, Mismatches: 37, Indels: 18
0.86 0.09 0.04
Matches are distributed among these distances:
49 213 0.61
50 7 0.02
51 6 0.02
52 125 0.36
ACGTcount: A:0.23, C:0.25, G:0.19, T:0.33
Consensus pattern (49 bp):
TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
Found at i:2807614 original size:101 final size:101
Alignment explanation
Indices: 2807424--2807868 Score: 589
Period size: 101 Copynumber: 4.4 Consensus size: 101
2807414 CACATTGGCA
* * * * *
2807424 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTT-GTTTTTAAGACCAATGTCGC
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTCATCTTTAAGTCCAATATCGC
* *
2807488 TGGCCTTGAATCAGCACATTGGCACC-T-TAACCTT
66 TGGCCTTGAATCAGCACATTGGCACCTTGTCATCTT
* * * *
2807522 TAGGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTTATCTTTAAGTCCAATGTC
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC-TT-TCATCTTTAAGTCCAATATC
*
2807587 GCTGGCCTTGAATTAGCACATTGGCACC-T-TCATCTT
64 GCTGGCCTTGAATCAGCACATTGGCACCTTGTCATCTT
* * *
2807623 TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACC-TTCATCTTTAAGTCCAATATCGT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTCATCTTTAAGTCCAATATCGC
*
2807687 TGGCCTTGAATCAGCATATTGGCACCTTTGTCATCTT
66 TGGCCTTGAATCAGCACATTGGCACC-TTGTCATCTT
* * *
2807724 TAAGTCCAATGTCGCTGGCCTTGAATGAGCACATTGGCA-CTTTCATCTTTAAGTCCAATATCGC
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTCATCTTTAAGTCCAATATCGC
* *
2807788 TGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTT
66 TGGCCTTGAATCAGCACATTGGCACC-TTGTCATCTT
* * *
2807825 TAAGTCTAGTATCGCTGGCCTTGAATCAGCATATTGGCATCTTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTT
2807869 AACATTCCTA
Statistics
Matches: 313, Mismatches: 26, Indels: 12
0.89 0.07 0.03
Matches are distributed among these distances:
98 81 0.26
99 3 0.01
100 3 0.01
101 222 0.71
102 4 0.01
ACGTcount: A:0.22, C:0.25, G:0.19, T:0.33
Consensus pattern (101 bp):
TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTCATCTTTAAGTCCAATATCGC
TGGCCTTGAATCAGCACATTGGCACCTTGTCATCTT
Found at i:2807700 original size:150 final size:150
Alignment explanation
Indices: 2807424--2807915 Score: 671
Period size: 150 Copynumber: 3.3 Consensus size: 150
2807414 CACATTGGCA
* * * ** * *
2807424 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTTTTTAAGACCAATGTCGCT
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTCGCT
* * *
2807489 GGCCTTGAATCAGCACATTGGCACCTTAACCTTTAGGTCCAATATCGCTGGCCTTGAATCAGCAT
66 GGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCAT
* *
2807554 ATTGGCGCCTTTGTTATCTT
131 ATTGGCACCTTTGTCATCTT
*
2807574 TAAGTCCAATGTCGCTGGCCTTGAATTAGCACATTGGCACCTTCATCTTTAAGTCCAATGTCGCT
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTCGCT
*
2807639 GGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGTTGGCCTTGAATCAGCAT
66 GGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCAT
2807704 ATTGGCACCTTTGTCATCTT
131 ATTGGCACCTTTGTCATCTT
* * *
2807724 TAAGTCCAATGTCGCTGGCCTTGAATGAGCACATTGGCACTTTCATCTTTAAGTCCAATATCGCT
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTCGCT
* * * *
2807789 GGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGTCTAGTATCGCTGGCCTTGAATCAG
66 GGCCTTGAATCAGCACATTGGCACC--T-TCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAG
* ** *
2807854 CATATTGGCATCTTTAACAT-TCC
128 CATATTGGCACCTTTGTCATCT-T
* * * **
2807877 TAAGCCCAATGTCGTTGGCATTGTCTCAGCACATTGGCA
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCA
2807916 TTCTTCTTCA
Statistics
Matches: 306, Mismatches: 32, Indels: 5
0.89 0.09 0.01
Matches are distributed among these distances:
150 221 0.72
152 2 0.01
153 83 0.27
ACGTcount: A:0.23, C:0.25, G:0.19, T:0.33
Consensus pattern (150 bp):
TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTCGCT
GGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCAT
ATTGGCACCTTTGTCATCTT
Found at i:2810340 original size:13 final size:13
Alignment explanation
Indices: 2810322--2810346 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2810312 TTCAACGATT
2810322 TGTATCGATACAA
1 TGTATCGATACAA
2810335 TGTATCGATACA
1 TGTATCGATACA
2810347 TAAGTTTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2810461 original size:52 final size:52
Alignment explanation
Indices: 2810417--2810545 Score: 204
Period size: 52 Copynumber: 2.5 Consensus size: 52
2810407 CACTGATCTT
* *
2810417 TGTATTGATACATGCAGGCAAATTTGCCCAGATTTATCGATACACTATGAAA
1 TGTATAGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
* * *
2810469 TGTATAGATACATACAAGCAAATTTGCCCAGATGTATCAATACACTATGAAA
1 TGTATAGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
*
2810521 TGTATCGATACATGCAGGCAAATTT
1 TGTATAGATACATGCAGGCAAATTT
2810546 TCATATTTTG
Statistics
Matches: 69, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
52 69 1.00
ACGTcount: A:0.37, C:0.17, G:0.16, T:0.29
Consensus pattern (52 bp):
TGTATAGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
Found at i:2819502 original size:13 final size:13
Alignment explanation
Indices: 2819484--2819510 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
2819474 AAGCACAGTG
2819484 AATATAGCATTGT
1 AATATAGCATTGT
2819497 AATATAGCATTGT
1 AATATAGCATTGT
2819510 A
1 A
2819511 GATCAGCTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.07, G:0.15, T:0.37
Consensus pattern (13 bp):
AATATAGCATTGT
Found at i:2824155 original size:53 final size:49
Alignment explanation
Indices: 2824050--2824228 Score: 277
Period size: 49 Copynumber: 3.6 Consensus size: 49
2824040 AAGCTAAATG
* *
2824050 TCGCTGGCATTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATA
1 TCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATA
*
2824099 TCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTTAAGTCCAATA
1 TCGCTGGCCTTGAATCAGCATATTGGCACC--T-TCATC-TTTAAGTCCAATA
* *
2824152 TCGCTGGCCTTGAATCAACATATTGGCACCTTCATCTTTAAGTCCAGTA
1 TCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATA
2824201 TCGCTGGCCTTGAATCAGCATATTGGCA
1 TCGCTGGCCTTGAATCAGCATATTGGCA
2824229 TCTTTAACAT
Statistics
Matches: 119, Mismatches: 7, Indels: 8
0.89 0.05 0.06
Matches are distributed among these distances:
49 66 0.55
50 5 0.04
51 2 0.02
52 5 0.04
53 41 0.34
ACGTcount: A:0.23, C:0.26, G:0.18, T:0.32
Consensus pattern (49 bp):
TCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATA
Found at i:2826790 original size:32 final size:32
Alignment explanation
Indices: 2826749--2826833 Score: 143
Period size: 32 Copynumber: 2.7 Consensus size: 32
2826739 TTTCAACGAT
2826749 TTGTATCGATACAATGTATCGATAAATAAGTG
1 TTGTATCGATACAATGTATCGATAAATAAGTG
* * *
2826781 TTGTATCGATATAATGTATCGATACATAAGTT
1 TTGTATCGATACAATGTATCGATAAATAAGTG
2826813 TTGTATCGATACAATGTATCG
1 TTGTATCGATACAATGTATCG
2826834 CTATGAAGCT
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 49 1.00
ACGTcount: A:0.34, C:0.11, G:0.18, T:0.38
Consensus pattern (32 bp):
TTGTATCGATACAATGTATCGATAAATAAGTG
Found at i:2826824 original size:19 final size:18
Alignment explanation
Indices: 2826763--2826825 Score: 64
Period size: 19 Copynumber: 3.7 Consensus size: 18
2826753 ATCGATACAA
*
2826763 TGTATCGATAAATAAGTGT
1 TGTATCGATACATAAGT-T
2826782 TGTATCGAT--ATAA---
1 TGTATCGATACATAAGTT
2826795 TGTATCGATACATAAGTTT
1 TGTATCGATACATAAG-TT
2826814 TGTATCGATACA
1 TGTATCGATACA
2826826 ATGTATCGCT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 9 0.24
15 4 0.11
17 4 0.11
19 21 0.55
ACGTcount: A:0.35, C:0.10, G:0.17, T:0.38
Consensus pattern (18 bp):
TGTATCGATACATAAGTT
Found at i:2826896 original size:13 final size:13
Alignment explanation
Indices: 2826878--2826902 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2826868 ATTACTCAAA
2826878 TGTATCGATACAT
1 TGTATCGATACAT
2826891 TGTATCGATACA
1 TGTATCGATACA
2826903 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2827040 original size:52 final size:52
Alignment explanation
Indices: 2826911--2827041 Score: 226
Period size: 52 Copynumber: 2.5 Consensus size: 52
2826901 CACTGATCTT
* **
2826911 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATTGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTTCCCAGATGTATCAATACACTATGAAA
*
2826963 TGTATCGATACATACAGGCAAATTTTCCCAGATGTATCAATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTTCCCAGATGTATCAATACACTATGAAA
2827015 TGTATCGATACATGCAGGCAAATTTTC
1 TGTATCGATACATGCAGGCAAATTTTC
2827042 ATATTTCGGG
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 74 1.00
ACGTcount: A:0.35, C:0.18, G:0.17, T:0.30
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTTCCCAGATGTATCAATACACTATGAAA
Found at i:2833012 original size:58 final size:59
Alignment explanation
Indices: 2832947--2833084 Score: 181
Period size: 59 Copynumber: 2.4 Consensus size: 59
2832937 TTCCAAAAGC
* *
2832947 CCACGACTCTGTGGCACTCTTCCCAAAGTCCA-TACTCAGTGGCATCTATTTTCCAAGT
1 CCACGACTCTGTGGCACCCTTCCCAAAGTCCACAACTCAGTGGCATCTATTTTCCAAGT
* * * * *
2833005 CCACGACTCTGTGGTACCCTTTCCAAAGTCCACAACTTAGTGGCATCTCTTTTCTAAGT
1 CCACGACTCTGTGGCACCCTTCCCAAAGTCCACAACTCAGTGGCATCTATTTTCCAAGT
*
2833064 CCACGACT-TAGTGGCATCCTT
1 CCACGACTCT-GTGGCACCCTT
2833085 TTTCTTCCAA
Statistics
Matches: 69, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
58 30 0.43
59 39 0.57
ACGTcount: A:0.22, C:0.32, G:0.16, T:0.30
Consensus pattern (59 bp):
CCACGACTCTGTGGCACCCTTCCCAAAGTCCACAACTCAGTGGCATCTATTTTCCAAGT
Found at i:2833033 original size:29 final size:29
Alignment explanation
Indices: 2832936--2833079 Score: 98
Period size: 30 Copynumber: 4.9 Consensus size: 29
2832926 TTCAAATCTT
* *
2832936 TTTCCAAAAGCCCACGACTCTGTGGCACTC
1 TTTCC-AAAGTCCACGACTCTGTGGCACAC
* * * *
2832966 TTCCCAAAGTCCA-TACTCAGTGGCATCTAT
1 TTTCCAAAGTCCACGACTCTGTGGCA-C-AC
* *
2832996 TTTCC-AAGTCCACGACTCTGTGGTACCC
1 TTTCCAAAGTCCACGACTCTGTGGCACAC
* *
2833024 TTTCCAAAGTCCACAACT-TAGTGGCATCTC
1 TTTCCAAAGTCCACGACTCT-GTGGCA-CAC
* *
2833054 TTTTCTAAGTCCACGACT-TAGTGGCA
1 TTTCCAAAGTCCACGACTCT-GTGGCA
2833080 TCCTTTTTCT
Statistics
Matches: 90, Mismatches: 18, Indels: 12
0.75 0.15 0.10
Matches are distributed among these distances:
28 16 0.18
29 32 0.36
30 42 0.47
ACGTcount: A:0.24, C:0.31, G:0.16, T:0.29
Consensus pattern (29 bp):
TTTCCAAAGTCCACGACTCTGTGGCACAC
Found at i:2833066 original size:30 final size:29
Alignment explanation
Indices: 2832984--2833183 Score: 152
Period size: 30 Copynumber: 6.5 Consensus size: 29
2832974 GTCCATACTC
* *
2832984 AGTGGCATCTATTTTCCAAGTCCACGACTCT
1 AGTGGCATC-CTTTTCTAAGTCCACGACT-T
* * * * *
2833015 -GTGGTACCCTTTCCAAAGTCCACAACTT
1 AGTGGCATCCTTTTCTAAGTCCACGACTT
2833043 AGTGGCATCTCTTTTCTAAGTCCACGACTT
1 AGTGGCATC-CTTTTCTAAGTCCACGACTT
* *
2833073 AGTGGCATCCTTTTTCTTCCAAGTCTATGACTT
1 AGTGGCATCC-TTTTC-T--AAGTCCACGACTT
* *
2833106 AGTGGCATCCTTTTTCTCCCAAAGTCCATGACTC
1 AGTGGCATCC-TTTTCT----AAGTCCACGACTT
*
2833140 AGGGGCAT-CTTTTCTCCAAGTCCACGACTT
1 AGTGGCATCCTTTTCT--AAGTCCACGACTT
2833170 AGTGGCATCCTTTT
1 AGTGGCATCCTTTT
2833184 TCTTTTAAAA
Statistics
Matches: 139, Mismatches: 21, Indels: 18
0.78 0.12 0.10
Matches are distributed among these distances:
28 1 0.01
29 22 0.16
30 56 0.40
31 6 0.04
32 7 0.05
33 28 0.20
34 19 0.14
ACGTcount: A:0.20, C:0.28, G:0.17, T:0.34
Consensus pattern (29 bp):
AGTGGCATCCTTTTCTAAGTCCACGACTT
Found at i:2833105 original size:33 final size:33
Alignment explanation
Indices: 2833025--2833187 Score: 187
Period size: 30 Copynumber: 5.1 Consensus size: 33
2833015 GTGGTACCCT
*
2833025 TTCCAAAGTCCACAACTTAGTGGCAT-CTCTTTTC
1 TTCC-AAGTCCACGACTTAGTGGCATCCT-TTTTC
2833059 -T--AAGTCCACGACTTAGTGGCATCCTTTTTC
1 TTCCAAGTCCACGACTTAGTGGCATCCTTTTTC
* *
2833089 TTCCAAGTCTATGACTTAGTGGCATCCTTTTTC
1 TTCCAAGTCCACGACTTAGTGGCATCCTTTTTC
* * * *
2833122 TCCCAAAGTCCATGACTCAGGGGCAT-C-TTTTC
1 TTCC-AAGTCCACGACTTAGTGGCATCCTTTTTC
2833154 -TCCAAGTCCACGACTTAGTGGCATCCTTTTTC
1 TTCCAAGTCCACGACTTAGTGGCATCCTTTTTC
2833186 TT
1 TT
2833188 TTAAAAGTCC
Statistics
Matches: 110, Mismatches: 11, Indels: 17
0.80 0.08 0.12
Matches are distributed among these distances:
30 43 0.39
31 6 0.05
32 10 0.09
33 33 0.30
34 18 0.16
ACGTcount: A:0.20, C:0.28, G:0.15, T:0.36
Consensus pattern (33 bp):
TTCCAAGTCCACGACTTAGTGGCATCCTTTTTC
Found at i:2833251 original size:35 final size:35
Alignment explanation
Indices: 2833157--2833252 Score: 94
Period size: 35 Copynumber: 2.8 Consensus size: 35
2833147 TCTTTTCTCC
* * *
2833157 AAGTCCACGACTTAGTGGCATCC-TTTTTCTTTTAA
1 AAGTCCACAACGTCGTGGCATCCTTTTTTCTTTT-A
2833192 AAGTCCACAACGTCGTGGCA-CCTTTTTTCCTTTT-
1 AAGTCCACAACGTCGTGGCATCCTTTTTT-CTTTTA
2833226 AAGTCTC-CAAC-TCCGTGGCATCCTTTT
1 AAGTC-CACAACGT-CGTGGCATCCTTTT
2833253 CCTTCCTAAA
Statistics
Matches: 53, Mismatches: 3, Indels: 10
0.80 0.05 0.15
Matches are distributed among these distances:
33 1 0.02
34 18 0.34
35 29 0.55
36 5 0.09
ACGTcount: A:0.20, C:0.28, G:0.15, T:0.38
Consensus pattern (35 bp):
AAGTCCACAACGTCGTGGCATCCTTTTTTCTTTTA
Found at i:2833274 original size:35 final size:35
Alignment explanation
Indices: 2833025--2833279 Score: 154
Period size: 30 Copynumber: 7.7 Consensus size: 35
2833015 GTGGTACCCT
* * *
2833025 TTCC-AAAGTCCACAACTTAGTGGCAT-C-TCTT-
1 TTCCTAAAGTCCACGACTCAGTGGCATCCTTTTTC
*
2833056 TT-CT-AAGTCCACGACTTAGTGGCATCCTTTTTC
1 TTCCTAAAGTCCACGACTCAGTGGCATCCTTTTTC
* * *
2833089 TTCC--AAGTCTATGACTTAGTGGCATCCTTTTTC
1 TTCCTAAAGTCCACGACTCAGTGGCATCCTTTTTC
* * *
2833122 -TCCCAAAGTCCATGACTCAGGGGCAT-C-TTTTC
1 TTCCTAAAGTCCACGACTCAGTGGCATCCTTTTTC
*
2833154 -TCC--AAGTCCACGACTTAGTGGCATCCTTTTTC
1 TTCCTAAAGTCCACGACTCAGTGGCATCCTTTTTC
* *
2833186 TT-TTAAAAGTCCACAACGTC-GTGGCA-CC-TTTT-
1 TTCCT-AAAGTCCACGAC-TCAGTGGCATCCTTTTTC
* * * *
2833218 TTCCTTTTAAGTCTC-CAACTCCGTGGCATCCTTTTCC
1 TTCC--TAAAGTC-CACGACTCAGTGGCATCCTTTTTC
* *
2833255 TTCCTAAAGTCCATGACTCCGTGGC
1 TTCCTAAAGTCCACGACTCAGTGGC
2833280 CCCTTGTTCA
Statistics
Matches: 182, Mismatches: 19, Indels: 42
0.75 0.08 0.17
Matches are distributed among these distances:
30 39 0.21
31 4 0.02
32 21 0.12
33 37 0.20
34 37 0.20
35 36 0.20
36 4 0.02
37 4 0.02
ACGTcount: A:0.20, C:0.29, G:0.15, T:0.35
Consensus pattern (35 bp):
TTCCTAAAGTCCACGACTCAGTGGCATCCTTTTTC
Found at i:2833426 original size:69 final size:68
Alignment explanation
Indices: 2833315--2833477 Score: 209
Period size: 69 Copynumber: 2.4 Consensus size: 68
2833305 GTCGTGGCAC
* ** *
2833315 CCTTTTAAGTCCACAATTCTGTGGCACCTTTTTCTTTTCAAAGCCCACAACTCCATGACACCATT
1 CCTTTTAAGTCCACAACTCCATGGCACCTTTTTCTTTTCAAAGCCCACAACTCCATGACACC-CT
2833380 TTTT
65 TTTT
* * * *
2833384 CCTTTTAAGCCCACAACTCCATGGCACCTTTTTCTTTTCAAAGCCCATAACTTCATGGCACCCTT
1 CCTTTTAAGTCCACAACTCCATGGCACCTTTTTCTTTTCAAAGCCCACAACTCCATGACACCCTT
2833449 TTT
66 TTT
***
2833452 CCTCCAAATGTCCACAACTCCATGGC
1 CCTTTTAA-GTCCACAACTCCATGGC
2833478 TGCCAAGCAT
Statistics
Matches: 81, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
68 10 0.12
69 71 0.88
ACGTcount: A:0.23, C:0.34, G:0.09, T:0.34
Consensus pattern (68 bp):
CCTTTTAAGTCCACAACTCCATGGCACCTTTTTCTTTTCAAAGCCCACAACTCCATGACACCCTT
TTT
Found at i:2833428 original size:34 final size:34
Alignment explanation
Indices: 2833336--2833477 Score: 164
Period size: 35 Copynumber: 4.1 Consensus size: 34
2833326 CACAATTCTG
2833336 TGGCACCTTTTTCTTTTCAAAGCCCACAACTCCA
1 TGGCACCTTTTTCTTTTCAAAGCCCACAACTCCA
*
2833370 TGACACCATTTTTTCCTTTT--AAGCCCACAACTCCA
1 TGGCACC--TTTTT-CTTTTCAAAGCCCACAACTCCA
* *
2833405 TGGCACCTTTTTCTTTTCAAAGCCCATAACTTCA
1 TGGCACCTTTTTCTTTTCAAAGCCCACAACTCCA
* * *
2833439 TGGCACCCTTTTTC-CTCCAAATGTCCACAACTCCA
1 TGGCA-CCTTTTTCTTTTCAAA-GCCCACAACTCCA
2833474 TGGC
1 TGGC
2833478 TGCCAAGCAT
Statistics
Matches: 92, Mismatches: 9, Indels: 13
0.81 0.08 0.11
Matches are distributed among these distances:
32 5 0.05
33 5 0.05
34 29 0.32
35 43 0.47
36 5 0.05
37 5 0.05
ACGTcount: A:0.23, C:0.35, G:0.09, T:0.33
Consensus pattern (34 bp):
TGGCACCTTTTTCTTTTCAAAGCCCACAACTCCA
Found at i:2834851 original size:79 final size:79
Alignment explanation
Indices: 2834680--2835027 Score: 321
Period size: 79 Copynumber: 4.4 Consensus size: 79
2834670 GAGAAATTTA
* * *
2834680 ATATTTTGGAGATAATAACTGGG-TTGGAGTATCCCCTCAAAAATAACGGGGTTGGAGTATCCCC
1 ATATTTTAGAAATAA-AACTGGGATTGGAGTATCCCCTCAGAAATAACGGGGTTGGAGTATCCCC
*** *
2834744 AATTGCAAAAAATCG
65 AATTATGAAAAATTG
* **
2834759 ATGA-TTTAGAAATAAAATTGGGATTGGAGTATCCCCTTGGAAATAACGGGGTTGGAGTATCCCC
1 AT-ATTTTAGAAATAAAACTGGGATTGGAGTATCCCCTCAGAAATAACGGGGTTGGAGTATCCCC
* * *
2834823 GATTATGAGAAATTA
65 AATTATGAAAAATTG
* * * *
2834838 ATATTTTAAAAATAAAACCGGGGTTGGAGTATCCCCTCAGAAATAACGGGGTTGGAGTATCCCCG
1 ATATTTTAGAAATAAAACTGGGATTGGAGTATCCCCTCAGAAATAACGGGGTTGGAGTATCCCCA
* * * *
2834903 GTCATGAAAAGTCG
66 ATTATGAAAAATTG
* * * * * *
2834917 GTGTTTTGGAAATAAAA-TTGGA---GAGTTTCCCCGATTATGGAAATAACGGGGTTGGAGTATC
1 ATATTTTAGAAATAAAACTGGGATTGGAGTATCCCC--TCA--GAAATAACGGGGTTGGAGTATC
2834978 CCCAATTATGAAAAATTG
62 CCCAATTATGAAAAATTG
* * * *
2834996 ATGTTTTAGAAATGAAGCCGGGATTGGAGTAT
1 ATATTTTAGAAATAAAACTGGGATTGGAGTAT
2835028 TCCCAAGATG
Statistics
Matches: 212, Mismatches: 46, Indels: 18
0.77 0.17 0.07
Matches are distributed among these distances:
75 9 0.04
77 2 0.01
78 9 0.04
79 183 0.86
80 4 0.02
83 5 0.02
ACGTcount: A:0.33, C:0.14, G:0.25, T:0.28
Consensus pattern (79 bp):
ATATTTTAGAAATAAAACTGGGATTGGAGTATCCCCTCAGAAATAACGGGGTTGGAGTATCCCCA
ATTATGAAAAATTG
Found at i:2834965 original size:158 final size:155
Alignment explanation
Indices: 2834700--2835027 Score: 410
Period size: 158 Copynumber: 2.1 Consensus size: 155
2834690 GATAATAACT
2834700 GGGTTGGAGTATCCCCTCAAAAATAACGGGGTTGGAGTATCCCCAATTGCAAAAAATCGATGATT
1 GGGTTGGAGTATCCCCTCAAAAATAACGGGGTTGGAGTATCCCCAATTG-AAAAAATCGATGATT
*
2834765 TAGAAATAAAATTGGGATTGGAGTATCCCCTTGGAAATAACGGGGTTGGAGTATCCCCGATTATG
65 TAGAAATAAAATTGGGA-T-GAGTATCCCCTTGGAAATAACGGGGTTGGAGTATCCCCAATTATG
*
2834830 AGAAATTAATATTTTAAAAATAAAACCG
128 AAAAATTAATATTTTAAAAATAAAACCG
* ** * * *
2834858 GGGTTGGAGTATCCCCTCAGAAATAACGGGGTTGGAGTATCCCCGGTCATG-AAAAGTCGGTGTT
1 GGGTTGGAGTATCCCCTCAAAAATAACGGGGTTGGAGTATCCCCAAT--TGAAAAAATCGATGAT
* *
2834922 TTGGAAATAAAATT-GGA-GAGTTTCCCCGATTATGGAAATAACGGGGTTGGAGTATCCCCAATT
64 TTAGAAATAAAATTGGGATGAGTATCCCC---T-TGGAAATAACGGGGTTGGAGTATCCCCAATT
* * * * *
2834985 ATGAAAAATTGATGTTTTAGAAATGAAGCCG
125 ATGAAAAATTAATATTTTAAAAATAAAACCG
*
2835016 GGATTGGAGTAT
1 GGGTTGGAGTAT
2835028 TCCCAAGATG
Statistics
Matches: 148, Mismatches: 16, Indels: 12
0.84 0.09 0.07
Matches are distributed among these distances:
154 9 0.06
157 4 0.03
158 133 0.90
160 2 0.01
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.27
Consensus pattern (155 bp):
GGGTTGGAGTATCCCCTCAAAAATAACGGGGTTGGAGTATCCCCAATTGAAAAAATCGATGATTT
AGAAATAAAATTGGGATGAGTATCCCCTTGGAAATAACGGGGTTGGAGTATCCCCAATTATGAAA
AATTAATATTTTAAAAATAAAACCG
Found at i:2837403 original size:20 final size:20
Alignment explanation
Indices: 2837378--2837432 Score: 101
Period size: 20 Copynumber: 2.8 Consensus size: 20
2837368 AAACTTCCTA
2837378 GATGTATCGATACAAAGATC
1 GATGTATCGATACAAAGATC
2837398 GATGTATCGATACAAAGATC
1 GATGTATCGATACAAAGATC
*
2837418 GAGGTATCGATACAA
1 GATGTATCGATACAA
2837433 TGTATCGATA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.40, C:0.15, G:0.22, T:0.24
Consensus pattern (20 bp):
GATGTATCGATACAAAGATC
Found at i:2837454 original size:21 final size:21
Alignment explanation
Indices: 2837430--2837471 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
2837420 GGTATCGATA
2837430 CAATGTATCGATACACTTCCT
1 CAATGTATCGATACACTTCCT
*
2837451 CAATGTATCGATACATTTCCT
1 CAATGTATCGATACACTTCCT
2837472 TGGCAGTAGC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.29, C:0.26, G:0.10, T:0.36
Consensus pattern (21 bp):
CAATGTATCGATACACTTCCT
Found at i:2838498 original size:55 final size:55
Alignment explanation
Indices: 2838414--2839444 Score: 1293
Period size: 55 Copynumber: 18.3 Consensus size: 55
2838404 ATAAGGTGCA
* ** *
2838414 TCCTGCTCTTTAAGGACTAAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAGGCG
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* * *
2838469 TCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTCGTGTGGGCTTTGCAAAAAGAAAGCA
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTG---AAAG---GCG
* *
2838530 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCA
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTG-AAAG-----GCG
* * *
2838591 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGTG
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* * *
2838646 TCCTGCTTTTTGAGGACTTGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCG
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
2838701 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
1 TCCTGCTCTTTGAGGACTGGAAA-GTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* * * *
2838756 TCCTGCTCTATGAGGACTGGAAAATGCCACTAACTTGTGTGGGATTT-AAGAGGCG
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTGAA-AGGCG
* *
2838811 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGCG
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
*
2838866 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCA
1 TCCTGCTCTTTGAGGACTGGAAA-GTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* * *
2838921 TCCTGCTCTTTGAGGACTGGAAAATGCCACGAACTCGTGTGGGCTTTGAAAGGCG
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* * ** *
2838976 TCCTGCTTTTTGAGGACTGGGAAGTATCACCAACTTGTGTGGGCTTTAAAAGGCG
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* *
2839031 TCCTGCTCTTTGAGGACT-GAATGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCA
1 TCCTGCTCTTTGAGGACTGGAA-AGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* * *
2839086 TCCTGCTCTTTAAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGTG
1 TCCTGCTCTTTGAGGACTGGAAA-GTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
*
2839141 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAGTTAGAAGGCG
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTT---G--A-AAGGCG
* *
2839202 TCCTGCTCTTTGAGGACT-GAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAACGGTG
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTT-----GAAA-GGCG
* * * * * * *
2839262 TCCTACTCTTGGAGGATTAGAAAATGCCACCAACTCGTGTGGGCTTTGAAAGGCA
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* *
2839317 TCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCG
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* *
2839372 TCGTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGCG
1 TCCTGCTCTTTGAGGACTGGAAA-GTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
*
2839427 TCCTACTCTTTGAGGACT
1 TCCTGCTCTTTGAGGACT
2839445 AAAGGGTGAA
Statistics
Matches: 868, Mismatches: 80, Indels: 56
0.86 0.08 0.06
Matches are distributed among these distances:
54 15 0.02
55 623 0.72
56 18 0.02
58 4 0.00
59 7 0.01
60 50 0.06
61 148 0.17
62 3 0.00
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.27
Consensus pattern (55 bp):
TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
Found at i:2838695 original size:28 final size:28
Alignment explanation
Indices: 2838610--2838696 Score: 72
Period size: 28 Copynumber: 3.1 Consensus size: 28
2838600 TTGAGGACTG
2838610 GAAAATGCCACCAACTTGTGTGGGCTTT
1 GAAAATGCCACCAACTTGTGTGGGCTTT
* *** ** *
2838638 -AAAAGGTGTCCTGCTT-TTTGAGGAC-TT
1 GAAAATGCCACCAACTTGTGTG-GG-CTTT
2838665 GAAAATGCCACCAACTTGTGTGGGCTTT
1 GAAAATGCCACCAACTTGTGTGGGCTTT
2838693 GAAA
1 GAAA
2838697 GGCGTCCTGC
Statistics
Matches: 40, Mismatches: 14, Indels: 10
0.62 0.22 0.16
Matches are distributed among these distances:
26 3 0.08
27 15 0.38
28 19 0.47
29 3 0.08
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.30
Consensus pattern (28 bp):
GAAAATGCCACCAACTTGTGTGGGCTTT
Found at i:2838816 original size:165 final size:167
Alignment explanation
Indices: 2838414--2840114 Score: 1729
Period size: 165 Copynumber: 10.0 Consensus size: 167
2838404 ATAAGGTGCA
* * * *
2838414 TCCTGCTCTTTAAGGACT-AAAAAGTGCCACCAACTCGTGTGGGCTTTGAA-AGGCGTCCTGCTC
1 TCCTGCTCTTTGAGGACTGGAAAA-TGCCACCAACTTGTGTGGGCTTTAAAGAGGCGTCCTGCTC
* * *
2838477 TTTGAGGACTGGAAGGTGCCACCAACTCGTGTGGGCTTTGCAAAAAGAAAGCATCCTGCTCTTTG
65 TTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTG--AAAAG---GCGTCCTGCTCTTTG
* *
2838542 AGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCA
125 AGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTG-AAAG-----GCG
* *
2838591 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAA-AGGTGTCCTGCTTT
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAGAGGCGTCCTGCTCT
* *
2838655 TTGAGGACTTGAAAATGCCACCAACTTGTGTGGGCTTTG-AAAGGCGTCCTGCTCTTTGAGGACT
66 TTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGGCGTCCTGCTCTTTGAGGACT
2838719 GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
131 GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* * *
2838756 TCCTGCTCTATGAGGACTGGAAAATGCCACTAACTTGTGTGGGATTT-AAGAGGCGTCCTGCTCT
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAGAGGCGTCCTGCTCT
*
2838820 TTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT-AAAAGGCGTCCTGCTCTTTGAGGACT
66 TTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGGCGTCCTGCTCTTTGAGGACT
*
2838884 GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCA
131 GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* * * *
2838921 TCCTGCTCTTTGAGGACTGGAAAATGCCACGAACTCGTGTGGGCTTTGAA-AGGCGTCCTGCTTT
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAGAGGCGTCCTGCTCT
* **
2838985 TTGAGGACTGGGAAGTATCACCAACTTGTGTGGGCTTT-AAAAGGCGTCCTGCTCTTTGAGGACT
66 TTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGGCGTCCTGCTCTTTGAGGACT
* *
2839049 GAATGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCA
131 GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* * *
2839086 TCCTGCTCTTTAAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAA-AGGTGTCCTGCTC
1 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTAAAGAGGCGTCCTGCTC
* *
2839149 TTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAGTTAGAAGGCGTCCTGCTCTTTG
65 TTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTT---G--AAAAGGCGTCCTGCTCTTTG
*
2839214 AGGACTG-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAACGGTG
125 AGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-----GAAA-GGCG
* * * * * * *
2839262 TCCTACTCTTGGAGGATTAGAAAATGCCACCAACTCGTGTGGGCTTTGAA-AGGCATCCTGCTCT
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAGAGGCGTCCTGCTCT
* *
2839326 TTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTT-AAAAGGCGTCGTGCTCTTTGAGGACT
66 TTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGGCGTCCTGCTCTTTGAGGACT
*
2839390 GAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGCG
131 GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* ** ** * *
2839427 TCCTACTCTTTGAGGACT--AAAGGGTGA--AA--------GG----AGAGA-GTGTCCTGCTCT
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAGAGGCGTCCTGCTCT
*
2839475 TTGAGGACTCGG-AAGTGCCATCAACTTGTGTGGGCTTTGCAAAGAGAAGGCGTCCTGCTCTTTG
66 TTGAGGACT-GGAAAGTGCCACCAACTTGTGTGGGCTTTG---A-A-AAGGCGTCCTGCTCTTTG
* * *
2839539 AGGACTGGGAA-GTGCCACCAACGTGTGTGGGCTTTAAAAGGGAAAAAGGTG
125 AGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT------G--AAAGGCG
2839590 TCCTGCTCTTTGAGGACT--AAAAGGTGCCACCAACTTGTGTGGGCTTTAAA-AGGCGTCCTGCT
1 TCCTGCTCTTTGAGGACTGGAAAA--TGCCACCAACTTGTGTGGGCTTTAAAGAGGCGTCCTGCT
* * * *
2839652 CTTTGAGGACT-GAAATGTGCCACCAACTTATGTGGGCTTTAAAAAGAAAAGGCATCCTACTTTT
64 CTTTGAGGACTGGAAA-GTGCCACCAACTTGTGTGGGCTTT-----GAAAAGGCGTCCTGCTCTT
* *
2839716 TGAGGACT-AAAGGTGCCACCAACTTGTTTGGGCTTTAAAAGACGAAGGTG
123 TGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT----GA--AAGGCG
* ** *
2839766 CCCTGCTCTTTGAGGACTGTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCC
1 TCCTGCTCTTTGAGGACTG-GAAAATGCCACCAACTTGTGTGGGCTTT-AAA-G---AGGCGTCC
* * * *
2839831 TACTCTTTGAGGATTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCATCCTGCT
60 TGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAG-----GCGTCCTGCT
* * *
2839896 CTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTAGGCTTTGAAAGGCA
120 CTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
*
2839944 TCCTGCTCTTTGAGGATTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGGGAAGGCGTCCT
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT-AAA---G-AGGCGTCCT
* *
2840009 GCTCTTTGAGGACT-GAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCTGCTC
61 GCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTT-----GAAAAGGCGTCCTGCTC
* **
2840073 TTTGAGGACTGGAAA-ATGCCACCAACTCCTGTGGGCTTTGAA
121 TTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAA
2840115 GAAAGGTTGC
Statistics
Matches: 1316, Mismatches: 120, Indels: 177
0.82 0.07 0.11
Matches are distributed among these distances:
149 45 0.03
150 3 0.00
153 3 0.00
154 1 0.00
155 46 0.03
156 3 0.00
161 2 0.00
163 31 0.02
164 6 0.00
165 415 0.32
166 5 0.00
167 2 0.00
170 59 0.04
171 97 0.07
174 5 0.00
175 6 0.00
176 190 0.14
177 169 0.13
178 59 0.04
179 69 0.05
180 3 0.00
181 7 0.01
183 61 0.05
184 26 0.02
185 3 0.00
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (167 bp):
TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAGAGGCGTCCTGCTCT
TTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGGCGTCCTGCTCTTTGAGGACT
GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
Found at i:2839566 original size:61 final size:60
Alignment explanation
Indices: 2839465--2840111 Score: 741
Period size: 61 Copynumber: 10.8 Consensus size: 60
2839455 AGGAGAGAGT
* * *
2839465 GTCCTGCTCTTTGAGGACTCGG-AAGTGCCATCAACTTGTGTGGGCTTTGCAAAGAGAAGGC
1 GTCCTGCTCTTTGAGGACT-GGAAAGTGCCACCAACTTGTGTGGGCTTT-AAAAGAAAAGGC
* * *
2839526 GTCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACGTGTGTGGGCTTTAAAAGGGAAAAAGGT
1 GTCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAAA--G-AAAAGGC
*
2839589 GTCCTGCTCTTTGAGGACT-AAAAGGTGCCACCAACTTGTGTGGGCTTT-----AAAAGGC
1 GTCCTGCTCTTTGAGGACTGGAAA-GTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGC
*
2839644 GTCCTGCTCTTTGAGGACT-GAAATGTGCCACCAACTTATGTGGGCTTTAAAAAGAAAAGGC
1 GTCCTGCTCTTTGAGGACTGGAAA-GTGCCACCAACTTGTGTGGGCTTT-AAAAGAAAAGGC
* * * * * *
2839705 ATCCTACTTTTTGAGGACT--AAAGGTGCCACCAACTTGTTTGGGCTTTAAAAGACGAAGGT
1 GTCCTGCTCTTTGAGGACTGGAAA-GTGCCACCAACTTGTGTGGGCTTTAAAAGA-AAAGGC
* *
2839765 GCCCTGCTCTTTGAGGACTGTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGC
1 GTCCTGCTCTTTGAGGACTG-GAAAGTGCCACCAACTTGTGTGGGCTTTAAAA-GAAAAGGC
* * * * *
2839827 ATCCTACTCTTTGAGGATTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGC
1 GTCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTT-AAAAGAAAAGGC
* * *
2839888 ATCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTAGGCTTT----G-AAAGGC
1 GTCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGC
* * * **
2839943 ATCCTGCTCTTTGAGGATTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGGGAAGGC
1 GTCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAAA-GAAAAGGC
*
2840004 GTCCTGCTCTTTGAGGACT-GAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGC
1 GTCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAAA-GAAAAGGC
* * **
2840064 ATCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTCCTGTGGGCTTT
1 GTCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTT
2840112 GAAGAAAGGT
Statistics
Matches: 509, Mismatches: 53, Indels: 48
0.83 0.09 0.08
Matches are distributed among these distances:
55 102 0.20
56 1 0.00
59 6 0.01
60 105 0.21
61 190 0.37
62 54 0.11
63 51 0.10
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (60 bp):
GTCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGC
Found at i:2839939 original size:28 final size:28
Alignment explanation
Indices: 2839908--2839994 Score: 65
Period size: 27 Copynumber: 3.2 Consensus size: 28
2839898 TTGAGGACTG
2839908 GAAAATGCCACCAACTTGTGTAGGCTTT
1 GAAAATGCCACCAACTTGTGTAGGCTTT
* ** * * *
2839936 G-AAA-GGCATCCTGCTCTTTG-AGGATTG
1 GAAAATGCCA-CCAACT-TGTGTAGGCTTT
*
2839963 GAAAATGCCACCAACTTGTGTGGGCTTT
1 GAAAATGCCACCAACTTGTGTAGGCTTT
2839991 -AAAA
1 GAAAA
2839995 GGGGAAGGCG
Statistics
Matches: 41, Mismatches: 13, Indels: 11
0.63 0.20 0.17
Matches are distributed among these distances:
26 3 0.07
27 20 0.49
28 15 0.37
29 3 0.07
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.28
Consensus pattern (28 bp):
GAAAATGCCACCAACTTGTGTAGGCTTT
Found at i:2840013 original size:239 final size:236
Alignment explanation
Indices: 2839466--2840114 Score: 831
Period size: 239 Copynumber: 2.7 Consensus size: 236
2839456 GGAGAGAGTG
* * *
2839466 TCCTGCTCTTTGAGGACTCGG-AAGTGCCATCAACTTGTGTGGGCTTTGCAAA-GAGAAGGCGTC
1 TCCTGCTCTTTGAGGA-TTGGAAAGTGCCACCAACTTGTGTGGGCTTT-AAAAGGAGAAGGCGTC
* * **
2839529 CTGCTCTTTGAGGACTGGGAA-GTGCCACCAACGTGTGTGGGCTTTAAAAGGGAAAAAGGTGTCC
64 CTGCTCTTTGAGGACTGTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAA-GG-AAAAGGCATCC
*
2839593 TGCTCTTTGAGGACT--AAAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAGGCGTCCTGCTCTT
127 TGCTCTTTGAGGACTGGAAAA--TGCCACCAACTTGTGTGGGCTTTGAAAAGGCATCCTGCTCTT
* *
2839655 TGAGGACTGAAATGTGCCACCAACTTATGTGGGCTTTAAAAAGAAAAGGCA
190 TGAGGACTGAAATATGCCACCAACTTATGTAGGCTTT----AGAAAAGGCA
* * * * * *
2839706 TCCTACTTTTTGAGGACT--AAAGGTGCCACCAACTTGTTTGGGCTTTAAAA-GACGAAGGTGCC
1 TCCTGCTCTTTGAGGATTGGAAA-GTGCCACCAACTTGTGTGGGCTTTAAAAGGA-GAAGGCGTC
*
2839768 CTGCTCTTTGAGGACTGTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCTA
64 CTGCTCTTTGAGGACTGTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCTG
*
2839833 CTCTTTGAGGATTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCATCCTGCTCT
129 CTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAAG-----GCATCCTGCTCT
*
2839898 TTGAGGACTGGAAA-ATGCCACCAACTTGTGTAGGCTTT-G-AAAGGCA
189 TTGAGGACT-GAAATATGCCACCAACTTATGTAGGCTTTAGAAAAGGCA
* *
2839944 TCCTGCTCTTTGAGGATTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGGGAAGGCGTCCT
1 TCCTGCTCTTTGAGGATTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCGTCCT
2840009 GCTCTTTGAGGAC--TGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCTGCT
66 GCTCTTTGAGGACTGTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCTGCT
**
2840072 CTTTGAGGACTGGAAAATGCCACCAACTCCTGTGGGCTTTGAA
131 CTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAA
2840115 GAAAGGTTGC
Statistics
Matches: 362, Mismatches: 31, Indels: 35
0.85 0.07 0.08
Matches are distributed among these distances:
237 89 0.25
238 74 0.20
239 105 0.29
240 49 0.14
244 41 0.11
245 4 0.01
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.26
Consensus pattern (236 bp):
TCCTGCTCTTTGAGGATTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCGTCCT
GCTCTTTGAGGACTGTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCTGCT
CTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAAGGCATCCTGCTCTTTGAGGA
CTGAAATATGCCACCAACTTATGTAGGCTTTAGAAAAGGCA
Found at i:2840036 original size:299 final size:297
Alignment explanation
Indices: 2839467--2840114 Score: 858
Period size: 299 Copynumber: 2.2 Consensus size: 297
2839457 GAGAGAGTGT
* * * * *
2839467 CCTGCTCTTTGAGGACTCGGAAGTGCCATCAACTTGTGTGGGCTTTGCAAAGAGAAGGCGTCCTG
1 CCTGCTCTTTGAGGACT-GGAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAGGCATCCTA
* * **
2839532 CTCTTTGAGGACTGGGAAGTGCCACCAACGTGTGTGGGCTTTAAAAGGGAAAAAGGTGTCCTGCT
65 CTCTTTGAGGACTGGAAAATGCCACCAACGTGTGTGGGCTTTAAAA-GGAAAAAGGCATCCTGCT
* *
2839597 CTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGAC
129 CTTTGAGGACTAAAA-GTGCCACCAACTTGTGTAGGCTTTAAAAGGCATCCTGCTCTTTGAGGAC
* *
2839662 TGAAATGTGCCACCAACTTATGTGGGCTTTAAAAAGAAAAGGCATCCTACTTTTTGAGGACTAAA
193 TGAAATATGCCACCAACTTATGTGGGCTTTAAAAAGAAAAGGCATCCTACTCTTTGAGGACTAAA
* * **
2839727 GGTGCCACCAACTTGTTTGGGCTTTAAAA-GACGAAGGTGC
258 GGTGCCACCAACTTGTGTGGGCTTTAAAAGGA-AAAGGCAC
2839767 CCTGCTCTTTGAGGACTGTGAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAGGAAAAGGCATCC
1 CCTGCTCTTTGAGGACTG-GAA-GTGCCACCAACTTGTGTGGGCTTTGAAAA-GAAAAGGCATCC
* *
2839831 TACTCTTTGAGGATTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAA-GAAAAA-GCATCCTG
63 TACTCTTTGAGGACTGGAAAATGCCACCAACGTGTGTGGGCTTT-AAAAGGAAAAAGGCATCCTG
*
2839894 CTCTTTGAGGACTGGAAAA-TGCCACCAACTTGTGTAGGCTTTGAAAGGCATCCTGCTCTTTGAG
127 CTCTTTGAGGACT--AAAAGTGCCACCAACTTGTGTAGGCTTTAAAAGGCATCCTGCTCTTTGAG
* * * ** * *
2839958 GATTGGAAA-ATGCCACCAACTTGTGTGGGCTTTAAAAGGGGAAGGCGTCCTGCTCTTTGAGGAC
190 GACT-GAAATATGCCACCAACTTATGTGGGCTTTAAAAAGAAAAGGCATCCTACTCTTTGAGGAC
* *
2840022 TGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCAT
254 TAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCAC
* **
2840066 CCTGCTCTTTGAGGACTGGAAAATGCCACCAACTCCTGTGGGCTTTGAA
1 CCTGCTCTTTGAGGACTGG-AAGTGCCACCAACTTGTGTGGGCTTTGAA
2840115 GAAAGGTTGC
Statistics
Matches: 306, Mismatches: 32, Indels: 21
0.85 0.09 0.06
Matches are distributed among these distances:
298 22 0.07
299 169 0.55
300 35 0.11
301 76 0.25
302 4 0.01
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.26
Consensus pattern (297 bp):
CCTGCTCTTTGAGGACTGGAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAGGCATCCTAC
TCTTTGAGGACTGGAAAATGCCACCAACGTGTGTGGGCTTTAAAAGGAAAAAGGCATCCTGCTCT
TTGAGGACTAAAAGTGCCACCAACTTGTGTAGGCTTTAAAAGGCATCCTGCTCTTTGAGGACTGA
AATATGCCACCAACTTATGTGGGCTTTAAAAAGAAAAGGCATCCTACTCTTTGAGGACTAAAGGT
GCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCAC
Found at i:2846378 original size:79 final size:79
Alignment explanation
Indices: 2846212--2846563 Score: 332
Period size: 79 Copynumber: 4.4 Consensus size: 79
2846202 GAGAAATTTA
* * *
2846212 ATATTTTGGAGATAATAACAGGG-TTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCC
1 ATATTTTAGAAATAA-AACCGGGATTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCC
* *** *
2846276 AATTGCAAAAAATCG
65 GATTATGAAAAATTG
* * *
2846291 ATGA-TTTAGAAATAAAATCGGGATTGGAGTATCCCCTCGGAAATAACGGGGTTGTAGTATCCCC
1 AT-ATTTTAGAAATAAAACCGGGATTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCC
* *
2846355 GATTATGAGAAATTA
65 GATTATGAAAAATTG
* * *
2846370 ATATTTTAGAAATAAAACCGGGGTTGGAGTATCTCCTCGAAAATAACGGGGTTAGAGTATCCCCG
1 ATATTTTAGAAATAAAACCGGGATTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCG
* * * *
2846435 GTCATGAAAAGTCG
66 ATTATGAAAAATTG
* * * * * * * * *
2846449 GTGTTTTGGAAATAAAATC-AGAGTTGGAGTTTCCCTGATTATGGAAATAACGGGGTTGGAGTAT
1 ATATTTTAGAAATAAAACCGGGA-TTGGAGTATCCC---CT-CGAAAATAACGGGGTTGGAGTAT
2846513 CCCCGATTATGAAAAATTG
61 CCCCGATTATGAAAAATTG
* * *
2846532 ATGTTTTAGAAATGAAACCGAGATTGGAGTAT
1 ATATTTTAGAAATAAAACCGGGATTGGAGTAT
2846564 TCCCAAGATG
Statistics
Matches: 218, Mismatches: 46, Indels: 14
0.78 0.17 0.05
Matches are distributed among these distances:
78 7 0.03
79 148 0.68
80 1 0.00
82 1 0.00
83 58 0.27
84 3 0.01
ACGTcount: A:0.34, C:0.14, G:0.25, T:0.28
Consensus pattern (79 bp):
ATATTTTAGAAATAAAACCGGGATTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCG
ATTATGAAAAATTG
Found at i:2846398 original size:158 final size:159
Alignment explanation
Indices: 2846202--2846563 Score: 419
Period size: 158 Copynumber: 2.3 Consensus size: 159
2846192 TTTCCTTGTA
* * * *
2846202 GAGAAATTTAATATTTTGGAGATAATAA-CAGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTG
1 GAGAAA-TTAATATTTTAGAAATAA-AACCGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTA
* *
2846266 GAGTATCCCCAATTGCA-AAAAATCGATGATTTAGAAATAAAATC-GGGATTGGAGTATCCC-CT
64 GAGTATCCCC-AGT-CAGAAAAATCGATGATTTAGAAATAAAATCAGAG-TTGGAGTATCCCACT
*
2846328 -CGGAAATAACGGGGTTGTAGTATCCCCGATTAT
126 ACGGAAATAACGGGGTTGGAGTATCCCCGATTAT
*
2846361 GAGAAATTAATATTTTAGAAATAAAACCGGGGTTGGAGTATCTCCTCGAAAATAACGGGGTTAGA
1 GAGAAATTAATATTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTAGA
* * * * * * * *
2846426 GTATCCCCGGTCATGAAAAGTCGGTGTTTTGGAAATAAAATCAGAGTTGGAGTTTCCCTGATTAT
66 GTATCCCCAGTCA-GAAAAATCGATGATTTAGAAATAAAATCAGAGTTGGAGTATCCC--ACTAC
2846491 GGAAATAACGGGGTTGGAGTATCCCCGATTAT
128 GGAAATAACGGGGTTGGAGTATCCCCGATTAT
* * * * * *
2846523 GAAAAATTGATGTTTTAGAAATGAAACCGAGATTGGAGTAT
1 GAGAAATTAATATTTTAGAAATAAAACCGGGGTTGGAGTAT
2846564 TCCCAAGATG
Statistics
Matches: 173, Mismatches: 22, Indels: 13
0.83 0.11 0.06
Matches are distributed among these distances:
156 2 0.01
157 3 0.02
158 93 0.54
159 8 0.05
161 1 0.01
162 66 0.38
ACGTcount: A:0.34, C:0.13, G:0.25, T:0.28
Consensus pattern (159 bp):
GAGAAATTAATATTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTAGA
GTATCCCCAGTCAGAAAAATCGATGATTTAGAAATAAAATCAGAGTTGGAGTATCCCACTACGGA
AATAACGGGGTTGGAGTATCCCCGATTAT
Found at i:2848955 original size:13 final size:13
Alignment explanation
Indices: 2848937--2848962 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2848927 ACAAAGATCG
2848937 ATGTATCGATACA
1 ATGTATCGATACA
2848950 ATGTATCGATACA
1 ATGTATCGATACA
2848963 CTTCCTTAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2848973 original size:21 final size:21
Alignment explanation
Indices: 2848949--2848990 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
2848939 GTATCGATAC
2848949 AATGTATCGATACACTTCCTT
1 AATGTATCGATACACTTCCTT
*
2848970 AATGTATCGATACATTTCCTT
1 AATGTATCGATACACTTCCTT
2848991 GGCAGTAGCT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.29, C:0.21, G:0.10, T:0.40
Consensus pattern (21 bp):
AATGTATCGATACACTTCCTT
Found at i:2849849 original size:19 final size:20
Alignment explanation
Indices: 2849809--2849846 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
2849799 AGCCATTAAT
*
2849809 CATGCATTTTTACTATGTTC
1 CATGCATTTTTACCATGTTC
2849829 CATGCATTTTTACCATGT
1 CATGCATTTTTACCATGT
2849847 CCAACATCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.21, C:0.21, G:0.11, T:0.47
Consensus pattern (20 bp):
CATGCATTTTTACCATGTTC
Found at i:2852969 original size:475 final size:474
Alignment explanation
Indices: 2852068--2858475 Score: 7136
Period size: 475 Copynumber: 13.6 Consensus size: 474
2852058 CGACATTGAC
* *
2852068 TACTCATACTAATCCCCATTCTTTTTAGGATTAGGCCCCATAAACATAGTCTTCTCATTAGGATA
1 TACTCATACTAATCCCCATTCTTTTCAGGATTAGGCACCATAAACATAGTCTTCTCATTAGGATA
* * *
2852133 CATGGTATTGATGCTTTGGTTT-AGCAAGAGAGGCTTTTTTCCCACCAACTTTTGTAAAGTCTAA
66 CATGATATTGATGCTTTGGTTTCA-CAAGAAAGGCTTTTTTCCCACCAATTTTTGTAAAGTCTAA
* * * * *
2852197 GTTCATGCCTTAAATGAGCCAAACATGGATTCTTGTAATGGTC-TCATTCATTTTGTGATTAGGC
130 GTTCGTGCCTCAAATGAGACAAACATGGATTCTAGTAATGATCTTCATTCATTTTGTGATTAGGC
* * *
2852261 ACTATAAACACATTCTTCC-CATTAGGATAAATGATATTGATGATTTTATTTTGCATGTAAATAT
195 ACTATAAACACATTC-TCCTCATTAGGATAAATGATATTGATGATTTTCTTTTGCATGAAAATCT
* * * * * * *
2852325 TTTCTTAGCCCTATTTTCCATAAAATCAAAGTTTATCCCTTAAAAAATATAAGCATTGATTCTCG
259 TTTCTTTGCCCTATTTTCCTTAAAATCAAAGCTCA-CCCTTAAATAAGACAAGCATTGATTCTCG
* * * *
2852390 TAACAGTCTCCAATCTATTCAAGATTGGGAACCAAAAACACATTCCCTTTATTAGGATACAAGAC
323 TAACAGTCTCCATTCTTTTCAAGATTGGGAA-CAAAAACACATTCCCTTCATTAGGATACATGAC
* * * * * * *
2852455 ATTAATGCTTTGGTATCGCAAGAAAAACTTTTATTTCCAACTTTTTTAACAGAATCAAAGTTTGT
387 ATTGATGCTTTGGTGTCGCAAGAAAAGCTTTTCTTTCCAACGTTTTTGATAGAATCAAAGTTTGT
* **
2852520 CACTTAAATAAGACAAACATGCT
452 CTCTTAAATAAGACAAACATGAA
** ** *
2852543 TACTCATACTAATCCTTATTCTTTTCA-GATTAGGTGCCATAAACATAGTCTTCTCATTAGTATA
1 TACTCATACTAATCCCCATTCTTTTCAGGATTAGGCACCATAAACATAGTCTTCTCATTAGGATA
* * * * * *
2852607 CACGATATTGATACCTTGGTTTCACAAGAAAGGCTTTTTTCCCACCAAATTTTGAAAAGTCCAAG
66 CATGATATTGATGCTTTGGTTTCACAAGAAAGGCTTTTTTCCCACCAATTTTTGTAAAGTCTAAG
* * * *
2852672 TTCGTGCCTCAAATGAGACTAACAAGGATTCTAGTAATTATCTTTATTCATTTTGTGATTAGGCA
131 TTCGTGCCTCAAATGAGACAAACATGGATTCTAGTAATGATCTTCATTCATTTTGTGATTAGGCA
* * * **
2852737 CTACAAACACATTCTCCTCATTAGCG-TAAAAGATATTGACGATTTTCTTCAGCATGAAAATCTT
196 CTATAAACACATTCTCCTCATTAG-GATAAATGATATTGATGATTTTCTTTTGCATGAAAATCTT
**
2852801 TTCTTTGCCCTATTTTCCTTAAAATCAAAGCTCACCCATTAAATAAGACAAGCATTGATTCTTAT
260 TTCTTTGCCCTATTTTCCTTAAAATCAAAGCTCACCC-TTAAATAAGACAAGCATTGATTCTCGT
* * * * *
2852866 AACAGTCTCCAATCTTTTCAAGATTGGGAATCGAAAACACAATCCCTTCATTAAGATACAAGACA
324 AACAGTCTCCATTCTTTTCAAGATTGGGAA-CAAAAACACATTCCCTTCATTAGGATACATGACA
** *
2852931 TTGATGCTTTGGTGTCAAAAGAAAAGCTTTTCTTTCCAACGTTTTTGACAGAATCAAAGTTTGTC
388 TTGATGCTTTGGTGTCGCAAGAAAAGCTTTTCTTTCCAACGTTTTTGATAGAATCAAAGTTTGTC
* *
2852996 ACTTAAACAAGACAAACATGAA
453 TCTTAAATAAGACAAACATGAA
* * *
2853018 TACTCATACTAATCCCCATTCTTTTCAGGATTAGGCATCATAAACATAGTCTTCTCTTTAGAATA
1 TACTCATACTAATCCCCATTCTTTTCAGGATTAGGCACCATAAACATAGTCTTCTCATTAGGATA
* * *
2853083 CATGATATTGATGCTTTGGTTTCATAAGAAAGGCTTTTTTCGCACTAATTTTTGTAAAGTCTAAG
66 CATGATATTGATGCTTTGGTTTCACAAGAAAGGCTTTTTTCCCACCAATTTTTGTAAAGTCTAAG
** * **
2853148 TTCAAGCCTCAAATGAGACAAACATGGATTCTAGTAATGATCTTCATTCATTTTATGATTAGAAA
131 TTCGTGCCTCAAATGAGACAAACATGGATTCTAGTAATGATCTTCATTCATTTTGTGATTAGGCA
* *
2853213 CTATAAACACATTCCCCTCATTAGGATAAATGGTATTGATGATTTTCTTTTGCATGAAAATCTTT
196 CTATAAACACATTCTCCTCATTAGGATAAATGATATTGATGATTTTCTTTTGCATGAAAATCTTT
* * *
2853278 T-TTTTCCTTATTTTCCTTAAAATCAGAGCTCATCCCTTAAATAAGACAAGCATTG-TTCTCGTA
261 TCTTTGCCCTATTTTCCTTAAAATCAAAGCTCA-CCCTTAAATAAGACAAGCATTGATTCTCGTA
* * * * * *
2853341 ACAGTCTTCATTCTTTTCAAGATTGGGAACCAAAAACAGAATCCTTTCATTAGGACACATGATAT
325 ACAGTCTCCATTCTTTTCAAGATTGGGAA-CAAAAACACATTCCCTTCATTAGGATACATGACAT
* * * * *
2853406 TGATGCTTTGGTGTCGCAAGAAAAGCTTTTCTTTCCAACGTTCTTGACAGAATCGAAGTTTGCCA
389 TGATGCTTTGGTGTCGCAAGAAAAGCTTTTCTTTCCAACGTTTTTGATAGAATCAAAGTTTGTCT
* * *
2853471 CTTAAATCAGACAAATATGCA
454 CTTAAATAAGACAAACATGAA
* * * * * *
2853492 TACTCATACCAATCCCCATTCCTTTT-AGGATTAGACACCATAAACATAGTTTTGTCTTTCGGAT
1 TACTCATACTAATCCCCATT-CTTTTCAGGATTAGGCACCATAAACATAGTCTTCTCATTAGGAT
* * *
2853556 ACAAGATATTGATGCTTTGGTTTCGA-AAGAAAGGTTTTTTTCCTACCAACTTTTT-TAAAGTCT
65 ACATGATATTGATGCTTTGGTTTC-ACAAGAAAGGCTTTTTTCCCACCAA-TTTTTGTAAAGTCT
* * * * * *
2853619 ATGTTAGTGCCTCAAATTAGACAAACATTGTTTCTAGTAATGATCTTCATTAATTTTGTGATTAG
128 AAGTTCGTGCCTCAAATGAGACAAACATGGATTCTAGTAATGATCTTCATTCATTTTGTGATTAG
* *
2853684 GCACTATGAACACATTCTCCTTATTAGGATAAATGATATT-AGTGATTTTCTTTTGCATGAAAAT
193 GCACTATAAACACATTCTCCTCATTAGGATAAATGATATTGA-TGATTTTCTTTTGCATGAAAAT
* * * * * *
2853748 CTTTTC-TGGCCCTATTTTCGTTAAAATCAGAGTTCATCCCTTAAATAAGACAAGTACTGATTCT
257 CTTTTCTTTGCCCTATTTTCCTTAAAATCAAAGCTCA-CCCTTAAATAAGACAAGCATTGATTCT
* * * * *
2853812 CGTAACAGTTTTCATTCGTTTCAAGATTGGGAACCAATAACACATTCCCTTCATCAGGATACATG
321 CGTAACAGTCTCCATTCTTTTCAAGATTGGGAA-CAAAAACACATTCCCTTCATTAGGATACATG
* * *
2853877 ACATTGATGCTTGGGTGTCACAAGAAAAGCTTTTCTTTCCAACATTTTTGATAGAATCAAAGTTT
385 ACATTGATGCTTTGGTGTCGCAAGAAAAGCTTTTCTTTCCAACGTTTTTGATAGAATCAAAGTTT
*
2853942 GTCTCTTAAAAAAGACAAACATGAA
450 GTCTCTTAAATAAGACAAACATGAA
* * * * * *
2853967 TACTCATACTAATCACCATTCGTTCCTGGATTAGGC-CACATACACATAGTTTTCTCATTAGGAT
1 TACTCATACTAATCCCCATTCTTTTCAGGATTAGGCAC-CATAAACATAGTCTTCTCATTAGGAT
* * * * * *
2854031 ACATGATGTTAATGCTTTGG-CTCCCTAAGAGAGGCTTTTTTCTCACCAATTTTTGTAAAGTCTA
65 ACATGATATTGATGCTTTGGTTTCAC-AAGAAAGGCTTTTTTCCCACCAATTTTTGTAAAGTCTA
* * * * *
2854095 AGTTCGTGCCTCAAATCAGCCAAACATGGATTCTTGCAATGATCTTCATTCATTTTGGGATTAGG
129 AGTTCGTGCCTCAAATGAGACAAACATGGATTCTAGTAATGATCTTCATTCATTTTGTGATTAGG
* * * *
2854160 CACTATAAACACATTCTCCTGATTAGGATAAATGATATTGATGATTTTCTCTTGCATGGAAATAT
194 CACTATAAACACATTCTCCTCATTAGGATAAATGATATTGATGATTTTCTTTTGCATGAAAATCT
* * * * * * *
2854225 TTTCTTTGCCTTATTTTCCTTGAAATCAAAGTTCA-TCTAATAAATATGACAAGGA-TCATTTCT
259 TTTCTTTGCCCTATTTTCCTTAAAATCAAAGCTCACCCT--TAAATAAGACAAGCATTGA-TTCT
** * * **
2854288 CAAAACAGTTTCCATTCTTTTCAAGATTGGGAACAAAAAACACATTCCTTTCATTAGGATACAAA
321 CGTAACAGTCTCCATTCTTTTCAAGATTGGGAAC-AAAAACACATTCCCTTCATTAGGATACATG
* * * * * *
2854353 ACATTGATGCTTGGGTGTCACAAGAAAAGCTTTTTTTTCCTACATTTTTTATAGAATCAAAGTTT
385 ACATTGATGCTTTGGTGTCGCAAGAAAAGCTTTTCTTTCCAACGTTTTTGATAGAATCAAAGTTT
*
2854418 GTCTCTTAAATAAGACTAACATGAA
450 GTCTCTTAAATAAGACAAACATGAA
* * * * *
2854443 TGCTCATACTAATCCCTATTCCTTTCAGGATTAGGCACCATAAACATAGTCTTCTCTTTACGATA
1 TACTCATACTAATCCCCATTCTTTTCAGGATTAGGCACCATAAACATAGTCTTCTCATTAGGATA
* * ** * * *
2854508 CATGACATTGACGCTTTGGTTTTGCAAGAAAGGTTTTTTTTCCGCCAATTTTTGTAAAGTCTAAG
66 CATGATATTGATGCTTTGGTTTCACAAGAAAGGCTTTTTTCCCACCAATTTTTGTAAAGTCTAAG
* * *
2854573 TTCATGCCTCAAATGAGATAAACATGGATTCTAGCAATGATCTTCATTCATTTTGTGATTAGGCA
131 TTCGTGCCTCAAATGAGACAAACATGGATTCTAGTAATGATCTTCATTCATTTTGTGATTAGGCA
* * * *
2854638 CTATAAACACATTCTCCTCATTATGATAAATGAAATTGTTGA-TTTCTTCTT-C-TCGGAAATCT
196 CTATAAACACATTCTCCTCATTAGGATAAATGATATTGATGATTTTCTT-TTGCAT-GAAAATCT
* * * * * *
2854700 TTTCTTTTCCCTATTTTCCTTAAAATCAAAGTTCATCCCATAAATAAGACCACCATCGATTCTCG
259 TTTCTTTGCCCTATTTTCCTTAAAATCAAAGCTCA-CCCTTAAATAAGACAAGCATTGATTCTCG
* * * *
2854765 TAACAGTCTCAATTCTTTTCGAGATTGGGAACCAAAAGCACTTTCCCTTCATTAGGATACATGAC
323 TAACAGTCTCCATTCTTTTCAAGATTGGGAA-CAAAAACACATTCCCTTCATTAGGATACATGAC
* *
2854830 ATTGATGCTTGGGTGTCACAAGAAAAGCTTTTCTTTCCAACGTTTTTGATAGAATCAAAGTTTGT
387 ATTGATGCTTTGGTGTCGCAAGAAAAGCTTTTCTTTCCAACGTTTTTGATAGAATCAAAGTTTGT
*
2854895 CTCTTAAATATGACAAACATGAA
452 CTCTTAAATAAGACAAACATGAA
* * * *
2854918 AACTCATACTAATCACCATT-TTTTCCTA-AATTAGGC-CTCGTAAACATAGTCTTCTCATTAGG
1 TACTCATACTAATCCCCATTCTTTT-C-AGGATTAGGCAC-CATAAACATAGTCTTCTCATTAGG
* * * * *
2854980 ATGCATGATATTGAAGCTTTGGTTTCCCAAAGACA--CTTTTTTCCCACCAAATTTTGTAAAGTC
63 ATACATGATATTGATGCTTTGGTTTCAC-AAGAAAGGCTTTTTTCCCACCAATTTTTGTAAAGTC
* * * * *
2855043 TAAGTTTGTGCCTCAAATCAGCCAAACATGGGTTCTTGTAATGATCTTCATTCATTTTGTGATTA
127 TAAGTTCGTGCCTCAAATGAGACAAACATGGATTCTAGTAATGATCTTCATTCATTTTGTGATTA
* * ** *
2855108 GGCACTATAAACACATTCTTCGCATTAGGATAAACAATATTGATGATTTTCTTTTGCATGCAAAT
192 GGCACTATAAACACATTCTCCTCATTAGGATAAATGATATTGATGATTTTCTTTTGCATGAAAAT
* * * *
2855173 CTCTGCTTTGCTCT-TTTTCCTT-AAAT-AAA----A--C------AAG-C-ATC--T-ATTCTC
257 CTTTTCTTTGCCCTATTTTCCTTAAAATCAAAGCTCACCCTTAAATAAGACAAGCATTGATTCTC
* * * * * ** *
2855218 ATGACAGTCTCTAATCTTTTCATGATTGGGGGGCCAAAAACACATTCCCTTCATTAGGATAAATG
322 GTAACAGTCTCCATTCTTTTCAAGATT--GGGAACAAAAACACATTCCCTTCATTAGGATACATG
*
2855283 ACATTGATGCTTTGGTGTCGCAAGAAAAGCTTTTTTTTCCAACGTTTTTGATAGAATCAAAGTTT
385 ACATTGATGCTTTGGTGTCGCAAGAAAAGCTTTTCTTTCCAACGTTTTTGATAGAATCAAAGTTT
* * * *
2855348 CTCTCTTAAATAAGGCAAAAATGTA
450 GTCTCTTAAATAAGACAAACATGAA
* * *
2855373 TACTCATACTAA-CCCTCATTGTTTTCAGGATTAGGCACCATAAACGTAGTCTTCGC-TT----T
1 TACTCATACTAATCCC-CATTCTTTTCAGGATTAGGCACCATAAACATAGTCTTCTCATTAGGAT
*
2855432 A-A-G--ATTG--G-TTTGG----A-AAGAAAGGCTTTTTTCTCACCAATTTTTGTAAAGTCTAA
65 ACATGATATTGATGCTTTGGTTTCACAAGAAAGGCTTTTTTCCCACCAATTTTTGTAAAGTCTAA
* * * * *
2855485 GTTCGTGCCTTAAATGAGACAAACATTGATTCTAGTAATGATTTTCGTTCATTTTGTGATTGGGC
130 GTTCGTGCCTCAAATGAGACAAACATGGATTCTAGTAATGATCTTCATTCATTTTGTGATTAGGC
* * * * * * *
2855550 AGTATAAACACATTTTCCTTATTAGGATAAATGATACTCATGATTTT-TTTTGAAAG-AAATCTT
195 ACTATAAACACATTCTCCTCATTAGGATAAATGATATTGATGATTTTCTTTTGCATGAAAATCTT
* *** *
2855613 TTCTTTGCCCTATTTTCCTTTAAATCAAA-CTTCTTTTCTTAAATAAGATAAGCATTGATTCTCG
260 TTCTTTGCCCTATTTTCCTTAAAATCAAAGC-TC-ACCCTTAAATAAGACAAGCATTGATTCTCG
* * * * * *
2855677 TAATAGTCTCTATTTTTTTCAAGATTGGGAACTAAAAACACATTCTCTT-ACTAGGATATATGAC
323 TAACAGTCTCCATTCTTTTCAAGATTGGGAAC-AAAAACACATTCCCTTCATTAGGATACATGAC
* * ** ** * * *
2855741 ATTGATGGTTGGGTCACGCAAGAAAAGCTTTTCTTTCCAACACTTTGGATAGAATCGAAGCTTGT
387 ATTGATGCTTTGGTGTCGCAAGAAAAGCTTTTCTTTCCAACGTTTTTGATAGAATCAAAGTTTGT
*
2855806 CTCTTAAATAAGACAAACGTGAA
452 CTCTTAAATAAGACAAACATGAA
* * * *
2855829 TACTCATACTAATCCCCATTC-TTTCTTGGATTAGGCCCCATAAACATGGTCTTCTCATTATGAT
1 TACTCATACTAATCCCCATTCTTTTC-AGGATTAGGCACCATAAACATAGTCTTCTCATTAGGAT
** * **
2855893 ACATGATATTGATTATTTGGTTTCGCAAGGGAGGCTTTTTTCCCACCAATTTTTGTAAAG-CATA
65 ACATGATATTGATGCTTTGGTTTCACAAGAAAGGCTTTTTTCCCACCAATTTTTGTAAAGTC-TA
* * * * *
2855957 AGTTCGTGCCTTAAATGTG-CTAAACATGGATTCTAGTAATGATTTTCATTTATTTTGCGATTAG
129 AGTTCGTGCCTCAAATGAGAC-AAACATGGATTCTAGTAATGATCTTCATTCATTTTGTGATTAG
* ** * * * *
2856021 GAACTATAAACACATTCTCCTTTTTAGGATAAATTATACTGATGATTTTCTTTTGCTTG-GAATC
193 GCACTATAAACACATTCTCCTCATTAGGATAAATGATATTGATGATTTTCTTTTGCATGAAAATC
* * * * *
2856085 TTTTTTTTGCCCTATTTTCCTTAAAATCAAA-CTTCTTCTCTTTAATAAGACAAGCATCGATTCT
258 TTTTCTTTGCCCTATTTTCCTTAAAATCAAAGC-TC-ACCCTTAAATAAGACAAGCATTGATTCT
* * * * *
2856149 CGTAATAGTCTCCATTCATTTCAAGATTGGAAACTAAGAACACATTCCCTTCATTAGAATAC-TC
321 CGTAACAGTCTCCATTCTTTTCAAGATTGGGAAC-AAAAACACATTCCCTTCATTAGGATACAT-
** * * *
2856213 GACATTGATGCTTTACTGTCGTAAGCAAAGCTTTTCTTTCCAACATTTTTGATAGAATCAAAGTT
384 GACATTGATGCTTTGGTGTCGCAAGAAAAGCTTTTCTTTCCAACGTTTTTGATAGAATCAAAGTT
* * * *
2856278 TCTCTCTTAAATAAGGCAAAAATGTA
449 TGTCTCTTAAATAAGACAAACATGAA
** * * * * *
2856304 TACAAATACTAATCCTCATTCTTTTTAGGATTAGGCACCATAAACGTAGTCTTCTCTTTGGGATA
1 TACTCATACTAATCCCCATTCTTTTCAGGATTAGGCACCATAAACATAGTCTTCTCATTAGGATA
* * *
2856369 CATGATTTTGATGCTTTGGTATTGA-AAGAAAGGCTTTTTTCCCCCCAATTTTTGTAAAGTCTAA
66 CATGATATTGATGCTTTGGT-TTCACAAGAAAGGCTTTTTTCCCACCAATTTTTGTAAAGTCTAA
* * * *
2856433 GTTTGTCCCTCAAAAGAGACAAACATGGATTCTAGTAATGATTTTCATTCATTTTGTGATTAGGC
130 GTTCGTGCCTCAAATGAGACAAACATGGATTCTAGTAATGATCTTCATTCATTTTGTGATTAGGC
* * *
2856498 ACTATAAACACATTTTCCAT-ATTAGGATAAATGATACTGATGATTTTCTTTTGCATG-GAATCT
195 ACTATAAACACATTCTCC-TCATTAGGATAAATGATATTGATGATTTTCTTTTGCATGAAAATCT
* ** * * *
2856561 TTTCTTTACCCTATTTTCCTTAAAATC-AAGCTTTTTCTCTTAAATAAGTCAAGCATCGATTCTC
259 TTTCTTTGCCCTATTTTCCTTAAAATCAAAGC--TCACCCTTAAATAAGACAAGCATTGATTCTC
* * * * * *
2856625 ATAA-TGTCTCCATTCTTTTCCAGATTGGAAACTAAAAACATATTCTCTT-ATTAGGATACATGA
322 GTAACAGTCTCCATTCTTTTCAAGATTGGGAAC-AAAAACACATTCCCTTCATTAGGATACATGA
* * * * * * **
2856688 CATTGATGGTTGGGTGTCGTAAGAAAAGCTTTTCTTTCCAATGCTTTGGATAGAATCAAAACTTG
386 CATTGATGCTTTGGTGTCGCAAGAAAAGCTTTTCTTTCCAACGTTTTTGATAGAATCAAAGTTTG
* **
2856753 TCTCTTAAATAAGACGAATGTGAA
451 TCTCTTAAATAAGACAAACATGAA
* * * * * * *
2856777 TACTCATACCAATCCCTATTC-TTTCTTGGATTAGGCCCCGTAAACATAGTATTCTCATTAAGAT
1 TACTCATACTAATCCCCATTCTTTTC-AGGATTAGGCACCATAAACATAGTCTTCTCATTAGGAT
* ** ** * *
2856841 ACATGATATTGATTCTTTGGTTTTGCAAGGGAGGCTTGTTTCTCACCAATTTTTGTAAAGTCTAA
65 ACATGATATTGATGCTTTGGTTTCACAAGAAAGGCTTTTTTCCCACCAATTTTTGTAAAGTCTAA
* * * *
2856906 GTTCATGCCTCAAATTAGCCAAACATGGATTCTAGTAATGATCTTCATTCATTTTTTGATTAGGC
130 GTTCGTGCCTCAAATGAGACAAACATGGATTCTAGTAATGATCTTCATTCATTTTGTGATTAGGC
* * * *
2856971 ACTATAAACACATTCTCCTTATTCGGATAAATGATATTGATGATTTTCTTTTCCAT-ATAAATTT
195 ACTATAAACACATTCTCCTCATTAGGATAAATGATATTGATGATTTTCTTTTGCATGA-AAATCT
* * * * **
2857035 TTTCTTTTCCCT-TTTTCCTTAAAATCATAA-TTTATCCCTTAAATAAAACAAGCATCAATTCTC
259 TTTCTTTGCCCTATTTTCCTTAAAATCA-AAGCTCA-CCCTTAAATAAGACAAGCATTGATTCTC
* * * * * *
2857098 ATAACAGTCTCCAATCATTTCAATATTGGGAACCAAAAACACATTTCCTTCATTAGGATACGTGA
322 GTAACAGTCTCCATTCTTTTCAAGATTGGGAA-CAAAAACACATTCCCTTCATTAGGATACATGA
* * * *
2857163 CATTGATGCTTTGGTGTCGTAAGAAAAGCTTTTCTTTCCAACATTTTTGAAAGAATCTAAGTTTG
386 CATTGATGCTTTGGTGTCGCAAGAAAAGCTTTTCTTTCCAACGTTTTTGATAGAATCAAAGTTTG
* *
2857228 TCCCTTAAATACA-ACAAATATGAA
451 TCTCTTAAATA-AGACAAACATGAA
* ** * *
2857252 TACTCATACTAATCCCCATTCTTTTCAAGAAAAGGCACCATAAACGTAGTCTTCTCTTTAGGATA
1 TACTCATACTAATCCCCATTCTTTTCAGGATTAGGCACCATAAACATAGTCTTCTCATTAGGATA
*
2857317 CATGATATTGATGCTTTGGTTTCGA-AAGAAAGGC-TTTTTCCCCCCAATTTTTGTAAAGTCTAA
66 CATGATATTGATGCTTTGGTTTC-ACAAGAAAGGCTTTTTTCCCACCAATTTTTGTAAAGTCTAA
* * * * **
2857380 GTTCGAGCCTCAAATGAGGCAAACATCGATTCTAGTAATGATTTTTGTTCATTTTGTGATTAGGC
130 GTTCGTGCCTCAAATGAGACAAACATGGATTCTAGTAATGATCTTCATTCATTTTGTGATTAGGC
* ** * * *
2857445 ACTATAAACACATTTTCCTTTTTAGGATAAATGATACTGATGA-TTTCTTTTGCGTG-GAATCTT
195 ACTATAAACACATTCTCCTCATTAGGATAAATGATATTGATGATTTTCTTTTGCATGAAAATCTT
* * * **
2857508 TTCTTTGCCCTATGTTCCTTAAAATCAAA-CTTCTTA-TCTTAAATAAGGCAAGCATCAATTCTC
260 TTCTTTGCCCTATTTTCCTTAAAATCAAAGC-TC--ACCCTTAAATAAGACAAGCATTGATTCTC
* *
2857571 GTAATAGTCTCCATTCCTTTT-AAGATTGGGAACTAAAAACACATTGCCTTCATTAGGATACATG
322 GTAACAGTCTCCATT-CTTTTCAAGATTGGGAAC-AAAAACACATTCCCTTCATTAGGATACATG
* * * *
2857635 ACATTGATGCTTTAGTGTTGCAAGAAAAACTTTTCTTTCCAACGTTTTTGATAGAATTAAAGTTT
385 ACATTGATGCTTTGGTGTCGCAAGAAAAGCTTTTCTTTCCAACGTTTTTGATAGAATCAAAGTTT
* * * * *
2857700 CTTTCTTAAATAAGGCAAAAATGTA
450 GTCTCTTAAATAAGACAAACATGAA
* * * * * *
2857725 TACTCATGCTAATCCCAATTCTTTTTAGGATTAGGCACCATAAATATAGTCTTCTCTTTAAGATA
1 TACTCATACTAATCCCCATTCTTTTCAGGATTAGGCACCATAAACATAGTCTTCTCATTAGGATA
* ** * * * * *
2857790 CATGATATTCATAATTTGGTTTCGA-AAGAAAGGC-TTTTTGCTACTACTTTCTGTAAAGT-TGA
66 CATGATATTGATGCTTTGGTTTC-ACAAGAAAGGCTTTTTTCCCACCAATTTTTGTAAAGTCT-A
* * *
2857852 AGTTCGTACCTCAAATAAGACAAACATGGATTCCAGTAATGATCTTCATTCATTTTGTGATTAGG
129 AGTTCGTGCCTCAAATGAGACAAACATGGATTCTAGTAATGATCTTCATTCATTTTGTGATTAGG
* *
2857917 CACTATAAACACATTCTCCTTATTAGGATAAATGATATTGATGGTTTTCTTTTGCATGAAAATCT
194 CACTATAAACACATTCTCCTCATTAGGATAAATGATATTGATGATTTTCTTTTGCATGAAAATCT
* * * *
2857982 TTT-TTTGCCCTATTTTCCTTAAAATCAAAGATCATCCCTTAAATAAGATAAGCATCGATTCTCA
259 TTTCTTTGCCCTATTTTCCTTAAAATCAAAGCTCA-CCCTTAAATAAGACAAGCATTGATTCTCG
* * * * * ** * * *
2858046 TAATAGTCTCTAGTCTTTTCAAGATTAGGAACCAAAACCACATTCTTTTCATTAGCATCCATGAA
323 TAACAGTCTCCATTCTTTTCAAGATTGGGAA-CAAAAACACATTCCCTTCATTAGGATACATGAC
* * *
2858111 ATTGATGCTTTGGTGTCACAAGAAAAGCTTTTCTTTCCAACATTTTTGACAGAATCAAAGTTTGT
387 ATTGATGCTTTGGTGTCGCAAGAAAAGCTTTTCTTTCCAACGTTTTTGATAGAATCAAAGTTTGT
* * *
2858176 CACTTAAATAACACAAACATGCA
452 CTCTTAAATAAGACAAACATGAA
*** *
2858199 TACTCATACTAATCCTTTTTCTTTTCAGGATTAGGCACCATAAATATAGTCTTCTCATTAGGATA
1 TACTCATACTAATCCCCATTCTTTTCAGGATTAGGCACCATAAACATAGTCTTCTCATTAGGATA
** * *** *** * * * *
2858264 CACAATCTTGATGCTTTGGTTTTGTAAGAAACATTTTTTTCCCACTAATTTTTGTAAGGTCCAAC
66 CATGATATTGATGCTTTGGTTTCACAAGAAAGGCTTTTTTCCCACCAATTTTTGTAAAGTCTAAG
* * * *
2858329 TTCGTGCCTCAAAAGAGACTAACAAGGATTCTAGTAATAATCTTCATTCATTTTGTGATTAGGCA
131 TTCGTGCCTCAAATGAGACAAACATGGATTCTAGTAATGATCTTCATTCATTTTGTGATTAGGCA
* * * * * *
2858394 CTATAAACACATTCTCCTCGTTAGGATAAACGGTATTAATGATTTTCTTTTGTATGGAAATCTTT
196 CTATAAACACATTCTCCTCATTAGGATAAATGATATTGATGATTTTCTTTTGCATGAAAATCTTT
*
2858459 TCTTTGCCTTATTTTCC
261 TCTTTGCCCTATTTTCC
2858476 ATAATGATTT
Statistics
Matches: 5030, Mismatches: 767, Indels: 271
0.83 0.13 0.04
Matches are distributed among these distances:
437 20 0.00
438 15 0.00
439 126 0.03
440 3 0.00
443 5 0.00
444 1 0.00
446 4 0.00
447 1 0.00
448 1 0.00
449 1 0.00
450 1 0.00
453 3 0.00
454 32 0.01
455 154 0.03
456 139 0.03
457 23 0.00
458 28 0.01
459 3 0.00
461 2 0.00
462 1 0.00
463 1 0.00
465 5 0.00
468 6 0.00
472 34 0.01
473 849 0.17
474 1272 0.25
475 1669 0.33
476 627 0.12
477 4 0.00
ACGTcount: A:0.31, C:0.18, G:0.14, T:0.37
Consensus pattern (474 bp):
TACTCATACTAATCCCCATTCTTTTCAGGATTAGGCACCATAAACATAGTCTTCTCATTAGGATA
CATGATATTGATGCTTTGGTTTCACAAGAAAGGCTTTTTTCCCACCAATTTTTGTAAAGTCTAAG
TTCGTGCCTCAAATGAGACAAACATGGATTCTAGTAATGATCTTCATTCATTTTGTGATTAGGCA
CTATAAACACATTCTCCTCATTAGGATAAATGATATTGATGATTTTCTTTTGCATGAAAATCTTT
TCTTTGCCCTATTTTCCTTAAAATCAAAGCTCACCCTTAAATAAGACAAGCATTGATTCTCGTAA
CAGTCTCCATTCTTTTCAAGATTGGGAACAAAAACACATTCCCTTCATTAGGATACATGACATTG
ATGCTTTGGTGTCGCAAGAAAAGCTTTTCTTTCCAACGTTTTTGATAGAATCAAAGTTTGTCTCT
TAAATAAGACAAACATGAA
Found at i:2858484 original size:47 final size:47
Alignment explanation
Indices: 2858430--2858522 Score: 159
Period size: 47 Copynumber: 2.0 Consensus size: 47
2858420 TAAACGGTAT
* *
2858430 TAATGATTTTCTTTTGTATGGAAATCTTTTCTTTGCCTTATTTTCCA
1 TAATGATTTTCTTTTGCATGGAAATATTTTCTTTGCCTTATTTTCCA
*
2858477 TAATGATTTTCTTTTGCATGGAAATATTTTTTTTGCCTTATTTTCC
1 TAATGATTTTCTTTTGCATGGAAATATTTTCTTTGCCTTATTTTCC
2858523 TTAAAATCAA
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 43 1.00
ACGTcount: A:0.19, C:0.14, G:0.11, T:0.56
Consensus pattern (47 bp):
TAATGATTTTCTTTTGCATGGAAATATTTTCTTTGCCTTATTTTCCA
Found at i:2859058 original size:13 final size:13
Alignment explanation
Indices: 2859040--2859064 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2859030 CATAAAGTGT
2859040 TGTATCGATACAA
1 TGTATCGATACAA
2859053 TGTATCGATACA
1 TGTATCGATACA
2859065 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2859062 original size:33 final size:33
Alignment explanation
Indices: 2859020--2859086 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
2859010 TTCAACGATT
2859020 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
*** *
2859053 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
2859086 T
1 T
2859087 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.33, C:0.12, G:0.15, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAGTGTTGTATCGATACAA
Found at i:2859145 original size:13 final size:13
Alignment explanation
Indices: 2859127--2859154 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
2859117 ATTACTCAAA
2859127 TGTATCGATACAT
1 TGTATCGATACAT
2859140 TGTATCGATACAT
1 TGTATCGATACAT
2859153 TG
1 TG
2859155 ATTTTTGTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.39
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2859204 original size:52 final size:52
Alignment explanation
Indices: 2859160--2859340 Score: 326
Period size: 52 Copynumber: 3.5 Consensus size: 52
2859150 CATTGATTTT
2859160 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
2859212 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
* **
2859264 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTCAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
*
2859316 TGTATCGATACATGTAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
2859341 TCATATTTCG
Statistics
Matches: 125, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 125 1.00
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.30
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
Found at i:2863042 original size:13 final size:13
Alignment explanation
Indices: 2863024--2863049 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2863014 TACACCAAGT
2863024 ATGTATCGATACA
1 ATGTATCGATACA
2863037 ATGTATCGATACA
1 ATGTATCGATACA
2863050 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2863047 original size:32 final size:33
Alignment explanation
Indices: 2863006--2863069 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
2862996 TAGCCAAACT
* **
2863006 TGTATCGATACACCAAGTA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
2863038 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
2863070 TTGGCTTGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 16 0.57
33 12 0.43
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:2865151 original size:15 final size:16
Alignment explanation
Indices: 2865103--2865144 Score: 84
Period size: 16 Copynumber: 2.6 Consensus size: 16
2865093 AGAAGATAAT
2865103 AAATTGAAAAATATTG
1 AAATTGAAAAATATTG
2865119 AAATTGAAAAATATTG
1 AAATTGAAAAATATTG
2865135 AAATTGAAAA
1 AAATTGAAAA
2865145 TCTTGAACAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.60, C:0.00, G:0.12, T:0.29
Consensus pattern (16 bp):
AAATTGAAAAATATTG
Found at i:2865318 original size:21 final size:21
Alignment explanation
Indices: 2865285--2865334 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 21
2865275 TTGCAAGTTG
*
2865285 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
2865307 AAATAATG-AGTTAGCTAAGAA
1 AAATAAAGAAGTTAGCTAAG-A
2865328 AAATAAA
1 AAATAAA
2865335 AACTTGCACA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
20 1 0.04
21 16 0.67
22 7 0.29
ACGTcount: A:0.56, C:0.04, G:0.18, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:2869014 original size:8 final size:8
Alignment explanation
Indices: 2869001--2869030 Score: 60
Period size: 8 Copynumber: 3.8 Consensus size: 8
2868991 TTGATTAAAC
2869001 TTTGTGAT
1 TTTGTGAT
2869009 TTTGTGAT
1 TTTGTGAT
2869017 TTTGTGAT
1 TTTGTGAT
2869025 TTTGTG
1 TTTGTG
2869031 TTGAATGATG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.10, C:0.00, G:0.27, T:0.63
Consensus pattern (8 bp):
TTTGTGAT
Found at i:2869251 original size:13 final size:13
Alignment explanation
Indices: 2869233--2869283 Score: 75
Period size: 13 Copynumber: 3.9 Consensus size: 13
2869223 CATTTTTCTT
* *
2869233 TGTATCAATACAA
1 TGTATCGATACAC
2869246 TGTATCGATACAC
1 TGTATCGATACAC
2869259 TGTATCGATACAC
1 TGTATCGATACAC
*
2869272 TGTATTGATACA
1 TGTATCGATACA
2869284 GGGGGATTAT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 35 1.00
ACGTcount: A:0.35, C:0.18, G:0.14, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAC
Found at i:2871152 original size:16 final size:16
Alignment explanation
Indices: 2871131--2871167 Score: 74
Period size: 16 Copynumber: 2.3 Consensus size: 16
2871121 AACGGGGGAG
2871131 ATAAAGGGGAGAATGC
1 ATAAAGGGGAGAATGC
2871147 ATAAAGGGGAGAATGC
1 ATAAAGGGGAGAATGC
2871163 ATAAA
1 ATAAA
2871168 TTGCTACAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.49, C:0.05, G:0.32, T:0.14
Consensus pattern (16 bp):
ATAAAGGGGAGAATGC
Found at i:2871226 original size:37 final size:37
Alignment explanation
Indices: 2871150--2871232 Score: 91
Period size: 38 Copynumber: 2.3 Consensus size: 37
2871140 AGAATGCATA
* *
2871150 AAGGGGAGAATGCATAAATTGCTACAATTACTTTATT
1 AAGGGGAGAATGCACAAATTGCTAAAATTACTTTATT
* *
2871187 AAGGGTGAGAATGTACAAATTTGTTAAAATTA-TTT-TT
1 AAGGG-GAGAATGCACAAA-TTGCTAAAATTACTTTATT
2871224 AA-GGGAGAA
1 AAGGGGAGAA
2871233 ATAAAAGAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
35 5 0.12
36 2 0.05
37 9 0.22
38 14 0.35
39 10 0.25
ACGTcount: A:0.40, C:0.06, G:0.22, T:0.33
Consensus pattern (37 bp):
AAGGGGAGAATGCACAAATTGCTAAAATTACTTTATT
Done.