Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A09
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: 81831061
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 3560000 characters in sequence are not A, C, G, or T
File 172 of 259
Found at i:55925788 original size:40 final size:40
Alignment explanation
Indices: 55925676--55926020 Score: 579
Period size: 40 Copynumber: 8.7 Consensus size: 40
55925666 GAGCATTGGA
*
55925676 ATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
55925716 ATATATCCGGGCTAGGA-CCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
55925755 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
55925795 ATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
55925835 ATATATCCGGGCTAAGA-CCGAAGGC-ATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* *
55925873 ATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGATG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* * *
55925913 ATATATCCGGACTAAAACCCGAAGGCAATTATGCGAGATG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
55925953 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* *
55925993 ATATGTTCGGGCTAAGACCCGAAGGCAA
1 ATATATCCGGGCTAAGACCCGAAGGCAA
55926021 ATGTGTTTGC
Statistics
Matches: 288, Mismatches: 14, Indels: 6
0.94 0.05 0.02
Matches are distributed among these distances:
38 29 0.10
39 54 0.19
40 205 0.71
ACGTcount: A:0.30, C:0.20, G:0.28, T:0.23
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
Found at i:55925982 original size:158 final size:158
Alignment explanation
Indices: 55925676--55926019 Score: 582
Period size: 158 Copynumber: 2.2 Consensus size: 158
55925666 GAGCATTGGA
*
55925676 ATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGTTGATATATCCGGGCTAGGACCGAAGGC
1 ATATATCCGGGCTAAGACCCGAAGGC-ATTATGCGAGTTGATATATCCGGGCTAGGACCGAAGGC
* * * *
55925741 AATTATGCGAGTTGATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGATATATCCGGG
65 AATTATGCGAGATGATATATCCGGACTAAAACCCGAAGGCAATTATGCGAGATGATATATCCGGG
*
55925806 CTATGACCCGAAGGCAATTATGCGAGTTG
130 CTAAGACCCGAAGGCAATTATGCGAGTTG
*
55925835 ATATATCCGGGCTAAGA-CCGAAGGCATTATGCGAGTTGATATATCCGGGCTATGACCCGAAGGC
1 ATATATCCGGGCTAAGACCCGAAGGCATTATGCGAGTTGATATATCCGGGCTAGGA-CCGAAGGC
55925899 AATTATGCGAGATGATATATCCGGACTAAAACCCGAAGGCAATTATGCGAGATGATATATCCGGG
65 AATTATGCGAGATGATATATCCGGACTAAAACCCGAAGGCAATTATGCGAGATGATATATCCGGG
55925964 CTAAGACCCGAAGGCAATTATGCGAGTTG
130 CTAAGACCCGAAGGCAATTATGCGAGTTG
* *
55925993 ATATGTTCGGGCTAAGACCCGAAGGCA
1 ATATATCCGGGCTAAGACCCGAAGGCA
55926020 AATGTGTTTG
Statistics
Matches: 174, Mismatches: 9, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
157 29 0.17
158 120 0.69
159 25 0.14
ACGTcount: A:0.30, C:0.20, G:0.28, T:0.23
Consensus pattern (158 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTATGCGAGTTGATATATCCGGGCTAGGACCGAAGGCA
ATTATGCGAGATGATATATCCGGACTAAAACCCGAAGGCAATTATGCGAGATGATATATCCGGGC
TAAGACCCGAAGGCAATTATGCGAGTTG
Found at i:55927632 original size:28 final size:28
Alignment explanation
Indices: 55927592--55927646 Score: 110
Period size: 28 Copynumber: 2.0 Consensus size: 28
55927582 ACAAACATCA
55927592 TTGAGGTAGAATTATTTGATGTTTGGGT
1 TTGAGGTAGAATTATTTGATGTTTGGGT
55927620 TTGAGGTAGAATTATTTGATGTTTGGG
1 TTGAGGTAGAATTATTTGATGTTTGGG
55927647 GTATTGACTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.22, C:0.00, G:0.33, T:0.45
Consensus pattern (28 bp):
TTGAGGTAGAATTATTTGATGTTTGGGT
Found at i:55931279 original size:27 final size:27
Alignment explanation
Indices: 55931223--55931397 Score: 178
Period size: 27 Copynumber: 6.6 Consensus size: 27
55931213 TAAATTGTAC
55931223 AGCACTAA--GTGCG-ATTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* * *
55931247 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGAATTGACTATGT
* *
55931273 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGAATTGACTATGT
* *
55931301 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-ATTGACTATGT
* * *
55931329 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* * *
55931356 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAATTGACTATGT
*
55931383 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
55931398 GACTCAATAT
Statistics
Matches: 127, Mismatches: 18, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
24 7 0.06
26 5 0.04
27 92 0.72
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAATTGACTATGT
Found at i:55931388 original size:82 final size:80
Alignment explanation
Indices: 55931220--55931397 Score: 200
Period size: 82 Copynumber: 2.2 Consensus size: 80
55931210 GATTAAATTG
* *
55931220 TACAGCACTAA--GTGCGATTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAG
1 TACAGCACTAAGTGTGCGATTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAG
55931283 TGTGCGAATTGACCA
66 TGTGCGAATTGACCA
* * ** *
55931298 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA--TTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
55931362 AAGTGTGCGAGTTGATTA
63 AAGTGTGCGAATTGACCA
* *
55931380 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
55931398 GACTCAATAT
Statistics
Matches: 81, Mismatches: 14, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
78 9 0.11
80 6 0.07
81 1 0.01
82 65 0.80
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.29
Consensus pattern (80 bp):
TACAGCACTAAGTGTGCGATTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAG
TGTGCGAATTGACCA
Found at i:55939416 original size:27 final size:27
Alignment explanation
Indices: 55939385--55939563 Score: 191
Period size: 27 Copynumber: 6.6 Consensus size: 27
55939375 TAAATTGTAC
55939385 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
55939412 TGCACTAAG-GTGGCGAAATGAATATG-
1 AGCACTAAGTGT-GCGATTTGACTATGT
* * *
55939438 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
55939466 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
55939494 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
55939521 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
55939548 AGCACTGAGTGTGCGA
1 AGCACTAAGTGTGCGA
55939564 CTCAATATGC
Statistics
Matches: 128, Mismatches: 19, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
26 2 0.02
27 101 0.79
28 25 0.20
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:55939499 original size:82 final size:81
Alignment explanation
Indices: 55939386--55939541 Score: 217
Period size: 82 Copynumber: 1.9 Consensus size: 81
55939376 AAATTGTACA
* *
55939386 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAG-GTGGCGAAATGAATATG-ATGCACTAAGT
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGT-GCGAAATGAATACGTA-GCACTAAGT
55939449 GTGCGAATTGACCATGCG
64 GTGCGAATTGACCATGCG
** *
55939467 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
55939532 TGCGAGTTGA
65 TGCGAATTGA
55939542 TTATATAGCA
Statistics
Matches: 66, Mismatches: 6, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
81 15 0.23
82 48 0.73
83 3 0.05
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:55939553 original size:82 final size:81
Alignment explanation
Indices: 55939382--55939563 Score: 215
Period size: 82 Copynumber: 2.2 Consensus size: 81
55939372 GATTAAATTG
* *
55939382 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGGTGGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGGTGGCGAAATGAATACGATGCACTAA
55939447 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
55939463 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAA-GTGTGCGATTTGATTACG-TAGCAC
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGGTG-GCGAAATGAATACGAT-GCAC
* **
55939526 TAAGTGTGCGAGTTGATTA
63 TAAGTGTGCGAATTGACCA
* *
55939545 TATAGCACTGAGTGTGCGA
1 TACAGCACTAAGTGTGCGA
55939564 CTCAATATGC
Statistics
Matches: 84, Mismatches: 14, Indels: 5
0.82 0.14 0.05
Matches are distributed among these distances:
81 21 0.25
82 63 0.75
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGGTGGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:55965137 original size:55 final size:55
Alignment explanation
Indices: 55965016--55965158 Score: 144
Period size: 55 Copynumber: 2.6 Consensus size: 55
55965006 TTATCAATGG
* * *
55965016 CCGTGGGCGAACCTACCAAAACAACACGGGCGTAAGACACGCCCGTGCCTAGAAA
1 CCGTGGGCGAACCTACCAAAACAACACAGGCGTAAGACACACCCGTGCCTAAAAA
** * * ** * **
55965071 CATTGGTCGAACCTATCAAATTAACACAGGTGTGCGACACACCCGTGCC-AAACAA
1 CCGTGGGCGAACCTACCAAAACAACACAGGCGTAAGACACACCCGTGCCTAAA-AA
* *
55965126 CCGTGGGCGAACTTGCCAAAACAACACAGGCGT
1 CCGTGGGCGAACCTACCAAAACAACACAGGCGT
55965159 GGGAGAAGCG
Statistics
Matches: 66, Mismatches: 21, Indels: 2
0.74 0.24 0.02
Matches are distributed among these distances:
54 2 0.03
55 64 0.97
ACGTcount: A:0.33, C:0.31, G:0.23, T:0.13
Consensus pattern (55 bp):
CCGTGGGCGAACCTACCAAAACAACACAGGCGTAAGACACACCCGTGCCTAAAAA
Found at i:55993248 original size:92 final size:92
Alignment explanation
Indices: 55993081--55993306 Score: 251
Period size: 92 Copynumber: 2.5 Consensus size: 92
55993071 AGGCCAAATA
* * *
55993081 AGATAATAGTACGCAGCATAGCTGACGTACGTACAGTACAGTGCAATGCGGTAATCCACTGTACA
1 AGATAATAGTACGCAGCATAGCTAACGTACGTACAGTACAGTGCAATGCGGTAAACCACTATACA
55993146 GTCATGTTGCAGTTACACTGCCAGATC
66 GTCATGTTGCAGTTACACTGCCAGATC
* * * ** *
55993173 AGATAATAGTATGTAGCATAGCTAACGTACGTACGGTACAGTGTGATGCGGTAAACCGCTATACC
1 AGATAATAGTACGCAGCATAGCTAACGTACGTACAGTACAGTGCAATGCGGTAAACCACTATA-C
* * * * * *
55993238 AGTTAT-TTGCAGTCAAACTACCATATT
65 AGTCATGTTGCAGTTACACTGCCAGATC
* *
55993265 AGATAA-AGGTACGCAGCAGAGCTGAA-GTATGTACAGTACAGT
1 AGATAATA-GTACGCAGCATAGCT-AACGTACGTACAGTACAGT
55993307 CTTCCTTCTC
Statistics
Matches: 111, Mismatches: 20, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
91 1 0.01
92 102 0.92
93 8 0.07
ACGTcount: A:0.33, C:0.19, G:0.23, T:0.25
Consensus pattern (92 bp):
AGATAATAGTACGCAGCATAGCTAACGTACGTACAGTACAGTGCAATGCGGTAAACCACTATACA
GTCATGTTGCAGTTACACTGCCAGATC
Found at i:55998631 original size:55 final size:52
Alignment explanation
Indices: 55998445--55998699 Score: 234
Period size: 55 Copynumber: 4.8 Consensus size: 52
55998435 ACGCGGGTGC
* * * *
55998445 CTTACCATTGCCATGACTTGTCATGGTCTTACATGGTATCCTT---T-TAAAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTA-CCTTGCCTATAGAA
* * *
55998494 CTTACCATTGCCATGTCTTGATATGGTCTTACATGGTATCCTTGCCGTAT-GAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTA-CCTTGCC-TATAGAA
* * *
55998547 CTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGTAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTACC-TTGCC-TATAG-AA
* * * *
55998602 CTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCT-TAGAAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATG-GTACCTTGCCTATAG-AA
*
55998655 CCTTACCAATTGCCATGCCTTGGCATGGTCTTACATGGTATCCTT
1 -CTTACCAA-TGCCATGCCTTGACATGGTCTTACATGGTA-CCTT
55998700 CAACCTAATG
Statistics
Matches: 170, Mismatches: 24, Indels: 18
0.80 0.11 0.08
Matches are distributed among these distances:
49 40 0.24
52 2 0.01
53 48 0.28
54 11 0.06
55 67 0.39
56 2 0.01
ACGTcount: A:0.22, C:0.25, G:0.17, T:0.36
Consensus pattern (52 bp):
CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTACCTTGCCTATAGAA
Found at i:55998636 original size:108 final size:110
Alignment explanation
Indices: 55998492--55998692 Score: 309
Period size: 108 Copynumber: 1.8 Consensus size: 110
55998482 ATCCTTTTAA
* * *
55998492 AACTTACCATTGCCATGTCTTGATATGGTCTTACATGGTATCCTTGCCGTATG-AA-CTCACCAA
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCGTA-GAAACCTCACCAA
55998555 -TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
65 TTGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
* * * *
55998600 AACTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAGAAACCTTACCAAT
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCGTAGAAACCTCACCAAT
55998665 TGCCATGCCTTGGCATGGTCTTACATGG
66 TGCCATGCCTTGGCATGGTCTTACATGG
55998693 TATCCTTCAA
Statistics
Matches: 83, Mismatches: 7, Indels: 4
0.88 0.07 0.04
Matches are distributed among these distances:
107 1 0.01
108 47 0.57
109 7 0.08
110 28 0.34
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.34
Consensus pattern (110 bp):
AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCGTAGAAACCTCACCAAT
TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
Found at i:56001754 original size:10 final size:10
Alignment explanation
Indices: 56001715--56001773 Score: 50
Period size: 10 Copynumber: 6.0 Consensus size: 10
56001705 TTTATATATA
56001715 TTATAATTTT
1 TTATAATTTT
* *
56001725 TAAATAATTAT
1 T-TATAATTTT
*
56001736 TAATAATTTT
1 TTATAATTTT
56001746 TTATAA-TTT
1 TTATAATTTT
*
56001755 CTA-AATTTT
1 TTATAATTTT
*
56001764 TTATACTTTT
1 TTATAATTTT
56001774 AAACTTATAT
Statistics
Matches: 39, Mismatches: 7, Indels: 6
0.75 0.13 0.12
Matches are distributed among these distances:
8 2 0.05
9 10 0.26
10 19 0.49
11 8 0.21
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (10 bp):
TTATAATTTT
Found at i:56001915 original size:24 final size:22
Alignment explanation
Indices: 56001880--56001926 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 22
56001870 AAATATTTTT
*
56001880 AATTTTTTAAATAAACATTTTAAA
1 AATTTTTAAAAT-AA-ATTTTAAA
56001904 AATTTTTAAAATAAATTTTAAA
1 AATTTTTAAAATAAATTTTAAA
56001926 A
1 A
56001927 CATATTTATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 9 0.41
23 2 0.09
24 11 0.50
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (22 bp):
AATTTTTAAAATAAATTTTAAA
Found at i:56001954 original size:19 final size:21
Alignment explanation
Indices: 56001917--56001956 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
56001907 TTTTAAAATA
56001917 AATTTTAAAACATATTTATTT
1 AATTTTAAAACATATTTATTT
56001938 AATTTTAAAA-A-ATTTATTT
1 AATTTTAAAACATATTTATTT
56001957 TTTTGTTGAC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 8 0.42
20 1 0.05
21 10 0.53
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.53
Consensus pattern (21 bp):
AATTTTAAAACATATTTATTT
Found at i:56003760 original size:18 final size:18
Alignment explanation
Indices: 56003737--56003807 Score: 79
Period size: 18 Copynumber: 3.9 Consensus size: 18
56003727 TCATCAATAT
*
56003737 TAATCAGTTATTCAGTAA
1 TAATCAATTATTCAGTAA
* *
56003755 TAATCATTTATTCAATAA
1 TAATCAATTATTCAGTAA
* * *
56003773 CAGTCAATTATTTAGTAA
1 TAATCAATTATTCAGTAA
*
56003791 TAACCAATTATTCAGTA
1 TAATCAATTATTCAGTA
56003808 CCTTTATTTA
Statistics
Matches: 42, Mismatches: 11, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
18 42 1.00
ACGTcount: A:0.41, C:0.13, G:0.07, T:0.39
Consensus pattern (18 bp):
TAATCAATTATTCAGTAA
Found at i:56004173 original size:19 final size:21
Alignment explanation
Indices: 56004142--56004183 Score: 70
Period size: 20 Copynumber: 2.1 Consensus size: 21
56004132 TTCAGTTTTC
56004142 AATCAGTATATATT-TCAATT
1 AATCAGTATATATTCTCAATT
56004162 AATCAG-ATATATTCTCAATT
1 AATCAGTATATATTCTCAATT
56004182 AA
1 AA
56004184 ATATATTTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 7 0.33
20 14 0.67
ACGTcount: A:0.43, C:0.12, G:0.05, T:0.40
Consensus pattern (21 bp):
AATCAGTATATATTCTCAATT
Found at i:56005836 original size:12 final size:12
Alignment explanation
Indices: 56005819--56005858 Score: 55
Period size: 12 Copynumber: 3.3 Consensus size: 12
56005809 AAGAAACATT
56005819 ATCAAAA-CTAGA
1 ATCAAAATC-AGA
*
56005831 ATCAAAATGAGA
1 ATCAAAATCAGA
56005843 ATCAAAATCAGA
1 ATCAAAATCAGA
56005855 ATCA
1 ATCA
56005859 GGTGAGAGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.57, C:0.15, G:0.10, T:0.17
Consensus pattern (12 bp):
ATCAAAATCAGA
Found at i:56005857 original size:6 final size:6
Alignment explanation
Indices: 56005828--56005949 Score: 61
Period size: 6 Copynumber: 19.8 Consensus size: 6
56005818 TATCAAAACT
* * * * * *
56005828 AGAATC AAAATG AGAATC AAAATC AGAATC AG-GTGAG AGAATT AGAATC
1 AGAATC AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC
* * * * *
56005877 AGAATT AGAATC AGAATT AG-GTGAC AGAATT AGAATC AGAATC AGTATC
1 AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC AGAATC AGAATC
*
56005926 AGGTAA-C AGAATC AAAATC AGAAT
1 A-G-AATC AGAATC AGAATC AGAAT
56005950 GTGAATGCAA
Statistics
Matches: 84, Mismatches: 23, Indels: 18
0.67 0.18 0.14
Matches are distributed among these distances:
5 4 0.05
6 70 0.83
7 7 0.08
8 3 0.04
ACGTcount: A:0.49, C:0.11, G:0.20, T:0.20
Consensus pattern (6 bp):
AGAATC
Found at i:56005887 original size:31 final size:31
Alignment explanation
Indices: 56005840--56005949 Score: 103
Period size: 31 Copynumber: 3.4 Consensus size: 31
56005830 AATCAAAATG
* *
56005840 AGAATCAAAATCAGAATCAGGTGAGAGAATT
1 AGAATCAGAATCAGAATCAGGTGACAGAATT
*
56005871 AGAATCAGAATTAGAATCAGAATTAGGTGACAGAATT
1 AGAATC------AGAATCAGAATCAGGTGACAGAATT
* * *
56005908 AGAATCAGAATCAGTATCAGGTAACAGAATC
1 AGAATCAGAATCAGAATCAGGTGACAGAATT
*
56005939 AAAATCAGAAT
1 AGAATCAGAAT
56005950 GTGAATGCAA
Statistics
Matches: 65, Mismatches: 8, Indels: 12
0.76 0.09 0.14
Matches are distributed among these distances:
31 37 0.57
37 28 0.43
ACGTcount: A:0.48, C:0.11, G:0.20, T:0.21
Consensus pattern (31 bp):
AGAATCAGAATCAGAATCAGGTGACAGAATT
Found at i:56005927 original size:12 final size:12
Alignment explanation
Indices: 56005865--56005918 Score: 74
Period size: 12 Copynumber: 4.4 Consensus size: 12
56005855 ATCAGGTGAG
56005865 AGAATTAGAATC
1 AGAATTAGAATC
56005877 AGAATTAGAATC
1 AGAATTAGAATC
*
56005889 AGAATTAG-GTGAC
1 AGAATTAGAAT--C
56005902 AGAATTAGAATC
1 AGAATTAGAATC
56005914 AGAAT
1 AGAAT
56005919 CAGTATCAGG
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
11 1 0.03
12 26 0.70
13 9 0.24
14 1 0.03
ACGTcount: A:0.48, C:0.07, G:0.20, T:0.24
Consensus pattern (12 bp):
AGAATTAGAATC
Found at i:56005927 original size:37 final size:37
Alignment explanation
Indices: 56005840--56005927 Score: 131
Period size: 37 Copynumber: 2.4 Consensus size: 37
56005830 AATCAAAATG
* *
56005840 AGAATCAAAATCAGAATCAGGTGAGAGAATTAGAATC
1 AGAATCAGAATCAGAATCAGGTGACAGAATTAGAATC
* *
56005877 AGAATTAGAATCAGAATTAGGTGACAGAATTAGAATC
1 AGAATCAGAATCAGAATCAGGTGACAGAATTAGAATC
*
56005914 AGAATCAGTATCAG
1 AGAATCAGAATCAG
56005928 GTAACAGAAT
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 45 1.00
ACGTcount: A:0.47, C:0.10, G:0.22, T:0.22
Consensus pattern (37 bp):
AGAATCAGAATCAGAATCAGGTGACAGAATTAGAATC
Found at i:56005949 original size:37 final size:37
Alignment explanation
Indices: 56005828--56005949 Score: 121
Period size: 37 Copynumber: 3.5 Consensus size: 37
56005818 TATCAAAACT
* * *
56005828 AGAATCAAAATGAGAATCAAAATCAGAATCAGGTGAG
1 AGAATCAAAATCAGAATCAGAATCAGAATCAGGTGAC
* * * *
56005865 AGAATTAGAATCAGAATTAGAATCAGAATTAGGTGAC
1 AGAATCAAAATCAGAATCAGAATCAGAATCAGGTGAC
* *
56005902 AGAAT-----T-AGAATCAGAATCAGTATCAGGTAAC
1 AGAATCAAAATCAGAATCAGAATCAGAATCAGGTGAC
56005933 AGAATCAAAATCAGAAT
1 AGAATCAAAATCAGAAT
56005950 GTGAATGCAA
Statistics
Matches: 68, Mismatches: 11, Indels: 12
0.75 0.12 0.13
Matches are distributed among these distances:
31 26 0.38
32 1 0.01
36 1 0.01
37 40 0.59
ACGTcount: A:0.49, C:0.11, G:0.20, T:0.20
Consensus pattern (37 bp):
AGAATCAAAATCAGAATCAGAATCAGAATCAGGTGAC
Found at i:56006116 original size:27 final size:26
Alignment explanation
Indices: 56006068--56006127 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
56006058 GCGAGGCTGC
*
56006068 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
56006095 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
56006121 CAGATAT
1 CAGATAT
56006128 ATATATATGT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:56006140 original size:33 final size:32
Alignment explanation
Indices: 56006089--56006152 Score: 83
Period size: 33 Copynumber: 2.0 Consensus size: 32
56006079 ACGAAGTCAC
* *
56006089 CAGATACAGATATTGTGGCTAGGCCACCAGAA
1 CAGATACAGATATTGTGGCGAAGCCACCAGAA
* *
56006121 CAGATATATATATATGTGGCGAAGCCACCAGA
1 CAGATACAGATAT-TGTGGCGAAGCCACCAGA
56006153 TTGCAGCGAG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
32 11 0.41
33 16 0.59
ACGTcount: A:0.36, C:0.20, G:0.23, T:0.20
Consensus pattern (32 bp):
CAGATACAGATATTGTGGCGAAGCCACCAGAA
Found at i:56006778 original size:27 final size:27
Alignment explanation
Indices: 56006725--56006994 Score: 186
Period size: 27 Copynumber: 9.9 Consensus size: 27
56006715 AATAATCCTA
* * * *
56006725 CAAGGGTGTTTTGGTAAATCTACAAAC
1 CAAGGGTATTTCGGTAATTTTACAAAC
* **
56006752 CAAGGGTATTTCAGTAATTTTGTAAAC
1 CAAGGGTATTTCGGTAATTTTACAAAC
* ** * *
56006779 CAATGGTATTTCTATAATTTTTAGAAAGT
1 CAAGGGTATTTCGGTAA-TTTTACAAA-C
* ** *
56006808 CAAGGGTATTTCTGTAATTTTGTAAAT
1 CAAGGGTATTTCGGTAATTTTACAAAC
* *
56006835 C-AGAGGTATTTTGGTAATTTTACAAAT
1 CAAG-GGTATTTCGGTAATTTTACAAAC
** *
56006862 TGAGGGTATTTCGGTAATTTCACAAAC
1 CAAGGGTATTTCGGTAATTTTACAAAC
56006889 C-AGTGGTATTTCGGTAATTTTACAAAC
1 CAAG-GGTATTTCGGTAATTTTACAAAC
* * *
56006916 TAGGGGTATTTTGGTAATTTTACAAAC
1 CAAGGGTATTTCGGTAATTTTACAAAC
* * * * *
56006943 TAGGGGTATTTTGGTAATTCTATCATA-
1 CAAGGGTATTTCGGTAATTTTA-CAAAC
* * *
56006970 CAGGGGTATTTCAGTAATTTCACAA
1 CAAGGGTATTTCGGTAATTTTACAA
56006995 TCGAGGGTAA
Statistics
Matches: 198, Mismatches: 38, Indels: 15
0.79 0.15 0.06
Matches are distributed among these distances:
26 6 0.03
27 157 0.79
28 20 0.10
29 15 0.08
ACGTcount: A:0.31, C:0.11, G:0.20, T:0.39
Consensus pattern (27 bp):
CAAGGGTATTTCGGTAATTTTACAAAC
Found at i:56006978 original size:81 final size:81
Alignment explanation
Indices: 56006811--56007030 Score: 218
Period size: 81 Copynumber: 2.7 Consensus size: 81
56006801 AGAAAGTCAA
* ** *
56006811 GGGTATTTCTGTAATTTTGTAAATCAGAGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGG
1 GGGTATTTCAGTAATTTTACAAATCAGAGGTATTTTGGTAATTTTACAAATAGAGGGTATTTCGG
56006876 TAATTTCACAAACCAG
66 TAATTTCACAAACCAG
* * * *
56006892 TGGTATTTCGGTAATTTTACAAA-CTAGGGGTATTTTGGTAATTTTACAAACTAG-GGGTATTTT
1 GGGTATTTCAGTAATTTTACAAATC-AGAGGTATTTTGGTAATTTTACAAA-TAGAGGGTATTTC
*
56006955 GGTAA-TTCTATCATA-CAG
64 GGTAATTTC-A-CAAACCAG
* *** **
56006973 GGGTATTTCAGTAATTTCAC-AATC-GAGGGTAAAATGGTAATTTTGTAAATAGAGGGTA
1 GGGTATTTCAGTAATTTTACAAATCAGA-GGTATTTTGGTAATTTTACAAATAGAGGGTA
56007031 AAATGGTAAT
Statistics
Matches: 115, Mismatches: 17, Indels: 15
0.78 0.12 0.10
Matches are distributed among these distances:
79 4 0.03
80 28 0.24
81 78 0.68
82 5 0.04
ACGTcount: A:0.30, C:0.09, G:0.22, T:0.38
Consensus pattern (81 bp):
GGGTATTTCAGTAATTTTACAAATCAGAGGTATTTTGGTAATTTTACAAATAGAGGGTATTTCGG
TAATTTCACAAACCAG
Found at i:56007158 original size:27 final size:27
Alignment explanation
Indices: 56006993--56007210 Score: 213
Period size: 27 Copynumber: 8.1 Consensus size: 27
56006983 GTAATTTCAC
56006993 AATCGAGGGTAAAATGGTAATTTTGTA
1 AATCGAGGGTAAAATGGTAATTTTGTA
*
56007020 AATAGAGGGTAAAATGGTAATTTTGTA
1 AATCGAGGGTAAAATGGTAATTTTGTA
** * *
56007047 AATTAAGGGTAAAATAGTAATTTTATA
1 AATCGAGGGTAAAATGGTAATTTTGTA
* * ** *
56007074 AATTGAGGATAAAATGGTAATCCTATA
1 AATCGAGGGTAAAATGGTAATTTTGTA
* *
56007101 AATCAAGGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAATGGTAATTTTGTA
* *
56007128 AATCGAGGGTGAAACGGTAATTTTGTA
1 AATCGAGGGTAAAATGGTAATTTTGTA
* *** *
56007155 AATCGGGGGTACTTTGGTAATTTT-TCT
1 AATCGAGGGTAAAATGGTAATTTTGT-A
*** *
56007182 AATCGAGGGTATTTTGGTAATTTGGTA
1 AATCGAGGGTAAAATGGTAATTTTGTA
56007209 AA
1 AA
56007211 CTAAAGTATT
Statistics
Matches: 159, Mismatches: 30, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
26 1 0.01
27 157 0.99
28 1 0.01
ACGTcount: A:0.37, C:0.05, G:0.24, T:0.34
Consensus pattern (27 bp):
AATCGAGGGTAAAATGGTAATTTTGTA
Found at i:56009365 original size:12 final size:12
Alignment explanation
Indices: 56009348--56009387 Score: 55
Period size: 12 Copynumber: 3.3 Consensus size: 12
56009338 AAGAAACATT
56009348 ATCAAAA-CTAGA
1 ATCAAAATC-AGA
*
56009360 ATCAAAATGAGA
1 ATCAAAATCAGA
56009372 ATCAAAATCAGA
1 ATCAAAATCAGA
56009384 ATCA
1 ATCA
56009388 GGTGAGAGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.57, C:0.15, G:0.10, T:0.17
Consensus pattern (12 bp):
ATCAAAATCAGA
Found at i:56009386 original size:6 final size:6
Alignment explanation
Indices: 56009357--56009478 Score: 70
Period size: 6 Copynumber: 19.8 Consensus size: 6
56009347 TATCAAAACT
* * * * * *
56009357 AGAATC AAAATG AGAATC AAAATC AGAATC AG-GTGAG AGAATT AGAATC
1 AGAATC AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC
* * * *
56009406 AGAATC AGAATC AGAATT AG-GTGAC AGAATT AGAATC AGAATC AGTATC
1 AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC AGAATC AGAATC
*
56009455 AGGTAA-C AGAATC AAAATC AGAAT
1 A-G-AATC AGAATC AGAATC AGAAT
56009479 GTGAATGCAA
Statistics
Matches: 86, Mismatches: 21, Indels: 18
0.69 0.17 0.14
Matches are distributed among these distances:
5 4 0.05
6 72 0.84
7 7 0.08
8 3 0.03
ACGTcount: A:0.49, C:0.11, G:0.20, T:0.20
Consensus pattern (6 bp):
AGAATC
Found at i:56009412 original size:31 final size:31
Alignment explanation
Indices: 56009369--56009478 Score: 112
Period size: 31 Copynumber: 3.4 Consensus size: 31
56009359 AATCAAAATG
* *
56009369 AGAATCAAAATCAGAATCAGGTGAGAGAATT
1 AGAATCAGAATCAGAATCAGGTGACAGAATT
56009400 AGAATCAGAATCAGAATCAGAATTAGGTGACAGAATT
1 AGAATCAGAATCAGAATC------AGGTGACAGAATT
* * *
56009437 AGAATCAGAATCAGTATCAGGTAACAGAATC
1 AGAATCAGAATCAGAATCAGGTGACAGAATT
*
56009468 AAAATCAGAAT
1 AGAATCAGAAT
56009479 GTGAATGCAA
Statistics
Matches: 67, Mismatches: 6, Indels: 12
0.79 0.07 0.14
Matches are distributed among these distances:
31 38 0.57
37 29 0.43
ACGTcount: A:0.48, C:0.12, G:0.20, T:0.20
Consensus pattern (31 bp):
AGAATCAGAATCAGAATCAGGTGACAGAATT
Found at i:56009450 original size:37 final size:37
Alignment explanation
Indices: 56009369--56009456 Score: 140
Period size: 37 Copynumber: 2.4 Consensus size: 37
56009359 AATCAAAATG
* *
56009369 AGAATCAAAATCAGAATCAGGTGAGAGAATTAGAATC
1 AGAATCAGAATCAGAATCAGGTGACAGAATTAGAATC
*
56009406 AGAATCAGAATCAGAATTAGGTGACAGAATTAGAATC
1 AGAATCAGAATCAGAATCAGGTGACAGAATTAGAATC
*
56009443 AGAATCAGTATCAG
1 AGAATCAGAATCAG
56009457 GTAACAGAAT
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 47 1.00
ACGTcount: A:0.47, C:0.11, G:0.22, T:0.20
Consensus pattern (37 bp):
AGAATCAGAATCAGAATCAGGTGACAGAATTAGAATC
Found at i:56009478 original size:37 final size:37
Alignment explanation
Indices: 56009357--56009478 Score: 130
Period size: 37 Copynumber: 3.5 Consensus size: 37
56009347 TATCAAAACT
* * *
56009357 AGAATCAAAATGAGAATCAAAATCAGAATCAGGTGAG
1 AGAATCAAAATCAGAATCAGAATCAGAATCAGGTGAC
* * *
56009394 AGAATTAGAATCAGAATCAGAATCAGAATTAGGTGAC
1 AGAATCAAAATCAGAATCAGAATCAGAATCAGGTGAC
* *
56009431 AGAAT-----T-AGAATCAGAATCAGTATCAGGTAAC
1 AGAATCAAAATCAGAATCAGAATCAGAATCAGGTGAC
56009462 AGAATCAAAATCAGAAT
1 AGAATCAAAATCAGAAT
56009479 GTGAATGCAA
Statistics
Matches: 70, Mismatches: 9, Indels: 12
0.77 0.10 0.13
Matches are distributed among these distances:
31 27 0.39
32 1 0.01
36 1 0.01
37 41 0.59
ACGTcount: A:0.49, C:0.11, G:0.20, T:0.20
Consensus pattern (37 bp):
AGAATCAAAATCAGAATCAGAATCAGAATCAGGTGAC
Found at i:56009701 original size:71 final size:67
Alignment explanation
Indices: 56009624--56009763 Score: 190
Period size: 67 Copynumber: 2.0 Consensus size: 67
56009614 TCACCAGATA
* * * *
56009624 CAGATATTGTGGCTAGGCCACCAGAACAGATATATATATGTGGCGAAGCCACCAGATTGCAGCGA
1 CAGATATTGTGACGAAGCCACCAGAACAG----ATATATGTGGCGAAGCCACCAGATTACAGCGA
56009689 GGCTGC
62 GGCTGC
* *
56009695 CAGATATTGTGACGAAGTCACCAGAACAGATATATGTGGCGAGGCCACCAGATTACAGCGAGGCT
1 CAGATATTGTGACGAAGCCACCAGAACAGATATATGTGGCGAAGCCACCAGATTACAGCGAGGCT
56009760 GC
66 GC
56009762 CA
1 CA
56009764 AAACGCTTCC
Statistics
Matches: 63, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
67 38 0.60
71 25 0.40
ACGTcount: A:0.31, C:0.23, G:0.28, T:0.19
Consensus pattern (67 bp):
CAGATATTGTGACGAAGCCACCAGAACAGATATATGTGGCGAAGCCACCAGATTACAGCGAGGCT
GC
Found at i:56009743 original size:27 final size:26
Alignment explanation
Indices: 56009695--56009746 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
56009685 GCGAGGCTGC
*
56009695 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
56009721 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
56009747 TTACAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:56010313 original size:27 final size:27
Alignment explanation
Indices: 56010283--56010538 Score: 112
Period size: 27 Copynumber: 9.4 Consensus size: 27
56010273 GTAAATCTAC
*
56010283 AAACTAAGGGTATTTCAGTAATTTTGT
1 AAACTAAGGGTATTTCAGTAATTTTAT
* * *
56010310 AAACCAATGGTATTTCTA-TAATTTTTAG
1 AAACTAAGGGTATTTC-AGTAA-TTTTAT
* * * *
56010338 AAAGTAAAAGGTATTTCTGTAATTTTGT
1 AAACT-AAGGGTATTTCAGTAATTTTAT
* ** *
56010366 AAA-TCAGGGGTATTTTGGTAATTTTAC
1 AAACT-AAGGGTATTTCAGTAATTTTAT
* * *
56010393 AAATTGAGGGTATTTC-GATAATTTTAC
1 AAACTAAGGGTATTTCAG-TAATTTTAT
* * *
56010420 AAACCT--GTAGTATTTCGGTAATTTTAC
1 AAA-CTAAG-GGTATTTCAGTAATTTTAT
* ** *
56010447 AAACTAGGGGTATTTTGGTAATTCTAT
1 AAACTAAGGGTATTTCAGTAATTTTAT
* *
56010474 CATAC-AAGGGTATTTCAGTAATTTCAT
1 -AAACTAAGGGTATTTCAGTAATTTTAT
* * *** *
56010501 AATC-GAGGGTAAAACAGTAATTTTGT
1 AAACTAAGGGTATTTCAGTAATTTTAT
*
56010527 AAACTGAGGGTA
1 AAACTAAGGGTA
56010539 AAATGGTAAT
Statistics
Matches: 175, Mismatches: 41, Indels: 26
0.72 0.17 0.11
Matches are distributed among these distances:
26 25 0.14
27 115 0.66
28 22 0.13
29 13 0.07
ACGTcount: A:0.34, C:0.09, G:0.19, T:0.39
Consensus pattern (27 bp):
AAACTAAGGGTATTTCAGTAATTTTAT
Found at i:56010484 original size:81 final size:81
Alignment explanation
Indices: 56010348--56010497 Score: 189
Period size: 81 Copynumber: 1.9 Consensus size: 81
56010338 AAAGTAAAAG
* ** * **
56010348 GTATTTCTGTAATTTTGTAAATCAGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTC-GAT
1 GTATTTCGGTAATTTTACAAATCAGGGGTATTTTGGTAATTCTACAAATCAAGGGTATTTCAG-T
56010412 AATTTTACAAACCTGTA
65 AATTTTACAAACCTGTA
*
56010429 GTATTTCGGTAATTTTACAAA-CTAGGGGTATTTTGGTAATTCTATCATA-CAAGGGTATTTCAG
1 GTATTTCGGTAATTTTACAAATC-AGGGGTATTTTGGTAATTCTA-CAAATCAAGGGTATTTCAG
56010492 TAATTT
64 TAATTT
56010498 CATAATCGAG
Statistics
Matches: 59, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
80 1 0.02
81 54 0.92
82 4 0.07
ACGTcount: A:0.29, C:0.09, G:0.19, T:0.43
Consensus pattern (81 bp):
GTATTTCGGTAATTTTACAAATCAGGGGTATTTTGGTAATTCTACAAATCAAGGGTATTTCAGTA
ATTTTACAAACCTGTA
Found at i:56010540 original size:27 final size:27
Alignment explanation
Indices: 56010501--56010700 Score: 226
Period size: 27 Copynumber: 7.4 Consensus size: 27
56010491 GTAATTTCAT
*
56010501 AATCGAGGGTAAAACAGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTTTGTA
*
56010528 AA-CTGAGGGTAAAATGGTAATTTTGTA
1 AATC-GAGGGTAAAACGGTAATTTTGTA
*
56010555 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTTTGTA
* * **
56010582 AATTGAGGGT-AAACTGGTAATTCTACA
1 AATCGAGGGTAAAAC-GGTAATTTTGTA
*
56010609 AATCGAGGGTAAAATGGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTTTGTA
*
56010636 AATCGAGGGTGAAACGGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTTTGTA
* ****
56010663 AATCGGGGGTACTTTGGTAATTTTGCT-
1 AATCGAGGGTAAAACGGTAATTTTG-TA
56010690 AATCGAGGGTA
1 AATCGAGGGTA
56010701 TTTTGGTAAT
Statistics
Matches: 147, Mismatches: 21, Indels: 10
0.83 0.12 0.06
Matches are distributed among these distances:
26 5 0.03
27 137 0.93
28 5 0.03
ACGTcount: A:0.34, C:0.08, G:0.27, T:0.31
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTTTGTA
Found at i:56011779 original size:16 final size:16
Alignment explanation
Indices: 56011755--56011822 Score: 50
Period size: 16 Copynumber: 4.1 Consensus size: 16
56011745 TTAAATTTAT
*
56011755 TTATTATATAAATATC
1 TTATAATATAAATATC
*
56011771 TTATAATATAATTA-C
1 TTATAATATAAATATC
*
56011786 TTA-ATTAATAAATATC
1 TTATAAT-ATAAATATC
56011802 TTTTATAAATAGTAAATATC
1 --TTAT-AATA-TAAATATC
56011822 T
1 T
56011823 ATTAGTAATT
Statistics
Matches: 40, Mismatches: 5, Indels: 12
0.70 0.09 0.21
Matches are distributed among these distances:
14 2 0.05
15 10 0.25
16 13 0.32
18 4 0.10
19 1 0.03
20 10 0.25
ACGTcount: A:0.46, C:0.06, G:0.01, T:0.47
Consensus pattern (16 bp):
TTATAATATAAATATC
Found at i:56011913 original size:4 final size:4
Alignment explanation
Indices: 56011904--56011937 Score: 50
Period size: 4 Copynumber: 8.0 Consensus size: 4
56011894 AACGTTTGTC
56011904 TTTA TTTA TTTA TTTTA TTTA TTTA CTTTA TTTA
1 TTTA TTTA TTTA -TTTA TTTA TTTA -TTTA TTTA
56011938 ATTAGTATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
4 20 0.71
5 8 0.29
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:56011922 original size:9 final size:8
Alignment explanation
Indices: 56011904--56011937 Score: 50
Period size: 9 Copynumber: 4.0 Consensus size: 8
56011894 AACGTTTGTC
56011904 TTTATTTA
1 TTTATTTA
56011912 TTTATTTTA
1 TTTA-TTTA
56011921 TTTATTTA
1 TTTATTTA
56011929 CTTTATTTA
1 -TTTATTTA
56011938 ATTAGTATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
8 8 0.33
9 16 0.67
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.74
Consensus pattern (8 bp):
TTTATTTA
Found at i:56011922 original size:13 final size:13
Alignment explanation
Indices: 56011903--56011937 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
56011893 AAACGTTTGT
56011903 CTTTATTTATTTA
1 CTTTATTTATTTA
*
56011916 TTTTATTTATTTA
1 CTTTATTTATTTA
56011929 CTTTATTTA
1 CTTTATTTA
56011938 ATTAGTATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.23, C:0.06, G:0.00, T:0.71
Consensus pattern (13 bp):
CTTTATTTATTTA
Found at i:56013415 original size:24 final size:26
Alignment explanation
Indices: 56013369--56013420 Score: 63
Period size: 24 Copynumber: 2.1 Consensus size: 26
56013359 TGACAAATCC
* * *
56013369 AAATAATTTTGAATTTTATAAGTTAT
1 AAATAATTTTGAATTTCAAAAGTAAT
56013395 AAAT-ATTTT-AATTTCAAAAGTAAT
1 AAATAATTTTGAATTTCAAAAGTAAT
56013419 AA
1 AA
56013421 TTCTGTCTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
24 14 0.61
25 5 0.22
26 4 0.17
ACGTcount: A:0.48, C:0.02, G:0.06, T:0.44
Consensus pattern (26 bp):
AAATAATTTTGAATTTCAAAAGTAAT
Found at i:56014795 original size:15 final size:16
Alignment explanation
Indices: 56014775--56014870 Score: 81
Period size: 15 Copynumber: 5.8 Consensus size: 16
56014765 ACCCCTCCTA
56014775 TTATATTATATAAT-G
1 TTATATTATATAATAG
56014790 TTATATTATATCATATAG
1 TTATATTATAT-A-ATAG
*
56014808 TATATAATATATTAATAG
1 T-TATATTATA-TAATAG
56014826 -TATA-TATATAATAG
1 TTATATTATATAATAG
* *
56014840 TTATACATTATATATTAC
1 TTAT--ATTATATAATAG
56014858 TTATTATTATATA
1 TTA-TATTATATA
56014871 TTGTTGTTTA
Statistics
Matches: 68, Mismatches: 3, Indels: 18
0.76 0.03 0.20
Matches are distributed among these distances:
14 6 0.09
15 18 0.26
16 5 0.07
17 11 0.16
18 17 0.25
19 10 0.15
20 1 0.01
ACGTcount: A:0.43, C:0.03, G:0.04, T:0.50
Consensus pattern (16 bp):
TTATATTATATAATAG
Found at i:56014856 original size:7 final size:7
Alignment explanation
Indices: 56014776--56014872 Score: 56
Period size: 7 Copynumber: 12.9 Consensus size: 7
56014766 CCCCTCCTAT
56014776 TATATTA
1 TATATTA
56014783 TATAATGT-
1 TAT-AT-TA
56014791 TATATTA
1 TATATTA
56014798 TATCATATA
1 TAT-AT-TA
*
56014807 GTATATAA
1 -TATATTA
56014815 TATATTA
1 TATATTA
*
56014822 -ATAGTA
1 TATATTA
56014828 TATA-TA
1 TATATTA
56014834 TAATAGTTA
1 T-ATA-TTA
*
56014843 TACATTA
1 TATATTA
56014850 TATATTA
1 TATATTA
56014857 CTTATTATTA
1 --TA-TATTA
56014867 TATATT
1 TATATT
56014873 GTTGTTTATT
Statistics
Matches: 72, Mismatches: 5, Indels: 26
0.70 0.05 0.25
Matches are distributed among these distances:
6 9 0.12
7 33 0.46
8 12 0.17
9 10 0.14
10 8 0.11
ACGTcount: A:0.42, C:0.03, G:0.04, T:0.51
Consensus pattern (7 bp):
TATATTA
Found at i:56014861 original size:18 final size:17
Alignment explanation
Indices: 56014830--56014872 Score: 50
Period size: 18 Copynumber: 2.5 Consensus size: 17
56014820 TAATAGTATA
* *
56014830 TATATAATAGTTATACAT
1 TATATATTACTTAT-CAT
*
56014848 TATATATTACTTATTAT
1 TATATATTACTTATCAT
56014865 TATATATT
1 TATATATT
56014873 GTTGTTTATT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
17 10 0.45
18 12 0.55
ACGTcount: A:0.40, C:0.05, G:0.02, T:0.53
Consensus pattern (17 bp):
TATATATTACTTATCAT
Found at i:56017080 original size:15 final size:17
Alignment explanation
Indices: 56017060--56017101 Score: 52
Period size: 15 Copynumber: 2.6 Consensus size: 17
56017050 TTAGACCTCC
56017060 TACTATATTATAT-A-A
1 TACTATATTATATCATA
*
56017075 TACTATATCATATCATA
1 TACTATATTATATCATA
*
56017092 TAATATATTA
1 TACTATATTA
56017102 ATAGTTTATA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
15 12 0.55
16 1 0.05
17 9 0.41
ACGTcount: A:0.45, C:0.10, G:0.00, T:0.45
Consensus pattern (17 bp):
TACTATATTATATCATA
Found at i:56017311 original size:13 final size:13
Alignment explanation
Indices: 56017258--56017334 Score: 50
Period size: 13 Copynumber: 5.7 Consensus size: 13
56017248 ATACTAATAC
* *
56017258 ATTATAATAAATT
1 ATTATATTATATT
*
56017271 ATTATATTAT-GT
1 ATTATATTATATT
*
56017283 ATTAATAATAGTTATT
1 ATT-ATATTA--TATT
56017299 ATTATATTATATT
1 ATTATATTATATT
*
56017312 ATTTTA-TATATAT
1 ATTATATTATAT-T
56017325 ATATATATTA
1 AT-TATATTA
56017335 GTGATATACT
Statistics
Matches: 49, Mismatches: 8, Indels: 12
0.71 0.12 0.17
Matches are distributed among these distances:
12 9 0.18
13 25 0.51
14 3 0.06
15 8 0.16
16 4 0.08
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.55
Consensus pattern (13 bp):
ATTATATTATATT
Found at i:56017313 original size:10 final size:10
Alignment explanation
Indices: 56017270--56017334 Score: 51
Period size: 10 Copynumber: 6.0 Consensus size: 10
56017260 TATAATAAAT
56017270 TATTATATTA
1 TATTATATTA
*
56017280 TGTATTA-ATAA
1 --TATTATATTA
56017291 TAGTTATTATTA
1 TA-TTA-TATTA
56017303 TATTATATTA
1 TATTATATTA
*
56017313 TTTTATATATA
1 TATTATAT-TA
56017324 TATATATATTA
1 TAT-TATATTA
56017335 GTGATATACT
Statistics
Matches: 44, Mismatches: 4, Indels: 11
0.75 0.07 0.19
Matches are distributed among these distances:
9 2 0.05
10 15 0.34
11 12 0.27
12 15 0.34
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (10 bp):
TATTATATTA
Found at i:56024335 original size:46 final size:46
Alignment explanation
Indices: 56024285--56024457 Score: 192
Period size: 46 Copynumber: 3.7 Consensus size: 46
56024275 TGGTTGAGCA
56024285 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
56024331 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* * *
56024376 CATCCGAACTCGTTGAGTTGAGTCCGATTTCATTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
56024424 CCCGAGCTCTTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
56024458 GGGGCGGGTT
Statistics
Matches: 105, Mismatches: 13, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 58 0.55
47 28 0.27
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.27, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:56024441 original size:93 final size:93
Alignment explanation
Indices: 56024282--56024452 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
56024272 GGATGGTTGA
* *
56024282 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
56024347 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * * *
56024375 GCATCCGAACTCGTTGAGTTGAGTCCGATTTCATTTATGGATGCGAACGCCCGAGCTCTTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
56024440 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
56024453 ACTTAGGGGC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:56028955 original size:18 final size:17
Alignment explanation
Indices: 56028923--56028956 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
56028913 AATACAGGTG
*
56028923 ATGGTGATGATGATGGT
1 ATGGTGATGAGGATGGT
56028940 ATGGTGTATGAGGATGG
1 ATGGTG-ATGAGGATGG
56028957 AGATATGGTC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.24, C:0.00, G:0.44, T:0.32
Consensus pattern (17 bp):
ATGGTGATGAGGATGGT
Found at i:56032486 original size:22 final size:22
Alignment explanation
Indices: 56032461--56032515 Score: 83
Period size: 22 Copynumber: 2.5 Consensus size: 22
56032451 ACCTTTGAAA
56032461 CATATCACTTACATTAATAATT
1 CATATCACTTACATTAATAATT
* * *
56032483 CATATCACTTCCGTTTATAATT
1 CATATCACTTACATTAATAATT
56032505 CATATCACTTA
1 CATATCACTTA
56032516 TCACCTTTAC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.35, C:0.22, G:0.02, T:0.42
Consensus pattern (22 bp):
CATATCACTTACATTAATAATT
Found at i:56033029 original size:19 final size:19
Alignment explanation
Indices: 56032992--56033029 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
56032982 GCCTAAACAT
*
56032992 ATTTTTACAAATTATAATA
1 ATTTTTACAAATTAAAATA
56033011 ATTTTT-CAAATTTAAAATA
1 ATTTTTACAAA-TTAAAATA
56033030 GGGGAACCTG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.47
Consensus pattern (19 bp):
ATTTTTACAAATTAAAATA
Found at i:56040145 original size:19 final size:19
Alignment explanation
Indices: 56040096--56040146 Score: 54
Period size: 17 Copynumber: 2.8 Consensus size: 19
56040086 TTAGGTTCAT
56040096 TAAATTTAAAT-TATATTAC
1 TAAATTTAAATAT-TATTAC
* *
56040115 TAAATTT--CTATTATTAG
1 TAAATTTAAATATTATTAC
56040132 TAAATTTAAATATTA
1 TAAATTTAAATATTA
56040147 GAATCTCAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 6
0.74 0.09 0.17
Matches are distributed among these distances:
17 13 0.50
18 1 0.04
19 12 0.46
ACGTcount: A:0.45, C:0.04, G:0.02, T:0.49
Consensus pattern (19 bp):
TAAATTTAAATATTATTAC
Found at i:56040780 original size:16 final size:16
Alignment explanation
Indices: 56040771--56040826 Score: 67
Period size: 16 Copynumber: 3.4 Consensus size: 16
56040761 TGGAATAGGA
*
56040771 TTATAATGGAATAGAAA
1 TTATAATGGAATA-AAG
*
56040788 CTATAATGGAATAAAG
1 TTATAATGGAATAAAG
* *
56040804 TTGTAATGGAATAGAG
1 TTATAATGGAATAAAG
56040820 TTATAAT
1 TTATAAT
56040827 AAGTAATTCA
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
16 21 0.64
17 12 0.36
ACGTcount: A:0.46, C:0.02, G:0.20, T:0.32
Consensus pattern (16 bp):
TTATAATGGAATAAAG
Found at i:56041004 original size:26 final size:26
Alignment explanation
Indices: 56040975--56041051 Score: 70
Period size: 26 Copynumber: 2.9 Consensus size: 26
56040965 AATAAATAAT
56040975 TTAATCATATTTTAATATAATTATTA
1 TTAATCATATTTTAATATAATTATTA
* *
56041001 TTAAAT-ATAATTTAATAATATATAATTTA
1 TT-AATCATATTTTAAT-ATA-ATTA-TTA
*
56041030 ATAA-CAT-TTTTAATATAATTAT
1 TTAATCATATTTTAATATAATTAT
56041052 GTTTTTATTT
Statistics
Matches: 41, Mismatches: 5, Indels: 12
0.71 0.09 0.21
Matches are distributed among these distances:
24 1 0.02
25 3 0.07
26 14 0.34
27 12 0.29
28 7 0.17
29 4 0.10
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.51
Consensus pattern (26 bp):
TTAATCATATTTTAATATAATTATTA
Found at i:56041023 original size:15 final size:15
Alignment explanation
Indices: 56041005--56041033 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
56040995 TTATTATTAA
56041005 ATATAATTTAATAAT
1 ATATAATTTAATAAT
56041020 ATATAATTTAATAA
1 ATATAATTTAATAA
56041034 CATTTTTAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
ATATAATTTAATAAT
Found at i:56046448 original size:46 final size:45
Alignment explanation
Indices: 56046395--56046652 Score: 209
Period size: 46 Copynumber: 5.6 Consensus size: 45
56046385 AGATTTGTGC
* *
56046395 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCC-GTATTATGATA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTG-A-GATGAGA
* * * *
56046441 GCCAGTGTAAGACCATGTCTGAGACATGGCATCGGCATTGAGACGAGG
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC-CTGAGATGAGA
* ** **
56046489 GCTAGTGTAAGACATGTCTGGGACATGCATAAGCCACAGTATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTGAG-ATGAGA
* * **
56046535 GCCAGTGTAAAACATGTTTGGGACATGCATCGGCCTCGAGATGTTA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCT-GAGATGAGA
* * * * *
56046581 ACCAGTGTCAGACATGTCTGGGACATGCGTCTG-CT-ACGA-GATGT
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTGA-GATGA-GA
* *
56046625 GCTAGTGTAAGACATGCCTGGGACATGC
1 GCCAGTGTAAGACATGTCTGGGACATGC
56046653 GTCAGTACGG
Statistics
Matches: 167, Mismatches: 37, Indels: 18
0.75 0.17 0.08
Matches are distributed among these distances:
43 2 0.01
44 26 0.16
45 4 0.02
46 83 0.50
47 28 0.17
48 22 0.13
49 1 0.01
50 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.23
Consensus pattern (45 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTGAGATGAGA
Found at i:56046516 original size:94 final size:92
Alignment explanation
Indices: 56046398--56046568 Score: 243
Period size: 94 Copynumber: 1.8 Consensus size: 92
56046388 TTTGTGCGCC
** ** * * *
56046398 AGTGTAAGACATGTCTGGGACATGCATCGGCCGTATTATGATAGCCAGTGTAAGACCATGTCTGA
1 AGTGTAAGACATGTCTGGGACATGCATAAGCCACAGTATGAGAGCCAGTGTAA-AACATGTCTGA
56046463 GACATGGCATCGGCATTGAGACGAGGGCT
65 GACAT-GCATCGGCATTGAGACGAGGGCT
* *
56046492 AGTGTAAGACATGTCTGGGACATGCATAAGCCACAGTATGAGAGCCAGTGTAAAACATGTTTGGG
1 AGTGTAAGACATGTCTGGGACATGCATAAGCCACAGTATGAGAGCCAGTGTAAAACATGTCTGAG
56046557 ACATGCATCGGC
66 ACATGCATCGGC
56046569 CTCGAGATGT
Statistics
Matches: 68, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
92 8 0.12
93 13 0.19
94 47 0.69
ACGTcount: A:0.29, C:0.19, G:0.30, T:0.23
Consensus pattern (92 bp):
AGTGTAAGACATGTCTGGGACATGCATAAGCCACAGTATGAGAGCCAGTGTAAAACATGTCTGAG
ACATGCATCGGCATTGAGACGAGGGCT
Found at i:56046692 original size:46 final size:43
Alignment explanation
Indices: 56046583--56046695 Score: 129
Period size: 44 Copynumber: 2.5 Consensus size: 43
56046573 AGATGTTAAC
* * *
56046583 CAGTGTCAGACATGTCTGGGACATGCGTCTGCTACGAGATGTG
1 CAGTGTAAGACATGTCTGGGACATGCGTCAGCTACGACATGTG
*
56046626 CTAGTGTAAGACATGCCTGGGACATGCGTCAG-TACGGTTACATGTG
1 C-AGTGTAAGACATGTCTGGGACATGCGTCAGCTAC-G--ACATGTG
*
56046672 TCAGTGTAAGACCTGTCTGGGACA
1 -CAGTGTAAGACATGTCTGGGACA
56046696 AGGCATAGAC
Statistics
Matches: 59, Mismatches: 6, Indels: 7
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.07
44 28 0.47
46 26 0.44
47 1 0.02
ACGTcount: A:0.23, C:0.20, G:0.31, T:0.26
Consensus pattern (43 bp):
CAGTGTAAGACATGTCTGGGACATGCGTCAGCTACGACATGTG
Found at i:56053392 original size:22 final size:20
Alignment explanation
Indices: 56053367--56053407 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 20
56053357 ATTAATTTTA
56053367 ATTTTATGATATAAAAATAATT
1 ATTTTAT-AT-TAAAAATAATT
*
56053389 ATTTTATATTTAAAATAAT
1 ATTTTATATTAAAAATAAT
56053408 AAAATATCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 9 0.50
21 2 0.11
22 7 0.39
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (20 bp):
ATTTTATATTAAAAATAATT
Found at i:56054199 original size:111 final size:111
Alignment explanation
Indices: 56054005--56054226 Score: 345
Period size: 111 Copynumber: 2.0 Consensus size: 111
56053995 TAGAACATAT
* * * * * *
56054005 CAAATGCAAATGCAAAATCCTACCCCCATCTGCTACACACCATCTTTGATAATCTCTATATACCA
1 CAAATGCAAATGCAAAATCCTACCCCCATCCGCTACACACCATATATAATAATCTCTACACACCA
*
56054070 AATAGGGTATCAAATACCCATCCATCCCTACACACCGTACAGTGAC
66 AATAGGGTATCAAATACCCATCCATCCCTACACACCATACAGTGAC
* * *
56054116 CAAATGCAAATGCAACATCCTACCCCCATCCGTTACACACCATATATAATAATCTTTACACACCA
1 CAAATGCAAATGCAAAATCCTACCCCCATCCGCTACACACCATATATAATAATCTCTACACACCA
*
56054181 AATAGGGTATCAAATACCCATCCATCCCTACACACCATATAGTGAC
66 AATAGGGTATCAAATACCCATCCATCCCTACACACCATACAGTGAC
56054227 TGTATGTCAC
Statistics
Matches: 100, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
111 100 1.00
ACGTcount: A:0.36, C:0.32, G:0.08, T:0.23
Consensus pattern (111 bp):
CAAATGCAAATGCAAAATCCTACCCCCATCCGCTACACACCATATATAATAATCTCTACACACCA
AATAGGGTATCAAATACCCATCCATCCCTACACACCATACAGTGAC
Found at i:56057138 original size:43 final size:42
Alignment explanation
Indices: 56057050--56057252 Score: 212
Period size: 43 Copynumber: 4.7 Consensus size: 42
56057040 AGTCCTGGTC
* * *
56057050 TTTAGCGACGCTTTTTAGAAAAACG-CGC-AGAAGACCAAGATT
1 TTTAGCGGCACTTTTTA-AAAAACGCCGCTA-AAGACCAAGACT
* * * **
56057092 TTTAGCAGCGCTTTTTGAATAAGTGCCGCTAAAGACCAAGACT
1 TTTAGCGGCACTTTTT-AAAAAACGCCGCTAAAGACCAAGACT
* *
56057135 TTTAGCGGCACTTTTTAAAAAAACGTCGCTAAAGACCAGGACT
1 TTTAGCGGCACTTTTT-AAAAAACGCCGCTAAAGACCAAGACT
* * *
56057178 TTTAGCGGTACTTTTTTAAAAACGCCGCTAAAGACCAGGACT
1 TTTAGCGGCACTTTTTAAAAAACGCCGCTAAAGACCAAGACT
*
56057220 TTTAGCGGCGCTTTTTTTAAAAAACGCCGCTAA
1 TTTAGCGGCAC--TTTTTAAAAAACGCCGCTAA
56057253 TTTGCCCAGT
Statistics
Matches: 136, Mismatches: 20, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
42 51 0.38
43 65 0.48
44 20 0.15
ACGTcount: A:0.32, C:0.21, G:0.20, T:0.28
Consensus pattern (42 bp):
TTTAGCGGCACTTTTTAAAAAACGCCGCTAAAGACCAAGACT
Found at i:56057205 original size:85 final size:85
Alignment explanation
Indices: 56057050--56057252 Score: 239
Period size: 85 Copynumber: 2.4 Consensus size: 85
56057040 AGTCCTGGTC
* * * *
56057050 TTTAGCGACGCTTTTTAGAAAAACGCGC-AGAAGACCAAGATTTTTAGCAGCGCTTTTTGAATAA
1 TTTAGCGGCGCTTTTTAAAAAAACGCGCTA-AAGACCAAGACTTTTAGCAGCACTTTTTGAATAA
**
56057114 GTGCCGCTAAAGACCAAGACT
65 ACGCCGCTAAAGACCAAGACT
* * * * *
56057135 TTTAGCGGCACTTTTTAAAAAAACGTCGCTAAAGACCAGGACTTTTAGCGGTACTTTTTTAA-AA
1 TTTAGCGGCGCTTTTTAAAAAAACG-CGCTAAAGACCAAGACTTTTAGCAGCACTTTTTGAATAA
*
56057199 ACGCCGCTAAAGACCAGGACT
65 ACGCCGCTAAAGACCAAGACT
*
56057220 TTTAGCGGCGCTTTTTTTAAAAAACGCCGCTAA
1 TTTAGCGGCGC-TTTTTAAAAAAACG-CGCTAA
56057253 TTTGCCCAGT
Statistics
Matches: 100, Mismatches: 15, Indels: 5
0.83 0.12 0.04
Matches are distributed among these distances:
85 52 0.52
86 47 0.47
87 1 0.01
ACGTcount: A:0.32, C:0.21, G:0.20, T:0.28
Consensus pattern (85 bp):
TTTAGCGGCGCTTTTTAAAAAAACGCGCTAAAGACCAAGACTTTTAGCAGCACTTTTTGAATAAA
CGCCGCTAAAGACCAAGACT
Found at i:56057575 original size:21 final size:21
Alignment explanation
Indices: 56057546--56057593 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
56057536 TTCTGTTCTA
* *
56057546 CTCCTCCTCCCTCGCTGCTGC
1 CTCCGCCTCCCGCGCTGCTGC
56057567 CTCCGCCTCCCGCGCTGCTGC
1 CTCCGCCTCCCGCGCTGCTGC
56057588 CTCCGC
1 CTCCGC
56057594 TCTAAGTTGA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.00, C:0.58, G:0.19, T:0.23
Consensus pattern (21 bp):
CTCCGCCTCCCGCGCTGCTGC
Found at i:56058156 original size:9 final size:9
Alignment explanation
Indices: 56058142--56058307 Score: 145
Period size: 9 Copynumber: 17.6 Consensus size: 9
56058132 ATGTATTAGT
56058142 TAAGTTATG
1 TAAGTTATG
56058151 TAAGTTATTATG
1 TAAG---TTATG
*
56058163 TACGTTATG
1 TAAGTTATG
*
56058172 TGAGTTATG
1 TAAGTTATG
*
56058181 TAAATTATG
1 TAAGTTATG
56058190 TAAGTTATG
1 TAAGTTATG
*
56058199 TGAGTTATG
1 TAAGTTATG
56058208 TAAGTTGTTATG
1 TAA---GTTATG
56058220 TAA-TTATG
1 TAAGTTATG
*
56058228 TAACTTATG
1 TAAGTTATG
*
56058237 TGAGTTATG
1 TAAGTTATG
56058246 TAAGTTGTTATG
1 TAA---GTTATG
*
56058258 TAAATTATG
1 TAAGTTATG
*
56058267 TAAGTTATA
1 TAAGTTATG
*
56058276 TGAGTTATG
1 TAAGTTATG
56058285 TAAGTTATG
1 TAAGTTATG
* *
56058294 TAATTTATT
1 TAAGTTATG
56058303 TAAGT
1 TAAGT
56058308 AATGATCAAT
Statistics
Matches: 127, Mismatches: 20, Indels: 20
0.76 0.12 0.12
Matches are distributed among these distances:
8 8 0.06
9 93 0.73
12 26 0.20
ACGTcount: A:0.31, C:0.01, G:0.20, T:0.47
Consensus pattern (9 bp):
TAAGTTATG
Found at i:56058236 original size:38 final size:39
Alignment explanation
Indices: 56058175--56058290 Score: 207
Period size: 38 Copynumber: 3.0 Consensus size: 39
56058165 CGTTATGTGA
56058175 GTTATGTAAATTATGTAAGTTATGTGAGTTATGTAAGTT
1 GTTATGTAAATTATGTAAGTTATGTGAGTTATGTAAGTT
*
56058214 GTTATGT-AATTATGTAACTTATGTGAGTTATGTAAGTT
1 GTTATGTAAATTATGTAAGTTATGTGAGTTATGTAAGTT
*
56058252 GTTATGTAAATTATGTAAGTTATATGAGTTATGTAAGTT
1 GTTATGTAAATTATGTAAGTTATGTGAGTTATGTAAGTT
56058291 ATGTAATTTA
Statistics
Matches: 73, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
38 37 0.51
39 36 0.49
ACGTcount: A:0.31, C:0.01, G:0.22, T:0.47
Consensus pattern (39 bp):
GTTATGTAAATTATGTAAGTTATGTGAGTTATGTAAGTT
Found at i:56058910 original size:241 final size:241
Alignment explanation
Indices: 56058487--56058976 Score: 878
Period size: 241 Copynumber: 2.0 Consensus size: 241
56058477 TTAAGGTTAT
56058487 ATAAATATTCAATAGTAAATGAGATCGATAGAACTTTTTCTAAGTCTTTTTGAATTTTTTAAGAT
1 ATAAATATTCAATAGTAAATGAGATCGATAGAACTTTTTCTAAGTCTTTTTGAATTTTTTAAGAT
* *
56058552 TCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGCTCGATATAAGGTA
66 TCATCATACGTGGCATTGTTACACCTAGGGAGGATCCATTATATCTTACAGCTCGATATAAGGCA
56058617 ACCCGGCAGGTTTCCAACCTATATACTTTGAATCTTTAAAATATTTAAAATAAGGTTGGAGAGAA
131 ACCCGGCAGGTTTCCAACCTATATACTTTGAATCTTTAAAATATTTAAAATAAGGTTGGAGAGAA
56058682 GGTCAGCTATTGTTGTAATTTTAAT-GAACAAGCAAGCTACATGGTA
196 GGTCAGCTATTGTTGTAATTTTAATAG-ACAAGCAAGCTACATGGTA
56058728 ATAAATATTCAATAGTAAATGAGATCGATAGAACTTTTT-TCAAGTCTTTTTGAATTTTTTAAGA
1 ATAAATATTCAATAGTAAATGAGATCGATAGAACTTTTTCT-AAGTCTTTTTGAATTTTTTAAGA
* *
56058792 TTCATCATACGTGGTATTGTTACACCTAGGGAGGATCCATTATATTTTACAGCTCGATATAAGGC
65 TTCATCATACGTGGCATTGTTACACCTAGGGAGGATCCATTATATCTTACAGCTCGATATAAGGC
* * *
56058857 AACCCGTCAGGTTTTCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAGGTTGGAGAGA
130 AACCCGGCAGGTTTCCAACCTATATACTTTGAATCTTTAAAATATTTAAAATAAGGTTGGAGAGA
56058922 AGGTCAGCTATTGTTGTAATTTTAATAGACAAGCAAGCTACATGGTA
195 AGGTCAGCTATTGTTGTAATTTTAATAGACAAGCAAGCTACATGGTA
56058969 AT-AATATT
1 ATAAATATT
56058977 AATTCATACT
Statistics
Matches: 240, Mismatches: 7, Indels: 5
0.95 0.03 0.02
Matches are distributed among these distances:
240 7 0.03
241 232 0.97
242 1 0.00
ACGTcount: A:0.34, C:0.13, G:0.17, T:0.35
Consensus pattern (241 bp):
ATAAATATTCAATAGTAAATGAGATCGATAGAACTTTTTCTAAGTCTTTTTGAATTTTTTAAGAT
TCATCATACGTGGCATTGTTACACCTAGGGAGGATCCATTATATCTTACAGCTCGATATAAGGCA
ACCCGGCAGGTTTCCAACCTATATACTTTGAATCTTTAAAATATTTAAAATAAGGTTGGAGAGAA
GGTCAGCTATTGTTGTAATTTTAATAGACAAGCAAGCTACATGGTA
Found at i:56059498 original size:183 final size:183
Alignment explanation
Indices: 56059185--56059516 Score: 610
Period size: 183 Copynumber: 1.8 Consensus size: 183
56059175 CCTAGAACAT
* *
56059185 ATGTAAGATTATAAGATTAACACCAAATATATTTCAGTTGAAGCAAATATAAAAACTTTATCTAT
1 ATGTAAGATTATAAGAGTAACACCAAATATATTTCAATTGAAGCAAATATAAAAACTTTATCTAT
*
56059250 ATCAGTACCAAATATTAAGTCGAAGATTAAATGGCAGCTTCAGTTGAACCAATAGTTGTAGGAGG
66 ATCAGTACCAAATATTAAGTCGAAGATTAAATGGCAGCTTCAGTTGAACCAATAGTTGCAGGAGG
*
56059315 AGCAGGAAGCAGTAACTGAAATACATACAGCATTAATTCACTAATACAGACAC
131 AGCAAGAAGCAGTAACTGAAATACATACAGCATTAATTCACTAATACAGACAC
*
56059368 ATGTAAGATTATAAGAGTGACACCAAATATATTTCAATTGAAGCAAATATAAAAACTTTATCTAT
1 ATGTAAGATTATAAGAGTAACACCAAATATATTTCAATTGAAGCAAATATAAAAACTTTATCTAT
*
56059433 ATCAGTACCAAATATTAATTCGAAGATTAAATGGCAGCTTCAGTTGAACCAATAGTTGCAGGAGG
66 ATCAGTACCAAATATTAAGTCGAAGATTAAATGGCAGCTTCAGTTGAACCAATAGTTGCAGGAGG
56059498 AGCAAGAAGCAGTAACTGA
131 AGCAAGAAGCAGTAACTGA
56059517 TGCTGAATCT
Statistics
Matches: 143, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
183 143 1.00
ACGTcount: A:0.42, C:0.14, G:0.17, T:0.27
Consensus pattern (183 bp):
ATGTAAGATTATAAGAGTAACACCAAATATATTTCAATTGAAGCAAATATAAAAACTTTATCTAT
ATCAGTACCAAATATTAAGTCGAAGATTAAATGGCAGCTTCAGTTGAACCAATAGTTGCAGGAGG
AGCAAGAAGCAGTAACTGAAATACATACAGCATTAATTCACTAATACAGACAC
Found at i:56062484 original size:22 final size:22
Alignment explanation
Indices: 56062456--56062498 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
56062446 CCTAGATCAA
*
56062456 GCAATAATCACGAAGCTAACAC
1 GCAATAATCACAAAGCTAACAC
56062478 GCAATAATCACAAAGCTAACA
1 GCAATAATCACAAAGCTAACA
56062499 AAACATTAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.49, C:0.26, G:0.12, T:0.14
Consensus pattern (22 bp):
GCAATAATCACAAAGCTAACAC
Found at i:56063122 original size:77 final size:76
Alignment explanation
Indices: 56062990--56063134 Score: 245
Period size: 77 Copynumber: 1.9 Consensus size: 76
56062980 CCGTTCAAGG
* *
56062990 TAAAAAAACGCCCCTAATCCCCTAAAAATCCATTAAAAACGATGTCGTTTACTATTTTAATTTTT
1 TAAAAAAACGCCCCTAATCCCCTAAAAATCCATTAAAAACGATGCCATTTACTATTTTAATTTTT
56063055 TGCGGCGATTT
66 TGCGGCGATTT
* *
56063066 TAAAATAAACGCCGCTAATCCCCTAAATATCCATTAAAAACGATGCCATTTACTATTTTAATTTT
1 TAAAA-AAACGCCCCTAATCCCCTAAAAATCCATTAAAAACGATGCCATTTACTATTTTAATTTT
56063131 TTGC
65 TTGC
56063135 TCCCTTAAAT
Statistics
Matches: 64, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
76 5 0.08
77 59 0.92
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.34
Consensus pattern (76 bp):
TAAAAAAACGCCCCTAATCCCCTAAAAATCCATTAAAAACGATGCCATTTACTATTTTAATTTTT
TGCGGCGATTT
Found at i:56064093 original size:80 final size:83
Alignment explanation
Indices: 56063973--56064163 Score: 275
Period size: 80 Copynumber: 2.3 Consensus size: 83
56063963 TTTTTTTTGC
* *
56063973 TTTTTGTGGCGTTTTTGAAAAAAACGCCGATACTCCCCTAAAAATCCAA-T-AAACGACG-TCGT
1 TTTTTGCGGCGTTTTTTAAAAAAACGCCGATACTCCCCTAAAAATCCAATTAAAACGACGCT-GT
56064035 TTTCGTTAAACTGCT-T-T
65 TTTCGTTAAACTGCTATGT
* * *
56064052 TTTTTGCGGCGTTTTTTCAAAAAAACGCCGCTACTCTCCTAAATATCCAATTAAAACGACGCTGT
1 TTTTTGCGGCGTTTTTT-AAAAAAACGCCGATACTCCCCTAAAAATCCAATTAAAACGACGCTGT
56064117 TTTCGTTAAACTGCTATGT
65 TTTCGTTAAACTGCTATGT
*
56064136 TTTTTGCGGCGTTTTTTAAATAAACGCC
1 TTTTTGCGGCGTTTTTTAAAAAAACGCC
56064164 ACTAATCTTT
Statistics
Matches: 100, Mismatches: 6, Indels: 8
0.88 0.05 0.07
Matches are distributed among these distances:
79 15 0.15
80 29 0.29
81 1 0.01
82 25 0.25
83 12 0.12
84 18 0.18
ACGTcount: A:0.27, C:0.21, G:0.15, T:0.36
Consensus pattern (83 bp):
TTTTTGCGGCGTTTTTTAAAAAAACGCCGATACTCCCCTAAAAATCCAATTAAAACGACGCTGTT
TTCGTTAAACTGCTATGT
Found at i:56065353 original size:41 final size:40
Alignment explanation
Indices: 56065296--56065594 Score: 375
Period size: 41 Copynumber: 7.3 Consensus size: 40
56065286 TTATATGACT
* *
56065296 TTTAGTGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGTC
1 TTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCT-GTC
* *
56065337 TTTAGCGACGTTTTACCGAAAGTGCCGCTAATGCTCTGGTC
1 TTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCT-GTC
* * *
56065378 TTTAGCGGTGTTTTATCGAAAGCGCCGCTAATGCTATGGTC
1 TTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCT-GTC
*
56065419 TTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCCCTAGTC
1 TTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCT-GTC
*
56065460 TTTAGCGGCGTTTTACCGAAAGCGCCTCTAATGCTCTGTC
1 TTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCTGTC
* * * *
56065500 TTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGTTCTATT
1 TTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCTGTC
* * * * *
56065540 TTTAGCGGTGTTTTTTA-CTAAAACGCCGCTATTGCTCTGTT
1 TTTAGCGGCG--TTTTACCGAAAGCGCCGCTAATGCTCTGTC
56065581 TTTAGCGGCGTTTT
1 TTTAGCGGCGTTTT
56065595 TGGTAAAACG
Statistics
Matches: 228, Mismatches: 28, Indels: 6
0.87 0.11 0.02
Matches are distributed among these distances:
39 4 0.02
40 47 0.21
41 172 0.75
42 5 0.02
ACGTcount: A:0.19, C:0.23, G:0.23, T:0.34
Consensus pattern (40 bp):
TTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCTGTC
Found at i:56077687 original size:6 final size:6
Alignment explanation
Indices: 56077637--56077709 Score: 51
Period size: 6 Copynumber: 12.5 Consensus size: 6
56077627 AAAAGTCTAA
* ** * * * *
56077637 AAAAAT AACAAT AAACGT AAAAAT AGAAAT AAAACT AATACT AAAAAT
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT
* *
56077685 AAAAAC AAAAA- CAAAAT -AAAAT AAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAA
56077710 TGGACTCAAT
Statistics
Matches: 51, Mismatches: 14, Indels: 4
0.74 0.20 0.06
Matches are distributed among these distances:
5 9 0.18
6 42 0.82
ACGTcount: A:0.74, C:0.08, G:0.03, T:0.15
Consensus pattern (6 bp):
AAAAAT
Found at i:56081409 original size:21 final size:20
Alignment explanation
Indices: 56081385--56081432 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
56081375 AAAAAATAGA
*
56081385 AAAAAAAAATTAAACTAAAAC
1 AAAAAAAAATGAAA-TAAAAC
* *
56081406 AAAAATAAAGTGAAATAAAAT
1 AAAAA-AAAATGAAATAAAAC
56081427 AAAAAA
1 AAAAAA
56081433 TGGCTAAATT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
20 1 0.04
21 15 0.65
22 7 0.30
ACGTcount: A:0.77, C:0.04, G:0.04, T:0.15
Consensus pattern (20 bp):
AAAAAAAAATGAAATAAAAC
Found at i:56084640 original size:10 final size:11
Alignment explanation
Indices: 56084625--56084653 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
56084615 TTCAAAGGTG
56084625 TGAATTGAAT-
1 TGAATTGAATA
56084635 TGAATTGAATA
1 TGAATTGAATA
56084646 TGAATTGA
1 TGAATTGA
56084654 TGTTAAATTC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 10 0.56
11 8 0.44
ACGTcount: A:0.41, C:0.00, G:0.21, T:0.38
Consensus pattern (11 bp):
TGAATTGAATA
Found at i:56085256 original size:24 final size:24
Alignment explanation
Indices: 56085180--56085259 Score: 72
Period size: 24 Copynumber: 3.2 Consensus size: 24
56085170 CTCTTTTATA
* *
56085180 AGCTTCTCGATTAACTGGCTTTTCGG
1 AGCTTC-CCATTAA-TGGCTTTCCGG
* * **
56085206 AGCTTCCCGA-TATTGGCTCTCATG
1 AGCTTCCC-ATTAATGGCTTTCCGG
56085230 AGCTTCCCATTAATGGCTTTCCGG
1 AGCTTCCCATTAATGGCTTTCCGG
56085254 AGCTTC
1 AGCTTC
56085260 TTGTTACATG
Statistics
Matches: 42, Mismatches: 10, Indels: 6
0.72 0.17 0.10
Matches are distributed among these distances:
23 1 0.02
24 31 0.74
25 3 0.07
26 7 0.17
ACGTcount: A:0.16, C:0.28, G:0.21, T:0.35
Consensus pattern (24 bp):
AGCTTCCCATTAATGGCTTTCCGG
Found at i:56093173 original size:46 final size:46
Alignment explanation
Indices: 56093103--56093277 Score: 205
Period size: 46 Copynumber: 3.8 Consensus size: 46
56093093 ATTTGGCCAT
56093103 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGC
* * *
56093149 CCAAACTCGTTGAGTTGAGTCCGAGTTCA-TGA--GATG-TAACTAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--GC
* * *
56093194 ATTCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGC
* *
56093242 CCGAGCTCGTTGGGTTGAGTCCGAGTTCACTTATGG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
56093278 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 4 0.04
46 62 0.57
47 26 0.24
48 4 0.04
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGC
Found at i:56121491 original size:26 final size:24
Alignment explanation
Indices: 56121461--56121510 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 24
56121451 AAATAAAAAA
*
56121461 ATTTAAAAATATAATAAATCAAATAT
1 ATTTAAAAACATAA-AAA-CAAATAT
56121487 ATTTAAAAACATAAAAACAAATAT
1 ATTTAAAAACATAAAAACAAATAT
56121511 TAAAACAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.30
25 3 0.13
26 13 0.57
ACGTcount: A:0.64, C:0.06, G:0.00, T:0.30
Consensus pattern (24 bp):
ATTTAAAAACATAAAAACAAATAT
Found at i:56121530 original size:21 final size:21
Alignment explanation
Indices: 56121481--56121539 Score: 59
Period size: 21 Copynumber: 2.8 Consensus size: 21
56121471 ATAATAAATC
*
56121481 AAAT-ATATTTAAAA-ACATAA
1 AAATAATA-TTAAAACAAATAA
*
56121501 AAACAAATATTAAAACAAATAA
1 AAA-TAATATTAAAACAAATAA
*
56121523 AAATAATACTAAAACAA
1 AAATAATATTAAAACAA
56121540 TTCTTAAAAC
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
20 3 0.09
21 18 0.56
22 11 0.34
ACGTcount: A:0.69, C:0.08, G:0.00, T:0.22
Consensus pattern (21 bp):
AAATAATATTAAAACAAATAA
Found at i:56126439 original size:46 final size:46
Alignment explanation
Indices: 56126386--56126561 Score: 180
Period size: 46 Copynumber: 3.8 Consensus size: 46
56126376 TATTTGGGCA
56126386 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * * * *
56126432 TCCGAACTCATTGAGTTGAGTTCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
* * *
56126479 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
56126525 -CCTGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
56126562 GCGGGTTACA
Statistics
Matches: 106, Mismatches: 16, Indels: 16
0.77 0.12 0.12
Matches are distributed among these distances:
43 4 0.04
45 4 0.04
46 63 0.59
47 30 0.28
48 2 0.02
50 3 0.03
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:56126541 original size:93 final size:93
Alignment explanation
Indices: 56126382--56126554 Score: 276
Period size: 93 Copynumber: 1.9 Consensus size: 93
56126372 GGGATATTTG
* *
56126382 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCATTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGTCCGAACTCATTGAG
*
56126447 TTGAGTTCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
* * *
56126475 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACG-CCTGAGCTCGTTGA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGTCC-GAACTCATTGA
56126539 GTTGAGTCCGAGTTCG
65 GTTGAGTCCGAGTTCG
56126555 CTTATGGGCG
Statistics
Matches: 73, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
92 2 0.03
93 71 0.97
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGTCCGAACTCATTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:56129519 original size:15 final size:15
Alignment explanation
Indices: 56129499--56129567 Score: 75
Period size: 15 Copynumber: 4.6 Consensus size: 15
56129489 GTATCTTAGG
56129499 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* * *
56129514 TCTCTTTTTTCTGGA
1 TTTCTTTATCCTGGA
* *
56129529 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
56129544 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
56129559 TTTCTTTAT
1 TTTCTTTAT
56129568 TTGGTTTTCT
Statistics
Matches: 43, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
15 43 1.00
ACGTcount: A:0.10, C:0.17, G:0.13, T:0.59
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:56129576 original size:14 final size:14
Alignment explanation
Indices: 56129499--56129578 Score: 70
Period size: 15 Copynumber: 5.4 Consensus size: 14
56129489 GTATCTTAGG
*
56129499 TTTCTTTATCCTGGA
1 TTTCTTTAT-TTGGA
* *
56129514 TCTCTTTTTTCTGGA
1 TTTCTTTATT-TGGA
*
56129529 TTTCTTTATTCTGGG
1 TTTCTTTATT-TGGA
*
56129544 TTTCTCTATCTTGGA
1 TTTCTTTAT-TTGGA
*
56129559 TTTCTTTATTTGGT
1 TTTCTTTATTTGGA
56129573 TTTCTT
1 TTTCTT
56129579 GTTATCGTTG
Statistics
Matches: 53, Mismatches: 10, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
14 10 0.19
15 42 0.79
16 1 0.02
ACGTcount: A:0.09, C:0.16, G:0.14, T:0.61
Consensus pattern (14 bp):
TTTCTTTATTTGGA
Found at i:56130949 original size:35 final size:35
Alignment explanation
Indices: 56130903--56130974 Score: 144
Period size: 35 Copynumber: 2.1 Consensus size: 35
56130893 TTAATTAGGA
56130903 GGTCTTAAATAGAATTTTACCAATTTCTAAGTCTT
1 GGTCTTAAATAGAATTTTACCAATTTCTAAGTCTT
56130938 GGTCTTAAATAGAATTTTACCAATTTCTAAGTCTT
1 GGTCTTAAATAGAATTTTACCAATTTCTAAGTCTT
56130973 GG
1 GG
56130975 AAAAAATTGG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.31, C:0.14, G:0.14, T:0.42
Consensus pattern (35 bp):
GGTCTTAAATAGAATTTTACCAATTTCTAAGTCTT
Found at i:56132040 original size:46 final size:46
Alignment explanation
Indices: 56131987--56132162 Score: 180
Period size: 46 Copynumber: 3.8 Consensus size: 46
56131977 TATTTGGGCA
*
56131987 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAGCG
* * * * *
56132033 TCCGAACTCGTCGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---C-AAGCG
* *
56132080 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAGCG
* * *
56132126 -CCTGAGCTCGTTGAGTTGAGTCTGAGTTCGCTTATGG
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
56132163 GCGGGTTACA
Statistics
Matches: 107, Mismatches: 15, Indels: 16
0.78 0.11 0.12
Matches are distributed among these distances:
43 4 0.04
45 4 0.04
46 63 0.59
47 30 0.28
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAGCG
Found at i:56132142 original size:93 final size:93
Alignment explanation
Indices: 56131983--56132155 Score: 276
Period size: 93 Copynumber: 1.9 Consensus size: 93
56131973 GGGATATTTG
* *
56131983 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTCGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCGAACTCGTCGAG
56132048 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
* * *
56132076 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG-CCTGAGCTCGTTGA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCC-GAACTCGTCGA
*
56132140 GTTGAGTCTGAGTTCG
65 GTTGAGTCCGAGTTCG
56132156 CTTATGGGCG
Statistics
Matches: 73, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
92 2 0.03
93 71 0.97
ACGTcount: A:0.20, C:0.21, G:0.31, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCGAACTCGTCGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:56151727 original size:8 final size:8
Alignment explanation
Indices: 56151714--56151756 Score: 86
Period size: 8 Copynumber: 5.4 Consensus size: 8
56151704 CACAAGTTGC
56151714 TAGAGGAT
1 TAGAGGAT
56151722 TAGAGGAT
1 TAGAGGAT
56151730 TAGAGGAT
1 TAGAGGAT
56151738 TAGAGGAT
1 TAGAGGAT
56151746 TAGAGGAT
1 TAGAGGAT
56151754 TAG
1 TAG
56151757 GTGTGGCTAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 35 1.00
ACGTcount: A:0.37, C:0.00, G:0.37, T:0.26
Consensus pattern (8 bp):
TAGAGGAT
Found at i:56171590 original size:19 final size:20
Alignment explanation
Indices: 56171539--56171593 Score: 94
Period size: 20 Copynumber: 2.8 Consensus size: 20
56171529 GATCTCGTAC
*
56171539 TTTGGCCCATTTTCTCTGTT
1 TTTGGCCCAGTTTCTCTGTT
56171559 TTTGGCCCAGTTTCTCTGTT
1 TTTGGCCCAGTTTCTCTGTT
56171579 TTTGGCCC-GTTTCTC
1 TTTGGCCCAGTTTCTC
56171594 GTTCCTTTCG
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
19 7 0.21
20 27 0.79
ACGTcount: A:0.04, C:0.27, G:0.18, T:0.51
Consensus pattern (20 bp):
TTTGGCCCAGTTTCTCTGTT
Found at i:56177383 original size:46 final size:46
Alignment explanation
Indices: 56177333--56177505 Score: 174
Period size: 46 Copynumber: 3.7 Consensus size: 46
56177323 TGGTTGAGCA
*
56177333 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
56177379 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* * *
56177426 TCCGAACTCGTTGAGTTGAGTCCGAGCTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * *
56177472 CCCGAGCTCATTGAGTTGAG-CCTGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCC-GAGTTCACTTA
56177506 GGGGCGGGTT
Statistics
Matches: 103, Mismatches: 16, Indels: 16
0.76 0.12 0.12
Matches are distributed among these distances:
43 6 0.06
45 5 0.05
46 56 0.54
47 28 0.27
48 3 0.03
50 5 0.05
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:56177489 original size:93 final size:93
Alignment explanation
Indices: 56177330--56177500 Score: 263
Period size: 93 Copynumber: 1.8 Consensus size: 93
56177320 GGATGGTTGA
* * * *
56177330 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGCTCACTTATGGATGCAAACGCCCGAACTCATTGAGT
56177395 TGAGTCC-GAGTTCGTGAGATGTAACTAG
66 TGAG-CCTGAGTTCGTGAGATGTAACTAG
* * *
56177423 GCATCCGAACTCGTTGAGTTGAGTCCGAGCTCATTTATGGATGCGAACGCCCGAGCTCATTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGCTCACTTATGGATGCAAACGCCCGAACTCATTGAGT
56177488 TGAGCCTGAGTTC
66 TGAGCCTGAGTTC
56177501 ACTTAGGGGC
Statistics
Matches: 70, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
92 2 0.03
93 68 0.97
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGCTCACTTATGGATGCAAACGCCCGAACTCATTGAGT
TGAGCCTGAGTTCGTGAGATGTAACTAG
Found at i:56177767 original size:19 final size:20
Alignment explanation
Indices: 56177730--56177767 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
56177720 ATAAGGTGGT
56177730 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
56177750 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
56177768 TGGCGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:56198133 original size:27 final size:25
Alignment explanation
Indices: 56198097--56198205 Score: 114
Period size: 27 Copynumber: 4.2 Consensus size: 25
56198087 CAGCATGGCT
*
56198097 ACCAGAACAGATAATGTGACAGAGTC
1 ACCAGAACAGATAATGTG-CAGAGCC
56198123 ACCAGATACAGATAATGTGGCAGAGCC
1 ACCAGA-ACAGATAATGT-GCAGAGCC
*
56198150 ACCAGAA-AGAAATATGTG-AGAGCC
1 ACCAGAACAGATA-ATGTGCAGAGCC
* *
56198174 ACCAGATCAGATAATTGTGGCATAGCC
1 ACCAGAACAGATAA-TGT-GCAGAGCC
56198201 ACCAG
1 ACCAG
56198206 GACGCTTCCT
Statistics
Matches: 71, Mismatches: 5, Indels: 13
0.80 0.06 0.15
Matches are distributed among these distances:
24 13 0.18
25 12 0.17
26 12 0.17
27 33 0.46
28 1 0.01
ACGTcount: A:0.39, C:0.21, G:0.24, T:0.16
Consensus pattern (25 bp):
ACCAGAACAGATAATGTGCAGAGCC
Found at i:56201109 original size:20 final size:20
Alignment explanation
Indices: 56201084--56201121 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
56201074 CCAAATTGTC
56201084 TTAC-TTTCATTTGCATTTCA
1 TTACTTTTCA-TTGCATTTCA
56201104 TTACTTTTCATTGCATTT
1 TTACTTTTCATTGCATTT
56201122 ACTATCTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.18, C:0.18, G:0.05, T:0.58
Consensus pattern (20 bp):
TTACTTTTCATTGCATTTCA
Found at i:56201130 original size:20 final size:21
Alignment explanation
Indices: 56201088--56201130 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
56201078 ATTGTCTTAC
*
56201088 TTTCATTTGCATTTCATTACT
1 TTTCATTTGCATTTCACTACT
56201109 TTTCA-TTGCATTT-ACTATCT
1 TTTCATTTGCATTTCACTA-CT
56201129 TT
1 TT
56201131 AGCTCAAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 3 0.15
20 12 0.60
21 5 0.25
ACGTcount: A:0.19, C:0.19, G:0.05, T:0.58
Consensus pattern (21 bp):
TTTCATTTGCATTTCACTACT
Found at i:56203336 original size:21 final size:21
Alignment explanation
Indices: 56203312--56203361 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
56203302 GCCTCTCCCA
*
56203312 CTGCTGCCGCTGCCTCCCT-T
1 CTGCTGCCACTGCCTCCCTCT
*
56203332 GCTGCTGCTACTGCCTCCCTCT
1 -CTGCTGCCACTGCCTCCCTCT
56203354 CTGCTGCC
1 CTGCTGCC
56203362 TCCGCTCTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 24 0.96
22 1 0.04
ACGTcount: A:0.02, C:0.48, G:0.20, T:0.30
Consensus pattern (21 bp):
CTGCTGCCACTGCCTCCCTCT
Found at i:56208910 original size:9 final size:9
Alignment explanation
Indices: 56208895--56209001 Score: 103
Period size: 9 Copynumber: 11.7 Consensus size: 9
56208885 ATATTGATGT
56208895 ATTATGTAA
1 ATTATGTAA
*
56208904 GTTATGTAA
1 ATTATGTAA
56208913 ATTATGTAA
1 ATTATGTAA
* **
56208922 GTTATCCAA
1 ATTATGTAA
56208931 ATTATGTAA
1 ATTATGTAA
56208940 ATTATGTAA
1 ATTATGTAA
56208949 GA-TATGATATA
1 -ATTATG-TA-A
56208960 TATTTATGT--
1 -A-TTATGTAA
56208969 ATTATGTAA
1 ATTATGTAA
*
56208978 GTTATGTAA
1 ATTATGTAA
56208987 ATTATGTAA
1 ATTATGTAA
56208996 ATTATG
1 ATTATG
56209002 ATATATATTT
Statistics
Matches: 80, Mismatches: 11, Indels: 14
0.76 0.10 0.13
Matches are distributed among these distances:
7 6 0.08
8 1 0.01
9 63 0.79
10 3 0.04
11 2 0.03
12 1 0.01
13 4 0.05
ACGTcount: A:0.39, C:0.02, G:0.14, T:0.45
Consensus pattern (9 bp):
ATTATGTAA
Found at i:56209205 original size:5 final size:5
Alignment explanation
Indices: 56209195--56209224 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
56209185 TTTTTGTGAT
56209195 TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA
56209225 CTTTAAATAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
TAAAA
Found at i:56209306 original size:43 final size:43
Alignment explanation
Indices: 56209259--56209586 Score: 138
Period size: 43 Copynumber: 7.3 Consensus size: 43
56209249 AGGTAATTTA
*
56209259 AAAATAAAATAAAAGTAGACAAAAGTTTTTTCCTGATTAAAAT
1 AAAATAAAATAAAAGTAGACAAAAGTTTTTTCATGATTAAAAT
* ** * * * * **
56209302 AAAATAAAATAAAACTTTA-AATACAATTTACTTTAATTAGGTAATTT
1 AAAATAAAATAAAAGTAGACAA-A-AGTTT--TTTCATGA-TTAAAAT
*
56209349 AAAAATAAAATAAAAGTAGACAAAGGTTTTTTCATGATTAAAAT
1 -AAAATAAAATAAAAGTAGACAAAAGTTTTTTCATGATTAAAAT
* * * * * **
56209393 AAAATAAAATAAAA-TAAAACTTTAAATACAATTTAATTTAATTAGGTAATTT
1 AAAATAAAATAAAAGT-AGAC----AA-A-AGTTT--TTTCATGA-TTAAAAT
*
56209445 AAAAATAAAATAAAAGTAGAC--AAGTTTTTTCCTGATTAAAAT
1 -AAAATAAAATAAAAGTAGACAAAAGTTTTTTCATGATTAAAAT
* * * * **
56209487 AAAATAAAACTTTAAA-T--AC--AA-TTTAATTTAATTAGGTAATTT
1 AAAATAAAA--TAAAAGTAGACAAAAGTTT--TTTCATGA-TTAAAAT
56209529 AAAAATAAAATAAAAGTAGAC-AAAGATTTTTTCATGATTAAAAT
1 -AAAATAAAATAAAAGTAGACAAAAG-TTTTTTCATGATTAAAAT
56209573 AAAATAAAATAAAA
1 AAAATAAAATAAAA
56209587 TAAAACTTTA
Statistics
Matches: 205, Mismatches: 49, Indels: 62
0.65 0.16 0.20
Matches are distributed among these distances:
39 3 0.01
40 4 0.02
41 18 0.09
42 13 0.06
43 66 0.32
44 14 0.07
45 18 0.09
46 6 0.03
47 12 0.06
48 18 0.09
49 5 0.02
51 6 0.03
52 4 0.02
53 17 0.08
54 1 0.00
ACGTcount: A:0.55, C:0.05, G:0.07, T:0.33
Consensus pattern (43 bp):
AAAATAAAATAAAAGTAGACAAAAGTTTTTTCATGATTAAAAT
Found at i:56209396 original size:96 final size:96
Alignment explanation
Indices: 56209200--56209831 Score: 978
Period size: 91 Copynumber: 6.9 Consensus size: 96
56209190 GTGATTAAAA
*
56209200 TAAAATAAAATAAAATAAAATAAAACTTTAAATACAATTTAATTTATTTAGGTAATTTAAAAATA
1 TAAAATAAAATAAAATAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTAATTTAAAAATA
*
56209265 AAATAAAAGTAGACAAAAGTTTTTTCCTGA-
66 AAATAAAAGTAGACAAAGGTTTTTTCCTGAT
*
56209295 T----TAAAATAAAATAAAATAAAACTTTAAATACAATTTACTTTAATTAGGTAATTTAAAAATA
1 TAAAATAAAATAAAATAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTAATTTAAAAATA
*
56209356 AAATAAAAGTAGACAAAGGTTTTTTCATGAT
66 AAATAAAAGTAGACAAAGGTTTTTTCCTGAT
56209387 TAAAATAAAATAAAATAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTAATTTAAAAATA
1 TAAAATAAAATAAAATAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTAATTTAAAAATA
56209452 AAATAAAAGTAGAC-AA-GTTTTTTCCTG--
66 AAATAAAAGTAGACAAAGGTTTTTTCCTGAT
56209479 ----AT----TAAAATAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTAATTTAAAAATA
1 TAAAATAAAATAAAATAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTAATTTAAAAATA
* *
56209536 AAATAAAAGTAGACAAAGATTTTTTCATGAT
66 AAATAAAAGTAGACAAAGGTTTTTTCCTGAT
56209567 TAAAATAAAATAAAATAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTAATTT--AAA-A
1 TAAAATAAAATAAAATAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTAATTTAAAAATA
56209629 AAATAAAAGTAGAC-AA-GTTTTTTCCT-ATT
66 AAATAAAAGTAGACAAAGGTTTTTTCCTGA-T
*
56209658 TAAAATAAAATAAAATAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTAATTT--TAA-A
1 TAAAATAAAATAAAATAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTAATTTAAAAATA
*
56209720 AAATAAAAGTAGAC-AAGTTTTTTTCCT-ATT
66 AAATAAAAGTAGACAAAGGTTTTTTCCTGA-T
56209750 TAAAATAAAATAAAATAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTAATTTAAAAATA
1 TAAAATAAAATAAAATAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTAATTTAAAAATA
56209815 AAATAAAAGTAGACAAA
66 AAATAAAAGTAGACAAA
56209832 ATATTTTAAA
Statistics
Matches: 501, Mismatches: 13, Indels: 45
0.90 0.02 0.08
Matches are distributed among these distances:
84 69 0.14
85 2 0.00
86 9 0.02
88 2 0.00
90 1 0.00
91 172 0.34
92 75 0.15
93 15 0.03
94 15 0.03
95 18 0.04
96 123 0.25
ACGTcount: A:0.55, C:0.05, G:0.06, T:0.34
Consensus pattern (96 bp):
TAAAATAAAATAAAATAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTAATTTAAAAATA
AAATAAAAGTAGACAAAGGTTTTTTCCTGAT
Found at i:56209397 original size:5 final size:5
Alignment explanation
Indices: 56209387--56209411 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
56209377 TTTTCATGAT
56209387 TAAAA TAAAA TAAAA TAAAA TAAAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA
56209412 CTTTAAATAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
TAAAA
Found at i:56209577 original size:5 final size:5
Alignment explanation
Indices: 56209567--56209591 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
56209557 TTTTCATGAT
56209567 TAAAA TAAAA TAAAA TAAAA TAAAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA
56209592 CTTTAAATAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
TAAAA
Found at i:56209668 original size:5 final size:5
Alignment explanation
Indices: 56209658--56209682 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
56209648 TTTTCCTATT
56209658 TAAAA TAAAA TAAAA TAAAA TAAAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA
56209683 CTTTAAATAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
TAAAA
Found at i:56209693 original size:271 final size:271
Alignment explanation
Indices: 56209205--56209832 Score: 963
Period size: 271 Copynumber: 2.3 Consensus size: 271
56209195 TAAAATAAAA
*
56209205 TAAA-ATAAAATAAAATAAAACTTTAAATACAATTTAATTTATTTAGGTAATTTAAAAATAAAAT
1 TAAATATAAAATAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTAATTTAAAAATAAAAT
* *
56209269 AAAAGTAGACAAAAGTTTTTTCCTGATTAAAATAAAATAAAATAAAACTTTAAATACAATTTACT
66 AAAAGTAGACAAAAGTTTTTTCATGATTAAAATAAAATAAAATAAAACTTTAAATACAATTTAAT
56209334 TTAATTAGGTAATTTAAAAATAAAATAAAAGTAGACAAAGGTTTTTTCATGATTAAAATAAAATA
131 TTAATTAGGTAATTT-AAAATAAAATAAAAGTAGACAAAGGTTTTTTCATGATTAAAATAAAATA
56209399 AAATAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTAATTTAAAAATAAAATAAAAGTAG
195 AAATAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTAATTT--AAA-AAAATAAAAGTAG
56209464 ACAAG-TTTTTTCC-
257 ACAAGTTTTTTTCCT
*
56209477 T-GAT-TAAAATAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTAATTTAAAAATAAAAT
1 TAAATATAAAATAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTAATTTAAAAATAAAAT
56209540 AAAAGTAGAC-AAAGATTTTTTCATGATTAAAATAAAATAAAATAAAATAAAACTTTAAATACAA
66 AAAAGTAGACAAAAG-TTTTTTCATGA-T----TAAAATAAAATAAAATAAAACTTTAAATACAA
*
56209604 TTTAATTTAATTAGGTAATTT-AAA-AAAATAAAAGTAGAC-AA-GTTTTTTCCT-ATTTAAAAT
125 TTTAATTTAATTAGGTAATTTAAAATAAAATAAAAGTAGACAAAGGTTTTTTCATGA-TTAAAAT
*
56209664 AAAATAAAATAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTAATTTTAAAAAATAAAAG
189 AAAATAAAATAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTAATTTAAAAAAATAAAAG
56209729 TAGACAAGTTTTTTTCCTATT
254 TAGACAAGTTTTTTTCC---T
56209750 TAAAATAAAATAAAATAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTAATTTAAAAATA
1 T-AAAT---ATAAAATAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTAATTTAAAAATA
56209815 AAATAAAAGTAGACAAAA
62 AAATAAAAGTAGACAAAA
56209833 TATTTTAAAC
Statistics
Matches: 329, Mismatches: 7, Indels: 32
0.89 0.02 0.09
Matches are distributed among these distances:
268 18 0.05
269 10 0.03
270 5 0.02
271 147 0.45
272 4 0.01
273 16 0.05
274 3 0.01
275 2 0.01
276 52 0.16
279 69 0.21
280 3 0.01
ACGTcount: A:0.54, C:0.05, G:0.06, T:0.34
Consensus pattern (271 bp):
TAAATATAAAATAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTAATTTAAAAATAAAAT
AAAAGTAGACAAAAGTTTTTTCATGATTAAAATAAAATAAAATAAAACTTTAAATACAATTTAAT
TTAATTAGGTAATTTAAAATAAAATAAAAGTAGACAAAGGTTTTTTCATGATTAAAATAAAATAA
AATAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTAATTTAAAAAAATAAAAGTAGACAA
GTTTTTTTCCT
Found at i:56209760 original size:5 final size:5
Alignment explanation
Indices: 56209750--56209774 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
56209740 TTTTCCTATT
56209750 TAAAA TAAAA TAAAA TAAAA TAAAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA
56209775 CTTTAAATAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
TAAAA
Found at i:56209963 original size:99 final size:99
Alignment explanation
Indices: 56209795--56210078 Score: 452
Period size: 99 Copynumber: 2.9 Consensus size: 99
56209785 AATTTAATTT
* **
56209795 AATTAGGTAATTTAAAAATAAAATAAAAGTA--GACAA--AAT-ATTTTAAACATTGTTAAGTCT
1 AATTAGGTAATTTAAAAATAAAATAAAA-TATTTA-AATTAATGACATTAAAC-TTGTTAAGTCT
56209855 TTCTTTTAATTTGCATTTATTAATTTGTTAATTTAAA
63 TTCTTTTAATTTGCATTTATTAATTTGTTAATTTAAA
56209892 AATTAGGTAATTTAAAAATAAAATAAAATATTTAAATTAATGACATTAAACTTGTTAAGTCTTTC
1 AATTAGGTAATTTAAAAATAAAATAAAATATTTAAATTAATGACATTAAACTTGTTAAGTCTTTC
56209957 TTTTAATTTGCATTTATTAATTTGTTAATTTAAA
66 TTTTAATTTGCATTTATTAATTTGTTAATTTAAA
* *
56209991 AATTAGGTAATTTAAGAATAAAATAAAATATTTAAATTAATGACATTAAACTTGTTAAGTGTTTC
1 AATTAGGTAATTTAAAAATAAAATAAAATATTTAAATTAATGACATTAAACTTGTTAAGTCTTTC
*
56210056 TTTTAATTTGCATATATTAATTT
66 TTTTAATTTGCATTTATTAATTT
56210079 AAGTAAACAT
Statistics
Matches: 176, Mismatches: 6, Indels: 8
0.93 0.03 0.04
Matches are distributed among these distances:
96 2 0.01
97 30 0.17
98 1 0.01
99 136 0.77
100 7 0.04
ACGTcount: A:0.43, C:0.05, G:0.08, T:0.44
Consensus pattern (99 bp):
AATTAGGTAATTTAAAAATAAAATAAAATATTTAAATTAATGACATTAAACTTGTTAAGTCTTTC
TTTTAATTTGCATTTATTAATTTGTTAATTTAAA
Found at i:56210750 original size:8 final size:8
Alignment explanation
Indices: 56210737--56210818 Score: 96
Period size: 8 Copynumber: 10.4 Consensus size: 8
56210727 CAATCAAAAA
56210737 ATTCCACT
1 ATTCCACT
56210745 ATTCCACT
1 ATTCCACT
*
56210753 ATTACACT
1 ATTCCACT
*
56210761 ATTACACT
1 ATTCCACT
*
56210769 ATTACACT
1 ATTCCACT
*
56210777 ATATGCA--
1 AT-TCCACT
*
56210784 ATTACACT
1 ATTCCACT
56210792 ATTCCACT
1 ATTCCACT
56210800 ATTCCACT
1 ATTCCACT
56210808 ATTCCACT
1 ATTCCACT
56210816 ATT
1 ATT
56210819 ATCACTATTA
Statistics
Matches: 67, Mismatches: 4, Indels: 6
0.87 0.05 0.08
Matches are distributed among these distances:
6 3 0.04
7 2 0.03
8 59 0.88
9 3 0.04
ACGTcount: A:0.32, C:0.29, G:0.01, T:0.38
Consensus pattern (8 bp):
ATTCCACT
Found at i:56210762 original size:16 final size:16
Alignment explanation
Indices: 56210741--56210827 Score: 115
Period size: 16 Copynumber: 5.4 Consensus size: 16
56210731 CAAAAAATTC
56210741 CACTATTCCACTATTA
1 CACTATTCCACTATTA
*
56210757 CACTATTACACTATTA
1 CACTATTCCACTATTA
*
56210773 CACTATATGCA--ATTA
1 CACTAT-TCCACTATTA
*
56210788 CACTATTCCACTATTC
1 CACTATTCCACTATTA
56210804 CACTATTCCACTATTA
1 CACTATTCCACTATTA
56210820 TCACTATT
1 -CACTATT
56210828 ATCACAATCA
Statistics
Matches: 62, Mismatches: 5, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
14 3 0.05
15 10 0.16
16 39 0.63
17 10 0.16
ACGTcount: A:0.32, C:0.29, G:0.01, T:0.38
Consensus pattern (16 bp):
CACTATTCCACTATTA
Found at i:56210795 original size:47 final size:48
Alignment explanation
Indices: 56210736--56210826 Score: 148
Period size: 47 Copynumber: 1.9 Consensus size: 48
56210726 GCAATCAAAA
*
56210736 AATTCCACTATTCCACTATTACACTATTACACTATTA-CACTATATGC
1 AATTACACTATTCCACTATTACACTATTACACTATTATCACTATATGC
* *
56210783 AATTACACTATTCCACTATTCCACTATTCCACTATTATCACTAT
1 AATTACACTATTCCACTATTACACTATTACACTATTATCACTAT
56210827 TATCACAATC
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
47 34 0.85
48 6 0.15
ACGTcount: A:0.33, C:0.29, G:0.01, T:0.37
Consensus pattern (48 bp):
AATTACACTATTCCACTATTACACTATTACACTATTATCACTATATGC
Found at i:56212064 original size:14 final size:14
Alignment explanation
Indices: 56212026--56212066 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
56212016 ATTAAACTCT
*
56212026 AACCCCTAAACCATA
1 AACCCCT-AACCCTA
*
56212041 AACCCTTAACCCTA
1 AACCCCTAACCCTA
56212055 AACCCCTAACCC
1 AACCCCTAACCC
56212067 GACCCTAATC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
14 17 0.74
15 6 0.26
ACGTcount: A:0.39, C:0.46, G:0.00, T:0.15
Consensus pattern (14 bp):
AACCCCTAACCCTA
Found at i:56212711 original size:41 final size:40
Alignment explanation
Indices: 56212665--56212760 Score: 122
Period size: 41 Copynumber: 2.4 Consensus size: 40
56212655 TTTCTCCAAT
*
56212665 GCGCCGCTAATGGTCAAGC-TATAGCGGCGTTTCTCATATAA
1 GCGCCGCTAATGCTCAA-CATATAGCGGCGTTTC-CATATAA
* *
56212706 GCGCCGCTAATTCTCAACATATAGCGGCGTTTCCTTATAA
1 GCGCCGCTAATGCTCAACATATAGCGGCGTTTCCATATAA
**
56212746 GTTCCGCTAATGCTC
1 GCGCCGCTAATGCTC
56212761 GTTTTTAGTG
Statistics
Matches: 48, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
40 19 0.40
41 29 0.60
ACGTcount: A:0.23, C:0.27, G:0.21, T:0.29
Consensus pattern (40 bp):
GCGCCGCTAATGCTCAACATATAGCGGCGTTTCCATATAA
Found at i:56212830 original size:40 final size:39
Alignment explanation
Indices: 56212749--56212834 Score: 111
Period size: 39 Copynumber: 2.2 Consensus size: 39
56212739 CTTATAAGTT
* * *
56212749 CCGCTAATGCTCGTTTTTAGTGGCGTTTTTGTGGAAGCG
1 CCGCTAATGCTCGTTTTTAGTGGCGTTTTTATGAAAACG
*
56212788 CCGCTAATGCTC-TTTCTTAGTGGCGTTTTTTATTAAAACG
1 CCGCTAATGCTCGTTT-TTAGTGGCG-TTTTTATGAAAACG
56212828 CCGCTAA
1 CCGCTAA
56212835 AAGCGCCGCT
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
38 3 0.07
39 21 0.51
40 17 0.41
ACGTcount: A:0.17, C:0.21, G:0.23, T:0.38
Consensus pattern (39 bp):
CCGCTAATGCTCGTTTTTAGTGGCGTTTTTATGAAAACG
Found at i:56213517 original size:25 final size:25
Alignment explanation
Indices: 56213476--56213667 Score: 235
Period size: 25 Copynumber: 7.8 Consensus size: 25
56213466 TTCTGTACAT
* *
56213476 GTATGCTCACACAAGCTATAAATCG
1 GTATGCTCACACGAGCTGTAAATCG
*
56213501 GTATGCTCAGACGAGCTGTAAATCG
1 GTATGCTCACACGAGCTGTAAATCG
* *
56213526 G--TGCTCACACGAGATGTAAATCT
1 GTATGCTCACACGAGCTGTAAATCG
* * * *
56213549 GTATGCCCACACAAGCTGTAATTTG
1 GTATGCTCACACGAGCTGTAAATCG
* *
56213574 GTATGCTCTCACGAGCTGTAAATTG
1 GTATGCTCACACGAGCTGTAAATCG
* *
56213599 GTATGCTCACACGAGCTATAAATTG
1 GTATGCTCACACGAGCTGTAAATCG
*
56213624 ATATGCTCACACGAGCTGTAAATCG
1 GTATGCTCACACGAGCTGTAAATCG
*
56213649 GCATGCTCACACGAGCTGT
1 GTATGCTCACACGAGCTGT
56213668 GGAGTATCCG
Statistics
Matches: 142, Mismatches: 23, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
23 20 0.14
25 122 0.86
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.26
Consensus pattern (25 bp):
GTATGCTCACACGAGCTGTAAATCG
Found at i:56216722 original size:19 final size:18
Alignment explanation
Indices: 56216700--56216746 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 18
56216690 GCTAGGGCTG
*
56216700 AAAGGAAAAATATGAGGAA
1 AAAGGAAAAAAATGA-GAA
*
56216719 AAAGAGAAAAAAATGAGAG
1 AAAG-GAAAAAAATGAGAA
56216738 AAAGGAAAA
1 AAAGGAAAA
56216747 GTATACCTGT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 5 0.20
19 10 0.40
20 10 0.40
ACGTcount: A:0.68, C:0.00, G:0.26, T:0.06
Consensus pattern (18 bp):
AAAGGAAAAAAATGAGAA
Found at i:56216727 original size:20 final size:20
Alignment explanation
Indices: 56216700--56216740 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
56216690 GCTAGGGCTG
*
56216700 AAAGGAAAAATATGAG-GAA
1 AAAGGAAAAAAATGAGAGAA
56216719 AAAGAGAAAAAAATGAGAGAA
1 AAAG-GAAAAAAATGAGAGAA
56216740 A
1 A
56216741 GGAAAAGTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 4 0.21
20 11 0.58
21 4 0.21
ACGTcount: A:0.68, C:0.00, G:0.24, T:0.07
Consensus pattern (20 bp):
AAAGGAAAAAAATGAGAGAA
Found at i:56251462 original size:25 final size:25
Alignment explanation
Indices: 56251433--56251503 Score: 74
Period size: 25 Copynumber: 2.8 Consensus size: 25
56251423 CACTACCGAT
56251433 CAGGATGCTCGTAGGAA-CTATTTAA
1 CAGGATGCTCGTA-GAAGCTATTTAA
* *
56251458 TAGGATGCTCG-AGAAGCTTTTTAA
1 CAGGATGCTCGTAGAAGCTATTTAA
**
56251482 CAGGATTGCTCGTCCAAGCTAT
1 CAGGA-TGCTCGTAGAAGCTAT
56251504 AGTCTGTTCG
Statistics
Matches: 37, Mismatches: 6, Indels: 5
0.77 0.12 0.10
Matches are distributed among these distances:
23 3 0.08
24 12 0.32
25 16 0.43
26 6 0.16
ACGTcount: A:0.28, C:0.18, G:0.24, T:0.30
Consensus pattern (25 bp):
CAGGATGCTCGTAGAAGCTATTTAA
Found at i:56252752 original size:10 final size:10
Alignment explanation
Indices: 56252737--56252763 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
56252727 TTCATAATCA
56252737 TCATGATGTT
1 TCATGATGTT
56252747 TCATGATGTT
1 TCATGATGTT
56252757 TCATGAT
1 TCATGAT
56252764 AGTTATCCTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.22, C:0.11, G:0.19, T:0.48
Consensus pattern (10 bp):
TCATGATGTT
Found at i:56258327 original size:8 final size:8
Alignment explanation
Indices: 56258285--56258309 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
56258275 ATATAGACTA
56258285 AATAAAAT
1 AATAAAAT
56258293 AATAAAAT
1 AATAAAAT
56258301 AATAAAAT
1 AATAAAAT
56258309 A
1 A
56258310 TCTTATTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (8 bp):
AATAAAAT
Found at i:56259048 original size:15 final size:15
Alignment explanation
Indices: 56259030--56259059 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
56259020 TTGGCTTTAC
*
56259030 AATTTAGTCCTTTTT
1 AATTTAGTCATTTTT
56259045 AATTTAGTCATTTTT
1 AATTTAGTCATTTTT
56259060 CTATACTAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.23, C:0.10, G:0.07, T:0.60
Consensus pattern (15 bp):
AATTTAGTCATTTTT
Done.