Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D06
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: 62964862
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 132689 characters in sequence are not A, C, G, or T
File 195 of 207
Found at i:58727874 original size:27 final size:27
Alignment explanation
Indices: 58727843--58727908 Score: 87
Period size: 27 Copynumber: 2.4 Consensus size: 27
58727833 AATAGTTTTC
* *
58727843 CATTTTAGGGGTGTAAGGAGTAATATT
1 CATTTTAGGGGTCTAAAGAGTAATATT
* *
58727870 CATTTTAAGGGTCTAAAGAGTAATTTT
1 CATTTTAGGGGTCTAAAGAGTAATATT
58727897 CATTTTAAGGGG
1 CATTTT-AGGGG
58727909 ACTACGATTA
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
27 29 0.88
28 4 0.12
ACGTcount: A:0.30, C:0.06, G:0.26, T:0.38
Consensus pattern (27 bp):
CATTTTAGGGGTCTAAAGAGTAATATT
Found at i:58728628 original size:21 final size:21
Alignment explanation
Indices: 58728599--58728650 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 21
58728589 AGCGATGGCG
58728599 ATGAAATTAATTACTATAGCA
1 ATGAAATTAATTACTATAGCA
* * * *
58728620 ATGAGATTAGTTATTATAGCG
1 ATGAAATTAATTACTATAGCA
*
58728641 ATGATATTAA
1 ATGAAATTAA
58728651 AAATAGTGAT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.42, C:0.06, G:0.15, T:0.37
Consensus pattern (21 bp):
ATGAAATTAATTACTATAGCA
Found at i:58735007 original size:19 final size:19
Alignment explanation
Indices: 58734985--58735024 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
58734975 TTTTATAAAT
*
58734985 AAAAATAT-TAAAATTGTTG
1 AAAAATATGGAAAA-TGTTG
58735004 AAAAATATGGAAAATGTTG
1 AAAAATATGGAAAATGTTG
58735023 AA
1 AA
58735025 TGGGATTAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 15 0.79
20 4 0.21
ACGTcount: A:0.55, C:0.00, G:0.15, T:0.30
Consensus pattern (19 bp):
AAAAATATGGAAAATGTTG
Found at i:58738769 original size:13 final size:13
Alignment explanation
Indices: 58738751--58738775 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
58738741 TTCAATTTAT
58738751 TTTTTGATATTTG
1 TTTTTGATATTTG
58738764 TTTTTGATATTT
1 TTTTTGATATTT
58738776 TCAATCTTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.00, G:0.12, T:0.72
Consensus pattern (13 bp):
TTTTTGATATTTG
Found at i:58740037 original size:50 final size:48
Alignment explanation
Indices: 58739932--58740037 Score: 122
Period size: 50 Copynumber: 2.2 Consensus size: 48
58739922 ATACATCATG
* *
58739932 TGTATATAACCGATCATATATATATACTAAATAAACATTATAACCGAA
1 TGTATATAACCGAACATATATATATACTAAACAAACATTATAACCGAA
* * * * * *
58739980 TGCATATAACCGAACATGTATATATATACTAAACACATATTATATCTGAT
1 TGTATATAACCGAACA--TATATATATACTAAACAAACATTATAACCGAA
58740030 TGTATATA
1 TGTATATA
58740038 TATACTCGTC
Statistics
Matches: 47, Mismatches: 9, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
48 14 0.30
50 33 0.70
ACGTcount: A:0.44, C:0.14, G:0.08, T:0.34
Consensus pattern (48 bp):
TGTATATAACCGAACATATATATATACTAAACAAACATTATAACCGAA
Found at i:58748228 original size:39 final size:39
Alignment explanation
Indices: 58748185--58748424 Score: 338
Period size: 39 Copynumber: 6.1 Consensus size: 39
58748175 TCTTGTTACA
* * *
58748185 CATATAATCACCTAACATCCAAACATATATCACAATACT
1 CATATAATCACATAACATTCAAGCATATATCACAATACT
* * *
58748224 CATATAATCACATAACATTTAAGCATATATCAAAATATT
1 CATATAATCACATAACATTCAAGCATATATCACAATACT
*
58748263 CATATAATCACATAACATTTAAGCATATATCACAATACT
1 CATATAATCACATAACATTCAAGCATATATCACAATACT
*
58748302 CATATAATCACATAACATTCAAGCATATATCACAATATATAT
1 CATATAATCACATAACATTCAAGCATATATCAC-A-ATA-CT
58748344 ACATATAATCACATAACATTCAAGCATATATCACAATA-T
1 -CATATAATCACATAACATTCAAGCATATATCACAATACT
* *
58748383 ACATATAATCTCATAACATTTAAGCATATATCACAATACT
1 -CATATAATCACATAACATTCAAGCATATATCACAATACT
58748423 CA
1 CA
58748425 AAACATCTTT
Statistics
Matches: 184, Mismatches: 12, Indels: 10
0.89 0.06 0.05
Matches are distributed among these distances:
39 141 0.77
40 2 0.01
41 6 0.03
42 2 0.01
43 33 0.18
ACGTcount: A:0.47, C:0.21, G:0.02, T:0.30
Consensus pattern (39 bp):
CATATAATCACATAACATTCAAGCATATATCACAATACT
Found at i:58748391 original size:121 final size:117
Alignment explanation
Indices: 58748185--58748424 Score: 372
Period size: 121 Copynumber: 2.0 Consensus size: 117
58748175 TCTTGTTACA
* * *
58748185 CATATAATCACCTAACATCCAAACATATATCACAATACTCATATAATCACATAACATTTAAGCAT
1 CATATAATCACATAACATCCAAACATATATCACAATAATCATATAATCACATAACATTCAAGCAT
*
58748250 ATATCAAAATATTCATATAATCACATAACATTTAAGCATATATCACAATACT
66 ATATCAAAATATACATATAATCACATAACATTTAAGCATATATCACAATACT
* *
58748302 CATATAATCACATAACATTCAAGCATATATCACAATATATATACATATAATCACATAACATTCAA
1 CATATAATCACATAACATCCAAACATATATCAC-A-ATA-AT-CATATAATCACATAACATTCAA
* *
58748367 GCATATATCACAATATACATATAATCTCATAACATTTAAGCATATATCACAATACT
62 GCATATATCAAAATATACATATAATCACATAACATTTAAGCATATATCACAATACT
58748423 CA
1 CA
58748425 AAACATCTTT
Statistics
Matches: 111, Mismatches: 8, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
117 30 0.27
118 1 0.01
119 3 0.03
120 1 0.01
121 76 0.68
ACGTcount: A:0.47, C:0.21, G:0.02, T:0.30
Consensus pattern (117 bp):
CATATAATCACATAACATCCAAACATATATCACAATAATCATATAATCACATAACATTCAAGCAT
ATATCAAAATATACATATAATCACATAACATTTAAGCATATATCACAATACT
Found at i:58756569 original size:23 final size:23
Alignment explanation
Indices: 58756543--58756664 Score: 174
Period size: 23 Copynumber: 5.3 Consensus size: 23
58756533 ATAAGTGCAA
58756543 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
58756566 CACT-ATTATATAGCCAAAGCTAC
1 CACTGA-TATGTAGCCGAAGCTAC
*
58756589 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
58756612 CACTGTTATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
58756635 CACTGAAACGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
58756658 CACTGAT
1 CACTGAT
58756665 CAATAACACT
Statistics
Matches: 86, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
22 1 0.01
23 84 0.98
24 1 0.01
ACGTcount: A:0.33, C:0.27, G:0.19, T:0.21
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:58756662 original size:46 final size:46
Alignment explanation
Indices: 58756543--58756662 Score: 195
Period size: 46 Copynumber: 2.6 Consensus size: 46
58756533 ATAAGTGCAA
* *
58756543 CACTGATATGTAGCCGAAGCTACCACTATTATATAGCCAAAGCTAC
1 CACTGAAATGTAGCCGAAGCTACCACTGTTATATAGCCAAAGCTAC
* *
58756589 CACTGAAATGTAGCCGAAGCTACCACTGTTATGTAGCCGAAGCTAC
1 CACTGAAATGTAGCCGAAGCTACCACTGTTATATAGCCAAAGCTAC
*
58756635 CACTGAAACGTAGCCGAAGCTACCACTG
1 CACTGAAATGTAGCCGAAGCTACCACTG
58756663 ATCAATAACA
Statistics
Matches: 69, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 69 1.00
ACGTcount: A:0.33, C:0.28, G:0.19, T:0.21
Consensus pattern (46 bp):
CACTGAAATGTAGCCGAAGCTACCACTGTTATATAGCCAAAGCTAC
Found at i:58756850 original size:14 final size:14
Alignment explanation
Indices: 58756833--58756871 Score: 69
Period size: 14 Copynumber: 2.8 Consensus size: 14
58756823 GAATTTACAC
58756833 TTAACACTTTATTT
1 TTAACACTTTATTT
58756847 TTAACACTTTATTT
1 TTAACACTTTATTT
*
58756861 TCAACACTTTA
1 TTAACACTTTA
58756872 ACACTTGAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.31, C:0.18, G:0.00, T:0.51
Consensus pattern (14 bp):
TTAACACTTTATTT
Found at i:58760490 original size:30 final size:30
Alignment explanation
Indices: 58760456--58760539 Score: 93
Period size: 30 Copynumber: 2.8 Consensus size: 30
58760446 TTCTCTCAAC
*
58760456 AAAAATTACAAAAAAATTCTAAATATTTAT-
1 AAAAATTA-AAAAAAATTCTAAATATATATA
*
58760486 AAAAA-TAAAAAAAA-TCTAAAGAATATATA
1 AAAAATTAAAAAAAATTCTAAA-TATATATA
*
58760515 AAAAATTAAAAAAGATTCTTAAATA
1 AAAAATTAAAAAAAATTC-TAAATA
58760540 ATCATTTTTG
Statistics
Matches: 45, Mismatches: 4, Indels: 9
0.78 0.07 0.16
Matches are distributed among these distances:
27 6 0.13
28 12 0.27
29 7 0.16
30 13 0.29
31 3 0.07
32 4 0.09
ACGTcount: A:0.65, C:0.05, G:0.02, T:0.27
Consensus pattern (30 bp):
AAAAATTAAAAAAAATTCTAAATATATATA
Found at i:58760514 original size:28 final size:28
Alignment explanation
Indices: 58760465--58760527 Score: 74
Period size: 27 Copynumber: 2.2 Consensus size: 28
58760455 CAAAAATTAC
* * *
58760465 AAAAAAATTCTAAATATTTAT-AAAAAT
1 AAAAAAAATCTAAAAATATATAAAAAAT
58760492 AAAAAAAATCTAAAGAATATATAAAAAAT
1 AAAAAAAATCTAAA-AATATATAAAAAAT
*
58760521 TAAAAAA
1 AAAAAAA
58760528 GATTCTTAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
27 13 0.43
28 5 0.17
29 12 0.40
ACGTcount: A:0.70, C:0.03, G:0.02, T:0.25
Consensus pattern (28 bp):
AAAAAAAATCTAAAAATATATAAAAAAT
Found at i:58761431 original size:24 final size:24
Alignment explanation
Indices: 58761404--58761451 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
58761394 GTTATAACTT
58761404 TTTTTTTATTTACCAAAATATATA
1 TTTTTTTATTTACCAAAATATATA
*
58761428 TTTTTTTATTTACTAAAATATATA
1 TTTTTTTATTTACCAAAATATATA
58761452 AAAAAACAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.38, C:0.06, G:0.00, T:0.56
Consensus pattern (24 bp):
TTTTTTTATTTACCAAAATATATA
Found at i:58761611 original size:27 final size:27
Alignment explanation
Indices: 58761520--58761594 Score: 109
Period size: 27 Copynumber: 2.8 Consensus size: 27
58761510 CGCCAATGGG
*
58761520 ATTGGCGGCACCGAA-GGGGCCAA-AGCC
1 ATTGGCGGCACC-AATGGTGCCAATA-CC
58761547 ATTGGCGGCACCAATGGTGCCAATACC
1 ATTGGCGGCACCAATGGTGCCAATACC
58761574 ATTGGCGGCACCAATGGTGCC
1 ATTGGCGGCACCAATGGTGCC
58761595 GTATTGATTG
Statistics
Matches: 45, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
26 2 0.04
27 42 0.93
28 1 0.02
ACGTcount: A:0.24, C:0.29, G:0.32, T:0.15
Consensus pattern (27 bp):
ATTGGCGGCACCAATGGTGCCAATACC
Found at i:58761786 original size:19 final size:21
Alignment explanation
Indices: 58761748--58761786 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
58761738 AATAATTGAT
*
58761748 TATATTGTTGTTATTATTTTG
1 TATATTGTTGTTAATATTTTG
58761769 TATATT-TTG-TAATATTTT
1 TATATTGTTGTTAATATTTT
58761787 TTGTTTTACT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 8 0.47
20 3 0.18
21 6 0.35
ACGTcount: A:0.23, C:0.00, G:0.10, T:0.67
Consensus pattern (21 bp):
TATATTGTTGTTAATATTTTG
Found at i:58761848 original size:3 final size:3
Alignment explanation
Indices: 58761832--58761866 Score: 52
Period size: 3 Copynumber: 11.3 Consensus size: 3
58761822 AAAATAATAG
*
58761832 TAT TAGT TAG TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT T
58761867 GTTGTTGTTG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
3 26 0.90
4 3 0.10
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:58761871 original size:3 final size:3
Alignment explanation
Indices: 58761865--58761908 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
58761855 ATTATTATTA
58761865 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
58761909 AGTATTAAGA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.00, C:0.00, G:0.32, T:0.68
Consensus pattern (3 bp):
TTG
Found at i:58762720 original size:18 final size:18
Alignment explanation
Indices: 58762697--58762734 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
58762687 GGTTGGTGGT
58762697 GAAGAAGAAGGTGCTGGC
1 GAAGAAGAAGGTGCTGGC
*
58762715 GAAGAAGAAGGTGGTGGC
1 GAAGAAGAAGGTGCTGGC
58762733 GA
1 GA
58762735 TCATTGGGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.34, C:0.08, G:0.47, T:0.11
Consensus pattern (18 bp):
GAAGAAGAAGGTGCTGGC
Found at i:58767149 original size:12 final size:13
Alignment explanation
Indices: 58767124--58767150 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
58767114 CGATGCCTGC
58767124 AAGTTAGAAAAAA
1 AAGTTAGAAAAAA
58767137 AAGTTAGAAAAAA
1 AAGTTAGAAAAAA
58767150 A
1 A
58767151 TTCTTACTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.70, C:0.00, G:0.15, T:0.15
Consensus pattern (13 bp):
AAGTTAGAAAAAA
Found at i:58768175 original size:5 final size:5
Alignment explanation
Indices: 58768165--58768345 Score: 70
Period size: 5 Copynumber: 34.8 Consensus size: 5
58768155 AAAAAAATAC
* * *
58768165 CTTTT CTTTT CTTTT CTTTT CTTTTT CCTTC CTTCCCT CTTCTT CTTCTT
1 CTTTT CTTTT CTTTT CTTTT C-TTTT CTTTT CTT--TT CTT-TT CTT-TT
* * * *
58768215 CTTTT -TTTCT CTTCT CCTTT CTTTTT CTTTA CTTCTTT CTTTCT TTTTT
1 CTTTT CTTT-T CTTTT CTTTT C-TTTT CTTTT C-T-TTT CTTT-T CTTTT
* *
58768264 CTTATC CTTTC CTTTT CTTCTT C-TTT C-TTT C-TTT CTTTT -TTTCT
1 CTT-TT CTTTT CTTTT CTT-TT CTTTT CTTTT CTTTT CTTTT CTTT-T
* * * *
58768308 CTTCTC CTTTC CTTTT CTTTC CTTCT -TTTT C-TTT CTTT
1 CTT-TT CTTTT CTTTT CTTTT CTTTT CTTTT CTTTT CTTT
58768346 CATCTCCTTT
Statistics
Matches: 137, Mismatches: 22, Indels: 34
0.71 0.11 0.18
Matches are distributed among these distances:
4 24 0.18
5 66 0.48
6 40 0.29
7 7 0.05
ACGTcount: A:0.01, C:0.29, G:0.00, T:0.70
Consensus pattern (5 bp):
CTTTT
Found at i:58768254 original size:4 final size:4
Alignment explanation
Indices: 58768213--58768384 Score: 112
Period size: 4 Copynumber: 42.8 Consensus size: 4
58768203 CTTCTTCTTC
* *
58768213 TTCT TTTT TTCT CTTC- TCCT TTC- TT-T TTCT TTAC- TTCT TTCT TTCT
1 TTCT TTCT TTCT -TTCT TTCT TTCT TTCT TTCT TT-CT TTCT TTCT TTCT
*
58768259 TT-T TTCT TATCCT TTCCT TT-T CTTC- TTCT TTCT TTCT TTCT TTTT
1 TTCT TTCT T-T-CT TT-CT TTCT -TTCT TTCT TTCT TTCT TTCT TTCT
* *
58768304 TTCT CTTC- TCCT TTCCTT TTCT TTCC TTC- TT-T TTCT TTCT TTCAT
1 TTCT -TTCT TTCT TT-C-T TTCT TTCT TTCT TTCT TTCT TTCT TTC-T
* *
58768349 CTCCT TTCT TTCT TTTT TTCT TTCT TTCT TTCT TTC
1 -TTCT TTCT TTCT TTCT TTCT TTCT TTCT TTCT TTC
58768385 CCTCTCCTTC
Statistics
Matches: 135, Mismatches: 13, Indels: 40
0.72 0.07 0.21
Matches are distributed among these distances:
3 20 0.15
4 89 0.66
5 18 0.13
6 8 0.06
ACGTcount: A:0.02, C:0.27, G:0.00, T:0.71
Consensus pattern (4 bp):
TTCT
Found at i:58768258 original size:34 final size:33
Alignment explanation
Indices: 58768202--58768344 Score: 88
Period size: 33 Copynumber: 4.4 Consensus size: 33
58768192 CTTCCTTCCC
* *
58768202 TCTTCTTC-TTCTTCTTTTTTTCTCTTCTCCTT-
1 TCTTTTTCTTTCTTCTTTCTTTCT-TTCTCCTTA
* *
58768234 TCTTTTTCTTTACTTCTTTCTTTCTTTTTTCTTA
1 TCTTTTTCTTT-CTTCTTTCTTTCTTTCTCCTTA
* * *
58768268 TCCTTTCCTTTTCTTC-TTCTTTCTTTCT--TTC
1 TCTTTTTC-TTTCTTCTTTCTTTCTTTCTCCTTA
* *
58768299 TTTTTTTCTCTTCTCCTTTCCTTT-TCTT-TCC-T-
1 TCTTTTTCT-TTCTTCTTT-CTTTCT-TTCTCCTTA
58768331 TCTTTTTCTTTCTT
1 TCTTTTTCTTTCTT
58768345 TCATCTCCTT
Statistics
Matches: 87, Mismatches: 14, Indels: 21
0.71 0.11 0.17
Matches are distributed among these distances:
30 1 0.01
31 16 0.18
32 19 0.22
33 26 0.30
34 22 0.25
35 3 0.03
ACGTcount: A:0.01, C:0.28, G:0.00, T:0.71
Consensus pattern (33 bp):
TCTTTTTCTTTCTTCTTTCTTTCTTTCTCCTTA
Found at i:58768300 original size:49 final size:48
Alignment explanation
Indices: 58768233--58768346 Score: 142
Period size: 49 Copynumber: 2.4 Consensus size: 48
58768223 CTCTTCTCCT
* * *
58768233 TTCTTTTTCTTTAC-TTCTTTCTTTCT-TTTTTCTTATCCTTTCCTTTTC
1 TTCTTTTTCTTT-CTTTCTTTCTTTCTCTTCTCCTT-TCCTTTCCTTTCC
* *
58768281 TTCTTCTTTCTTTCTTTCTTTTTTTCTCTTCTCCTTTCCTTTTCTTTCC
1 TTCTT-TTTCTTTCTTTCTTTCTTTCTCTTCTCCTTTCCTTTCCTTTCC
58768330 TTCTTTTTCTTTCTTTC
1 TTCTTTTTCTTTCTTTC
58768347 ATCTCCTTTC
Statistics
Matches: 58, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
48 18 0.31
49 34 0.59
50 6 0.10
ACGTcount: A:0.02, C:0.27, G:0.00, T:0.71
Consensus pattern (48 bp):
TTCTTTTTCTTTCTTTCTTTCTTTCTCTTCTCCTTTCCTTTCCTTTCC
Found at i:58768317 original size:44 final size:42
Alignment explanation
Indices: 58768204--58768393 Score: 197
Period size: 39 Copynumber: 4.8 Consensus size: 42
58768194 TCCTTCCCTC
*
58768204 TTCTTC-TTC-TTCTTTTTTTCTCTTCTCCTTTCTTTTTCTT
1 TTCTTCTTTCTTTCTTTTTTTCTCTTCTCCTTTCCTTTTCTT
* *
58768244 TACTTCTTTCTTTC--TTTTT-TCTTATCCTTTCCTTTTCTT
1 TTCTTCTTTCTTTCTTTTTTTCTCTTCTCCTTTCCTTTTCTT
58768283 CTTCTTTCTTTCTTTCTTTTTTTCTCTTCTCCTTTCCTTTTCTT
1 -TTC-TTCTTTCTTTCTTTTTTTCTCTTCTCCTTTCCTTTTCTT
* * *
58768327 TCCTTC-TT-TTTC-TTTCTT-TCATCTCCTTT-C-TTTCTT
1 TTCTTCTTTCTTTCTTTTTTTCTCTTCTCCTTTCCTTTTCTT
* * *
58768363 TTTTTCTTTCTTTCTTTCTTTC-CCTCTCCTT
1 TTCTTCTTTCTTTCTTTTTTTCTCTTCTCCTT
58768394 CTGGTCCCCC
Statistics
Matches: 126, Mismatches: 13, Indels: 23
0.78 0.08 0.14
Matches are distributed among these distances:
36 10 0.08
37 3 0.02
38 14 0.11
39 35 0.28
40 16 0.13
41 16 0.13
42 6 0.05
43 7 0.06
44 19 0.15
ACGTcount: A:0.02, C:0.29, G:0.00, T:0.69
Consensus pattern (42 bp):
TTCTTCTTTCTTTCTTTTTTTCTCTTCTCCTTTCCTTTTCTT
Found at i:58768464 original size:27 final size:27
Alignment explanation
Indices: 58768426--58768495 Score: 115
Period size: 27 Copynumber: 2.6 Consensus size: 27
58768416 CCCCCATAAA
58768426 CATTGGTGCCGCCAATGG-TATTGGCAC
1 CATTGGTGCCGCCAATGGCTA-TGGCAC
58768453 CATTGGTGCCGCCAATGGCTATGGCAC
1 CATTGGTGCCGCCAATGGCTATGGCAC
*
58768480 CTTTGGTGCCGCCAAT
1 CATTGGTGCCGCCAAT
58768496 CCCATTGGCG
Statistics
Matches: 41, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
27 39 0.95
28 2 0.05
ACGTcount: A:0.17, C:0.29, G:0.29, T:0.26
Consensus pattern (27 bp):
CATTGGTGCCGCCAATGGCTATGGCAC
Found at i:58768504 original size:27 final size:27
Alignment explanation
Indices: 58768426--58768504 Score: 106
Period size: 27 Copynumber: 2.9 Consensus size: 27
58768416 CCCCCATAAA
*
58768426 CATTGGTGCCGCCAATGGTATTGGCAC
1 CATTGGTGCCGCCAATGGCATTGGCAC
58768453 CATTGGTGCCGCCAATGGC-TATGGCAC
1 CATTGGTGCCGCCAATGGCAT-TGGCAC
* **
58768480 CTTTGGTGCCGCCAATCCCATTGGC
1 CATTGGTGCCGCCAATGGCATTGGC
58768505 GTGACCAAGG
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
26 1 0.02
27 44 0.96
28 1 0.02
ACGTcount: A:0.16, C:0.30, G:0.28, T:0.25
Consensus pattern (27 bp):
CATTGGTGCCGCCAATGGCATTGGCAC
Found at i:58768616 original size:24 final size:23
Alignment explanation
Indices: 58768570--58768615 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
58768560 TTTGGTTTTT
*
58768570 TATATATTTTGGTAAATAAAAAA
1 TATATAATTTGGTAAATAAAAAA
58768593 TATATAATTTGGTAAATAAAAAA
1 TATATAATTTGGTAAATAAAAAA
58768616 AAGTTATAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.54, C:0.00, G:0.09, T:0.37
Consensus pattern (23 bp):
TATATAATTTGGTAAATAAAAAA
Found at i:58768629 original size:27 final size:24
Alignment explanation
Indices: 58768570--58768635 Score: 71
Period size: 23 Copynumber: 2.6 Consensus size: 24
58768560 TTTGGTTTTT
*
58768570 TATATATTTTGGTAAATAAAAAATA
1 TATA-ATTTTGGTAAATAAAAAAAA
58768595 TATAA-TTTGGTAAATAAAAAAAA
1 TATAATTTTGGTAAATAAAAAAAA
58768618 GTTATAACATTTTGGTAA
1 --TAT-A-ATTTTGGTAA
58768636 TTTTTTATTT
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
23 17 0.49
24 1 0.03
25 7 0.20
26 1 0.03
27 1 0.03
28 8 0.23
ACGTcount: A:0.50, C:0.02, G:0.11, T:0.38
Consensus pattern (24 bp):
TATAATTTTGGTAAATAAAAAAAA
Found at i:58769626 original size:4 final size:4
Alignment explanation
Indices: 58769617--58769651 Score: 61
Period size: 4 Copynumber: 8.8 Consensus size: 4
58769607 ATGACGGCAT
*
58769617 GTAG GTAG GTAG GTAG GTAG GTAG GTAG GCAG GTA
1 GTAG GTAG GTAG GTAG GTAG GTAG GTAG GTAG GTA
58769652 CAACACTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.26, C:0.03, G:0.49, T:0.23
Consensus pattern (4 bp):
GTAG
Found at i:58770896 original size:13 final size:13
Alignment explanation
Indices: 58770878--58770902 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
58770868 TTTTACTTTG
58770878 TTTTAATTTTAAT
1 TTTTAATTTTAAT
58770891 TTTTAATTTTAA
1 TTTTAATTTTAA
58770903 AATCTTTTTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (13 bp):
TTTTAATTTTAAT
Found at i:58772908 original size:21 final size:21
Alignment explanation
Indices: 58772857--58772963 Score: 96
Period size: 21 Copynumber: 5.0 Consensus size: 21
58772847 CAAATGTATA
* *
58772857 TTTTAAATGTTTTATAATATTAT
1 TTTTTAATATTTTA-AATATT-T
58772880 TTTTTAAATATTTTAAATA-TT
1 TTTTT-AATATTTTAAATATTT
*
58772901 TTTCTAA-A-TTTAAATATTAT
1 TTTTTAATATTTTAAATATT-T
58772921 TTTTTAAT-TTTTAAATATTAT
1 TTTTTAATATTTTAAATATT-T
*
58772942 TTTTTAATATTATAAAATATTT
1 TTTTTAATATT-TTAAATATTT
58772964 AAAATATATT
Statistics
Matches: 72, Mismatches: 5, Indels: 15
0.78 0.05 0.16
Matches are distributed among these distances:
18 8 0.11
19 2 0.03
20 9 0.12
21 25 0.35
22 4 0.06
23 16 0.22
24 8 0.11
ACGTcount: A:0.37, C:0.01, G:0.01, T:0.61
Consensus pattern (21 bp):
TTTTTAATATTTTAAATATTT
Found at i:58772963 original size:41 final size:40
Alignment explanation
Indices: 58772868--58772963 Score: 99
Period size: 41 Copynumber: 2.3 Consensus size: 40
58772858 TTTAAATGTT
*
58772868 TTATAATATTATTTTTTAAATATTTTAAATATTTTTCTAAA
1 TTATAA-AATATTTTTTAAATATTTTAAATATTTTTCTAAA
*
58772909 TT-TAAATATTATTTTTT-AAT-TTTTAAATATTATTTTTTAATA
1 TTATAAA-A-TATTTTTTAAATATTTTAAATA-T-TTTTCTAA-A
58772951 TTATAAAATATTT
1 TTATAAAATATTT
58772964 AAAATATATT
Statistics
Matches: 47, Mismatches: 2, Indels: 12
0.77 0.03 0.20
Matches are distributed among these distances:
39 10 0.21
40 7 0.15
41 22 0.47
42 4 0.09
43 4 0.09
ACGTcount: A:0.39, C:0.01, G:0.00, T:0.60
Consensus pattern (40 bp):
TTATAAAATATTTTTTAAATATTTTAAATATTTTTCTAAA
Found at i:58777329 original size:20 final size:20
Alignment explanation
Indices: 58777304--58777342 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
58777294 ATGTATTTAA
58777304 CATTATTTATAAATATATTT
1 CATTATTTATAAATATATTT
58777324 CATTATTTATAAATATATT
1 CATTATTTATAAATATATT
58777343 ATTTGAAAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.54
Consensus pattern (20 bp):
CATTATTTATAAATATATTT
Found at i:58779562 original size:17 final size:17
Alignment explanation
Indices: 58779532--58779584 Score: 54
Period size: 17 Copynumber: 3.2 Consensus size: 17
58779522 TAAACAATGT
58779532 TAATAATAAATTTAAAA
1 TAATAATAAATTTAAAA
* *
58779549 TAATATTAATTTTAAAA
1 TAATAATAAATTTAAAA
* * *
58779566 TTA-AATACATTAAAAA
1 TAATAATAAATTTAAAA
58779582 TAA
1 TAA
58779585 GGGAATAATA
Statistics
Matches: 28, Mismatches: 8, Indels: 1
0.76 0.22 0.03
Matches are distributed among these distances:
16 11 0.39
17 17 0.61
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (17 bp):
TAATAATAAATTTAAAA
Found at i:58779564 original size:23 final size:23
Alignment explanation
Indices: 58779491--58779558 Score: 66
Period size: 23 Copynumber: 3.0 Consensus size: 23
58779481 AATAATACAT
* * * *
58779491 ATAAAATTAAAATAATAATATACA
1 ATAAATTTAAAACAATATTA-ATA
*
58779515 ATAAATTT-AAACAATGTTAATA
1 ATAAATTTAAAACAATATTAATA
*
58779537 ATAAATTTAAAATAATATTAAT
1 ATAAATTTAAAACAATATTAAT
58779559 TTTAAAATTA
Statistics
Matches: 36, Mismatches: 7, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
22 10 0.28
23 19 0.53
24 7 0.19
ACGTcount: A:0.60, C:0.03, G:0.01, T:0.35
Consensus pattern (23 bp):
ATAAATTTAAAACAATATTAATA
Found at i:58785817 original size:15 final size:15
Alignment explanation
Indices: 58785797--58785904 Score: 78
Period size: 15 Copynumber: 7.2 Consensus size: 15
58785787 TTTATGGAAA
58785797 ATCAAAGATATGGGT
1 ATCAAAGATATGGGT
* * **
58785812 ATCAAATA-ATAGAA
1 ATCAAAGATATGGGT
58785826 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
* **
58785842 ATCAAATAT-TGGAA
1 ATCAAAGATATGGGT
58785856 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
* **
58785872 ATCAAATAT-TGGAA
1 ATCAAAGATATGGGT
58785886 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
58785902 ATC
1 ATC
58785905 GAGATATTGG
Statistics
Matches: 67, Mismatches: 20, Indels: 12
0.68 0.20 0.12
Matches are distributed among these distances:
14 12 0.18
15 43 0.64
16 12 0.18
ACGTcount: A:0.44, C:0.07, G:0.22, T:0.26
Consensus pattern (15 bp):
ATCAAAGATATGGGT
Found at i:58785834 original size:30 final size:30
Alignment explanation
Indices: 58785791--58785914 Score: 203
Period size: 30 Copynumber: 4.1 Consensus size: 30
58785781 TCCATATTTA
* *
58785791 TGGAAAATCAAAGATATGGGTATCAAATAA
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
*
58785821 TAGAAAGTCAAAGATATGGGTATCAAATAT
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
58785851 TGGAAAGTCAAAGATATGGGTATCAAATAT
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
*
58785881 TGGAAAGTCAAAGATATGGGTATCGAGATAT
1 TGGAAAGTCAAAGATATGGGTATC-AAATAT
58785912 TGG
1 TGG
58785915 CATAATAAAA
Statistics
Matches: 88, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
30 80 0.91
31 8 0.09
ACGTcount: A:0.44, C:0.06, G:0.24, T:0.26
Consensus pattern (30 bp):
TGGAAAGTCAAAGATATGGGTATCAAATAT
Found at i:58790503 original size:15 final size:15
Alignment explanation
Indices: 58790483--58790590 Score: 69
Period size: 15 Copynumber: 7.2 Consensus size: 15
58790473 TTTATGGAAA
58790483 ATCAAAGATATGGGT
1 ATCAAAGATATGGGT
* * **
58790498 ATCAAATA-ATAGAA
1 ATCAAAGATATGGGT
58790512 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
* ***
58790528 ATCAAATAT-TGAAA
1 ATCAAAGATATGGGT
58790542 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
* **
58790558 ATCAAATAT-TGGAA
1 ATCAAAGATATGGGT
58790572 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
58790588 ATC
1 ATC
58790591 GAGATATTGG
Statistics
Matches: 65, Mismatches: 22, Indels: 12
0.66 0.22 0.12
Matches are distributed among these distances:
14 11 0.17
15 43 0.66
16 11 0.17
ACGTcount: A:0.45, C:0.07, G:0.21, T:0.26
Consensus pattern (15 bp):
ATCAAAGATATGGGT
Found at i:58790520 original size:30 final size:30
Alignment explanation
Indices: 58790479--58790590 Score: 172
Period size: 30 Copynumber: 3.7 Consensus size: 30
58790469 CATATTTATG
*
58790479 GAAAATCAAAGATATGGGTATCAAATAATA
1 GAAAGTCAAAGATATGGGTATCAAATAATA
*
58790509 GAAAGTCAAAGATATGGGTATCAAAT-ATT
1 GAAAGTCAAAGATATGGGTATCAAATAATA
* *
58790538 GAAAAGTCAAAGATATGGGTATCAAATATTG
1 G-AAAGTCAAAGATATGGGTATCAAATAATA
58790569 GAAAGTCAAAGATATGGGTATC
1 GAAAGTCAAAGATATGGGTATC
58790591 GAGATATTGG
Statistics
Matches: 76, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
29 3 0.04
30 71 0.93
31 2 0.03
ACGTcount: A:0.46, C:0.07, G:0.21, T:0.25
Consensus pattern (30 bp):
GAAAGTCAAAGATATGGGTATCAAATAATA
Found at i:58790552 original size:60 final size:60
Alignment explanation
Indices: 58790479--58790599 Score: 199
Period size: 60 Copynumber: 2.0 Consensus size: 60
58790469 CATATTTATG
58790479 GAAAATCAAAGATATGGGTATCAAATAATAGAAAGTCAAAGATATGGGTATC-AAATATT
1 GAAAATCAAAGATATGGGTATCAAATAATAGAAAGTCAAAGATATGGGTATCGAAATATT
* * *
58790538 GAAAAGTCAAAGATATGGGTATCAAATATTGGAAAGTCAAAGATATGGGTATCGAGATATT
1 GAAAA-TCAAAGATATGGGTATCAAATAATAGAAAGTCAAAGATATGGGTATCGAAATATT
58790599 G
1 G
58790600 GCATAATAAA
Statistics
Matches: 57, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
59 5 0.09
60 45 0.79
61 7 0.12
ACGTcount: A:0.45, C:0.07, G:0.22, T:0.26
Consensus pattern (60 bp):
GAAAATCAAAGATATGGGTATCAAATAATAGAAAGTCAAAGATATGGGTATCGAAATATT
Found at i:58793359 original size:13 final size:13
Alignment explanation
Indices: 58793341--58793365 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
58793331 TTTTACTTTG
58793341 TTTTAATTTTAAT
1 TTTTAATTTTAAT
58793354 TTTTAATTTTAA
1 TTTTAATTTTAA
58793366 AATCTTTTTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (13 bp):
TTTTAATTTTAAT
Found at i:58795430 original size:20 final size:22
Alignment explanation
Indices: 58795322--58795550 Score: 118
Period size: 21 Copynumber: 10.3 Consensus size: 22
58795312 CAAATGTATA
* *
58795322 TTTTAAATGTTTTATAATATTAT
1 TTTTTAATATTTTA-AATATTAT
*
58795345 TTTTTAAAAATTTTAAATA-TAT
1 TTTTT-AATATTTTAAATATTAT
58795367 TTTTCTAA-A-TTTAAATATTAT
1 TTTT-TAATATTTTAAATATTAT
58795388 TTTTTAAT-TTTTAAATATTAT
1 TTTTTAATATTTTAAATATTAT
* *
58795409 TTTTTAATATTATAAAATATTTAA
1 TTTTTAATATT-TTAAATA-TTAT
** * * * *
58795433 AATATATTATTTTTAAAAATATGAC
1 TTTTTAATA-TTTT-AA-ATATTAT
* * *
58795458 CTTTCAA-A-TTT-ATTATT-T
1 TTTTTAATATTTTAAATATTAT
58795476 GTTTTATAATATTTTAAATA-TAT
1 -TTTT-TAATATTTTAAATATTAT
* * *
58795499 ATTTAAAAATTTTTAAATA-TAT
1 TTTTTAATA-TTTTAAATATTAT
*
58795521 TTTTTAAAATTTTAAATATATAT
1 TTTTTAATATTTTAAATAT-TAT
58795544 TTTTTAA
1 TTTTTAA
58795551 ATTATTTTTA
Statistics
Matches: 158, Mismatches: 28, Indels: 40
0.70 0.12 0.18
Matches are distributed among these distances:
19 6 0.04
20 14 0.09
21 41 0.26
22 40 0.25
23 29 0.18
24 17 0.11
25 8 0.05
26 3 0.02
ACGTcount: A:0.41, C:0.02, G:0.01, T:0.56
Consensus pattern (22 bp):
TTTTTAATATTTTAAATATTAT
Found at i:58795527 original size:23 final size:23
Alignment explanation
Indices: 58795487--58795568 Score: 96
Period size: 22 Copynumber: 3.6 Consensus size: 23
58795477 TTTTATAATA
*
58795487 TTTTAAATATA-TATTTAAAAAT
1 TTTTAAATATATTTTTTAAAAAT
58795509 TTTTAAATATATTTTTT-AAAAT
1 TTTTAAATATATTTTTTAAAAAT
* *
58795531 TTTAAATATATATTTTTTAAATTAT
1 TTTTAA-ATATATTTTTTAAA-AAT
*
58795556 TTTTAAAGATATT
1 TTTTAAATATATT
58795569 CAAACATTTT
Statistics
Matches: 51, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
22 21 0.41
23 15 0.29
24 8 0.16
25 7 0.14
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.56
Consensus pattern (23 bp):
TTTTAAATATATTTTTTAAAAAT
Found at i:58795553 original size:22 final size:22
Alignment explanation
Indices: 58795477--58795546 Score: 90
Period size: 22 Copynumber: 3.2 Consensus size: 22
58795467 TTATTATTTG
*
58795477 TTTTATAATATTTTAAATATATA
1 TTTTA-AAAATTTTAAATATATA
58795500 -TTTAAAAATTTTTAAATATAT-
1 TTTTAAAAA-TTTTAAATATATA
*
58795521 TTTTTAAAATTTTAAATATATA
1 TTTTAAAAATTTTAAATATATA
58795543 TTTT
1 TTTT
58795547 TTAAATTATT
Statistics
Matches: 42, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
21 15 0.36
22 27 0.64
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (22 bp):
TTTTAAAAATTTTAAATATATA
Found at i:58798711 original size:2 final size:2
Alignment explanation
Indices: 58798704--58798735 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
58798694 CATTACCAGT
58798704 TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
58798736 GCTATAAAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:58799423 original size:43 final size:43
Alignment explanation
Indices: 58799376--58799475 Score: 139
Period size: 43 Copynumber: 2.3 Consensus size: 43
58799366 GACAGGGTCA
58799376 TACACATAAACACAAGTCGATGCCAACATCCCAGACGTGGCCT
1 TACACATAAACACAAGTCGATGCCAACATCCCAGACGTGGCCT
* * * * *
58799419 TACACGTAATCACAAGTCGATGTCAACGTCCCAGACGTGGTCT
1 TACACATAAACACAAGTCGATGCCAACATCCCAGACGTGGCCT
58799462 TACACA-AAATCACA
1 TACACATAAA-CACA
58799476 TATTGGAAAT
Statistics
Matches: 49, Mismatches: 7, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
42 2 0.04
43 47 0.96
ACGTcount: A:0.35, C:0.30, G:0.16, T:0.19
Consensus pattern (43 bp):
TACACATAAACACAAGTCGATGCCAACATCCCAGACGTGGCCT
Found at i:58805929 original size:21 final size:20
Alignment explanation
Indices: 58805882--58805926 Score: 74
Period size: 19 Copynumber: 2.2 Consensus size: 20
58805872 CAAACCCCAC
58805882 CTTCTTAAATAGAATGTTCTT
1 CTTCTTAAATA-AATGTTCTT
58805903 CTTCTTAAAT-AATGTTCTT
1 CTTCTTAAATAAATGTTCTT
58805922 CTTCT
1 CTTCT
58805927 CTTTTTTTCT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 14 0.58
21 10 0.42
ACGTcount: A:0.24, C:0.18, G:0.07, T:0.51
Consensus pattern (20 bp):
CTTCTTAAATAAATGTTCTT
Found at i:58806324 original size:9 final size:9
Alignment explanation
Indices: 58806310--58806347 Score: 58
Period size: 9 Copynumber: 4.2 Consensus size: 9
58806300 AAATATAATT
58806310 TTCGGGTAA
1 TTCGGGTAA
58806319 TTCGGGTAA
1 TTCGGGTAA
*
58806328 TTCGGTTAA
1 TTCGGGTAA
*
58806337 TTCGGTTAA
1 TTCGGGTAA
58806346 TT
1 TT
58806348 TTTAACCAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
9 28 1.00
ACGTcount: A:0.21, C:0.11, G:0.26, T:0.42
Consensus pattern (9 bp):
TTCGGGTAA
Found at i:58806654 original size:15 final size:16
Alignment explanation
Indices: 58806626--58806655 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
58806616 CAATTTTCAC
58806626 TTTTTTAAATAAAATA
1 TTTTTTAAATAAAATA
58806642 TTTTTTAAA-AAAAT
1 TTTTTTAAATAAAAT
58806656 TTAAATAGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
TTTTTTAAATAAAATA
Found at i:58806727 original size:13 final size:13
Alignment explanation
Indices: 58806692--58806750 Score: 82
Period size: 13 Copynumber: 4.2 Consensus size: 13
58806682 GAATATCTTT
58806692 AAAAATAATTTTA
1 AAAAATAATTTTA
58806705 AAAATCATAATTTTA
1 AAAA--ATAATTTTA
58806720 AAAAATAATTTTA
1 AAAAATAATTTTA
58806733 AAAAATATATATTTA
1 AAAAATA-AT-TTTA
58806748 AAA
1 AAA
58806751 TTAAAAATTA
Statistics
Matches: 42, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
13 20 0.48
14 2 0.05
15 20 0.48
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (13 bp):
AAAAATAATTTTA
Found at i:58806747 original size:28 final size:28
Alignment explanation
Indices: 58806684--58806750 Score: 86
Period size: 28 Copynumber: 2.4 Consensus size: 28
58806674 AAACGTTTGA
*
58806684 ATATCTTT-AAAAATAATTTTAAAAATC
1 ATATATTTAAAAAATAATTTTAAAAATC
58806711 ATA-ATTTTAAAAAATAATTTTAAAAAAT-
1 ATATA-TTTAAAAAATAATTTT-AAAAATC
58806739 ATATATTTAAAA
1 ATATATTTAAAA
58806751 TTAAAAATTA
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
27 6 0.17
28 22 0.63
29 7 0.20
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (28 bp):
ATATATTTAAAAAATAATTTTAAAAATC
Found at i:58806762 original size:19 final size:20
Alignment explanation
Indices: 58806733--58806771 Score: 71
Period size: 19 Copynumber: 2.0 Consensus size: 20
58806723 AATAATTTTA
58806733 AAAAATATATATTTAAAATT
1 AAAAATATATATTTAAAATT
58806753 AAAAAT-TATATTTAAAATT
1 AAAAATATATATTTAAAATT
58806772 TTTAAAATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 13 0.68
20 6 0.32
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (20 bp):
AAAAATATATATTTAAAATT
Found at i:58806769 original size:13 final size:14
Alignment explanation
Indices: 58806684--58806750 Score: 59
Period size: 15 Copynumber: 4.8 Consensus size: 14
58806674 AAACGTTTGA
58806684 ATATCTTTAAAAA-T
1 ATAT-TTTAAAAATT
*
58806698 A-ATTTTAAAAATC
1 ATATTTTAAAAATT
*
58806711 ATAATTTTAAAAAAT
1 AT-ATTTTAAAAATT
*
58806726 A-ATTTTAAAAAAT
1 ATATTTTAAAAATT
58806739 ATATATTTAAAA
1 ATAT-TTTAAAA
58806751 TTAAAAATTA
Statistics
Matches: 45, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
12 8 0.18
13 16 0.36
14 3 0.07
15 18 0.40
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (14 bp):
ATATTTTAAAAATT
Found at i:58806778 original size:21 final size:21
Alignment explanation
Indices: 58806734--58806802 Score: 63
Period size: 19 Copynumber: 3.2 Consensus size: 21
58806724 ATAATTTTAA
*
58806734 AAAATATATATTTAAAA--TTA
1 AAAAT-TATATTTAAAATTTTT
58806754 AAAATTATATTTAAAATTTTT
1 AAAATTATATTTAAAATTTTT
*
58806775 AAAA-TATGCATTTAAAATATTAT
1 AAAATTAT--ATTTAAAAT-TTTT
58806798 AAAAT
1 AAAAT
58806803 AAATAATAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
19 11 0.27
20 8 0.20
21 6 0.15
22 9 0.22
23 7 0.17
ACGTcount: A:0.55, C:0.01, G:0.01, T:0.42
Consensus pattern (21 bp):
AAAATTATATTTAAAATTTTT
Found at i:58806978 original size:25 final size:23
Alignment explanation
Indices: 58806961--58807006 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 23
58806951 TAAAACCAAT
*
58806961 AATAAATAAA-ACAAATAAAATA
1 AATAAATAAAGACAAATAAAAAA
58806983 AATAAATAAAGGACAAATAAAAAA
1 AATAAATAAA-GACAAATAAAAAA
58807007 CTTAAAAAGT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 10 0.48
24 11 0.52
ACGTcount: A:0.76, C:0.04, G:0.04, T:0.15
Consensus pattern (23 bp):
AATAAATAAAGACAAATAAAAAA
Found at i:58809665 original size:114 final size:111
Alignment explanation
Indices: 58809352--58810018 Score: 581
Period size: 114 Copynumber: 5.9 Consensus size: 111
58809342 TTACCACAAT
* * * * * *
58809352 GCGCCGCGAAATCTCTTAACCAAAACGC-TGTGTTTTCGTCTTGATGTATCTTAAAATTAGTGGC
1 GCGCCGCAAAATATCTTAA-CAAAACGCAT-AGTTTTGGTCTTGATGTAT-ATAGAATTAGTGGC
* * ** * * *
58809416 GTTTACGCG-AAACGCCATTAAAGGACAGTAATAGCGGCGCTTTCTGGAA
63 GCTTATG-GTAAACGCCGCTAAAGAATAGTAATAGCGGCGCTTTGTGGAA
* * * * *
58809465 ACGCCGCAAAATAGCTTAACCAAAACGCAGAG-TTTGGTCTTGAGGTATCTTAGAATTAGTGGCG
1 GCGCCGCAAAATATCTTAA-CAAAACGCATAGTTTTGGTCTTGATGTAT-ATAGAATTAGTGGCG
* * * * * * *
58809529 TTTATAGGAAAACGCCGTTAAAGTACAGTAATAGCGACGCTTTATGGAA
64 CTTAT-GGTAAACGCCGCTAAAGAATAGTAATAGCGGCGCTTTGTGGAA
* * * * * *
58809578 GCGCCGCAAACTATCTTAAGCGAAACACATCGTTTTGGTCTTGATTTATACTAGAACTAGTGGCG
1 GCGCCGCAAAATATCTTAA-CAAAACGCATAGTTTTGGTCTTGATGTATA-TAGAATTAGTGGCG
* * * **
58809643 CATATGGTCAAACGCCGCTAAAGAATAGTATTAGCGGCGATTTGTAGCTA
64 CTTATGGT-AAACGCCGCTAAAGAATAGTAATAGCGGCGCTTTGT-GGAA
* ** * * *
58809693 GCGCCACAAAATATCTTAACAAAAACGCAGCGTTTTGATCTTAATGTATATAAAATTAGTGGCGC
1 GCGCCGCAAAATATCTTAAC-AAAACGCATAGTTTTGGTCTTGATGTATATAGAATTAGTGGCGC
* *
58809758 TTACGGTAAACCGCCGCTAAAGAATATTAATAGCGGCGCTTTGTGAGAA
65 TTATGGTAAA-CGCCGCTAAAGAATAGTAATAGCGGCGCTTTGTG-GAA
* * *
58809807 GCGCCGCAAAATATCTTAACCAAAACGCATAATTTTGGCCTCGATGTATAGTAGAATTAGTGGCG
1 GCGCCGCAAAATATCTTAA-CAAAACGCATAGTTTTGGTCTTGATGTATA-TAGAATTAGTGGCG
* * * * **
58809872 CTTA--GTGAAACGCCGTTAAAGCATAGTATTAGCGGCGATTTGTAGCTA
64 CTTATGGT-AAACGCCGCTAAAGAATAGTAATAGCGGCGCTTTGT-GGAA
* * *
58809920 GCGCCGCAAAATATCTTAACAAAAACGCAGT-GTTTTGATCTTAATGTATATAAAATTAGTGGCG
1 GCGCCGCAAAATATCTTAAC-AAAACGCA-TAGTTTTGGTCTTGATGTATATAGAATTAGTGGCG
* *
58809984 CTTACGGTAAACCGCCGCTAAAGAATATTAATAGC
64 CTTATGGTAAA-CGCCGCTAAAGAATAGTAATAGC
58810019 AGCAAAATAT
Statistics
Matches: 454, Mismatches: 81, Indels: 37
0.79 0.14 0.06
Matches are distributed among these distances:
112 52 0.11
113 167 0.37
114 175 0.39
115 60 0.13
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.27
Consensus pattern (111 bp):
GCGCCGCAAAATATCTTAACAAAACGCATAGTTTTGGTCTTGATGTATATAGAATTAGTGGCGCT
TATGGTAAACGCCGCTAAAGAATAGTAATAGCGGCGCTTTGTGGAA
Found at i:58809920 original size:227 final size:226
Alignment explanation
Indices: 58809352--58810249 Score: 843
Period size: 227 Copynumber: 4.0 Consensus size: 226
58809342 TTACCACAAT
* * ** * * * ** *
58809352 GCGCCGCGAAATCTCTTAACCAAAACGC-TGTGTTTTCGTCTTGATGTATCTTAAAATTAGTGGC
1 GCGCCGCAAAATATCTTAACCAAAACGCAT-AATTTTGGCCTCGATGTATAGTAGAATTAGTGGC
* * * * * * * * * * * *
58809416 GTTTACGCGAAACGCCATTAAAGGACAGTAATAGCGGCGCTTTCT-GGAAACGCCGCAAAATAGC
65 GCTTA-GTGAAACGCCGTTAAAGCATAGTATTAGCGGCGATTTGTAGCAAGCGCCACAAAATATC
* * * * * * * * *
58809480 TTAACCAAAACGCAGAG-TTTGGTCTTGAGGTATCTTAGAATTAGTGGCGTTTATAGG-AAAACG
129 TTAACAAAAACGCAGCGTTTTGATCTTAATGTAT-ATAAAATTAGTGGCGCTTA-CGGTAAAACG
* * * * *
58809543 CCGTTAAAGTACAGTAATAGCGACGCTTTATGGAA
192 CCGCTAAAGAATAGTAATAGCGGCGCTTTGTGGAA
* * * * ** * * * * *
58809578 GCGCCGCAAACTATCTTAAGCGAAACACATCGTTTTGGTCTTGATTTATACTAGAACTAGTGGCG
1 GCGCCGCAAAATATCTTAACCAAAACGCATAATTTTGGCCTCGATGTATAGTAGAATTAGTGGCG
* * * * *
58809643 CATATGGTCAAACGCCGCTAAAGAATAGTATTAGCGGCGATTTGTAGCTAGCGCCACAAAATATC
66 C-T-TAGTGAAACGCCGTTAAAGCATAGTATTAGCGGCGATTTGTAGCAAGCGCCACAAAATATC
*
58809708 TTAACAAAAACGCAGCGTTTTGATCTTAATGTATATAAAATTAGTGGCGCTTACGGTAAACCGCC
129 TTAACAAAAACGCAGCGTTTTGATCTTAATGTATATAAAATTAGTGGCGCTTACGGTAAAACGCC
*
58809773 GCTAAAGAATATTAATAGCGGCGCTTTGTGAGAA
194 GCTAAAGAATAGTAATAGCGGCGCTTTGTG-GAA
58809807 GCGCCGCAAAATATCTTAACCAAAACGCATAATTTTGGCCTCGATGTATAGTAGAATTAGTGGCG
1 GCGCCGCAAAATATCTTAACCAAAACGCATAATTTTGGCCTCGATGTATAGTAGAATTAGTGGCG
* *
58809872 CTTAGTGAAACGCCGTTAAAGCATAGTATTAGCGGCGATTTGTAGCTAGCGCCGCAAAATATCTT
66 CTTAGTGAAACGCCGTTAAAGCATAGTATTAGCGGCGATTTGTAGCAAGCGCCACAAAATATCTT
* *
58809937 AACAAAAACGCAGTGTTTTGATCTTAATGTATATAAAATTAGTGGCGCTTACGGTAAACCGCCGC
131 AACAAAAACGCAGCGTTTTGATCTTAATGTATATAAAATTAGTGGCGCTTACGGTAAAACGCCGC
*
58810002 TAAAGAATATTAATA-----GC--------A
196 TAAAGAATAGTAATAGCGGCGCTTTGTGGAA
58810020 -----GCAAAATATCTTAACCAAAACGCATAATTTTGGCCTCGATGTATAGTAGAATTAGTGGCG
1 GCGCCGCAAAATATCTTAACCAAAACGCATAATTTTGGCCTCGATGTATAGTAGAATTAGTGGCG
* * * * *
58810080 CTTAGTGAAACGCCGTTAAAGCATAGTATTAGCGGCGCTTGGATA-AAAGCGCCACCAAGTATCT
66 CTTAGTGAAACGCCGTTAAAGCATAGTATTAGCGGCGATTTG-TAGCAAGCGCCACAAAATATCT
* * * * * ** * * *
58810144 GAACCAAAACGCATCGTTTTGGTCTTGATGTATACTTGATTTAGTGGCGATTTCGGTAAAACGCC
130 TAACAAAAACGCAGCGTTTTGATCTTAATGTATA-TAAAATTAGTGGCGCTTACGGTAAAACGCC
* * * *
58810209 GCTAAAGCATAGTATTAGCGGCGATTTGTTGATA
194 GCTAAAGAATAGTAATAGCGGCGCTTTGTGGA-A
58810243 GCGCCGC
1 GCGCCGC
58810250 GACTTACCAT
Statistics
Matches: 559, Mismatches: 85, Indels: 54
0.80 0.12 0.08
Matches are distributed among these distances:
208 142 0.25
209 40 0.07
213 1 0.00
214 1 0.00
222 2 0.00
223 1 0.00
226 50 0.09
227 171 0.31
228 80 0.14
229 71 0.13
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.27
Consensus pattern (226 bp):
GCGCCGCAAAATATCTTAACCAAAACGCATAATTTTGGCCTCGATGTATAGTAGAATTAGTGGCG
CTTAGTGAAACGCCGTTAAAGCATAGTATTAGCGGCGATTTGTAGCAAGCGCCACAAAATATCTT
AACAAAAACGCAGCGTTTTGATCTTAATGTATATAAAATTAGTGGCGCTTACGGTAAAACGCCGC
TAAAGAATAGTAATAGCGGCGCTTTGTGGAA
Found at i:58810177 original size:208 final size:209
Alignment explanation
Indices: 58809812--58810215 Score: 616
Period size: 208 Copynumber: 1.9 Consensus size: 209
58809802 GAGAAGCGCC
58809812 GCAAAATATCTTAACCAAAACGCATAATTTTGGCCTCGATGTATAGTAGAATTAGTGGCGCTTAG
1 GCAAAATATCTTAACCAAAACGCATAATTTTGGCCTCGATGTATAGTAGAATTAGTGGCGCTTAG
* ** * *
58809877 TGAAACGCCGTTAAAGCATAGTATTAGCGGCGATTTGTAGCTAGCGCCGCAAAATATCTTAACAA
66 TGAAACGCCGTTAAAGCATAGTATTAGCGGCGATTGGTAGAAAGCGCCACAAAATATCTGAACAA
* *
58809942 AAACGCAGTGTTTTGATCTTAATGTATA-TAAAATTAGTGGCGCTTACGGTAAACCGCCGCTAAA
131 AAACGCAGTGTTTTGATCTTAATGTATACTAAAATTAGTGGCGATTACGGTAAAACGCCGCTAAA
58810006 GAATATTAATAGCA
196 GAATATTAATAGCA
58810020 GCAAAATATCTTAACCAAAACGCATAATTTTGGCCTCGATGTATAGTAGAATTAGTGGCGCTTAG
1 GCAAAATATCTTAACCAAAACGCATAATTTTGGCCTCGATGTATAGTAGAATTAGTGGCGCTTAG
* * * *
58810085 TGAAACGCCGTTAAAGCATAGTATTAGCGGCGCTTGGATA-AAAGCGCCACCAAGTATCTGAACC
66 TGAAACGCCGTTAAAGCATAGTATTAGCGGCGATTGG-TAGAAAGCGCCACAAAATATCTGAACA
* * ** * *
58810149 AAAACGCA-TCGTTTTGGTCTTGATGTATACTTGATTTAGTGGCGATTTCGGTAAAACGCCGCTA
130 AAAACGCAGT-GTTTTGATCTTAATGTATACTAAAATTAGTGGCGATTACGGTAAAACGCCGCTA
58810213 AAG
194 AAG
58810216 CATAGTATTA
Statistics
Matches: 176, Mismatches: 17, Indels: 5
0.89 0.09 0.03
Matches are distributed among these distances:
207 1 0.01
208 142 0.81
209 33 0.19
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.28
Consensus pattern (209 bp):
GCAAAATATCTTAACCAAAACGCATAATTTTGGCCTCGATGTATAGTAGAATTAGTGGCGCTTAG
TGAAACGCCGTTAAAGCATAGTATTAGCGGCGATTGGTAGAAAGCGCCACAAAATATCTGAACAA
AAACGCAGTGTTTTGATCTTAATGTATACTAAAATTAGTGGCGATTACGGTAAAACGCCGCTAAA
GAATATTAATAGCA
Found at i:58810537 original size:14 final size:14
Alignment explanation
Indices: 58810468--58810538 Score: 56
Period size: 14 Copynumber: 5.0 Consensus size: 14
58810458 ACAGTGTAAA
*
58810468 GTTTAAAGTTTAGG
1 GTTTAAGGTTTAGG
* * *
58810482 GTTTACGATGTA-G
1 GTTTAAGGTTTAGG
58810495 GTTTAAGG-TTAGG
1 GTTTAAGGTTTAGG
*
58810508 GTATTAGGGTGTTTAGG
1 GT-TTA-AG-GTTTAGG
58810525 GTTTAAGGTTTAGG
1 GTTTAAGGTTTAGG
58810539 AGTCTGGGGT
Statistics
Matches: 43, Mismatches: 9, Indels: 10
0.69 0.15 0.16
Matches are distributed among these distances:
12 2 0.05
13 10 0.23
14 18 0.42
15 2 0.05
16 4 0.09
17 7 0.16
ACGTcount: A:0.23, C:0.01, G:0.35, T:0.41
Consensus pattern (14 bp):
GTTTAAGGTTTAGG
Found at i:58811706 original size:22 final size:22
Alignment explanation
Indices: 58811680--58811726 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
58811670 ACTATTCCGA
*
58811680 TTAAATATGTAAGGCGTTTCTG
1 TTAAATAGGTAAGGCGTTTCTG
58811702 TTAAATAGGTAAGGCGTTTCTG
1 TTAAATAGGTAAGGCGTTTCTG
58811724 TTA
1 TTA
58811727 TTACAGCCAC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.28, C:0.09, G:0.23, T:0.40
Consensus pattern (22 bp):
TTAAATAGGTAAGGCGTTTCTG
Found at i:58812211 original size:70 final size:71
Alignment explanation
Indices: 58812033--58812232 Score: 368
Period size: 71 Copynumber: 2.8 Consensus size: 71
58812023 TGAGTGGATT
58812033 TGAAATAATTTGTTTTTGATTATGTTGTTATGTTCTGAAATATGCTTTGGATTTGAAATAATTTC
1 TGAAATAATTTGTTTTTGATTATGTTGTTATGTTCTGAAATATGCTTTGGATTTGAAATAATTTC
58812098 TGAGTC
66 TGAGTC
58812104 TGAAATAATTTGTTTTTGATTATGTTGTTATGTTCTGAAATATGCTTTGGATTTGAAATAATTT-
1 TGAAATAATTTGTTTTTGATTATGTTGTTATGTTCTGAAATATGCTTTGGATTTGAAATAATTTC
58812168 TGAGTC
66 TGAGTC
*
58812174 TGAAATAATTTGTTTTTGATTATGTTGTTATGTTCTGAATTATGCTTTGG-TTCTGAAAT
1 TGAAATAATTTGTTTTTGATTATGTTGTTATGTTCTGAAATATGCTTTGGATT-TGAAAT
58812233 CTGGATCTGG
Statistics
Matches: 127, Mismatches: 1, Indels: 3
0.97 0.01 0.02
Matches are distributed among these distances:
69 2 0.02
70 61 0.48
71 64 0.50
ACGTcount: A:0.26, C:0.05, G:0.18, T:0.51
Consensus pattern (71 bp):
TGAAATAATTTGTTTTTGATTATGTTGTTATGTTCTGAAATATGCTTTGGATTTGAAATAATTTC
TGAGTC
Found at i:58812387 original size:14 final size:14
Alignment explanation
Indices: 58812368--58812397 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
58812358 ATAAAAGGTT
58812368 TTTAGTTAATCATC
1 TTTAGTTAATCATC
58812382 TTTAGTTAATCATC
1 TTTAGTTAATCATC
58812396 TT
1 TT
58812398 GCTGTTCGTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.27, C:0.13, G:0.07, T:0.53
Consensus pattern (14 bp):
TTTAGTTAATCATC
Found at i:58813144 original size:29 final size:31
Alignment explanation
Indices: 58813076--58813154 Score: 117
Period size: 29 Copynumber: 2.6 Consensus size: 31
58813066 ATATTTAAAT
*
58813076 TTTAAATTTAATAAATTATTTATAACAATTA
1 TTTAAATTTAATAAATAATTTATAACAATTA
58813107 TTTAAATTTAATAAATAATTTA-AA-AATTA
1 TTTAAATTTAATAAATAATTTATAACAATTA
* *
58813136 TTTAAATTTTATTAATAAT
1 TTTAAATTTAATAAATAAT
58813155 AAATTTATAA
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
29 22 0.49
30 2 0.04
31 21 0.47
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.49
Consensus pattern (31 bp):
TTTAAATTTAATAAATAATTTATAACAATTA
Found at i:58813446 original size:9 final size:9
Alignment explanation
Indices: 58813423--58813649 Score: 99
Period size: 9 Copynumber: 26.9 Consensus size: 9
58813413 ATATATTCAT
58813423 TTACATAAC
1 TTACATAAC
58813432 --ACATAAC
1 TTACATAAC
58813439 TTACATAAC
1 TTACATAAC
*
58813448 TTTCATAA-
1 TTACATAAC
*
58813456 -TACACAAC
1 TTACATAAC
** *
58813464 TTACGCATC
1 TTACATAAC
58813473 TTACATAA-
1 TTACATAAC
*
58813481 -GACATAAC
1 TTACATAAC
*
58813489 TTACAT--G
1 TTACATAAC
*
58813496 TGTAAATAA-
1 T-TACATAAC
* *
58813505 -TACAAAAA
1 TTACATAAC
58813513 TTACATAAC
1 TTACATAAC
*
58813522 TAACATAA-
1 TTACATAAC
*
58813530 -GACATAAC
1 TTACATAAC
*
58813538 TTACATAAG
1 TTACATAAC
*
58813547 TTTCATAA-
1 TTACATAAC
* *
58813555 -TACACATC
1 TTACATAAC
**
58813563 TTACGCAAC
1 TTACATAAC
*
58813572 TTACACAAC
1 TTACATAAC
58813581 TTACATAAC
1 TTACATAAC
*
58813590 TTACATAAG
1 TTACATAAC
*
58813599 TTTCATAA-
1 TTACATAAC
* *
58813607 -TACACATC
1 TTACATAAC
**
58813615 TTACGCAAC
1 TTACATAAC
*
58813624 TTACACAAC
1 TTACATAAC
58813633 TTACATAAC
1 TTACATAAC
58813642 TTACATAA
1 TTACATAA
58813650 TGTATATCTT
Statistics
Matches: 164, Mismatches: 37, Indels: 34
0.70 0.16 0.14
Matches are distributed among these distances:
7 38 0.23
8 4 0.02
9 122 0.74
ACGTcount: A:0.44, C:0.22, G:0.04, T:0.30
Consensus pattern (9 bp):
TTACATAAC
Found at i:58813464 original size:25 final size:25
Alignment explanation
Indices: 58813423--58813649 Score: 152
Period size: 25 Copynumber: 9.0 Consensus size: 25
58813413 ATATATTCAT
*
58813423 TTACATAACACATAACTTACATAAC
1 TTACATAATACATAACTTACATAAC
* * ** *
58813448 TTTCATAATACACAACTTACGCATC
1 TTACATAATACATAACTTACATAAC
* *
58813473 TTACATAAGACATAACTTACAT--G
1 TTACATAATACATAACTTACATAAC
* * *
58813496 TGTAAATAATACAAAAATTACATAAC
1 T-TACATAATACATAACTTACATAAC
* * *
58813522 TAACATAAGACATAACTTACATAAG
1 TTACATAATACATAACTTACATAAC
* * * **
58813547 TTTCATAATACACATCTTACGCAAC
1 TTACATAATACATAACTTACATAAC
* *
58813572 TTACACAACTTACATAACTTACATAAG
1 TTACATAA--TACATAACTTACATAAC
* * * **
58813599 TTTCATAATACACATCTTACGCAAC
1 TTACATAATACATAACTTACATAAC
*
58813624 TTACACAACTTACATAACTTACATAA
1 TTACATAA--TACATAACTTACATAA
58813650 TGTATATCTT
Statistics
Matches: 144, Mismatches: 51, Indels: 12
0.70 0.25 0.06
Matches are distributed among these distances:
23 1 0.01
24 17 0.12
25 95 0.66
26 1 0.01
27 30 0.21
ACGTcount: A:0.44, C:0.22, G:0.04, T:0.30
Consensus pattern (25 bp):
TTACATAATACATAACTTACATAAC
Found at i:58813534 original size:16 final size:16
Alignment explanation
Indices: 58813515--58813546 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
58813505 TACAAAAATT
58813515 ACATAACTAACATAAG
1 ACATAACTAACATAAG
*
58813531 ACATAACTTACATAAG
1 ACATAACTAACATAAG
58813547 TTTCATAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.53, C:0.19, G:0.06, T:0.22
Consensus pattern (16 bp):
ACATAACTAACATAAG
Found at i:58813592 original size:52 final size:50
Alignment explanation
Indices: 58813423--58813649 Score: 242
Period size: 52 Copynumber: 4.5 Consensus size: 50
58813413 ATATATTCAT
* * * *
58813423 TTACATAACACATAACTTACATAACTTTCATAATACACAACTTACGCATC
1 TTACACAAGACATAACTTACATAAGTTTCATAATACACAACTTACGCAAC
* ** * * **
58813473 TTACATAAGACATAACTTACAT--GTGTAAATAATACAAAAATTACATAAC
1 TTACACAAGACATAACTTACATAAGT-TTCATAATACACAACTTACGCAAC
* * *
58813522 TAACATAAGACATAACTTACATAAGTTTCATAATACACATCTTACGCAAC
1 TTACACAAGACATAACTTACATAAGTTTCATAATACACAACTTACGCAAC
* *
58813572 TTACACAACTTACATAACTTACATAAGTTTCATAATACACATCTTACGCAAC
1 TTACACAA--GACATAACTTACATAAGTTTCATAATACACAACTTACGCAAC
*
58813624 TTACACAACTTACATAACTTACATAA
1 TTACACAA--GACATAACTTACATAA
58813650 TGTATATCTT
Statistics
Matches: 152, Mismatches: 20, Indels: 8
0.84 0.11 0.04
Matches are distributed among these distances:
48 1 0.01
49 38 0.25
50 44 0.29
51 2 0.01
52 67 0.44
ACGTcount: A:0.44, C:0.22, G:0.04, T:0.30
Consensus pattern (50 bp):
TTACACAAGACATAACTTACATAAGTTTCATAATACACAACTTACGCAAC
Found at i:58813640 original size:34 final size:34
Alignment explanation
Indices: 58813573--58813640 Score: 82
Period size: 34 Copynumber: 2.0 Consensus size: 34
58813563 TTACGCAACT
* * * *
58813573 TACACAACTTACATAACTTACATAAGTTTCATAA
1 TACACAACTTACACAACTTACACAACTTACATAA
* *
58813607 TACACATCTTACGCAACTTACACAACTTACATAA
1 TACACAACTTACACAACTTACACAACTTACATAA
58813641 CTTACATAAT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
34 28 1.00
ACGTcount: A:0.43, C:0.25, G:0.03, T:0.29
Consensus pattern (34 bp):
TACACAACTTACACAACTTACACAACTTACATAA
Found at i:58817380 original size:21 final size:21
Alignment explanation
Indices: 58817354--58817424 Score: 88
Period size: 21 Copynumber: 3.4 Consensus size: 21
58817344 CTACAACTTA
* *
58817354 AAGCAGAGGCGGAAGCGAGGG
1 AAGCAGAGGCTGCAGCGAGGG
* *
58817375 AAGCAGCGACTGCAGCGAGGG
1 AAGCAGAGGCTGCAGCGAGGG
* *
58817396 AAGCAGAGGCTGCAGCAAGAG
1 AAGCAGAGGCTGCAGCGAGGG
58817417 AAGCAGAG
1 AAGCAGAG
58817425 CAGAGCAAAA
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 42 1.00
ACGTcount: A:0.35, C:0.18, G:0.44, T:0.03
Consensus pattern (21 bp):
AAGCAGAGGCTGCAGCGAGGG
Found at i:58817849 original size:43 final size:41
Alignment explanation
Indices: 58817748--58817868 Score: 152
Period size: 43 Copynumber: 2.9 Consensus size: 41
58817738 GTTTTTGTAT
* * ***
58817748 AAAAGCGCCACTAAAGAACATGTTCTTTTGCGGCGTTTTTA
1 AAAAACGCCACTAAAGAACATGTTCTTTAGCGGCGTTGAAA
*
58817789 AAAAATGCCACTAAAGAACATGTTCTTTAGCGGCGATTAGAAA
1 AAAAACGCCACTAAAGAACATGTTCTTTAGCGGCG-TT-GAAA
* *
58817832 AAAAACGCCGCTAAAGAACATGATCTTTAGCGGCGTT
1 AAAAACGCCACTAAAGAACATGTTCTTTAGCGGCGTT
58817869 TTCCCTTAAG
Statistics
Matches: 69, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
41 32 0.46
42 4 0.06
43 33 0.48
ACGTcount: A:0.36, C:0.19, G:0.20, T:0.26
Consensus pattern (41 bp):
AAAAACGCCACTAAAGAACATGTTCTTTAGCGGCGTTGAAA
Found at i:58817901 original size:42 final size:41
Alignment explanation
Indices: 58817750--58818080 Score: 365
Period size: 42 Copynumber: 7.9 Consensus size: 41
58817740 TTTTGTATAA
* * * ***
58817750 AAGCGCCACTAAAGAACATGTTCTTTTGCGGCGTTTTTAAA
1 AAGCGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTCCT
** * * ******
58817791 AAATGCCACTAAAGAACATGTTCTTTAGCGGCGATTAGAAAAA
1 AAGCGCCGCTAAAGAACATGGTCTTTAGCGGCG-TT-TTTCCT
* * *
58817834 AAACGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTCCCTT
1 AAGCGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTCC-T
* *
58817876 AAGCGCCGCTAAAGAACATGTTCTTTAGCGACGTTTTTTCCT
1 AAGCGCCGCTAAAGAACATGGTCTTTAGCGGCG-TTTTTCCT
58817918 AAGCGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTTCCT
1 AAGCGCCGCTAAAGAACATGGTCTTTAGCGGCG-TTTTTCCT
*
58817960 AAGCGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTTCT
1 AAGCGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTCCT
* * *
58818001 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCATTTTTTTCT
1 AAGCGCCGCTAAAGAACATGGTCTTTAGCGGC-GTTTTTCCT
* *
58818043 AAGCGCCGCTAAAGAACATGGTATTTAACGGCGTTTTT
1 AAGCGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTT
58818081 GTTTGTAAAC
Statistics
Matches: 257, Mismatches: 28, Indels: 10
0.87 0.09 0.03
Matches are distributed among these distances:
41 73 0.28
42 145 0.56
43 39 0.15
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.30
Consensus pattern (41 bp):
AAGCGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTCCT
Found at i:58818038 original size:83 final size:83
Alignment explanation
Indices: 58817837--58818080 Score: 382
Period size: 83 Copynumber: 2.9 Consensus size: 83
58817827 AGAAAAAAAA
* * *
58817837 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTCCCTTAAGCGCCGCTAAAGAACATGTTCTTT
1 CGCCGCTAAAGAACATGATCTTTAGCGGCTTTTTTCC-TAAGCGCCGCTAAAGAACATGGTCTTT
*
58817902 AGCGACGTTTTTTCCTAAG
65 AGCGGCGTTTTTTCCTAAG
*
58817921 CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTTCCTAAGCGCCGCTAAAGAACATGGTCTTT
1 CGCCGCTAAAGAACATGATCTTTAGCGGC-TTTTTTCCTAAGCGCCGCTAAAGAACATGGTCTTT
58817986 AGCGGCGTTTTTT-CTAAG
65 AGCGGCGTTTTTTCCTAAG
* *
58818004 CGCCGCTAAAGAACATGATCTTTAGCGGCATTTTTTTCTAAGCGCCGCTAAAGAACATGGTATTT
1 CGCCGCTAAAGAACATGATCTTTAGCGGC-TTTTTTCCTAAGCGCCGCTAAAGAACATGGTCTTT
*
58818069 AACGGCGTTTTT
65 AGCGGCGTTTTT
58818081 GTTTGTAAAC
Statistics
Matches: 149, Mismatches: 10, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
83 77 0.52
84 66 0.44
85 6 0.04
ACGTcount: A:0.24, C:0.23, G:0.22, T:0.32
Consensus pattern (83 bp):
CGCCGCTAAAGAACATGATCTTTAGCGGCTTTTTTCCTAAGCGCCGCTAAAGAACATGGTCTTTA
GCGGCGTTTTTTCCTAAG
Found at i:58827051 original size:16 final size:17
Alignment explanation
Indices: 58827012--58827058 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
58827002 TAAAGTAATA
*
58827012 AAAAATA-ATACTATAT
1 AAAAATATATACTACAT
58827028 ATAAAATATATA-TACAT
1 A-AAAATATATACTACAT
*
58827045 AAAAATATACACTA
1 AAAAATATATACTA
58827059 ATATATAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
16 10 0.38
17 13 0.50
18 3 0.12
ACGTcount: A:0.62, C:0.09, G:0.00, T:0.30
Consensus pattern (17 bp):
AAAAATATATACTACAT
Found at i:58827285 original size:3 final size:3
Alignment explanation
Indices: 58827272--58827356 Score: 54
Period size: 3 Copynumber: 28.3 Consensus size: 3
58827262 GAGGGCATAT
* *
58827272 ATA AT- ATA ATA AT- ATA AAA AAA ATA ATA TATA CATGA GA-A ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA -AT-A -ATA ATA ATA
* *
58827318 ATA ATA AT- ATAA ATA ATA GTA AAA ATA ATA A-A ATA ATA A
1 ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA A
58827357 AACAAAGCTC
Statistics
Matches: 66, Mismatches: 8, Indels: 16
0.73 0.09 0.18
Matches are distributed among these distances:
2 9 0.14
3 48 0.73
4 7 0.11
5 2 0.03
ACGTcount: A:0.67, C:0.01, G:0.04, T:0.28
Consensus pattern (3 bp):
ATA
Found at i:58827344 original size:24 final size:23
Alignment explanation
Indices: 58827272--58827353 Score: 76
Period size: 24 Copynumber: 3.4 Consensus size: 23
58827262 GAGGGCATAT
*
58827272 ATAATAT-AATAATATAAAAAAA
1 ATAATATAAATAATATAAAAATA
* *
58827294 ATAATATATACATGAGAAATAATAATA
1 ATAATATA-A-AT-A-ATATAAAAATA
58827321 ATAATATAAATAATAGTAAAAATA
1 ATAATATAAATAATA-TAAAAATA
*
58827345 ATAAAATAA
1 ATAATATAA
58827354 TAAAACAAAG
Statistics
Matches: 48, Mismatches: 6, Indels: 10
0.75 0.09 0.16
Matches are distributed among these distances:
22 7 0.15
23 2 0.04
24 17 0.35
25 4 0.08
26 2 0.04
27 16 0.33
ACGTcount: A:0.67, C:0.01, G:0.04, T:0.28
Consensus pattern (23 bp):
ATAATATAAATAATATAAAAATA
Found at i:58827721 original size:23 final size:23
Alignment explanation
Indices: 58827686--58827758 Score: 71
Period size: 23 Copynumber: 3.2 Consensus size: 23
58827676 CCTTTTTTAC
*
58827686 AAAAAAA-CACCTCCAAAAAACA
1 AAAAAAACCTCCTCCAAAAAACA
58827708 AAAAAAACCTCCTCC--AAAACA
1 AAAAAAACCTCCTCCAAAAAACA
* * *
58827729 AAGAACAATCCTTCTCCAAAAAACC
1 AA-AA-AAACCTCCTCCAAAAAACA
58827754 AAAAA
1 AAAAA
58827759 CCCACCCCTA
Statistics
Matches: 42, Mismatches: 4, Indels: 9
0.76 0.07 0.16
Matches are distributed among these distances:
21 8 0.19
22 9 0.21
23 16 0.38
24 2 0.05
25 7 0.17
ACGTcount: A:0.60, C:0.29, G:0.01, T:0.10
Consensus pattern (23 bp):
AAAAAAACCTCCTCCAAAAAACA
Found at i:58827726 original size:21 final size:21
Alignment explanation
Indices: 58827684--58827749 Score: 62
Period size: 21 Copynumber: 3.0 Consensus size: 21
58827674 AACCTTTTTT
**
58827684 ACAAAAAAACACCTCC-AAAAA
1 ACAAAAAAA-ACCTCCTCCAAA
58827705 ACAAAAAAAACCTCCTCCAAA
1 ACAAAAAAAACCTCCTCCAAA
* *
58827726 ACAAAGAACAATCCTTCTCCAAA
1 ACAAA-AA-AAACCTCCTCCAAA
58827749 A
1 A
58827750 AACCAAAAAC
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
20 6 0.16
21 17 0.45
22 2 0.05
23 13 0.34
ACGTcount: A:0.58, C:0.30, G:0.02, T:0.11
Consensus pattern (21 bp):
ACAAAAAAAACCTCCTCCAAA
Found at i:58828288 original size:40 final size:40
Alignment explanation
Indices: 58828244--58828395 Score: 187
Period size: 40 Copynumber: 3.8 Consensus size: 40
58828234 GTGTTTTTAG
*
58828244 TCTGCTCCACTACTACTTAGGGAGATAAGACTTGATGCGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGCGA
* * * * * ***
58828284 TCTGCTTCACTATTTCTTAGGGAAATAAGATCTGTGGTTTTA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGA-CT-TGATGCGA
*
58828326 TCTGCTCCACTACTGCTTAGGGAGATAAGACTTAATGCGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGCGA
*
58828366 TCTACTCCACTACTGCTTAGGGAGATAAGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGA
58828396 TTGTAATCTT
Statistics
Matches: 92, Mismatches: 18, Indels: 4
0.81 0.16 0.04
Matches are distributed among these distances:
40 58 0.63
41 4 0.04
42 30 0.33
ACGTcount: A:0.27, C:0.20, G:0.21, T:0.32
Consensus pattern (40 bp):
TCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGCGA
Found at i:58828335 original size:82 final size:83
Alignment explanation
Indices: 58828228--58828396 Score: 250
Period size: 82 Copynumber: 2.0 Consensus size: 83
58828218 CATGGGGATG
* * * * *
58828228 AGATTTGTGTTTTTAGTCTGCTCCACTACTACTTAGGGAGATAAGACTTGATGCGATCTGCTTCA
1 AGATCTGTGGTTTTAGTCTGCTCCACTACTACTTAGGGAGATAAGACTTAATGCGATCTACTCCA
* *
58828293 CTATTTCTTAGGGAAATA
66 CTACTGCTTAGGGAAATA
*
58828311 AGATCTGTGGTTTTA-TCTGCTCCACTACTGCTTAGGGAGATAAGACTTAATGCGATCTACTCCA
1 AGATCTGTGGTTTTAGTCTGCTCCACTACTACTTAGGGAGATAAGACTTAATGCGATCTACTCCA
*
58828375 CTACTGCTTAGGGAGATA
66 CTACTGCTTAGGGAAATA
58828393 AGAT
1 AGAT
58828397 TGTAATCTTC
Statistics
Matches: 77, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
82 64 0.83
83 13 0.17
ACGTcount: A:0.26, C:0.18, G:0.21, T:0.34
Consensus pattern (83 bp):
AGATCTGTGGTTTTAGTCTGCTCCACTACTACTTAGGGAGATAAGACTTAATGCGATCTACTCCA
CTACTGCTTAGGGAAATA
Found at i:58828634 original size:45 final size:45
Alignment explanation
Indices: 58828583--58828781 Score: 111
Period size: 45 Copynumber: 4.4 Consensus size: 45
58828573 GATCTACAAT
*
58828583 CTTCAATCTATTCCACTGCCAGATACAGGGAGATAGAGTTATCGG
1 CTTCAATCTATTCCACTGCCAGATACAGGGAGATAGAGTTATCAG
* * * * * * ** *
58828628 CTTCAATGTACTCCACTG-TAG-TCACAGGGAGGTAAAATCTGCCAT
1 CTTCAATCTATTCCACTGCCAGAT-ACAGGGAGATAGAGT-TATCAG
* * * ** * * *
58828673 CTTCGATCTGCTT-CACTGCCTA-ATACAGGAAGGCA-AGATCTGCAAT
1 CTTCAATCT-ATTCCACTGCC-AGATACAGGGAGATAGAGTTAT-C-AG
* *
58828719 CTTCAATCTATTCCACTGCCAGATACAGTGAGATAGAGTTATCGG
1 CTTCAATCTATTCCACTGCCAGATACAGGGAGATAGAGTTATCAG
* *
58828764 CTTCAATGTACTCCACTG
1 CTTCAATCTATTCCACTG
58828782 TGGTCAGGGA
Statistics
Matches: 110, Mismatches: 33, Indels: 22
0.67 0.20 0.13
Matches are distributed among these distances:
43 1 0.01
44 15 0.14
45 51 0.46
46 37 0.34
47 6 0.05
ACGTcount: A:0.28, C:0.25, G:0.20, T:0.28
Consensus pattern (45 bp):
CTTCAATCTATTCCACTGCCAGATACAGGGAGATAGAGTTATCAG
Found at i:58828855 original size:134 final size:135
Alignment explanation
Indices: 58828558--58828862 Score: 522
Period size: 136 Copynumber: 2.3 Consensus size: 135
58828548 ACTTCCTACC
* * *
58828558 AATATAGGAAGGCAGGATCTACAATCTTCAATCTATTCCACTGCCAGATACAGGGAGATAGAGTT
1 AATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAGATACAGGGAGATAGAGTT
58828623 ATCGGCTTCAATGTACTCCACTGTAGTCACAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTCA
66 ATCGGCTTCAATGTACTCCACTGTAGT-ACAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTCA
*
58828688 CTGCCT
130 CTGCCA
*
58828694 AATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAGATACAGTGAGATAGAGTT
1 AATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAGATACAGGGAGATAGAGTT
* * *
58828759 ATCGGCTTCAATGTACTCCACTGTGGT-CAGGGAGGTAAAATCTGCCATCTTTGATCTGCTTCGC
66 ATCGGCTTCAATGTACTCCACTGTAGTACAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTCAC
58828823 TGCCA
131 TGCCA
58828828 AATACAGGAAGGCAAGATCTGCAATCTTCAATCTA
1 AATACAGGAAGGCAAGATCTGCAATCTTCAATCTA
58828863 CTTCACCACC
Statistics
Matches: 161, Mismatches: 8, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
134 74 0.46
136 87 0.54
ACGTcount: A:0.30, C:0.23, G:0.21, T:0.27
Consensus pattern (135 bp):
AATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAGATACAGGGAGATAGAGTT
ATCGGCTTCAATGTACTCCACTGTAGTACAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTCAC
TGCCA
Found at i:58828943 original size:44 final size:45
Alignment explanation
Indices: 58828798--58829375 Score: 421
Period size: 44 Copynumber: 13.1 Consensus size: 45
58828788 GGGAGGTAAA
* * * * * * *
58828798 ATCTGCCATCTTTGATCTGCTTCGCTGCCAAATACAGGAAGGCAAG
1 ATCTGCTATCTTGGATCTACTTCACTACC-AATATAGGAAGACAAG
* ** * * *
58828844 ATCTGCAATCTTCAATCTACTTCACCACCAGTATGGGAAGACAAG
1 ATCTGCTATCTTGGATCTACTTCACTACCAATATAGGAAGACAAG
* * * *
58828889 ATCTGC-ATCTTGGATCCACTTC-CTATCAATATAGGAAGATAGG
1 ATCTGCTATCTTGGATCTACTTCACTACCAATATAGGAAGACAAG
* * * * * *
58828932 ACCTGCTATCTTCGATCTACTTCAC-GCCAATACATGAAGGCAAG
1 ATCTGCTATCTTGGATCTACTTCACTACCAATATAGGAAGACAAG
* * * *
58828976 ATCTGCTTTC-TGCGATCTACTTCGCCACCAATATGGGAAGACAAG
1 ATCTGCTATCTTG-GATCTACTTCACTACCAATATAGGAAGACAAG
* * * * *
58829021 ATCTGC-ATATTGGATCCACTTC-CTATCAATATAGGAAGATAGG
1 ATCTGCTATCTTGGATCTACTTCACTACCAATATAGGAAGACAAG
* * * *
58829064 ACCTGCTATCTTCGATCTACTTCAC-ACCAATACATGAAGACAAG
1 ATCTGCTATCTTGGATCTACTTCACTACCAATATAGGAAGACAAG
* * * *
58829108 ATCTGCTTTC-TGCGATCTACTTCGCCACCAATATGGGAAGACAAG
1 ATCTGCTATCTTG-GATCTACTTCACTACCAATATAGGAAGACAAG
* * * * *
58829153 ATCTGC-ATCTTCGATCCACTTC-CTACCAATATAGAAAGATAGG
1 ATCTGCTATCTTGGATCTACTTCACTACCAATATAGGAAGACAAG
* * * * *
58829196 ATCTGCTACCTTCGATCTACTTCAC-GCCAATACATGAAGACAAG
1 ATCTGCTATCTTGGATCTACTTCACTACCAATATAGGAAGACAAG
* * * *
58829240 ATCTGCTTTC-TGCGATCTACTTCGCCACCAATATGGGAAGACAAG
1 ATCTGCTATCTTG-GATCTACTTCACTACCAATATAGGAAGACAAG
* * * * * *
58829285 CTCTGC-ATCCTGGATCCACTTC-CTATCAATATAGGAAGATAGG
1 ATCTGCTATCTTGGATCTACTTCACTACCAATATAGGAAGACAAG
* * * * * *
58829328 ACCTGCTATCTTCGATCTGCTTCAC-GCCAATACATGAAGACAAG
1 ATCTGCTATCTTGGATCTACTTCACTACCAATATAGGAAGACAAG
58829372 ATCT
1 ATCT
58829376 ACTTTAATGA
Statistics
Matches: 407, Mismatches: 108, Indels: 36
0.74 0.20 0.07
Matches are distributed among these distances:
43 86 0.21
44 210 0.52
45 89 0.22
46 22 0.05
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (45 bp):
ATCTGCTATCTTGGATCTACTTCACTACCAATATAGGAAGACAAG
Found at i:58829065 original size:132 final size:132
Alignment explanation
Indices: 58828800--58829380 Score: 928
Period size: 132 Copynumber: 4.4 Consensus size: 132
58828790 GAGGTAAAAT
* * * * * * ** * *
58828800 CTGCCATCTTTGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTACT
1 CTGCTATCTTCGATCTACTTCAC-GCC-AATACATGAAGACAAGATCTGCTTTCTGCGATCTACT
* *
58828865 TCACCACCAGTATGGGAAGACAAGATCTGCATCTTGGATCCACTTCCTATCAATATAGGAAGATA
64 TCGCCACCAATATGGGAAGACAAGATCTGCATCTTGGATCCACTTCCTATCAATATAGGAAGATA
58828930 GGAC
129 GGAC
*
58828934 CTGCTATCTTCGATCTACTTCACGCCAATACATGAAGGCAAGATCTGCTTTCTGCGATCTACTTC
1 CTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTC
*
58828999 GCCACCAATATGGGAAGACAAGATCTGCATATTGGATCCACTTCCTATCAATATAGGAAGATAGG
66 GCCACCAATATGGGAAGACAAGATCTGCATCTTGGATCCACTTCCTATCAATATAGGAAGATAGG
58829064 AC
131 AC
*
58829066 CTGCTATCTTCGATCTACTTCACACCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTC
1 CTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTC
* * *
58829131 GCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGAAAGATAGG
66 GCCACCAATATGGGAAGACAAGATCTGCATCTTGGATCCACTTCCTATCAATATAGGAAGATAGG
*
58829196 AT
131 AC
*
58829198 CTGCTACCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTC
1 CTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTC
* *
58829263 GCCACCAATATGGGAAGACAAGCTCTGCATCCTGGATCCACTTCCTATCAATATAGGAAGATAGG
66 GCCACCAATATGGGAAGACAAGATCTGCATCTTGGATCCACTTCCTATCAATATAGGAAGATAGG
58829328 AC
131 AC
* *
58829330 CTGCTATCTTCGATCTGCTTCACGCCAATACATGAAGACAAGATCTACTTT
1 CTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTT
58829381 AATGACTTCA
Statistics
Matches: 417, Mismatches: 30, Indels: 2
0.93 0.07 0.00
Matches are distributed among these distances:
132 395 0.95
133 3 0.01
134 19 0.05
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (132 bp):
CTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTC
GCCACCAATATGGGAAGACAAGATCTGCATCTTGGATCCACTTCCTATCAATATAGGAAGATAGG
AC
Found at i:58839469 original size:21 final size:21
Alignment explanation
Indices: 58839427--58839499 Score: 60
Period size: 20 Copynumber: 3.4 Consensus size: 21
58839417 ATAATTTTAA
*
58839427 TTTAAAATTAT-TA-AATAAAT
1 TTTAAAATTATATATTA-AAAT
58839447 TTTAAAATTATATATTAAAAT
1 TTTAAAATTATATATTAAAAT
* * *
58839468 TTAAAAAATTAATATTATTAACAG
1 TT-TAAAATT-ATA-TATTAAAAT
58839492 TTTAAAAT
1 TTTAAAAT
58839500 ATGCATTTCA
Statistics
Matches: 43, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
20 11 0.26
21 8 0.19
22 7 0.16
23 8 0.19
24 9 0.21
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.44
Consensus pattern (21 bp):
TTTAAAATTATATATTAAAAT
Found at i:58839486 original size:24 final size:23
Alignment explanation
Indices: 58839450--58839498 Score: 64
Period size: 25 Copynumber: 2.1 Consensus size: 23
58839440 AATAAATTTT
58839450 AAAATTATATATTAA-AATTTAA
1 AAAATTATATATTAACAATTTAA
*
58839472 AAAATTAATATTATTAACAGTTTAA
1 AAAATT-ATA-TATTAACAATTTAA
58839497 AA
1 AA
58839499 TATGCATTTC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 6 0.26
23 3 0.13
24 6 0.26
25 8 0.35
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (23 bp):
AAAATTATATATTAACAATTTAA
Found at i:58839499 original size:23 final size:20
Alignment explanation
Indices: 58839425--58839473 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
58839415 ATATAATTTT
*
58839425 AATTTAAAATTAT-TAAATAA
1 AATTTAAAATTATAT-ATTAA
*
58839445 ATTTTAAAATTATATATTAA
1 AATTTAAAATTATATATTAA
58839465 AATTTAAAA
1 AATTTAAAA
58839474 AATTAATATT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 24 0.96
21 1 0.04
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (20 bp):
AATTTAAAATTATATATTAA
Found at i:58841099 original size:15 final size:16
Alignment explanation
Indices: 58841065--58841101 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
58841055 TTCTTTTTTC
*
58841065 TCTTCATCTGTCATTT
1 TCTTCCTCTGTCATTT
58841081 TCTTCCTCTGTCA-TT
1 TCTTCCTCTGTCATTT
58841096 TCTTCC
1 TCTTCC
58841102 CTTTTTCTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 8 0.40
16 12 0.60
ACGTcount: A:0.08, C:0.32, G:0.05, T:0.54
Consensus pattern (16 bp):
TCTTCCTCTGTCATTT
Found at i:58844224 original size:16 final size:16
Alignment explanation
Indices: 58844203--58844236 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
58844193 AAAAAAGTAT
58844203 AAATAA-ATAGATAATA
1 AAATAATATA-ATAATA
58844219 AAATAATATAATAATA
1 AAATAATATAATAATA
58844235 AA
1 AA
58844237 GAACAATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 14 0.82
17 3 0.18
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (16 bp):
AAATAATATAATAATA
Found at i:58844443 original size:26 final size:28
Alignment explanation
Indices: 58844392--58844448 Score: 66
Period size: 27 Copynumber: 2.1 Consensus size: 28
58844382 TCTTAACTGA
*
58844392 AAATGAATAAAAGGGTAAATCGAGT-AT
1 AAATGAATAAAAGGGTAAAACGAGTAAT
*
58844419 AAAT-AATAAATGGGCTAAAAC-AGTAAT
1 AAATGAATAAAAGGG-TAAAACGAGTAAT
58844446 AAA
1 AAA
58844449 ATAAAATGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
26 12 0.46
27 14 0.54
ACGTcount: A:0.56, C:0.05, G:0.18, T:0.21
Consensus pattern (28 bp):
AAATGAATAAAAGGGTAAAACGAGTAAT
Found at i:58845206 original size:14 final size:13
Alignment explanation
Indices: 58845187--58845249 Score: 54
Period size: 14 Copynumber: 4.5 Consensus size: 13
58845177 ATTTTAAAAA
*
58845187 TTAAAAAAGTATTT
1 TTAAAAAAATA-TT
58845201 TTAAAAAAATATT
1 TTAAAAAAATATT
*
58845214 TTAAAATTAAAAAATT
1 TT-AAA--AAAATATT
*
58845230 TAAAAAAAAGTATT
1 TTAAAAAAA-TATT
58845244 TTAAAA
1 TTAAAA
58845250 GTATTTAAAA
Statistics
Matches: 40, Mismatches: 5, Indels: 8
0.75 0.09 0.15
Matches are distributed among these distances:
13 8 0.20
14 21 0.52
15 3 0.08
16 8 0.20
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (13 bp):
TTAAAAAAATATT
Found at i:58846393 original size:43 final size:43
Alignment explanation
Indices: 58846316--58846441 Score: 125
Period size: 43 Copynumber: 2.9 Consensus size: 43
58846306 CGTCTAAAAC
* * *
58846316 CCACTGCAACTTCAGGG-GTATAAGATTGTCGCTTCAATTTGCT
1 CCACTGCAACTTCAGGGAG-ATAAGATTGTAGCTTCAATCTCCT
58846359 CCACTGCAA-TTCAGGGAGATAA-ATTTAGTAGCTTCAATCTCCT
1 CCACTGCAACTTCAGGGAGATAAGA-TT-GTAGCTTCAATCTCCT
* * * *
58846402 TCA-TGCAACTTCAGGGAAATAAGATTCGCATCTTCAATCT
1 CCACTGCAACTTCAGGGAGATAAGATT-GTAGCTTCAATCT
58846442 GTCCATTGCA
Statistics
Matches: 70, Mismatches: 8, Indels: 10
0.80 0.09 0.11
Matches are distributed among these distances:
41 1 0.01
42 18 0.26
43 50 0.71
44 1 0.01
ACGTcount: A:0.29, C:0.23, G:0.17, T:0.31
Consensus pattern (43 bp):
CCACTGCAACTTCAGGGAGATAAGATTGTAGCTTCAATCTCCT
Found at i:58848182 original size:28 final size:27
Alignment explanation
Indices: 58848132--58848292 Score: 109
Period size: 28 Copynumber: 6.0 Consensus size: 27
58848122 GTCGAACTCC
* *
58848132 AGTGCTAATATAATTCAACTCGCACACTT
1 AGTGCT-ACATAA-TCAAATCGCACACTT
*
58848161 AGTGGCTACGTAATCAAATCGCACACTT
1 AGT-GCTACATAATCAAATCGCACACTT
* *
58848189 AGTGCTACATAGTCAAACTCGCACACTG
1 AGTGCTACATAATCAAA-TCGCACACTT
* ** *
58848217 AGGTGC-GCATGGTCAATTCGCACACTT
1 A-GTGCTACATAATCAAATCGCACACTT
* * *
58848244 AGTG--ACATATTC---TTGGACACTT
1 AGTGCTACATAATCAAATCGCACACTT
* *
58848266 AGTGCAACATAGTCAAATCGCACACTT
1 AGTGCTACATAATCAAATCGCACACTT
58848293 TATGTGTAAT
Statistics
Matches: 106, Mismatches: 18, Indels: 18
0.75 0.13 0.13
Matches are distributed among these distances:
22 12 0.11
24 7 0.07
25 5 0.05
26 3 0.03
27 30 0.28
28 35 0.33
29 11 0.10
30 3 0.03
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.27
Consensus pattern (27 bp):
AGTGCTACATAATCAAATCGCACACTT
Found at i:58849757 original size:1 final size:1
Alignment explanation
Indices: 58849751--58850200 Score: 801
Period size: 1 Copynumber: 450.0 Consensus size: 1
58849741 TATTTGTTTG
* * *
58849751 TTTTTTTTTTTTTTATATTTTTTTTTTTTTTTTTTTTTTTTTTGTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* * **
58849816 TTTATTTTTATTTTCGTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
*
58849881 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTGTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
58849946 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* * *
58850011 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTGTTTTTTTTTGTTTTGT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
58850076 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
58850141 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
58850201 CTGTCCATGC
Statistics
Matches: 428, Mismatches: 21, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
1 428 1.00
ACGTcount: A:0.01, C:0.00, G:0.01, T:0.98
Consensus pattern (1 bp):
T
Found at i:58887460 original size:28 final size:27
Alignment explanation
Indices: 58887420--58887497 Score: 79
Period size: 26 Copynumber: 2.9 Consensus size: 27
58887410 GCAGCCACTC
*
58887420 AGTGCTATATAATCAACTCGCACAACTT
1 AGTGCTA-CTAATCAACTCGCACAACTT
* *
58887448 AGTGCTACGTAATCAA-ACGCAC-AGTT
1 AGTGCTAC-TAATCAACTCGCACAACTT
*
58887474 AGTGCTACAAAGTCAACTCGCACA
1 AGTGCTACTAA-TCAACTCGCACA
58887498 CTTTAGTCCG
Statistics
Matches: 41, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
25 2 0.05
26 15 0.37
27 10 0.24
28 14 0.34
ACGTcount: A:0.36, C:0.26, G:0.15, T:0.23
Consensus pattern (27 bp):
AGTGCTACTAATCAACTCGCACAACTT
Found at i:58887495 original size:27 final size:27
Alignment explanation
Indices: 58887430--58887500 Score: 83
Period size: 26 Copynumber: 2.6 Consensus size: 27
58887420 AGTGCTATAT
*
58887430 AATCAACTCGCACAACTTAGTGCTACGT
1 AATCAACTCGCAC-ACTTAGTGCTACGA
* *
58887458 AATCAA-ACGCACAGTTAGTGCTAC-A
1 AATCAACTCGCACACTTAGTGCTACGA
58887483 AAGTCAACTCGCACACTT
1 AA-TCAACTCGCACACTT
58887501 TAGTCCGCCA
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
25 2 0.06
26 15 0.42
27 13 0.36
28 6 0.17
ACGTcount: A:0.35, C:0.28, G:0.14, T:0.23
Consensus pattern (27 bp):
AATCAACTCGCACACTTAGTGCTACGA
Found at i:58889799 original size:42 final size:44
Alignment explanation
Indices: 58889687--58889800 Score: 112
Period size: 42 Copynumber: 2.5 Consensus size: 44
58889677 ACCTTTCCAC
58889687 CTGCAACTTATGGGAGATAATGATTCACTATCTTCAATATGCATTCTA
1 CTGCAACTTA-GGGAGATAA-GATTCACTATCTTCAATAT--ATTCTA
*
58889735 CTGCAACTTTAGCAGAGA-AAGATTC-CTATCTTC-AT-T-TTCTCA
1 CTGCAAC-TTAG-GGAGATAAGATTCACTATCTTCAATATATTCT-A
58889777 CTGCAACTTCAGGGAGATAAGATT
1 CTGCAACTT-AGGGAGATAAGATT
58889801 TTATTGTAGC
Statistics
Matches: 59, Mismatches: 2, Indels: 16
0.77 0.03 0.21
Matches are distributed among these distances:
41 10 0.17
42 16 0.27
44 1 0.02
45 2 0.03
46 8 0.14
47 5 0.08
48 10 0.17
49 7 0.12
ACGTcount: A:0.31, C:0.20, G:0.16, T:0.33
Consensus pattern (44 bp):
CTGCAACTTAGGGAGATAAGATTCACTATCTTCAATATATTCTA
Found at i:58891992 original size:40 final size:40
Alignment explanation
Indices: 58891947--58892138 Score: 226
Period size: 40 Copynumber: 4.8 Consensus size: 40
58891937 ATAACCACAA
* * *
58891947 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
*
58891987 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
* * *
58892027 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATAGCAACTC
* * * * *
58892067 GCATAAATGCCTTCGGGACTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATAGCAACTC
* *
58892107 GCATAAATGCCTTCGGGACTTAGCCCGGATAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAT
58892139 CATTCAAATG
Statistics
Matches: 142, Mismatches: 9, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
39 1 0.01
40 137 0.96
41 4 0.03
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
Found at i:58892031 original size:80 final size:80
Alignment explanation
Indices: 58891918--58892137 Score: 248
Period size: 80 Copynumber: 2.8 Consensus size: 80
58891908 ACCCAAGTTT
* * * * * * * * *
58891918 CTTCGGAATTTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGGT-ATAG
1 CTTCGGGACTTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAAG
*
58891981 CAACTCGCACAAATGC
66 C-ACTAGCACAAATGC
* * *
58891997 CTTCGGGTCTTAGCCCGGAT-ATATCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAA
1 CTTCGGGACTTAGCCCGGATAAAATC-ACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAA
* *
58892061 TCACTAGCATAAATGC
65 GCACTAGCACAAATGC
* *
58892077 CTTCGGGACTTAGCCCGGATAAAATCACTAGCATAAATGCCTTCGGGACTTAGCCCGGATA
1 CTTCGGGACTTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATA
58892138 TCATTCAAAT
Statistics
Matches: 117, Mismatches: 20, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
79 12 0.10
80 98 0.84
81 7 0.06
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAAG
CACTAGCACAAATGC
Found at i:58900177 original size:40 final size:40
Alignment explanation
Indices: 58900132--58900323 Score: 226
Period size: 40 Copynumber: 4.8 Consensus size: 40
58900122 ATAACCACAA
* * *
58900132 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
*
58900172 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
* * *
58900212 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATAGCAACTC
* * * * *
58900252 GCATAAATGCCTTCGGGACTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATAGCAACTC
* *
58900292 GCATAAATGCCTTCGGGACTTAGCCCGGATAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAT
58900324 CATTCAAATG
Statistics
Matches: 142, Mismatches: 9, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
39 1 0.01
40 137 0.96
41 4 0.03
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
Found at i:58900216 original size:80 final size:80
Alignment explanation
Indices: 58900103--58900322 Score: 248
Period size: 80 Copynumber: 2.8 Consensus size: 80
58900093 ACCCAAGTTT
* * * * * * * * *
58900103 CTTCGGAATTTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGGT-ATAG
1 CTTCGGGACTTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAAG
*
58900166 CAACTCGCACAAATGC
66 C-ACTAGCACAAATGC
* * *
58900182 CTTCGGGTCTTAGCCCGGAT-ATATCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAA
1 CTTCGGGACTTAGCCCGGATAAAATC-ACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAA
* *
58900246 TCACTAGCATAAATGC
65 GCACTAGCACAAATGC
* *
58900262 CTTCGGGACTTAGCCCGGATAAAATCACTAGCATAAATGCCTTCGGGACTTAGCCCGGATA
1 CTTCGGGACTTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATA
58900323 TCATTCAAAT
Statistics
Matches: 117, Mismatches: 20, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
79 12 0.10
80 98 0.84
81 7 0.06
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAAG
CACTAGCACAAATGC
Found at i:58908619 original size:12 final size:12
Alignment explanation
Indices: 58908590--58908627 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
58908580 AGGAATACTG
58908590 TAATAATAATA-
1 TAATAATAATAT
58908601 TATATAATAATAT
1 TA-ATAATAATAT
*
58908614 TAATAATCATAT
1 TAATAATAATAT
58908626 TA
1 TA
58908628 TAGTGAGGAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
11 2 0.08
12 20 0.83
13 2 0.08
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (12 bp):
TAATAATAATAT
Found at i:58916328 original size:9 final size:9
Alignment explanation
Indices: 58916314--58916395 Score: 60
Period size: 9 Copynumber: 8.7 Consensus size: 9
58916304 TTAAAATACT
58916314 TTTTTTAAA
1 TTTTTTAAA
*
58916323 TTTTTTTAA
1 TTTTTTAAA
58916332 -TTTTTAAA
1 TTTTTTAAA
58916340 TTTTTTTAAAA
1 -TTTTTT-AAA
58916351 TTTTTTTAAATA
1 -TTTTTT-AA-A
*
58916363 CTTTTTTTAA
1 -TTTTTTAAA
*
58916373 TTTTTTTAA
1 TTTTTTAAA
*
58916382 -TTTTAAAA
1 TTTTTTAAA
58916390 TTTTTT
1 TTTTTT
58916396 TAAAATACTT
Statistics
Matches: 61, Mismatches: 7, Indels: 10
0.78 0.09 0.13
Matches are distributed among these distances:
8 13 0.21
9 21 0.34
10 6 0.10
11 14 0.23
12 7 0.11
ACGTcount: A:0.29, C:0.01, G:0.00, T:0.70
Consensus pattern (9 bp):
TTTTTTAAA
Found at i:58916328 original size:10 final size:10
Alignment explanation
Indices: 58916313--58916399 Score: 87
Period size: 10 Copynumber: 9.0 Consensus size: 10
58916303 TTTAAAATAC
58916313 TTTTTTTAAA
1 TTTTTTTAAA
58916323 TTTTTTT-AA
1 TTTTTTTAAA
58916332 --TTTTTAAA
1 TTTTTTTAAA
58916340 TTTTTTTAAAA
1 TTTTTTT-AAA
58916351 TTTTTTTAAA
1 TTTTTTTAAA
*
58916361 TACTTTTTTTAA
1 T--TTTTTTAAA
58916373 TTTTTTT-AA
1 TTTTTTTAAA
*
58916382 --TTTTAAAA
1 TTTTTTTAAA
58916390 TTTTTTTAAA
1 TTTTTTTAAA
58916400 ATACTTTTTT
Statistics
Matches: 65, Mismatches: 3, Indels: 18
0.76 0.03 0.21
Matches are distributed among these distances:
7 9 0.14
8 4 0.06
9 4 0.06
10 29 0.45
11 10 0.15
12 9 0.14
ACGTcount: A:0.31, C:0.01, G:0.00, T:0.68
Consensus pattern (10 bp):
TTTTTTTAAA
Found at i:58916368 original size:40 final size:40
Alignment explanation
Indices: 58916323--58916434 Score: 90
Period size: 40 Copynumber: 2.7 Consensus size: 40
58916313 TTTTTTTAAA
* *
58916323 TTTTTTTAATTTTTAAATT-TTTTTAAAA-TTTTTTTAA-A-
1 TTTTTTTAATTTTT--ATTAATTTTAAAATTTTTTTAAATAC
58916361 TACTTTTTTTAATTTTT-TTAATTTTAAAATTTTTTTAAAATAC
1 T--TTTT-TTAATTTTTATTAATTTTAAAATTTTTTT-AAATAC
58916404 TTTTTTTAATTTTTATTTTAATTTTTAAAAT
1 TTTTTTTAATTTTTA--TTAA-TTTTAAAAT
58916435 AAATTTTTGG
Statistics
Matches: 60, Mismatches: 2, Indels: 18
0.75 0.03 0.22
Matches are distributed among these distances:
38 3 0.05
39 8 0.13
40 19 0.32
41 15 0.25
42 1 0.02
43 5 0.08
44 9 0.15
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (40 bp):
TTTTTTTAATTTTTATTAATTTTAAAATTTTTTTAAATAC
Found at i:58916391 original size:50 final size:50
Alignment explanation
Indices: 58916298--58916429 Score: 176
Period size: 50 Copynumber: 2.5 Consensus size: 50
58916288 ATTTTTATTT
*
58916298 TTTTATTTAAAATACTTTTTTTAAATTTTTTTAATTTTTAAATTTTTTTAAAA
1 TTTT-TTT-AAATACTTTTTTT-AATTTTTTTAATTTTAAAATTTTTTTAAAA
58916351 TTTTTTTAAATACTTTTTTTAATTTTTTTAATTTTAAAATTTTTTTAAAA
1 TTTTTTTAAATACTTTTTTTAATTTTTTTAATTTTAAAATTTTTTTAAAA
* *
58916401 TACTTTTTTTAAT-TTTTATTTTAATTTTT
1 T--TTTTTTAAATACTTT-TTTTAATTTTT
58916430 AAAATAAATT
Statistics
Matches: 73, Mismatches: 3, Indels: 7
0.88 0.04 0.08
Matches are distributed among these distances:
50 30 0.41
51 16 0.22
52 23 0.32
53 4 0.05
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.67
Consensus pattern (50 bp):
TTTTTTTAAATACTTTTTTTAATTTTTTTAATTTTAAAATTTTTTTAAAA
Found at i:58922885 original size:22 final size:24
Alignment explanation
Indices: 58922859--58922913 Score: 60
Period size: 25 Copynumber: 2.3 Consensus size: 24
58922849 TTTATAAATT
58922859 TAATTTAA-AAAATATAAT-ACAA
1 TAATTTAAGAAAATATAATAACAA
* * *
58922881 TAATTTCAAGCATATTTAATAACAA
1 TAATTT-AAGAAAATATAATAACAA
58922906 TAATTTAA
1 TAATTTAA
58922914 TCATAAAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
22 6 0.22
23 2 0.07
24 9 0.33
25 10 0.37
ACGTcount: A:0.55, C:0.07, G:0.02, T:0.36
Consensus pattern (24 bp):
TAATTTAAGAAAATATAATAACAA
Found at i:58927156 original size:25 final size:25
Alignment explanation
Indices: 58927105--58927157 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 25
58927095 ATTTCTCACC
* *
58927105 CAAATTGACATCAACCTAGCCCCAA
1 CAAATTGACATCAACCAAGCCACAA
*
58927130 CAAATTGCACATCAA-CAAGCCATAA
1 CAAATTG-ACATCAACCAAGCCACAA
58927155 CAA
1 CAA
58927158 GGCATTTAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 17 0.71
26 7 0.29
ACGTcount: A:0.45, C:0.32, G:0.08, T:0.15
Consensus pattern (25 bp):
CAAATTGACATCAACCAAGCCACAA
Found at i:58932768 original size:51 final size:51
Alignment explanation
Indices: 58932655--58932971 Score: 382
Period size: 50 Copynumber: 6.3 Consensus size: 51
58932645 CTTGCATATG
* * *
58932655 ATCACTTATCACTTTTCACTGATCAGATAAGTGTAGTTG-GGCTACCACTT
1 ATCACTTATCACTTGTCACTGATCAGATAAGTGTAGCTGAAGCTACCACTT
*
58932705 ATCACTTATCACTTGTCACTGATCAAATAAGTGTAGCTGAAGCT---AC--
1 ATCACTTATCACTTGTCACTGATCAGATAAGTGTAGCTGAAGCTACCACTT
*
58932751 --CACTTATCACTTGTCACTGATCAGATAAGTGTAGCTG-GGCTACCACTT
1 ATCACTTATCACTTGTCACTGATCAGATAAGTGTAGCTGAAGCTACCACTT
*
58932799 ATCACTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTT
1 ATCACTTATCACTTGTCACTGATCAGATAAGTGTAGCTGAAGCTACCACTT
* * *
58932850 ATCACTTATCACTTGTCACTTGTCACTGATCAGATAAATGTAGCTAAAGCTATCACTT
1 ATCAC-T-T-A----TCACTTGTCACTGATCAGATAAGTGTAGCTGAAGCTACCACTT
** * * *
58932908 ATCACTTGCCACTTTTCACTGATTAGATAAGTGTAGCTGAAGCTATCACTT
1 ATCACTTATCACTTGTCACTGATCAGATAAGTGTAGCTGAAGCTACCACTT
58932959 ATCACTTATCACT
1 ATCACTTATCACT
58932972 GATCAGAAGT
Statistics
Matches: 233, Mismatches: 18, Indels: 31
0.83 0.06 0.11
Matches are distributed among these distances:
43 3 0.01
44 36 0.15
46 2 0.01
48 2 0.01
50 72 0.31
51 67 0.29
52 1 0.00
53 1 0.00
54 1 0.00
56 1 0.00
57 1 0.00
58 46 0.20
ACGTcount: A:0.29, C:0.23, G:0.15, T:0.33
Consensus pattern (51 bp):
ATCACTTATCACTTGTCACTGATCAGATAAGTGTAGCTGAAGCTACCACTT
Found at i:58932774 original size:94 final size:94
Alignment explanation
Indices: 58932657--58932862 Score: 367
Period size: 94 Copynumber: 2.2 Consensus size: 94
58932647 TGCATATGAT
* *
58932657 CACTTATCACTTTTCACTGATCAGATAAGTGTAGTTGGGCTACCACTTATCACTTATCACTTGTC
1 CACTTATCACTTATCACTGATCAGATAAGTGTAGCTGGGCTACCACTTATCACTTATCACTTGTC
*
58932722 ACTGATCAAATAAGTGTAGCTGAAGCTAC
66 ACTGATCAAATAAGTGTAGCTAAAGCTAC
*
58932751 CACTTATCACTTGTCACTGATCAGATAAGTGTAGCTGGGCTACCACTTATCACTTATCACTTGTC
1 CACTTATCACTTATCACTGATCAGATAAGTGTAGCTGGGCTACCACTTATCACTTATCACTTGTC
*
58932816 ACTGATCAGATAAGTGTAGCTAAAGCTAC
66 ACTGATCAAATAAGTGTAGCTAAAGCTAC
58932845 CACTTATCACTTATCACT
1 CACTTATCACTTATCACT
58932863 TGTCACTTGT
Statistics
Matches: 107, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
94 107 1.00
ACGTcount: A:0.29, C:0.24, G:0.15, T:0.33
Consensus pattern (94 bp):
CACTTATCACTTATCACTGATCAGATAAGTGTAGCTGGGCTACCACTTATCACTTATCACTTGTC
ACTGATCAAATAAGTGTAGCTAAAGCTAC
Found at i:58932861 original size:58 final size:57
Alignment explanation
Indices: 58932751--58932976 Score: 253
Period size: 58 Copynumber: 4.2 Consensus size: 57
58932741 CTGAAGCTAC
**
58932751 CACTTATCACTTGTCACTGATCAGATAAGTGTAGCT-GGGCT--AC----CACTTAT
1 CACTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACACTTATCACTTAT
58932801 CACTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTAT
1 CACTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTA-CACTTATCACTTAT
* *
58932859 CACTTGTCACTTGTCACTGATCAGATAAATGTAGCTAAAG-----C-TATCACTTAT
1 CACTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACACTTATCACTTAT
** * * *
58932910 CACTTGCCACTTTTCACTGATTAGATAAGTGTAGCTGAAGCTATCACTTATCACTTAT
1 CACTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTA-CACTTATCACTTAT
*
58932968 CACTGATCA
1 CACTTATCA
58932977 GAAGTACTCA
Statistics
Matches: 149, Mismatches: 12, Indels: 22
0.81 0.07 0.12
Matches are distributed among these distances:
50 36 0.24
51 48 0.32
52 1 0.01
54 2 0.01
57 1 0.01
58 61 0.41
ACGTcount: A:0.29, C:0.23, G:0.14, T:0.33
Consensus pattern (57 bp):
CACTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACACTTATCACTTAT
Found at i:58944441 original size:24 final size:24
Alignment explanation
Indices: 58944409--58944456 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
58944399 AAATCTCAAA
58944409 TATCCTGCAACAACTATACTTAAG
1 TATCCTGCAACAACTATACTTAAG
58944433 TATCCTGCAACAACTATACTTAAG
1 TATCCTGCAACAACTATACTTAAG
58944457 ATTCATGGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.38, C:0.25, G:0.08, T:0.29
Consensus pattern (24 bp):
TATCCTGCAACAACTATACTTAAG
Found at i:58946103 original size:166 final size:165
Alignment explanation
Indices: 58945809--58946162 Score: 422
Period size: 166 Copynumber: 2.1 Consensus size: 165
58945799 GGATACTGCA
* * * **
58945809 AACCATACTCACCAACATGAACACACAAAGCAAGCACTTGAAACATAAATCAAGATCGGTATTTA
1 AACCATACTCACCTAGATGAACACACAAAGCAAGCACTTGAAACATAAATCAAGAGCCATATTTA
* * ** * *
58945874 AGCTAGCAATCAAAAACAATAATAAGACTTTACTTACTAGTAATAATAATGTCATCATAGGTAAA
66 AACTAGCAATAAAAAACAATAATAAGACTCCACTTACTAGTAATAACAATGTCACCATAGGTAAA
** * * **
58945939 AGTTTAAGCTTTAATACAAGAATGCGACTACATTT
131 AGCCTAAGCTTTAATACAAGAATGCAACCACATCG
* * *
58945974 AACCATACTCACCTAGATGAGCATACAATGCAAGCA-TATGAAACATAAATCAAGAAGCCATATT
1 AACCATACTCACCTAGATGAACACACAAAGCAAGCACT-TGAAACATAAATCAAG-AGCCATATT
* * ** * *
58946038 TAAACTAGTAATAAAAAATAATAATACTACTCCACTTACTAGTAATAGCAATGTTACCATAGGTA
64 TAAACTAGCAATAAAAAACAATAATAAGACTCCACTTACTAGTAATAACAATGTCACCATAGGTA
* *
58946103 AAAGCCTAAGCTTTAATACTAGTATGCAACCACATCG
129 AAAGCCTAAGCTTTAATACAAGAATGCAACCACATCG
*
58946140 AACCATACTCACCTAGACGAACA
1 AACCATACTCACCTAGATGAACA
58946163 TGCATTTTTT
Statistics
Matches: 157, Mismatches: 30, Indels: 3
0.83 0.16 0.02
Matches are distributed among these distances:
164 1 0.01
165 47 0.30
166 109 0.69
ACGTcount: A:0.44, C:0.20, G:0.11, T:0.24
Consensus pattern (165 bp):
AACCATACTCACCTAGATGAACACACAAAGCAAGCACTTGAAACATAAATCAAGAGCCATATTTA
AACTAGCAATAAAAAACAATAATAAGACTCCACTTACTAGTAATAACAATGTCACCATAGGTAAA
AGCCTAAGCTTTAATACAAGAATGCAACCACATCG
Found at i:58948654 original size:3 final size:3
Alignment explanation
Indices: 58948646--58948673 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
58948636 GATGTGTACG
58948646 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
58948674 TGAATGATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:58950365 original size:25 final size:26
Alignment explanation
Indices: 58950337--58950399 Score: 67
Period size: 24 Copynumber: 2.5 Consensus size: 26
58950327 TGATTAAAGA
*
58950337 ATTTTAATTGAACTTAA-TAAAATAT
1 ATTTTAATTAAACTTAATTAAAATAT
* *
58950362 A-TTTATTTAAATTTAATTAAAATAT
1 ATTTTAATTAAACTTAATTAAAATAT
*
58950387 ATATTAATATAAA
1 ATTTTAAT-TAAA
58950400 ATAAATTTTA
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
24 12 0.40
25 10 0.33
26 4 0.13
27 4 0.13
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.46
Consensus pattern (26 bp):
ATTTTAATTAAACTTAATTAAAATAT
Found at i:58950399 original size:27 final size:24
Alignment explanation
Indices: 58950350--58950399 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 24
58950340 TTAATTGAAC
*
58950350 TTAATAAAATATATTTATTTAAAT
1 TTAATAAAATATATTTATATAAAT
58950374 TTAATTAAAATATATATTAATATAAA
1 TTAA-TAAAATATAT-TT-ATATAAA
58950400 ATAAATTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 4 0.18
25 10 0.45
26 2 0.09
27 6 0.27
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (24 bp):
TTAATAAAATATATTTATATAAAT
Found at i:58950406 original size:27 final size:25
Alignment explanation
Indices: 58950354--58950406 Score: 61
Period size: 27 Copynumber: 2.0 Consensus size: 25
58950344 TTGAACTTAA
* * *
58950354 TAAAATATATTTATTTAAATTTAAT
1 TAAAATATATTTATATAAAATAAAT
58950379 TAAAATATATATTAATATAAAATAAAT
1 TAAAATATAT-TT-ATATAAAATAAAT
58950406 T
1 T
58950407 TTAAAATTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 10 0.43
26 2 0.09
27 11 0.48
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (25 bp):
TAAAATATATTTATATAAAATAAAT
Found at i:58950410 original size:17 final size:16
Alignment explanation
Indices: 58950369--58950410 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
58950359 TATATTTATT
58950369 TAAA-TTTAATTAAAA
1 TAAATTTTAATTAAAA
* *
58950384 TATATATTAATATAAAA
1 TAAATTTTAAT-TAAAA
58950401 TAAATTTTAA
1 TAAATTTTAA
58950411 AATTTAAATT
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
15 3 0.14
16 5 0.24
17 13 0.62
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (16 bp):
TAAATTTTAATTAAAA
Found at i:58950618 original size:36 final size:36
Alignment explanation
Indices: 58950571--58950643 Score: 119
Period size: 36 Copynumber: 2.0 Consensus size: 36
58950561 GTCATGCGCC
* *
58950571 ATTATTTAATTATTTCATTAGTCACATTAATTTTTA
1 ATTATTTAATTATTCCATTAGCCACATTAATTTTTA
*
58950607 ATTATTTAATTATTCCATTGGCCACATTAATTTTTA
1 ATTATTTAATTATTCCATTAGCCACATTAATTTTTA
58950643 A
1 A
58950644 CGGTACAAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.33, C:0.11, G:0.04, T:0.52
Consensus pattern (36 bp):
ATTATTTAATTATTCCATTAGCCACATTAATTTTTA
Found at i:58952960 original size:19 final size:19
Alignment explanation
Indices: 58952932--58952968 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
58952922 ATACAGCTTG
* *
58952932 TACACGGGTGTGTGGACCC
1 TACACAGGTGTGTAGACCC
58952951 TACACAGGTGTGTAGACC
1 TACACAGGTGTGTAGACC
58952969 TCCACACGGC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.22, C:0.24, G:0.32, T:0.22
Consensus pattern (19 bp):
TACACAGGTGTGTAGACCC
Found at i:58957931 original size:85 final size:84
Alignment explanation
Indices: 58957791--58957955 Score: 201
Period size: 85 Copynumber: 2.0 Consensus size: 84
58957781 GTGGTTTTAG
*
58957791 TCTGCTCCACTACAACGTCAGGGAGATAAGACTTGTATTTTCAACCTGCTCCACTGCAACTTCAG
1 TCTGCTCCACTACAACGTCAGAGAGATAAGACTTGTATTTTCAACCTGCTCCACTGCAACTTCAG
* *
58957856 GGAGATAAGGTTTGATGCGA
66 GAAGAT-AGGATTGATGCGA
* * * * *
58957876 TCTGCTCTACTGCAACGTTAGAGAGATAAGATCTATG-GTTTT-AATCC-GCTTCACTGCAACTT
1 TCTGCTCCACTACAACGTCAGAGAGATAAGA-CT-TGTATTTTCAA-CCTGCTCCACTGCAACTT
58957938 CAGGAAGATAGGATTGAT
63 CAGGAAGATAGGATTGAT
58957956 TTCTTTCGTC
Statistics
Matches: 69, Mismatches: 8, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
84 8 0.12
85 51 0.74
86 8 0.12
87 2 0.03
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.29
Consensus pattern (84 bp):
TCTGCTCCACTACAACGTCAGAGAGATAAGACTTGTATTTTCAACCTGCTCCACTGCAACTTCAG
GAAGATAGGATTGATGCGA
Done.