Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D04
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: 52479919
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.33
Warning! 336953 characters in sequence are not A, C, G, or T
File 17 of 173
Found at i:4477846 original size:20 final size:19
Alignment explanation
Indices: 4477800--4477851 Score: 52
Period size: 20 Copynumber: 2.6 Consensus size: 19
4477790 TGTTTTATGT
**
4477800 ATAAGATTATTATTTTATTT
1 ATAA-ATTATTATTTTATAA
4477820 ATAAAATTATTATTTTAATAA
1 AT-AAATTATTATTTT-ATAA
4477841 ATAAATT-TTAT
1 ATAAATTATTAT
4477852 GTTAGAAATT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
19 4 0.14
20 18 0.64
21 6 0.21
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (19 bp):
ATAAATTATTATTTTATAA
Found at i:4481779 original size:222 final size:222
Alignment explanation
Indices: 4481393--4481819 Score: 773
Period size: 222 Copynumber: 1.9 Consensus size: 222
4481383 CTAATAGCTC
* *
4481393 ATCAGAGTTTATCACATACATTGCACCTTGAGATGTAAGTACTACTATTGCATCTGCTACAACTT
1 ATCAGAGTCTATCACATACATTGCACCTTGAGATGTAAGTACTACTATTGCATCAGCTACAACTT
*
4481458 ATCACAAATATTGCTATGCCTACTGCTATCGGGTGATGGTGCAAGAAATGCTGTTTCAATTCCAA
66 ATCACAAATATTGCTATGCCTACTGCTATCGGGAGATGGTGCAAGAAATGCTGTTTCAATTCCAA
* *
4481523 GCACTTATGATCTGAGACTATTGTCCGAAAGTTGCAGGAAATTGTTAATTGAAGAGGAGAATAGA
131 GCACTTATGATCTGAGACTATTGTCCAAAAGTTGCAGGAAATTGTTAATTGAAGAGAAGAATAGA
4481588 AGGAAAGTGTATCTGATGCCTTCTGCT
196 AGGAAAGTGTATCTGATGCCTTCTGCT
**
4481615 ATCAGAGTCTATCACATACATTGCACCTTGAGATGTAAGTACTACTATTTTATCAGCTACAACTT
1 ATCAGAGTCTATCACATACATTGCACCTTGAGATGTAAGTACTACTATTGCATCAGCTACAACTT
4481680 ATCACAAATATTGCTATGCCTACTGCTATCGGGAGATGGTGCAAGAAATGCTGTTTCAATTCCAA
66 ATCACAAATATTGCTATGCCTACTGCTATCGGGAGATGGTGCAAGAAATGCTGTTTCAATTCCAA
*
4481745 GCACTTATGTTCTGAGACTATTGTCCAAAAGTTGCAGGAAATTGTTAATTGAAGAGAAGAATAGA
131 GCACTTATGATCTGAGACTATTGTCCAAAAGTTGCAGGAAATTGTTAATTGAAGAGAAGAATAGA
*
4481810 GGGAAAGTGT
196 AGGAAAGTGT
4481820 TATACCTGAC
Statistics
Matches: 196, Mismatches: 9, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
222 196 1.00
ACGTcount: A:0.32, C:0.17, G:0.20, T:0.31
Consensus pattern (222 bp):
ATCAGAGTCTATCACATACATTGCACCTTGAGATGTAAGTACTACTATTGCATCAGCTACAACTT
ATCACAAATATTGCTATGCCTACTGCTATCGGGAGATGGTGCAAGAAATGCTGTTTCAATTCCAA
GCACTTATGATCTGAGACTATTGTCCAAAAGTTGCAGGAAATTGTTAATTGAAGAGAAGAATAGA
AGGAAAGTGTATCTGATGCCTTCTGCT
Found at i:4486194 original size:3 final size:3
Alignment explanation
Indices: 4486186--4486213 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
4486176 TGGTTTGATC
4486186 TCT TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT T
4486214 TTTGAATGGA
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:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:4489717 original size:22 final size:21
Alignment explanation
Indices: 4489675--4489717 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
4489665 AGGGTTACTA
*
4489675 AAATAATTATTATTTAAAATT
1 AAATAATTATTATTCAAAATT
* *
4489696 AAATTATTATATATTCAGAATT
1 AAATAATTAT-TATTCAAAATT
4489718 TATATTTTAT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (21 bp):
AAATAATTATTATTCAAAATT
Found at i:4489821 original size:2 final size:2
Alignment explanation
Indices: 4489810--4489844 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
4489800 TAAATTTAAT
4489810 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4489845 AGAGTAAATT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:4491266 original size:17 final size:18
Alignment explanation
Indices: 4491246--4491300 Score: 69
Period size: 17 Copynumber: 3.2 Consensus size: 18
4491236 TCATAAATAA
4491246 AAATATATAAA-ATTATT
1 AAATATATAAATATTATT
**
4491263 AAATAT-TAAATATTAAA
1 AAATATATAAATATTATT
*
4491280 AAATATATAAATATTTTT
1 AAATATATAAATATTATT
4491298 AAA
1 AAA
4491301 AAAAATTATT
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
16 4 0.13
17 16 0.52
18 11 0.35
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (18 bp):
AAATATATAAATATTATT
Found at i:4493628 original size:2 final size:2
Alignment explanation
Indices: 4493621--4493651 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
4493611 CTGTAAAAGA
4493621 AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4493652 TATGGGATGG
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:4494369 original size:24 final size:24
Alignment explanation
Indices: 4494342--4494398 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 24
4494332 ATAATAAAAA
4494342 ATATTAAATAATAAAAATACATTT-
1 ATATTAAATAATAAAAA-ACATTTG
* * *
4494366 ATATTAACTTATTAAAAACATTTG
1 ATATTAAATAATAAAAAACATTTG
4494390 ATATTAAAT
1 ATATTAAAT
4494399 GATAGTTATT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
23 6 0.21
24 22 0.79
ACGTcount: A:0.53, C:0.05, G:0.02, T:0.40
Consensus pattern (24 bp):
ATATTAAATAATAAAAAACATTTG
Found at i:4499381 original size:22 final size:22
Alignment explanation
Indices: 4499355--4499396 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
4499345 CCTCAGCTAC
4499355 CCAAACACAACCAAACCCAAAT
1 CCAAACACAACCAAACCCAAAT
* *
4499377 CCAAACAGAACCAGACCCAA
1 CCAAACACAACCAAACCCAA
4499397 CTAGCCTAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.52, C:0.40, G:0.05, T:0.02
Consensus pattern (22 bp):
CCAAACACAACCAAACCCAAAT
Found at i:4500518 original size:3 final size:3
Alignment explanation
Indices: 4500512--4500563 Score: 104
Period size: 3 Copynumber: 17.3 Consensus size: 3
4500502 ATTATTATTA
4500512 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG
4500560 TTG T
1 TTG T
4500564 CGTCGTCGTC
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.00, C:0.00, G:0.33, T:0.67
Consensus pattern (3 bp):
TTG
Found at i:4500740 original size:23 final size:24
Alignment explanation
Indices: 4500688--4500744 Score: 64
Period size: 23 Copynumber: 2.5 Consensus size: 24
4500678 TATATAGGTG
*
4500688 TTTATATAT-TACATATAATTTAT
1 TTTATATATATACAAATAATTTAT
* * *
4500711 TTAATATATATATAAATACTTT-T
1 TTTATATATATACAAATAATTTAT
4500734 TTTATATATAT
1 TTTATATATAT
4500745 GCATATTTAT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
23 19 0.68
24 9 0.32
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (24 bp):
TTTATATATATACAAATAATTTAT
Found at i:4501226 original size:74 final size:75
Alignment explanation
Indices: 4501140--4501289 Score: 266
Period size: 74 Copynumber: 2.0 Consensus size: 75
4501130 CTAAGGTGCT
* *
4501140 GGGTGTCGATTTTTCTCGTTTAACCAAATGGCTTAATATCC-TTTAAAAAAATTTAAAATAAGGC
1 GGGTGTCAATTTTTCTCGTTCAACCAAATGGCTTAATATCCTTTTAAAAAAATTTAAAATAAGGC
4501204 AATGTTTTGC
66 AATGTTTTGC
*
4501214 GGGTGTCAATTTTTCTCGTTCAACCAAATGGCTTAATATCCTTTTAAAAAATTTTAAAATAAGGC
1 GGGTGTCAATTTTTCTCGTTCAACCAAATGGCTTAATATCCTTTTAAAAAAATTTAAAATAAGGC
4501279 AATGTTTTGC
66 AATGTTTTGC
4501289 G
1 G
4501290 TTTGGGAAAT
Statistics
Matches: 72, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
74 39 0.54
75 33 0.46
ACGTcount: A:0.32, C:0.14, G:0.16, T:0.38
Consensus pattern (75 bp):
GGGTGTCAATTTTTCTCGTTCAACCAAATGGCTTAATATCCTTTTAAAAAAATTTAAAATAAGGC
AATGTTTTGC
Found at i:4501524 original size:112 final size:111
Alignment explanation
Indices: 4501214--4501588 Score: 599
Period size: 110 Copynumber: 3.4 Consensus size: 111
4501204 AATGTTTTGC
* * *
4501214 GGGTGTCAATTTTTCTCGTTCAACCAAATGGCTTAATATCCTTTTAAAAAATTTTAAAATAAGGC
1 GGGTGTCGATTTTTCTCATTCAACCAAATGGCTAAATATCCTTTTAAAAAATTTTAAAATAAGGC
* * *
4501279 AATGTTTTGCGTTTGGGAAATTTGAGAAAACATGCCCTAAGGTGCT
66 AATGTTTTGCATTTGGGAAATTCGAGAAAACGTGCCCTAAGGTGCT
4501325 GGGTGTCGATTTTTCTCATTCAACCAAATGGCTAAATATCCTTTT-AAAAATTTTAAAATAAGGC
1 GGGTGTCGATTTTTCTCATTCAACCAAATGGCTAAATATCCTTTTAAAAAATTTTAAAATAAGGC
* *
4501389 AATGTTTTGCATTTGGGTAATTCGAGAGAACGTGCCCTAAGGTGCT
66 AATGTTTTGCATTTGGGAAATTCGAGAAAACGTGCCCTAAGGTGCT
* **
4501435 GGGTGTCGATTTTTCTCGTTCAACCAAATGGCTAAATATCCTTTTAAAAAAATTTCGAAATAAGG
1 GGGTGTCGATTTTTCTCATTCAACCAAATGGCTAAATATCCTTTT-AAAAAATTTTAAAATAAGG
4501500 CAATGTTTTGCATTTGGGAAATTCGAGAAAACGTGCCCTAAGGTGCT
65 CAATGTTTTGCATTTGGGAAATTCGAGAAAACGTGCCCTAAGGTGCT
* * * *
4501547 GGGTGTCGATTTTTCTCATTTAACCGAATAGCCAAATATCCT
1 GGGTGTCGATTTTTCTCATTCAACCAAATGGCTAAATATCCT
4501589 CTTGAATTTC
Statistics
Matches: 244, Mismatches: 18, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
110 104 0.43
111 42 0.17
112 98 0.40
ACGTcount: A:0.30, C:0.16, G:0.19, T:0.34
Consensus pattern (111 bp):
GGGTGTCGATTTTTCTCATTCAACCAAATGGCTAAATATCCTTTTAAAAAATTTTAAAATAAGGC
AATGTTTTGCATTTGGGAAATTCGAGAAAACGTGCCCTAAGGTGCT
Found at i:4505059 original size:20 final size:20
Alignment explanation
Indices: 4505034--4505071 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
4505024 TGAGCACCGA
*
4505034 AATAACAGATACAAAAATTC
1 AATAACAAATACAAAAATTC
*
4505054 AATAACAAATAGAAAAAT
1 AATAACAAATACAAAAAT
4505072 AACACAAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.66, C:0.11, G:0.05, T:0.18
Consensus pattern (20 bp):
AATAACAAATACAAAAATTC
Found at i:4509623 original size:27 final size:26
Alignment explanation
Indices: 4509571--4509640 Score: 106
Period size: 27 Copynumber: 2.7 Consensus size: 26
4509561 ATTATATATT
* *
4509571 AAATATATATATTTTTATTTTTAATC
1 AAATATATATATTATTATTTTCAATC
4509597 AAATATATATATATATTATTTTCAATC
1 AAATATATATAT-TATTATTTTCAATC
4509624 AAATATATATATT-TTAT
1 AAATATATATATTATTAT
4509641 ATATATTAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
25 4 0.10
26 13 0.32
27 24 0.59
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.53
Consensus pattern (26 bp):
AAATATATATATTATTATTTTCAATC
Found at i:4509643 original size:11 final size:11
Alignment explanation
Indices: 4509628--4509664 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
4509618 TCAATCAAAT
*
4509628 ATATATATTTT
1 ATATATATTTA
*
4509639 ATATATATTAA
1 ATATATATTTA
4509650 ATATATATTTA
1 ATATATATTTA
4509661 ATAT
1 ATAT
4509665 GGGTTAGACC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (11 bp):
ATATATATTTA
Found at i:4511323 original size:28 final size:28
Alignment explanation
Indices: 4511276--4511335 Score: 102
Period size: 28 Copynumber: 2.1 Consensus size: 28
4511266 ATTCCTACTC
*
4511276 TTTTCTAATAGCAGATTGATAAATTAGA
1 TTTTCTAATAGCAGAATGATAAATTAGA
*
4511304 TTTTCTAATAGGAGAATGATAAATTAGA
1 TTTTCTAATAGCAGAATGATAAATTAGA
4511332 TTTT
1 TTTT
4511336 TTTTTCCTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.38, C:0.05, G:0.15, T:0.42
Consensus pattern (28 bp):
TTTTCTAATAGCAGAATGATAAATTAGA
Found at i:4512616 original size:18 final size:18
Alignment explanation
Indices: 4512593--4512627 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
4512583 TGTAAGTGTG
4512593 TGAAGAATCATTAAGGTA
1 TGAAGAATCATTAAGGTA
*
4512611 TGAAGAGTCATTAAGGT
1 TGAAGAATCATTAAGGT
4512628 GGAGGAGATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.40, C:0.06, G:0.26, T:0.29
Consensus pattern (18 bp):
TGAAGAATCATTAAGGTA
Found at i:4537658 original size:21 final size:22
Alignment explanation
Indices: 4537629--4537675 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
4537619 CAGAAGGAGT
*
4537629 GAGTAGTACTTCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
4537651 GAGT-GTACTCCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
4537672 GAGT
1 GAGT
4537676 TTGAGCAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.19, G:0.38, T:0.21
Consensus pattern (22 bp):
GAGTAGTACTCCGCAGCAGGTG
Found at i:4560552 original size:18 final size:18
Alignment explanation
Indices: 4560529--4560566 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
4560519 CTGATTTACA
4560529 TAGGATTAAAAGTAGGAG
1 TAGGATTAAAAGTAGGAG
**
4560547 TAGGATTAGTAGTAGGAG
1 TAGGATTAAAAGTAGGAG
4560565 TA
1 TA
4560567 TGAGTAGTGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.00, G:0.34, T:0.26
Consensus pattern (18 bp):
TAGGATTAAAAGTAGGAG
Found at i:4560574 original size:18 final size:18
Alignment explanation
Indices: 4560539--4560574 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
4560529 TAGGATTAAA
*
4560539 AGTAGGAGTAGGATTAGT
1 AGTAGGAGTAGGAGTAGT
*
4560557 AGTAGGAGTATGAGTAGT
1 AGTAGGAGTAGGAGTAGT
4560575 GTTAGATGTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.33, C:0.00, G:0.39, T:0.28
Consensus pattern (18 bp):
AGTAGGAGTAGGAGTAGT
Found at i:4563897 original size:41 final size:41
Alignment explanation
Indices: 4563846--4563940 Score: 122
Period size: 41 Copynumber: 2.3 Consensus size: 41
4563836 TCAAACCGTT
* * *
4563846 TTGATGTTGCAAAGTTCTAG-ATGGGTTC-TCCTCTAGTCATG
1 TTGAAGTTGCAAAGTTC-AGAATGGG-CCATCCTCTAGCCATG
*
4563887 TTGAAGTTGCAAAGTTCGGAATGGGCCATCCTCTAGCCATG
1 TTGAAGTTGCAAAGTTCAGAATGGGCCATCCTCTAGCCATG
4563928 TTGAAGTTGCAAA
1 TTGAAGTTGCAAA
4563941 ATCTTTTCTT
Statistics
Matches: 48, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
40 2 0.04
41 46 0.96
ACGTcount: A:0.24, C:0.18, G:0.25, T:0.33
Consensus pattern (41 bp):
TTGAAGTTGCAAAGTTCAGAATGGGCCATCCTCTAGCCATG
Found at i:4566888 original size:23 final size:23
Alignment explanation
Indices: 4566854--4566928 Score: 89
Period size: 23 Copynumber: 3.3 Consensus size: 23
4566844 AACATATTGG
* *
4566854 ATAACACAAAGCACCGAAGTGAT
1 ATAACACAAAGCACCAAAGTGCT
* *
4566877 GTAACACGAAGCA-CAAATGTGCT
1 ATAACACAAAGCACCAAA-GTGCT
*
4566900 ATATCACAAAGCACCAAAGTGCT
1 ATAACACAAAGCACCAAAGTGCT
4566923 ATAACA
1 ATAACA
4566929 TGAAGTACCG
Statistics
Matches: 42, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
22 3 0.07
23 35 0.83
24 4 0.10
ACGTcount: A:0.45, C:0.23, G:0.16, T:0.16
Consensus pattern (23 bp):
ATAACACAAAGCACCAAAGTGCT
Found at i:4599386 original size:87 final size:87
Alignment explanation
Indices: 4599230--4599389 Score: 268
Period size: 87 Copynumber: 1.8 Consensus size: 87
4599220 AAAGAATTAG
*
4599230 TGGTGCTAACATGATTTGAAAGCAATGCATATACAAATCAAGTACATAATTTAGTTATCCAAATA
1 TGGTGCTAACATGATTTGAAAGCAATGCATATACAAATCAAGTACATAAATTAGTTATCCAAATA
4599295 ATTTATAAGCAAAAGAGCTCAA
66 ATTTATAAGCAAAAGAGCTCAA
* *
4599317 TGGTTCTAACATGATTTGAAAGCAATGCATATACAAATCAAGTGTCA-AAATTAGTTATCCAAAT
1 TGGTGCTAACATGATTTGAAAGCAATGCATATACAAATCAAGT-ACATAAATTAGTTATCCAAAT
*
4599381 GATTTATAA
65 AATTTATAA
4599390 ACATGCTCTT
Statistics
Matches: 68, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
87 66 0.97
88 2 0.03
ACGTcount: A:0.42, C:0.13, G:0.14, T:0.31
Consensus pattern (87 bp):
TGGTGCTAACATGATTTGAAAGCAATGCATATACAAATCAAGTACATAAATTAGTTATCCAAATA
ATTTATAAGCAAAAGAGCTCAA
Found at i:4599984 original size:22 final size:23
Alignment explanation
Indices: 4599911--4599972 Score: 79
Period size: 23 Copynumber: 2.7 Consensus size: 23
4599901 TAACACTCCA
* *
4599911 CAATAATAATCGCATCAAAGTGC
1 CAATAACAATCGCACCAAAGTGC
* * *
4599934 TAGTATCAATCGCACCAAAGTGC
1 CAATAACAATCGCACCAAAGTGC
4599957 CAATAACAATCGCACC
1 CAATAACAATCGCACC
4599973 GAGTGTCAAT
Statistics
Matches: 31, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.40, C:0.27, G:0.13, T:0.19
Consensus pattern (23 bp):
CAATAACAATCGCACCAAAGTGC
Found at i:4603201 original size:52 final size:46
Alignment explanation
Indices: 4603093--4603208 Score: 200
Period size: 46 Copynumber: 2.6 Consensus size: 46
4603083 TTTGAGTACT
*
4603093 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTA
4603139 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTA
*
4603185 TCTGATC-AGGGAC-AAGTGATAAGT
1 TCTGATCAAGTGACAAAGTGATAAGT
4603209 AATCATATGT
Statistics
Matches: 68, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
44 11 0.16
45 5 0.07
46 52 0.76
ACGTcount: A:0.33, C:0.16, G:0.23, T:0.28
Consensus pattern (46 bp):
TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTA
Found at i:4614476 original size:22 final size:23
Alignment explanation
Indices: 4614446--4614489 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
4614436 AAATTACATA
4614446 ATATATAAAAA-TAGAATAAAAAC
1 ATATATAAAAAGTA-AATAAAAAC
4614469 ATAT-TAAAAAGTAAATAAAAA
1 ATATATAAAAAGTAAATAAAAA
4614490 TGGACTGATC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 14 0.70
23 6 0.30
ACGTcount: A:0.70, C:0.02, G:0.05, T:0.23
Consensus pattern (23 bp):
ATATATAAAAAGTAAATAAAAAC
Found at i:4615771 original size:6 final size:6
Alignment explanation
Indices: 4615759--4615806 Score: 78
Period size: 6 Copynumber: 8.0 Consensus size: 6
4615749 ATAGATAGGT
* *
4615759 AATATA GATATA GATATA AATATA AATATA AATATA AATATA AATATA
1 AATATA AATATA AATATA AATATA AATATA AATATA AATATA AATATA
4615807 TTACACTAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
6 40 1.00
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.33
Consensus pattern (6 bp):
AATATA
Found at i:4623072 original size:12 final size:12
Alignment explanation
Indices: 4623055--4623096 Score: 52
Period size: 12 Copynumber: 3.6 Consensus size: 12
4623045 GGGTAATTTA
*
4623055 ATATATATGTAT
1 ATATATATGGAT
4623067 ATATATATGGAT
1 ATATATATGGAT
4623079 GATATA-ATGGAT
1 -ATATATATGGAT
4623091 AT-TATA
1 ATATATA
4623097 GCAATTAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
10 2 0.07
11 3 0.11
12 17 0.63
13 5 0.19
ACGTcount: A:0.43, C:0.00, G:0.14, T:0.43
Consensus pattern (12 bp):
ATATATATGGAT
Found at i:4624073 original size:14 final size:13
Alignment explanation
Indices: 4624046--4624088 Score: 50
Period size: 14 Copynumber: 3.2 Consensus size: 13
4624036 ATAAACCTTG
4624046 AACCCCAAACTCA
1 AACCCCAAACTCA
*
4624059 AACCCTAAACTTCA
1 AACCCCAAAC-TCA
*
4624073 AACCTCAAATCTCA
1 AACCCCAAA-CTCA
4624087 AA
1 AA
4624089 TCTCAAACAT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
13 9 0.36
14 15 0.60
15 1 0.04
ACGTcount: A:0.47, C:0.37, G:0.00, T:0.16
Consensus pattern (13 bp):
AACCCCAAACTCA
Found at i:4625096 original size:12 final size:12
Alignment explanation
Indices: 4625080--4625108 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
4625070 TTTTATTTTT
4625080 ATTTTTAAAAT-
1 ATTTTTAAAATA
4625091 ATTTTTAAAATA
1 ATTTTTAAAATA
4625103 ATTTTT
1 ATTTTT
4625109 TATTTTTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 11 0.65
12 6 0.35
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (12 bp):
ATTTTTAAAATA
Found at i:4625114 original size:19 final size:20
Alignment explanation
Indices: 4625090--4625128 Score: 71
Period size: 19 Copynumber: 2.0 Consensus size: 20
4625080 ATTTTTAAAA
4625090 TATTTTTAAAAT-AATTTTT
1 TATTTTTAAAATAAATTTTT
4625109 TATTTTTAAAATAAATTTTT
1 TATTTTTAAAATAAATTTTT
4625129 GGTGTTTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 12 0.63
20 7 0.37
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (20 bp):
TATTTTTAAAATAAATTTTT
Found at i:4625136 original size:20 final size:19
Alignment explanation
Indices: 4625094--4625136 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
4625084 TTAAAATATT
* *
4625094 TTTAAAATAATTTTTTATT
1 TTTAAAATAATTTTTGATG
*
4625113 TTTAAAATAAATTTTTGGTG
1 TTTAAAAT-AATTTTTGATG
4625133 TTTA
1 TTTA
4625137 TTAAAAAATG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 8 0.40
20 12 0.60
ACGTcount: A:0.35, C:0.00, G:0.07, T:0.58
Consensus pattern (19 bp):
TTTAAAATAATTTTTGATG
Found at i:4635040 original size:15 final size:16
Alignment explanation
Indices: 4635008--4635041 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
4634998 GTTAATGGAA
*
4635008 AAAATAATTTTAATAT
1 AAAATAATTATAATAT
4635024 AAAATAATTAT-ATAT
1 AAAATAATTATAATAT
4635039 AAA
1 AAA
4635042 GTTCTAATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 7 0.41
16 10 0.59
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (16 bp):
AAAATAATTATAATAT
Found at i:4635139 original size:15 final size:16
Alignment explanation
Indices: 4635118--4635153 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
4635108 TATGATAGCT
*
4635118 TTTTTTTATGAAATAA
1 TTTTTTTATCAAATAA
*
4635134 TTTTTTTATCAAATTA
1 TTTTTTTATCAAATAA
4635150 TTTT
1 TTTT
4635154 ACCAAAATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.64
Consensus pattern (16 bp):
TTTTTTTATCAAATAA
Found at i:4636583 original size:12 final size:13
Alignment explanation
Indices: 4636566--4636594 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
4636556 ATGCACTGGG
4636566 TTTTC-TTTTCTT
1 TTTTCTTTTTCTT
4636578 TTTTCTTTTTCTT
1 TTTTCTTTTTCTT
4636591 TTTT
1 TTTT
4636595 TTAAAATTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 5 0.31
13 11 0.69
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (13 bp):
TTTTCTTTTTCTT
Found at i:4641125 original size:29 final size:28
Alignment explanation
Indices: 4641076--4641130 Score: 92
Period size: 29 Copynumber: 1.9 Consensus size: 28
4641066 TCGGATTCTT
*
4641076 TTTAATAGTACAAGATTAAATTGATCTA
1 TTTAATAGTAAAAGATTAAATTGATCTA
4641104 TTTAATAGTAGAAAGATTAAATTGATC
1 TTTAATAGTA-AAAGATTAAATTGATC
4641131 CAATCTCTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
28 10 0.40
29 15 0.60
ACGTcount: A:0.44, C:0.05, G:0.13, T:0.38
Consensus pattern (28 bp):
TTTAATAGTAAAAGATTAAATTGATCTA
Found at i:4644663 original size:15 final size:15
Alignment explanation
Indices: 4644643--4644671 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
4644633 AGACAAAGCA
4644643 GAAGAAGAAGCAGAT
1 GAAGAAGAAGCAGAT
4644658 GAAGAAGAAGCAGA
1 GAAGAAGAAGCAGA
4644672 AGAAATAGAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.55, C:0.07, G:0.34, T:0.03
Consensus pattern (15 bp):
GAAGAAGAAGCAGAT
Found at i:4644672 original size:24 final size:24
Alignment explanation
Indices: 4644642--4644713 Score: 81
Period size: 24 Copynumber: 3.0 Consensus size: 24
4644632 GAGACAAAGC
*
4644642 AGAAGAAGAAGCAGATGAAGAAGA
1 AGAAGAAGAAGCAGAGGAAGAAGA
* **
4644666 AGCAGAAGAAATAGAGGAAGAAGA
1 AGAAGAAGAAGCAGAGGAAGAAGA
* * *
4644690 GGAAGGAGAAGGAGAGGAAGAAGA
1 AGAAGAAGAAGCAGAGGAAGAAGA
4644714 GAAAGAGAAA
Statistics
Matches: 39, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 39 1.00
ACGTcount: A:0.56, C:0.03, G:0.39, T:0.03
Consensus pattern (24 bp):
AGAAGAAGAAGCAGAGGAAGAAGA
Found at i:4644714 original size:24 final size:23
Alignment explanation
Indices: 4644678--4644722 Score: 72
Period size: 24 Copynumber: 1.9 Consensus size: 23
4644668 CAGAAGAAAT
*
4644678 AGAGGAAGAAGAGGAAGGAGAAGG
1 AGAGGAAGAAGA-GAAAGAGAAGG
4644702 AGAGGAAGAAGAGAAAGAGAA
1 AGAGGAAGAAGAGAAAGAGAA
4644723 AATGATGTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 8 0.40
24 12 0.60
ACGTcount: A:0.56, C:0.00, G:0.44, T:0.00
Consensus pattern (23 bp):
AGAGGAAGAAGAGAAAGAGAAGG
Found at i:4647115 original size:21 final size:20
Alignment explanation
Indices: 4647090--4647134 Score: 54
Period size: 21 Copynumber: 2.2 Consensus size: 20
4647080 TACATTTATG
*
4647090 TCATATATATAATTCTACAT
1 TCATACATATAATTCTACAT
* *
4647110 ATCATACCTATGATTCTACAT
1 -TCATACATATAATTCTACAT
4647131 TCAT
1 TCAT
4647135 CATGTAAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 4 0.19
21 17 0.81
ACGTcount: A:0.36, C:0.20, G:0.02, T:0.42
Consensus pattern (20 bp):
TCATACATATAATTCTACAT
Found at i:4651400 original size:38 final size:38
Alignment explanation
Indices: 4651284--4651402 Score: 145
Period size: 38 Copynumber: 3.1 Consensus size: 38
4651274 ATATATTTGC
*
4651284 GTTATCGAATGGAATAACTCTTATGAGCAAACA-GGCGT
1 GTTATCGGATGGAATAACTCTTATGAGCAAA-ATGGCGT
* * *
4651322 GATATCAGG-TGGAATAGCTCTTATGAGCAAACTGGCGT
1 GTTATC-GGATGGAATAACTCTTATGAGCAAAATGGCGT
*
4651360 GTTATCGGAT-GAGATAACTCTTATGAGCAAAATGGTGT
1 GTTATCGGATGGA-ATAACTCTTATGAGCAAAATGGCGT
4651398 GTTAT
1 GTTAT
4651403 TGGGTACCCG
Statistics
Matches: 69, Mismatches: 8, Indels: 8
0.81 0.09 0.09
Matches are distributed among these distances:
37 4 0.06
38 64 0.93
39 1 0.01
ACGTcount: A:0.31, C:0.13, G:0.26, T:0.29
Consensus pattern (38 bp):
GTTATCGGATGGAATAACTCTTATGAGCAAAATGGCGT
Found at i:4655466 original size:14 final size:15
Alignment explanation
Indices: 4655447--4655476 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
4655437 TTCTTGCTTG
4655447 TTTTATTTTAT-TTT
1 TTTTATTTTATCTTT
4655461 TTTTATTTTATCTTT
1 TTTTATTTTATCTTT
4655476 T
1 T
4655477 ACATAAGAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.13, C:0.03, G:0.00, T:0.83
Consensus pattern (15 bp):
TTTTATTTTATCTTT
Found at i:4656297 original size:14 final size:12
Alignment explanation
Indices: 4656247--4656292 Score: 56
Period size: 12 Copynumber: 3.6 Consensus size: 12
4656237 ATATACATAC
4656247 TTATATATATTT
1 TTATATATATTT
*
4656259 TATATTTTATAATTT
1 T-TA-TATAT-ATTT
4656274 TTATATATATTT
1 TTATATATATTT
4656286 TTATATA
1 TTATATA
4656293 CATATACGTG
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
12 12 0.41
13 6 0.21
14 6 0.21
15 5 0.17
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (12 bp):
TTATATATATTT
Found at i:4659912 original size:6 final size:6
Alignment explanation
Indices: 4659903--4659948 Score: 60
Period size: 6 Copynumber: 7.8 Consensus size: 6
4659893 AAAAAAAAGG
*
4659903 AAAAAC -AAAAC -AAAAC AAAAAC AAAAAC AAAAAT AAAAATC AAAAA
1 AAAAAC AAAAAC AAAAAC AAAAAC AAAAAC AAAAAC AAAAA-C AAAAA
4659949 AATCGAAGTA
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
5 10 0.28
6 21 0.58
7 5 0.14
ACGTcount: A:0.83, C:0.13, G:0.00, T:0.04
Consensus pattern (6 bp):
AAAAAC
Found at i:4659941 original size:13 final size:12
Alignment explanation
Indices: 4659891--4659950 Score: 50
Period size: 13 Copynumber: 4.7 Consensus size: 12
4659881 AGTTCAAACT
4659891 CAAAAAAAAAGGAA
1 CAAAAAAAAA--AA
4659905 -AAACAAAACAAAA
1 CAAA-AAAA-AAAA
*
4659918 CAAAAACAAAAA
1 CAAAAAAAAAAA
*
4659930 CAAAAATAAAAAT
1 CAAAAA-AAAAAA
4659943 CAAAAAAA
1 CAAAAAAA
4659951 TCGAAGTAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
12 12 0.31
13 18 0.46
14 7 0.18
15 2 0.05
ACGTcount: A:0.82, C:0.12, G:0.03, T:0.03
Consensus pattern (12 bp):
CAAAAAAAAAAA
Found at i:4659985 original size:14 final size:14
Alignment explanation
Indices: 4659958--4659995 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
4659948 AAATCGAAGT
*
4659958 AAAAAAAAG-GGAA
1 AAAAAAAAGAAGAA
*
4659971 AAAAAAGAGAAGAA
1 AAAAAAAAGAAGAA
4659985 AAAAAAAAGAA
1 AAAAAAAAGAA
4659996 AAAGGAGAGG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
13 8 0.38
14 13 0.62
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (14 bp):
AAAAAAAAGAAGAA
Found at i:4659998 original size:26 final size:26
Alignment explanation
Indices: 4659944--4659998 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 26
4659934 AATAAAAATC
** * * *
4659944 AAAAAAATCGAAGTAAAAAAAAGGGA
1 AAAAAAAGAGAAGAAAAAAAAAAGAA
4659970 AAAAAAAGAGAAGAAAAAAAAAAGAA
1 AAAAAAAGAGAAGAAAAAAAAAAGAA
4659996 AAA
1 AAA
4659999 GGAGAGGTCA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.78, C:0.02, G:0.16, T:0.04
Consensus pattern (26 bp):
AAAAAAAGAGAAGAAAAAAAAAAGAA
Found at i:4660004 original size:25 final size:26
Alignment explanation
Indices: 4659944--4659998 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 26
4659934 AATAAAAATC
** **
4659944 AAAAAAATCGAAGTAAAAAAAAGGGA
1 AAAAAAAGAGAAGTAAAAAAAAAAGA
4659970 AAAAAAAGAGAAG-AAAAAAAAAAGA
1 AAAAAAAGAGAAGTAAAAAAAAAAGA
4659995 AAAA
1 AAAA
4659999 GGAGAGGTCA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
25 14 0.56
26 11 0.44
ACGTcount: A:0.78, C:0.02, G:0.16, T:0.04
Consensus pattern (26 bp):
AAAAAAAGAGAAGTAAAAAAAAAAGA
Found at i:4660809 original size:8 final size:8
Alignment explanation
Indices: 4660808--4660844 Score: 58
Period size: 8 Copynumber: 4.6 Consensus size: 8
4660798 AAAATAAAAA
4660808 AAAAAGATG
1 AAAAA-ATG
4660817 AAAAAATG
1 AAAAAATG
4660825 -AAAAATG
1 AAAAAATG
4660832 AAAAAATG
1 AAAAAATG
4660840 AAAAA
1 AAAAA
4660845 GTAAAATGGA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
7 7 0.26
8 15 0.56
9 5 0.19
ACGTcount: A:0.76, C:0.00, G:0.14, T:0.11
Consensus pattern (8 bp):
AAAAAATG
Found at i:4660850 original size:15 final size:15
Alignment explanation
Indices: 4660798--4660844 Score: 64
Period size: 15 Copynumber: 3.3 Consensus size: 15
4660788 TGAAATGATG
4660798 AAAAT-AAAAAA--A
1 AAAATGAAAAAATGA
4660810 AAAGATGAAAAAATGA
1 AAA-ATGAAAAAATGA
4660826 AAAATGAAAAAATGA
1 AAAATGAAAAAATGA
4660841 AAAA
1 AAAA
4660845 GTAAAATGGA
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
12 3 0.10
13 2 0.06
14 6 0.19
15 16 0.52
16 4 0.13
ACGTcount: A:0.79, C:0.00, G:0.11, T:0.11
Consensus pattern (15 bp):
AAAATGAAAAAATGA
Found at i:4663037 original size:88 final size:88
Alignment explanation
Indices: 4662061--4663008 Score: 1574
Period size: 88 Copynumber: 10.8 Consensus size: 88
4662051 CAACGAAGTT
* **
4662061 AAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCAAAGACACAAACCTTGCCTCTCTCATT
1 AAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGT
*
4662126 TGTGATGGAGTTGGTTGAAGACA
66 TGTGATGGAGCTGGTTGAAGACA
* * *
4662149 AAAGATCTTGCCTTCCTGCATTGATAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTTGAT
1 AAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGT
4662214 TGTGATGGAGCTGGTTGAAGACA
66 TGTGATGGAGCTGGTTGAAGACA
*
4662237 AAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCAAAGACACAAACCTTGCCTCTCTCGGT
1 AAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGT
*
4662302 TGTGATGGAGCTGGTTGAAGATA
66 TGTGATGGAGCTGGTTGAAGACA
*
4662325 AAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGAT
1 AAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGT
4662390 TGTGATGGAGCTGGTTGAAGACA
66 TGTGATGGAGCTGGTTGAAGACA
* * *
4662413 AAAGATCTTGCCTTCCTGCATTGACGGTGAAGCAGGTCAAAGACACAAACCTTGCCTCTCTCGGT
1 AAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGT
*
4662478 TGTGATGGAGCTGGTTTAAGACA
66 TGTGATGGAGCTGGTTGAAGACA
* * * *
4662501 AAAGATCTTGCATTCCTGCATTGACAGCGAAGCAGGTCAAATACACAAACCTTGCCTCTCTCGAT
1 AAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGT
*
4662566 TGTGATGGAGCTGGTTGAAGATA
66 TGTGATGGAGCTGGTTGAAGACA
* *
4662589 AAAGATCTTGCCTTCCTGCATTGATAGCGAAGCAGGTCGAAGATACAAACCTTGCCTCTCTCGGT
1 AAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGT
4662654 TGTGATGGAGCTGGTTGAAGACA
66 TGTGATGGAGCTGGTTGAAGACA
* *
4662677 AAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTTGAAGACACAAACCTTGCCTCTTTCGGT
1 AAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGT
4662742 TGTGATGGAGCTGGTTGAAGACA
66 TGTGATGGAGCTGGTTGAAGACA
4662765 AAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGT
1 AAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGT
* *
4662830 TGTGATGGAGCTAGTCGAAGACA
66 TGTGATGGAGCTGGTTGAAGACA
* ** * *
4662853 AAAGATCTTGCATTCCTATATTGACAGTGAAGCACGTCGAAGACACAAACCTTGCCTCTCTCGGT
1 AAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGT
4662918 TGTGATGGAGCTGGTTGAAGACA
66 TGTGATGGAGCTGGTTGAAGACA
* * * *
4662941 ACAGATCTTGCCTTCCTTCATTGACAGCGAAGCAGATCGAAGACA-AAAGCCTTGCCTCCCTCGG
1 AAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAA-CCTTGCCTCTCTCGG
4663005 TTGT
65 TTGT
4663009 AGTGGAACAG
Statistics
Matches: 803, Mismatches: 56, Indels: 2
0.93 0.07 0.00
Matches are distributed among these distances:
87 3 0.00
88 800 1.00
ACGTcount: A:0.27, C:0.23, G:0.24, T:0.25
Consensus pattern (88 bp):
AAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGT
TGTGATGGAGCTGGTTGAAGACA
Found at i:4663244 original size:132 final size:132
Alignment explanation
Indices: 4663016--4663683 Score: 1113
Period size: 132 Copynumber: 5.1 Consensus size: 132
4663006 TGTAGTGGAA
4663016 CAGATCAAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTGGTCC
1 CAGATCAAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTGGTCC
* * *
4663081 AATCACCCTAAGCAATAGTGGAGTAAGTTGAAAATTGCAGATTCTGTCACTCTAAGCAGTAGTAG
66 TATCACCCTAAGCAATAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACTCTAAGCAGTAGTAG
4663146 GG
131 GG
4663148 CAGATCAAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTGGTCC
1 CAGATCAAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTGGTCC
*
4663213 TAACACCCTAAGCAATAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACTCTAAGCAGTAGTAG
66 TATCACCCTAAGCAATAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACTCTAAGCAGTAGTAG
4663278 GG
131 GG
* * *
4663280 CAGATCGAAGATGGTGAATATTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCC
1 CAGATCAAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTGGTCC
* * *
4663345 TATCACCTTAAGCAGTAGTGGAGTAGGTTGAAGATTGCATATTCTGTCACTCTAAGCAGTAGTAG
66 TATCACCCTAAGCAATAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACTCTAAGCAGTAGTAG
4663410 GG
131 GG
* *
4663412 CAAATCAAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGTAGATTTAAGCCATTGGTCC
1 CAGATCAAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTGGTCC
4663477 TATCACCCTAAGCAATAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACTCTAAGCAGTAGTAG
66 TATCACCCTAAGCAATAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACTCTAAGCAGTAGTAG
4663542 GG
131 GG
* * *
4663544 CAGATCGAAGATGGTGAATATTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCC
1 CAGATCAAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTGGTCC
* ** * * * * *
4663609 TATCACCCTAAGCAGTAGTGGAGTAGGTCAAAGACTGTAGACTCTGTCCCCCTAAGCAGTAGT-G
66 TATCACCCTAAGCAATAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACTCTAAGCAGTAGTAG
4663673 GAG
131 G-G
4663676 CAGATCAA
1 CAGATCAA
4663684 TAATAACGAA
Statistics
Matches: 502, Mismatches: 33, Indels: 2
0.93 0.06 0.00
Matches are distributed among these distances:
131 2 0.00
132 500 1.00
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.26
Consensus pattern (132 bp):
CAGATCAAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTGGTCC
TATCACCCTAAGCAATAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACTCTAAGCAGTAGTAG
GG
Found at i:4664479 original size:14 final size:15
Alignment explanation
Indices: 4664460--4664489 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
4664450 TTCTTGCTTG
4664460 TTTTATTTTAT-TTT
1 TTTTATTTTATCTTT
4664474 TTTTATTTTATCTTT
1 TTTTATTTTATCTTT
4664489 T
1 T
4664490 ACATAAGAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.13, C:0.03, G:0.00, T:0.83
Consensus pattern (15 bp):
TTTTATTTTATCTTT
Found at i:4665309 original size:14 final size:12
Alignment explanation
Indices: 4665259--4665304 Score: 56
Period size: 12 Copynumber: 3.6 Consensus size: 12
4665249 ATATACATAC
4665259 TTATATATATTT
1 TTATATATATTT
*
4665271 TATATTTTATAATTT
1 T-TA-TATAT-ATTT
4665286 TTATATATATTT
1 TTATATATATTT
4665298 TTATATA
1 TTATATA
4665305 CATATACGTG
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
12 12 0.41
13 6 0.21
14 6 0.21
15 5 0.17
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (12 bp):
TTATATATATTT
Found at i:4667302 original size:20 final size:20
Alignment explanation
Indices: 4667277--4667319 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
4667267 AATTTTATCA
*
4667277 ATATCTATCATTATA-TATTT
1 ATATCTAT-ACTATATTATTT
4667297 ATATCTATACTATATTATTT
1 ATATCTATACTATATTATTT
4667317 ATA
1 ATA
4667320 ATATATTTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 5 0.24
20 16 0.76
ACGTcount: A:0.37, C:0.09, G:0.00, T:0.53
Consensus pattern (20 bp):
ATATCTATACTATATTATTT
Found at i:4667313 original size:24 final size:25
Alignment explanation
Indices: 4667260--4667314 Score: 62
Period size: 24 Copynumber: 2.3 Consensus size: 25
4667250 AATATTTAAT
*
4667260 TCATT-TAAATTTTATCAATATCTA
1 TCATTATATATTTTATCAATATCTA
*
4667284 TCATTATATATTTATATCTATA-CTA
1 TCATTATATATTT-TATCAATATCTA
4667309 T-ATTAT
1 TCATTAT
4667315 TTATAATATA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
24 10 0.37
25 10 0.37
26 7 0.26
ACGTcount: A:0.36, C:0.11, G:0.00, T:0.53
Consensus pattern (25 bp):
TCATTATATATTTTATCAATATCTA
Found at i:4671691 original size:18 final size:18
Alignment explanation
Indices: 4671668--4671705 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
4671658 ATGTTTAAAC
* *
4671668 TTGGATTCTGCTGCTTTA
1 TTGGATTCTACTGATTTA
4671686 TTGGATTCTACTGATTTA
1 TTGGATTCTACTGATTTA
4671704 TT
1 TT
4671706 TAGGAAAGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.16, C:0.13, G:0.18, T:0.53
Consensus pattern (18 bp):
TTGGATTCTACTGATTTA
Found at i:4677591 original size:23 final size:21
Alignment explanation
Indices: 4677539--4677591 Score: 52
Period size: 23 Copynumber: 2.4 Consensus size: 21
4677529 CTAGGTGGTA
* *
4677539 AGTTCAGCCTTGCTTTACTGG
1 AGTTAAGCCTTGCCTTACTGG
*
4677560 ATTTGAAGCGCTTGCCTTACTTGG
1 AGTT-AAGC-CTTGCCTTAC-TGG
4677584 AGTTAAGC
1 AGTTAAGC
4677592 AACAATGATT
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
21 3 0.12
22 3 0.12
23 13 0.52
24 6 0.24
ACGTcount: A:0.19, C:0.21, G:0.25, T:0.36
Consensus pattern (21 bp):
AGTTAAGCCTTGCCTTACTGG
Found at i:4678378 original size:19 final size:18
Alignment explanation
Indices: 4678356--4678395 Score: 71
Period size: 19 Copynumber: 2.2 Consensus size: 18
4678346 TGAATAAAAC
4678356 TTATCTACCTAAATAAGAT
1 TTATCTACCTAAATAA-AT
4678375 TTATCTACCTAAATAAAT
1 TTATCTACCTAAATAAAT
4678393 TTA
1 TTA
4678396 AAATATATAC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 5 0.24
19 16 0.76
ACGTcount: A:0.42, C:0.15, G:0.03, T:0.40
Consensus pattern (18 bp):
TTATCTACCTAAATAAAT
Found at i:4686109 original size:25 final size:25
Alignment explanation
Indices: 4686078--4686145 Score: 86
Period size: 25 Copynumber: 2.7 Consensus size: 25
4686068 TAAAATAACG
*
4686078 GTAAGCTCATACGAGTTG-AGAATCA
1 GTAAGCTCATACGAGCTGCA-AATCA
*
4686103 GTAAGCTC-TCACGAGCTGCAAATCG
1 GTAAGCTCAT-ACGAGCTGCAAATCA
4686128 GTAAGCTCATACGAGCTG
1 GTAAGCTCATACGAGCTG
4686146 TGGTGTGTCC
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
24 1 0.03
25 35 0.92
26 2 0.05
ACGTcount: A:0.31, C:0.22, G:0.25, T:0.22
Consensus pattern (25 bp):
GTAAGCTCATACGAGCTGCAAATCA
Found at i:4690602 original size:19 final size:18
Alignment explanation
Indices: 4690580--4690619 Score: 71
Period size: 19 Copynumber: 2.2 Consensus size: 18
4690570 TGAATAAAAC
4690580 TTATCTACCTAAATAAGAT
1 TTATCTACCTAAATAA-AT
4690599 TTATCTACCTAAATAAAT
1 TTATCTACCTAAATAAAT
4690617 TTA
1 TTA
4690620 AAATATATAC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 5 0.24
19 16 0.76
ACGTcount: A:0.42, C:0.15, G:0.03, T:0.40
Consensus pattern (18 bp):
TTATCTACCTAAATAAAT
Found at i:4699729 original size:27 final size:27
Alignment explanation
Indices: 4699677--4699730 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
4699667 ATTCTGTTGT
* * *
4699677 CATTGTTAGATTATTAATTCACTTCTA
1 CATTGTAAGATTACTAATTCAATTCTA
4699704 CATTGTAAGATT-CTAATTCTAATTCTA
1 CATTGTAAGATTACTAATTC-AATTCTA
4699731 ATTAATAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
26 6 0.26
27 17 0.74
ACGTcount: A:0.31, C:0.15, G:0.07, T:0.46
Consensus pattern (27 bp):
CATTGTAAGATTACTAATTCAATTCTA
Found at i:4699915 original size:21 final size:22
Alignment explanation
Indices: 4699890--4699930 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
4699880 TAGGGACCTG
4699890 AATTTAATTATA-AT-ATTTCTA
1 AATTT-ATTATATATAATTTCTA
4699911 AATTTATTATATATAATTTC
1 AATTTATTATATATAATTTC
4699931 ATCATTTTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 6 0.33
21 7 0.39
22 5 0.28
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.54
Consensus pattern (22 bp):
AATTTATTATATATAATTTCTA
Found at i:4704514 original size:13 final size:13
Alignment explanation
Indices: 4704496--4704521 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4704486 ATCTCTATCC
4704496 CTTTCAGATTTTT
1 CTTTCAGATTTTT
4704509 CTTTCAGATTTTT
1 CTTTCAGATTTTT
4704522 AGTATTTTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.15, G:0.08, T:0.62
Consensus pattern (13 bp):
CTTTCAGATTTTT
Found at i:4707020 original size:24 final size:24
Alignment explanation
Indices: 4706963--4707029 Score: 77
Period size: 24 Copynumber: 2.9 Consensus size: 24
4706953 GGTACGAAAT
**
4706963 TAAATTATAA-TTT-TTATAATAA
1 TAAATTATAATTTTATTATTTTAA
*
4706985 -AAAATATAATTTTATTATTTTAA
1 TAAATTATAATTTTATTATTTTAA
*
4707008 TAAATTATAATTTTATAATTTT
1 TAAATTATAATTTTATTATTTT
4707030 TAAAACAAAT
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 8 0.22
22 3 0.08
23 7 0.19
24 19 0.51
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (24 bp):
TAAATTATAATTTTATTATTTTAA
Found at i:4718436 original size:16 final size:16
Alignment explanation
Indices: 4718417--4718508 Score: 66
Period size: 16 Copynumber: 5.9 Consensus size: 16
4718407 TGTGTGTTTT
4718417 CCATTTATGTTGTTCG
1 CCATTTATGTTGTTCG
*
4718433 CCA--TGTG-TGTTCG
1 CCATTTATGTTGTTCG
* * ***
4718446 CTAATTAAACTGTTCG
1 CCATTTATGTTGTTCG
*
4718462 ACATTTATGTTGTTCG
1 CCATTTATGTTGTTCG
* *
4718478 CCAATTA-GACTGTTCG
1 CCATTTATG-TTGTTCG
4718494 CCATTTATGTTGTTC
1 CCATTTATGTTGTTC
4718509 ATCATGTGTG
Statistics
Matches: 55, Mismatches: 16, Indels: 10
0.68 0.20 0.12
Matches are distributed among these distances:
13 8 0.15
14 3 0.05
15 2 0.04
16 41 0.75
17 1 0.02
ACGTcount: A:0.18, C:0.20, G:0.18, T:0.43
Consensus pattern (16 bp):
CCATTTATGTTGTTCG
Found at i:4718484 original size:32 final size:32
Alignment explanation
Indices: 4718435--4718508 Score: 112
Period size: 32 Copynumber: 2.3 Consensus size: 32
4718425 GTTGTTCGCC
*
4718435 ATGTGTGTTCGCTAATTAAACTGTTCGACATTT
1 ATGT-TGTTCGCCAATTAAACTGTTCGACATTT
* *
4718468 ATGTTGTTCGCCAATTAGACTGTTCGCCATTT
1 ATGTTGTTCGCCAATTAAACTGTTCGACATTT
4718500 ATGTTGTTC
1 ATGTTGTTC
4718509 ATCATGTGTG
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
32 34 0.89
33 4 0.11
ACGTcount: A:0.20, C:0.18, G:0.19, T:0.43
Consensus pattern (32 bp):
ATGTTGTTCGCCAATTAAACTGTTCGACATTT
Found at i:4727835 original size:12 final size:12
Alignment explanation
Indices: 4727818--4727846 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
4727808 CTAAAGAATC
4727818 TTTATTGGATCA
1 TTTATTGGATCA
4727830 TTTATTGGATCA
1 TTTATTGGATCA
4727842 TTTAT
1 TTTAT
4727847 GTTCACAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.24, C:0.07, G:0.14, T:0.55
Consensus pattern (12 bp):
TTTATTGGATCA
Found at i:4733297 original size:15 final size:16
Alignment explanation
Indices: 4733277--4733306 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
4733267 ACTAGGTATC
4733277 GTCATCTTC-CTGAGT
1 GTCATCTTCACTGAGT
4733292 GTCATCTTCACTGAG
1 GTCATCTTCACTGAG
4733307 ATGCTTAAGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.17, C:0.27, G:0.20, T:0.37
Consensus pattern (16 bp):
GTCATCTTCACTGAGT
Found at i:4735276 original size:37 final size:35
Alignment explanation
Indices: 4735183--4735279 Score: 106
Period size: 36 Copynumber: 2.7 Consensus size: 35
4735173 TAAAATAACC
* * *
4735183 AGTATTTTAATATAACAATCGAATTAAAAGAAAAAT
1 AGTATTCTAAGATAACAATCG-ATTAAAAAAAAAAT
*
4735219 AATATTCT-AGCATAACAATCGATTCAAAAAAAAAAGT
1 AGTATTCTAAG-ATAACAATCGATT-AAAAAAAAAA-T
*
4735256 AGTATTCTAAGATAATAATCGATT
1 AGTATTCTAAGATAACAATCGATT
4735280 TAAACATATA
Statistics
Matches: 51, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
35 4 0.08
36 25 0.49
37 20 0.39
38 2 0.04
ACGTcount: A:0.52, C:0.09, G:0.09, T:0.30
Consensus pattern (35 bp):
AGTATTCTAAGATAACAATCGATTAAAAAAAAAAT
Found at i:4735304 original size:58 final size:58
Alignment explanation
Indices: 4735232--4735378 Score: 174
Period size: 55 Copynumber: 2.5 Consensus size: 58
4735222 ATTCTAGCAT
* * *
4735232 AACAATCGATTCAAAAAAAAAAGTAGTATTCTAAGATAATAATCGATTTAAACATATA
1 AACAATCGATTCAAAAAAAAAAGTAGTATTCTAACATAACAATCAATTTAAACATATA
* * *
4735290 AATAATCGATTC--AAAAGAAA-CAGTATTCTAACATAACAATCAATTTAAACATATA
1 AACAATCGATTCAAAAAAAAAAGTAGTATTCTAACATAACAATCAATTTAAACATATA
* *
4735345 AACAATTGATTCAAAAGAAGAAGAAGTTGTATTC
1 AACAATCGATTCAAAA-AA-AA-AAGTAGTATTC
4735379 CACCTTAACA
Statistics
Matches: 72, Mismatches: 11, Indels: 9
0.78 0.12 0.10
Matches are distributed among these distances:
55 41 0.57
56 7 0.10
57 2 0.03
58 13 0.18
59 1 0.01
60 2 0.03
61 6 0.08
ACGTcount: A:0.52, C:0.12, G:0.10, T:0.27
Consensus pattern (58 bp):
AACAATCGATTCAAAAAAAAAAGTAGTATTCTAACATAACAATCAATTTAAACATATA
Found at i:4735425 original size:18 final size:18
Alignment explanation
Indices: 4735402--4735436 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
4735392 GATTCAAAAG
4735402 ATGTAGTATTTCAACATT
1 ATGTAGTATTTCAACATT
4735420 ATGTAGTATTTCAACAT
1 ATGTAGTATTTCAACAT
4735437 GATCTATAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.34, C:0.11, G:0.11, T:0.43
Consensus pattern (18 bp):
ATGTAGTATTTCAACATT
Found at i:4738457 original size:14 final size:14
Alignment explanation
Indices: 4738438--4738470 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
4738428 ATCTTCAATC
4738438 TCAATTTCCAATTT
1 TCAATTTCCAATTT
*
4738452 TCAATTTTCAATTT
1 TCAATTTCCAATTT
4738466 TCAAT
1 TCAAT
4738471 CCTCAATACT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.30, C:0.18, G:0.00, T:0.52
Consensus pattern (14 bp):
TCAATTTCCAATTT
Found at i:4742135 original size:20 final size:20
Alignment explanation
Indices: 4742099--4742142 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
4742089 AACCGATATA
*
4742099 AATAAATAATACCAAAAATG
1 AATAAATAATACAAAAAATG
* *
4742119 AATAAATAATATAAAAAATT
1 AATAAATAATACAAAAAATG
4742139 AATA
1 AATA
4742143 TAAGTATGAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.68, C:0.05, G:0.02, T:0.25
Consensus pattern (20 bp):
AATAAATAATACAAAAAATG
Found at i:4748616 original size:4 final size:4
Alignment explanation
Indices: 4748607--4748636 Score: 60
Period size: 4 Copynumber: 7.5 Consensus size: 4
4748597 ACATTGTAGT
4748607 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TT
4748637 ATAAGTGATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:4756126 original size:14 final size:14
Alignment explanation
Indices: 4756109--4756138 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
4756099 CTCGTACTCG
4756109 AAACCCAAAACCTT
1 AAACCCAAAACCTT
*
4756123 AAACTCAAAACCTT
1 AAACCCAAAACCTT
4756137 AA
1 AA
4756139 GCTCGTAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.53, C:0.30, G:0.00, T:0.17
Consensus pattern (14 bp):
AAACCCAAAACCTT
Found at i:4756453 original size:20 final size:20
Alignment explanation
Indices: 4756413--4756460 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
4756403 AAAACCCGAC
*
4756413 ACTCAAACCTTACACCCTAA
1 ACTCAAACCTTAAACCCTAA
* *
4756433 ACTCAAACCTTAAATCTTAA
1 ACTCAAACCTTAAACCCTAA
*
4756453 ACTTAAAC
1 ACTCAAAC
4756461 TCTACACCCG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.44, C:0.31, G:0.00, T:0.25
Consensus pattern (20 bp):
ACTCAAACCTTAAACCCTAA
Found at i:4758340 original size:22 final size:23
Alignment explanation
Indices: 4758287--4758342 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 23
4758277 TTTAATTAAA
* * *
4758287 ATTAAAATTAAAATTATTTTTTT
1 ATTAAAATTAAAACTATATTGTT
*
4758310 AATAAAATTAAAACTA-ATTGTT
1 ATTAAAATTAAAACTATATTGTT
4758332 ATTAAAATTAA
1 ATTAAAATTAA
4758343 TTGTTAGTAA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
22 14 0.50
23 14 0.50
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (23 bp):
ATTAAAATTAAAACTATATTGTT
Found at i:4758355 original size:16 final size:16
Alignment explanation
Indices: 4758318--4758357 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
4758308 TTAATAAAAT
* *
4758318 TAAAACTAATTGTTAT
1 TAAAATTAATTGTTAG
4758334 TAAAATTAATTGTTAG
1 TAAAATTAATTGTTAG
4758350 TAAAATTA
1 TAAAATTA
4758358 TCAAATTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.47, C:0.03, G:0.07, T:0.42
Consensus pattern (16 bp):
TAAAATTAATTGTTAG
Found at i:4758436 original size:59 final size:59
Alignment explanation
Indices: 4758368--4758507 Score: 262
Period size: 59 Copynumber: 2.4 Consensus size: 59
4758358 TCAAATTATT
*
4758368 AATTGTTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGAATAGTAAATTTATCA
1 AATTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGAATAGTAAATTTATCA
*
4758427 AATTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCA
1 AATTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGAATAGTAAATTTATCA
4758486 AATTATTAATTGTATTAATTGT
1 AATTATTAATTGTATTAATTGT
4758508 ATTAATTGTT
Statistics
Matches: 79, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
59 79 1.00
ACGTcount: A:0.40, C:0.04, G:0.09, T:0.46
Consensus pattern (59 bp):
AATTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGAATAGTAAATTTATCA
Found at i:4758501 original size:9 final size:9
Alignment explanation
Indices: 4758489--4758516 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
4758479 TTTATCAAAT
4758489 TATTAATTG
1 TATTAATTG
4758498 TATTAATTG
1 TATTAATTG
4758507 TATTAATTG
1 TATTAATTG
4758516 T
1 T
4758517 TGTAACAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.11, T:0.57
Consensus pattern (9 bp):
TATTAATTG
Found at i:4758653 original size:22 final size:24
Alignment explanation
Indices: 4758613--4758656 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
4758603 AAATAAACTT
4758613 AAAATAAAAAACTATTATATTTTA
1 AAAATAAAAAACTATTATATTTTA
4758637 AAAATAAAAAA-TA-TATATTT
1 AAAATAAAAAACTATTATATTT
4758657 AATATTTTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 7 0.35
23 2 0.10
24 11 0.55
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.36
Consensus pattern (24 bp):
AAAATAAAAAACTATTATATTTTA
Found at i:4759606 original size:22 final size:22
Alignment explanation
Indices: 4759580--4759625 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
4759570 TTTTGCTGAG
* *
4759580 TTTTTG-TTCCTTCTGGTTTTTC
1 TTTTTGCTTCATTC-GGTTTCTC
4759602 TTTTTGCTTCATTCGGTTTCTC
1 TTTTTGCTTCATTCGGTTTCTC
4759624 TT
1 TT
4759626 GTTTCTCTTG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 15 0.71
23 6 0.29
ACGTcount: A:0.02, C:0.20, G:0.13, T:0.65
Consensus pattern (22 bp):
TTTTTGCTTCATTCGGTTTCTC
Found at i:4764093 original size:22 final size:22
Alignment explanation
Indices: 4764067--4764112 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
4764057 TTTTGCTGAG
* *
4764067 TTTTTG-TTCCTTCTGGTTTTTC
1 TTTTTGCTTCATTC-GGTTTCTC
4764089 TTTTTGCTTCATTCGGTTTCTC
1 TTTTTGCTTCATTCGGTTTCTC
4764111 TT
1 TT
4764113 GTTTCTCTTG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 15 0.71
23 6 0.29
ACGTcount: A:0.02, C:0.20, G:0.13, T:0.65
Consensus pattern (22 bp):
TTTTTGCTTCATTCGGTTTCTC
Found at i:4765517 original size:7 final size:7
Alignment explanation
Indices: 4765505--4765538 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
4765495 ACTATTGTGA
4765505 CAGTTAG
1 CAGTTAG
4765512 CAGTTAG
1 CAGTTAG
*
4765519 TAGTTAG
1 CAGTTAG
*
4765526 TAGTTAG
1 CAGTTAG
4765533 CAGTTA
1 CAGTTA
4765539 TGGTAGTTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.29, C:0.09, G:0.26, T:0.35
Consensus pattern (7 bp):
CAGTTAG
Found at i:4765532 original size:21 final size:21
Alignment explanation
Indices: 4765506--4765554 Score: 73
Period size: 21 Copynumber: 2.3 Consensus size: 21
4765496 CTATTGTGAC
4765506 AGTTAGCAGTTA-GTAGTTAGT
1 AGTTAGCAGTTAGGTAGTTA-T
4765527 AGTTAGCAGTTATGGTAGTTAT
1 AGTTAGCAGTTA-GGTAGTTAT
4765549 AGTTAG
1 AGTTAG
4765555 TTAACTGTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
21 12 0.46
22 7 0.27
23 7 0.27
ACGTcount: A:0.29, C:0.04, G:0.29, T:0.39
Consensus pattern (21 bp):
AGTTAGCAGTTAGGTAGTTAT
Found at i:4765717 original size:14 final size:14
Alignment explanation
Indices: 4765700--4765732 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
4765690 GTCTTCTTTG
4765700 TGTTTTCTTGTTTA
1 TGTTTTCTTGTTTA
*
4765714 TGTTTTCTTGTTTG
1 TGTTTTCTTGTTTA
4765728 TGTTT
1 TGTTT
4765733 CTGCCATGGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.03, C:0.06, G:0.18, T:0.73
Consensus pattern (14 bp):
TGTTTTCTTGTTTA
Found at i:4770223 original size:7 final size:7
Alignment explanation
Indices: 4770211--4770244 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
4770201 ATTGTTGTAA
4770211 CAGTTAG
1 CAGTTAG
4770218 CAGTTAG
1 CAGTTAG
*
4770225 TAGTTAG
1 CAGTTAG
*
4770232 TAGTTAG
1 CAGTTAG
4770239 CAGTTA
1 CAGTTA
4770245 TGATAGTTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.29, C:0.09, G:0.26, T:0.35
Consensus pattern (7 bp):
CAGTTAG
Found at i:4770238 original size:21 final size:22
Alignment explanation
Indices: 4770212--4770260 Score: 75
Period size: 21 Copynumber: 2.3 Consensus size: 22
4770202 TTGTTGTAAC
4770212 AGTTAGCAGTTA-G-TAGTTAGT
1 AGTTAGCAGTTATGATAGTTA-T
4770233 AGTTAGCAGTTATGATAGTTAT
1 AGTTAGCAGTTATGATAGTTAT
4770255 AGTTAG
1 AGTTAG
4770261 TTAACTGTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
21 12 0.46
22 8 0.31
23 6 0.23
ACGTcount: A:0.31, C:0.04, G:0.27, T:0.39
Consensus pattern (22 bp):
AGTTAGCAGTTATGATAGTTAT
Found at i:4777921 original size:31 final size:31
Alignment explanation
Indices: 4777878--4777944 Score: 100
Period size: 31 Copynumber: 2.2 Consensus size: 31
4777868 TCAATTCAAC
*
4777878 CACTAACATTTTAGATCAGTTT-TACTTTGGT
1 CACTCACATTTTAGATC-GTTTCTACTTTGGT
*
4777909 CACTCACATTTTAGATCGTTTCTATTTTGGT
1 CACTCACATTTTAGATCGTTTCTACTTTGGT
4777940 CACTC
1 CACTC
4777945 TCCGCTAAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
30 4 0.12
31 29 0.88
ACGTcount: A:0.22, C:0.21, G:0.12, T:0.45
Consensus pattern (31 bp):
CACTCACATTTTAGATCGTTTCTACTTTGGT
Found at i:4779535 original size:30 final size:31
Alignment explanation
Indices: 4779481--4779556 Score: 91
Period size: 30 Copynumber: 2.5 Consensus size: 31
4779471 TTAAAAAAAG
*
4779481 TAACTATTTTTAAAAGACTGATGGTCAAATT
1 TAACTCTTTTTAAAAGACTGATGGTCAAATT
* *
4779512 TAACTCTTTTTGAAAG-TTGATGGTCAAATT
1 TAACTCTTTTTAAAAGACTGATGGTCAAATT
* * *
4779542 TGATTCTTTTAAAAA
1 TAACTCTTTTTAAAA
4779557 AATTGAGGAA
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
30 24 0.63
31 14 0.37
ACGTcount: A:0.36, C:0.09, G:0.13, T:0.42
Consensus pattern (31 bp):
TAACTCTTTTTAAAAGACTGATGGTCAAATT
Found at i:4788626 original size:27 final size:27
Alignment explanation
Indices: 4788588--4788679 Score: 123
Period size: 27 Copynumber: 3.4 Consensus size: 27
4788578 CTTATCTGGA
*
4788588 AGGCGCCAATGGTGGTGCCTATTTGGG
1 AGGCGCCAATGGTGGTGCCTATTTAGG
* *
4788615 AGGCGCCAATGGTGGTGCTTATCTAGG
1 AGGCGCCAATGGTGGTGCCTATTTAGG
*
4788642 AGGCGCCAATGGTGGTGCC-ATATTAGA
1 AGGCGCCAATGGTGGTGCCTAT-TTAGG
*
4788669 AGGCGCGAATG
1 AGGCGCCAATG
4788680 CTGTGATTTT
Statistics
Matches: 57, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
26 2 0.04
27 55 0.96
ACGTcount: A:0.21, C:0.18, G:0.38, T:0.23
Consensus pattern (27 bp):
AGGCGCCAATGGTGGTGCCTATTTAGG
Found at i:4788673 original size:54 final size:54
Alignment explanation
Indices: 4788577--4788679 Score: 147
Period size: 54 Copynumber: 1.9 Consensus size: 54
4788567 TAGTATTGGC
* *
4788577 GCTTATCTGGAAGGCGCCAATGGTGGTGCCTATTTGGGAGGCGCCAATGGTGGT
1 GCTTATCTGGAAGGCGCCAATGGTGGTGCCTATTTAGAAGGCGCCAATGGTGGT
*
4788631 GCTTATCTAGG-AGGCGCCAATGGTGGTGCC-ATATTAGAAGGCGCGAATG
1 GCTTATCT-GGAAGGCGCCAATGGTGGTGCCTAT-TTAGAAGGCGCCAATG
4788680 CTGTGATTTT
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
53 2 0.05
54 40 0.91
55 2 0.05
ACGTcount: A:0.20, C:0.18, G:0.37, T:0.24
Consensus pattern (54 bp):
GCTTATCTGGAAGGCGCCAATGGTGGTGCCTATTTAGAAGGCGCCAATGGTGGT
Found at i:4788783 original size:18 final size:20
Alignment explanation
Indices: 4788741--4788787 Score: 62
Period size: 18 Copynumber: 2.5 Consensus size: 20
4788731 AAAACGGAAG
4788741 AAAGAAGAAGGAAGGAAGCA
1 AAAGAAGAAGGAAGGAAGCA
* *
4788761 GAAGAA-AA-GAAGGAAGGA
1 AAAGAAGAAGGAAGGAAGCA
4788779 AAAGAAGAA
1 AAAGAAGAA
4788788 AAAAATTAGG
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
18 14 0.61
19 4 0.17
20 5 0.22
ACGTcount: A:0.64, C:0.02, G:0.34, T:0.00
Consensus pattern (20 bp):
AAAGAAGAAGGAAGGAAGCA
Found at i:4788790 original size:22 final size:23
Alignment explanation
Indices: 4788737--4788790 Score: 76
Period size: 22 Copynumber: 2.4 Consensus size: 23
4788727 TACAAAAACG
*
4788737 GAAGAAAGAAGAAGGAAGGAAGCA
1 GAAGAAA-AAGAAGGAAGGAAGAA
4788761 GAAG-AAAAGAAGGAAGGAA-AA
1 GAAGAAAAAGAAGGAAGGAAGAA
4788782 GAAGAAAAA
1 GAAGAAAAA
4788791 AATTAGGTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
21 5 0.18
22 17 0.61
23 2 0.07
24 4 0.14
ACGTcount: A:0.65, C:0.02, G:0.33, T:0.00
Consensus pattern (23 bp):
GAAGAAAAAGAAGGAAGGAAGAA
Found at i:4789641 original size:19 final size:19
Alignment explanation
Indices: 4789586--4789643 Score: 53
Period size: 22 Copynumber: 2.9 Consensus size: 19
4789576 ATTGCAAAAT
*
4789586 TACAATATTAAAATATTCA
1 TACAAAATTAAAATATTCA
**
4789605 TACAAAAAAATTGCAATATTCA
1 TAC---AAAATTAAAATATTCA
*
4789627 TACAAAATTATAATATT
1 TACAAAATTAAAATATT
4789644 ACAACATTCA
Statistics
Matches: 31, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
19 15 0.48
22 16 0.52
ACGTcount: A:0.53, C:0.10, G:0.02, T:0.34
Consensus pattern (19 bp):
TACAAAATTAAAATATTCA
Found at i:4789660 original size:27 final size:26
Alignment explanation
Indices: 4789580--4789759 Score: 145
Period size: 27 Copynumber: 7.2 Consensus size: 26
4789570 ATAAAAATTG
*
4789580 CAAAATTACAATATTAAAATATTCATA
1 CAAAATTA-AATATTACAATATTCATA
*
4789607 C-AAA--AAA-ATTGCAATATTCATA
1 CAAAATTAAATATTACAATATTCATA
*
4789629 CAAAATTATAATATTACAACATTCATA
1 CAAAATTA-AATATTACAATATTCATA
4789656 CAAAA--AAATA-T--AATATTCATA
1 CAAAATTAAATATTACAATATTCATA
*
4789677 CAAAATTACAAAATTACAATATTCATA
1 CAAAATTA-AATATTACAATATTCATA
*
4789704 C--AA--AAA-ATTGCAATATTCATA
1 CAAAATTAAATATTACAATATTCATA
*
4789725 CAAAACTATAATATTATTTCAATATTCATA
1 CAAAA-T-TAA-A-TATTACAATATTCATA
4789755 CAAAA
1 CAAAA
4789760 ATTTATAATA
Statistics
Matches: 125, Mismatches: 8, Indels: 37
0.74 0.05 0.22
Matches are distributed among these distances:
21 29 0.23
22 16 0.13
23 10 0.08
24 8 0.06
25 5 0.04
26 5 0.04
27 32 0.26
28 1 0.01
30 19 0.15
ACGTcount: A:0.54, C:0.13, G:0.01, T:0.31
Consensus pattern (26 bp):
CAAAATTAAATATTACAATATTCATA
Found at i:4789680 original size:48 final size:48
Alignment explanation
Indices: 4789580--4789789 Score: 262
Period size: 48 Copynumber: 4.3 Consensus size: 48
4789570 ATAAAAATTG
*
4789580 CAAAATTACAATATTAAAATATTCATACAAAAAAAT-TGCAATATTCATA
1 CAAAATTACAATATTACAATATTCATACAAAAAAATAT--AATATTCATA
* *
4789629 CAAAATTATAATATTACAACATTCATACAAAAAAATATAATATTCATA
1 CAAAATTACAATATTACAATATTCATACAAAAAAATATAATATTCATA
* * **
4789677 CAAAATTACAAAATTACAATATTCATACAAAAAATTGCAATATTCATA
1 CAAAATTACAATATTACAATATTCATACAAAAAAATATAATATTCATA
* * **
4789725 CAAAACTATAATATTATTTCAATATTCATACAAAAATTTATAATATTCATA
1 CAAAATTACAATATTA---CAATATTCATACAAAAAAATATAATATTCATA
4789776 C-AAATTACAATATT
1 CAAAATTACAATATT
4789790 CATACAAAAA
Statistics
Matches: 140, Mismatches: 17, Indels: 7
0.85 0.10 0.04
Matches are distributed among these distances:
48 65 0.46
49 33 0.24
50 12 0.09
51 30 0.21
ACGTcount: A:0.53, C:0.13, G:0.01, T:0.33
Consensus pattern (48 bp):
CAAAATTACAATATTACAATATTCATACAAAAAAATATAATATTCATA
Found at i:4789729 original size:21 final size:21
Alignment explanation
Indices: 4789592--4789633 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
4789582 AAATTACAAT
*
4789592 ATTAAAATATTCATACAAAAAA
1 ATTACAATATTCATAC-AAAAA
*
4789614 ATTGCAATATTCATACAAAA
1 ATTACAATATTCATACAAAA
4789634 TTATAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.57, C:0.12, G:0.02, T:0.29
Consensus pattern (21 bp):
ATTACAATATTCATACAAAAA
Found at i:4789769 original size:21 final size:20
Alignment explanation
Indices: 4789745--4789916 Score: 89
Period size: 21 Copynumber: 7.8 Consensus size: 20
4789735 ATATTATTTC
4789745 AATATTCATACAAAAATTTAT
1 AATATTCATACAAAAA-TTAT
*
4789766 AATATTCATAC--AAATTAC
1 AATATTCATACAAAAATTAT
4789784 AATATTCATACAAAAAATTACT
1 AATATTCATAC-AAAAATTA-T
*
4789806 AATCCAAAACTATAAATACAAATTTAATTAT
1 AAT-----A-T-T-CATACAAA---AATTAT
* *
4789837 AAAATAATTACATAC-AACATTAC
1 --AAT-ATT-CATACAAAAATTAT
*
4789860 AATATTCATAAAAAAATTAT
1 AATATTCATACAAAAATTAT
*
4789880 AATATTCATACAAAAAATTTAA
1 AATATTCATAC-AAAAA-TTAT
4789902 AATATTCATACAAAA
1 AATATTCATACAAAA
4789917 TTCTAATCTA
Statistics
Matches: 120, Mismatches: 11, Indels: 40
0.70 0.06 0.23
Matches are distributed among these distances:
18 14 0.12
19 7 0.06
20 19 0.16
21 29 0.24
22 17 0.14
23 4 0.03
26 2 0.02
27 7 0.06
28 2 0.02
29 6 0.05
30 4 0.03
31 1 0.01
32 5 0.04
33 3 0.03
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.32
Consensus pattern (20 bp):
AATATTCATACAAAAATTAT
Found at i:4789905 original size:22 final size:21
Alignment explanation
Indices: 4789855--4789916 Score: 90
Period size: 22 Copynumber: 3.0 Consensus size: 21
4789845 TACATACAAC
*
4789855 ATTACAATATTCATA-AAAAA
1 ATTAAAATATTCATACAAAAA
*
4789875 ATTATAATATTCATACAAAAA
1 ATTAAAATATTCATACAAAAA
4789896 ATTTAAAATATTCATACAAAA
1 A-TTAAAATATTCATACAAAA
4789917 TTCTAATCTA
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
20 14 0.37
21 6 0.16
22 18 0.47
ACGTcount: A:0.58, C:0.10, G:0.00, T:0.32
Consensus pattern (21 bp):
ATTAAAATATTCATACAAAAA
Found at i:4789918 original size:20 final size:20
Alignment explanation
Indices: 4789831--4789918 Score: 79
Period size: 20 Copynumber: 4.2 Consensus size: 20
4789821 ATACAAATTT
4789831 AATTATAAAATAATTACATACAA
1 AATT-TAAAAT-ATT-CATACAA
* * *
4789854 CA-TTACAATATTCATAAAA
1 AATTTAAAATATTCATACAA
* *
4789873 AAATTATAATATTCATACAAAA
1 AATTTAAAATATTCATAC--AA
4789895 AATTTAAAATATTCATACAA
1 AATTTAAAATATTCATACAA
4789915 AATT
1 AATT
4789919 CTAATCTAAA
Statistics
Matches: 54, Mismatches: 8, Indels: 9
0.76 0.11 0.13
Matches are distributed among these distances:
19 7 0.13
20 22 0.41
21 5 0.09
22 19 0.35
23 1 0.02
ACGTcount: A:0.57, C:0.10, G:0.00, T:0.33
Consensus pattern (20 bp):
AATTTAAAATATTCATACAA
Found at i:4790104 original size:14 final size:15
Alignment explanation
Indices: 4790081--4790118 Score: 60
Period size: 14 Copynumber: 2.5 Consensus size: 15
4790071 TTTTTTCTTT
4790081 CTTTCTTCTTCTTCTC
1 CTTTC-TCTTCTTCTC
4790097 C-TTCTCTTCTTCTC
1 CTTTCTCTTCTTCTC
4790111 CTTTCTCT
1 CTTTCTCT
4790119 CTTTTTTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 11 0.52
15 9 0.43
16 1 0.05
ACGTcount: A:0.00, C:0.39, G:0.00, T:0.61
Consensus pattern (15 bp):
CTTTCTCTTCTTCTC
Found at i:4790382 original size:17 final size:16
Alignment explanation
Indices: 4790350--4790392 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
4790340 AAAAAAATAT
*
4790350 AAATTATATTTTATTA
1 AAATTTTATTTTATTA
4790366 AAATTTTATTATTATTA
1 AAATTTTATT-TTATTA
**
4790383 TTATTTTATT
1 AAATTTTATT
4790393 CATTGGCGCC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
16 9 0.39
17 14 0.61
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (16 bp):
AAATTTTATTTTATTA
Found at i:4803322 original size:3 final size:3
Alignment explanation
Indices: 4803314--4803338 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
4803304 ATGACCAGCC
4803314 ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
4803339 AGGATTTATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:4811153 original size:29 final size:29
Alignment explanation
Indices: 4811110--4811165 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
4811100 ATTAGTCATT
* * *
4811110 TACAAATATAGGAGAGCTTGGATAAAATC
1 TACAAATATAAGAGAGATGGGATAAAATC
4811139 TACAAATATAAGAGAGATGGGATAAAA
1 TACAAATATAAGAGAGATGGGATAAAA
4811166 CTCCAGGCTC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.50, C:0.07, G:0.21, T:0.21
Consensus pattern (29 bp):
TACAAATATAAGAGAGATGGGATAAAATC
Found at i:4812352 original size:3 final size:3
Alignment explanation
Indices: 4812338--4812377 Score: 62
Period size: 3 Copynumber: 13.3 Consensus size: 3
4812328 GGAGAAGAGG
* *
4812338 AGA AGG AGA AGA AGA AGA AGA AGA AGA AGG AGA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
4812378 AGTTTATAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.62, C:0.00, G:0.38, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:4812574 original size:22 final size:21
Alignment explanation
Indices: 4812548--4812732 Score: 161
Period size: 22 Copynumber: 8.9 Consensus size: 21
4812538 TAGATTAGAA
*
4812548 TTTGTATGAATATTTTAAATTT
1 TTTGTATGAATATTGT-AATTT
*
4812570 TTTGTATGAATATTATAATTT
1 TTTGTATGAATATTGTAATTT
4812591 TTT-TATGAATATTGTAA--T
1 TTTGTATGAATATTGTAATTT
*
4812609 GTTGTATGAATATTGTAATTAT
1 TTTGTATGAATATTGTAATT-T
* *
4812631 TTTATAATTAA-ATTTGT-ATTT
1 TTTGT-ATGAATA-TTGTAATTT
* * * * *
4812652 ATAGTTTTGGAT-TAGTAATTT
1 TTTG-TATGAATATTGTAATTT
4812673 TTTGTATGAATATTGTAA--T
1 TTTGTATGAATATTGTAATTT
*
4812692 TTTGTATGAATATTATAAATTT
1 TTTGTATGAATATTGT-AATTT
4812714 TTTGTATGAATATTGTAAT
1 TTTGTATGAATATTGTAAT
4812733 AATATTATAG
Statistics
Matches: 130, Mismatches: 20, Indels: 27
0.73 0.11 0.15
Matches are distributed among these distances:
18 3 0.02
19 30 0.23
20 23 0.18
21 26 0.20
22 40 0.31
23 8 0.06
ACGTcount: A:0.32, C:0.00, G:0.12, T:0.55
Consensus pattern (21 bp):
TTTGTATGAATATTGTAATTT
Found at i:4812618 original size:19 final size:19
Alignment explanation
Indices: 4812571--4812627 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 19
4812561 TTTAAATTTT
* *
4812571 TTGTATGAATATTATAATTT
1 TTGTATGAATATTGTAA-TG
*
4812591 TTTTATGAATATTGTAATG
1 TTGTATGAATATTGTAATG
4812610 TTGTATGAATATTGTAAT
1 TTGTATGAATATTGTAAT
4812628 TATTTTATAA
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
19 18 0.55
20 15 0.45
ACGTcount: A:0.33, C:0.00, G:0.14, T:0.53
Consensus pattern (19 bp):
TTGTATGAATATTGTAATG
Found at i:4812713 original size:41 final size:40
Alignment explanation
Indices: 4812548--4812732 Score: 173
Period size: 41 Copynumber: 4.5 Consensus size: 40
4812538 TAGATTAGAA
*
4812548 TTTGTATGAATATTTTAAATTTTTTGTATGAATATTATAATTT
1 TTTGTATGAATATTGT-AA--TTTTGTATGAATATTATAATTT
* *
4812591 TTT-TATGAATATTGTAATGTTGTATGAATATTGTAATTAT
1 TTTGTATGAATATTGTAATTTTGTATGAATATTATAATT-T
* * * *
4812631 TTTATAATTAA-ATTTGT-ATTTATAGTTTTG--GATTAGTAATTT
1 TTTGT-ATGAATA-TTGTAATTT-T-G-TATGAATATTA-TAATTT
4812673 TTTGTATGAATATTGTAATTTTGTATGAATATTATAAATTT
1 TTTGTATGAATATTGTAATTTTGTATGAATATTAT-AATTT
4812714 TTTGTATGAATATTGTAAT
1 TTTGTATGAATATTGTAAT
4812733 AATATTATAG
Statistics
Matches: 117, Mismatches: 12, Indels: 28
0.75 0.08 0.18
Matches are distributed among these distances:
39 22 0.19
40 6 0.05
41 44 0.38
42 33 0.28
43 9 0.08
44 3 0.03
ACGTcount: A:0.32, C:0.00, G:0.12, T:0.55
Consensus pattern (40 bp):
TTTGTATGAATATTGTAATTTTGTATGAATATTATAATTT
Found at i:4812858 original size:97 final size:100
Alignment explanation
Indices: 4812681--4812903 Score: 357
Period size: 97 Copynumber: 2.3 Consensus size: 100
4812671 TTTTTGTATG
*
4812681 AATA-TTGTAATTTTGTATGAATATTATAAATTTTTTGTATGAATATTGTAATAATATTATAGTT
1 AATATTTGTAATTTTGTATGAATATTATAAATTTTTTGTATGAATATTG--ATAATATTATAATT
4812745 TTGTATGAATATTGCAATTTTTTTGTATGAATATTGT
64 TTGTATGAATATTGCAATTTTTTTGTATGAATATTGT
* *
4812782 AAT-TTTGTAATTTTGTATGAATATTAT-ATTTTTTTGTATGAATGTTG-TAATATTATAATTTT
1 AATATTTGTAATTTTGTATGAATATTATAAATTTTTTGTATGAATATTGATAATATTATAATTTT
4812844 GTATGAATATTGCAATTTTTTTGTATGAATATTGT
66 GTATGAATATTGCAATTTTTTTGTATGAATATTGT
*
4812879 AATATTT-TAATTTTGCATGAATATT
1 AATATTTGTAATTTTGTATGAATATT
4812904 GTAATGTGAG
Statistics
Matches: 116, Mismatches: 4, Indels: 8
0.91 0.03 0.06
Matches are distributed among these distances:
97 69 0.59
98 3 0.03
100 18 0.16
101 26 0.22
ACGTcount: A:0.32, C:0.01, G:0.13, T:0.54
Consensus pattern (100 bp):
AATATTTGTAATTTTGTATGAATATTATAAATTTTTTGTATGAATATTGATAATATTATAATTTT
GTATGAATATTGCAATTTTTTTGTATGAATATTGT
Found at i:4812904 original size:49 final size:49
Alignment explanation
Indices: 4812681--4812904 Score: 310
Period size: 49 Copynumber: 4.5 Consensus size: 49
4812671 TTTTTGTATG
* ** *
4812681 AATATTGTAATTTTGTATGAATATTATAAATTTTTTGTATGAATATTGT
1 AATATTTTAATTTTGTATGAATATTGCAATTTTTTTGTATGAATATTGT
*
4812730 AATAATATTATAGTTTTGTATGAATATTGCAATTTTTTTGTATGAATATTGT
1 AAT-AT-TT-TAATTTTGTATGAATATTGCAATTTTTTTGTATGAATATTGT
*
4812782 AAT-TTTGTAATTTTGTATGAATATT--ATATTTTTTTGTATGAATGTTGT
1 AATATTT-TAATTTTGTATGAATATTGCA-ATTTTTTTGTATGAATATTGT
*
4812830 AATATTATAATTTTGTATGAATATTGCAATTTTTTTGTATGAATATTGT
1 AATATTTTAATTTTGTATGAATATTGCAATTTTTTTGTATGAATATTGT
*
4812879 AATATTTTAATTTTGCATGAATATTG
1 AATATTTTAATTTTGTATGAATATTG
4812905 TAATGTGAGG
Statistics
Matches: 156, Mismatches: 12, Indels: 14
0.86 0.07 0.08
Matches are distributed among these distances:
47 1 0.01
48 41 0.26
49 68 0.44
50 4 0.03
51 1 0.01
52 41 0.26
ACGTcount: A:0.32, C:0.01, G:0.13, T:0.54
Consensus pattern (49 bp):
AATATTTTAATTTTGTATGAATATTGCAATTTTTTTGTATGAATATTGT
Found at i:4813149 original size:38 final size:38
Alignment explanation
Indices: 4813104--4813177 Score: 139
Period size: 38 Copynumber: 1.9 Consensus size: 38
4813094 CATATAAAGT
4813104 TTATAAAAAAATTAAAAATCATTTCATTAAAAGTTTAA
1 TTATAAAAAAATTAAAAATCATTTCATTAAAAGTTTAA
*
4813142 TTATAAAAAAATTAAAAATCATTTTATTAAAAGTTT
1 TTATAAAAAAATTAAAAATCATTTCATTAAAAGTTT
4813178 GGGTTTTTTA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.54, C:0.04, G:0.03, T:0.39
Consensus pattern (38 bp):
TTATAAAAAAATTAAAAATCATTTCATTAAAAGTTTAA
Found at i:4813328 original size:15 final size:16
Alignment explanation
Indices: 4813290--4813328 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
4813280 TAACTTATTT
4813290 AATTTTATATAATGTA
1 AATTTTATATAATGTA
*
4813306 ACTTTTATATAAT-TA
1 AATTTTATATAATGTA
4813321 AATTTTAT
1 AATTTTAT
4813329 TTGATTTTGT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 9 0.43
16 12 0.57
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.54
Consensus pattern (16 bp):
AATTTTATATAATGTA
Found at i:4814955 original size:6 final size:6
Alignment explanation
Indices: 4814944--4815014 Score: 88
Period size: 6 Copynumber: 11.8 Consensus size: 6
4814934 GCATCATGCA
* *
4814944 CCAGAG CCAGAG CCAGGG CCAGAG CCAGAG CTAGAG CCAGAG CCAGAG
1 CCAGAG CCAGAG CCAGAG CCAGAG CCAGAG CCAGAG CCAGAG CCAGAG
* * * *
4814992 CGAGAG GCAGAG CGAGAG GCAGA
1 CCAGAG CCAGAG CCAGAG CCAGA
4815015 ACTACATTCT
Statistics
Matches: 54, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
6 54 1.00
ACGTcount: A:0.32, C:0.27, G:0.39, T:0.01
Consensus pattern (6 bp):
CCAGAG
Found at i:4818241 original size:19 final size:19
Alignment explanation
Indices: 4818219--4818553 Score: 168
Period size: 19 Copynumber: 17.5 Consensus size: 19
4818209 ATTGCAAAAT
*
4818219 TACAATATTACAATATTCA
1 TACAAAATTACAATATTCA
*
4818238 TACAAAAAAATTGCAATATTCA
1 TAC---AAAATTACAATATTCA
*
4818260 TACAAAATTATAATA-T--
1 TACAAAATTACAATATTCA
*
4818276 TACAACATT-C-ATA--CA
1 TACAAAATTACAATATTCA
* *
4818291 -A-AAAAATATAATATTCA
1 TACAAAATTACAATATTCA
4818308 TACAAAATTACAATATTCA
1 TACAAAATTACAATATTCA
*
4818327 TACAAAAAAATTGCAATATTCA
1 TAC---AAAATTACAATATTCA
* *
4818349 TACAAAACTATAATATT-A
1 TACAAAATTACAATATTCA
*
4818367 TTACAATATT-C-ATA--CA
1 -TACAAAATTACAATATTCA
*
4818383 -A-AAAATTTATAATATTCA
1 TACAAAA-TTACAATATTCA
4818401 TACAAAATTACAATATTCA
1 TACAAAATTACAATATTCA
* *
4818420 TACAAAAAATTACTA-ATCCAA
1 TAC--AAAATTACAATATTC-A
*
4818441 AACTATAAA-TACAAATTTAATT-A
1 TAC-A-AAATTAC-AA--T-ATTCA
*
4818464 TAAAATAATTACAATATTCA
1 TACAA-AATTACAATATTCA
*
4818484 TACAACATTACAATATTCA
1 TACAAAATTACAATATTCA
* *
4818503 TAAAAAAATTATAATATTCA
1 T-ACAAAATTACAATATTCA
*
4818523 TACAAAAAATTTAAAATATTCA
1 TAC--AAAA-TTACAATATTCA
4818545 TACAAAATT
1 TACAAAATT
4818554 CTAATCTAAA
Statistics
Matches: 241, Mismatches: 36, Indels: 78
0.68 0.10 0.22
Matches are distributed among these distances:
13 7 0.03
14 7 0.03
15 3 0.01
16 12 0.05
17 5 0.02
18 5 0.02
19 83 0.34
20 37 0.15
21 21 0.09
22 54 0.22
23 5 0.02
25 2 0.01
ACGTcount: A:0.54, C:0.13, G:0.01, T:0.32
Consensus pattern (19 bp):
TACAAAATTACAATATTCA
Found at i:4818255 original size:22 final size:22
Alignment explanation
Indices: 4818225--4818551 Score: 168
Period size: 22 Copynumber: 14.9 Consensus size: 22
4818215 AAATTACAAT
4818225 ATTACAATATTCATACAAAAAA
1 ATTACAATATTCATACAAAAAA
*
4818247 ATTGCAATATTCATACAAAATTATAA
1 ATTACAATATTCATAC-AAA--A-AA
*
4818273 TATTACAACATTCATACAAAAAA
1 -ATTACAATATTCATACAAAAAA
*
4818296 A-TATAATATTCATAC---AAA
1 ATTACAATATTCATACAAAAAA
4818314 ATTACAATATTCATACAAAAAA
1 ATTACAATATTCATACAAAAAA
* **
4818336 ATTGCAATATTCATACAAAACT
1 ATTACAATATTCATACAAAAAA
* * *
4818358 ATAATATTATTACAATATTCATACAAAAA
1 ATTACAATATT-C-ATA--C--A-AAAAA
* * * *
4818387 ATT--TATAAT-ATTCATACAAA
1 ATTACAATATTCATACA-AAAAA
4818407 ATTACAATATTCATAC-AAAAA
1 ATTACAATATTCATACAAAAAA
* * *
4818428 ATTACTA-ATCCA-A-AACTATAA
1 ATTACAATATTCATACAA--AAAA
* * *
4818449 A-TACAA-ATTTAATTATAAAATA
1 ATTACAATA-TTCA-TACAAAAAA
*
4818471 ATTACAATATTCATAC---AAC
1 ATTACAATATTCATACAAAAAA
4818490 ATTACAATATTCAT--AAAAAA
1 ATTACAATATTCATACAAAAAA
*
4818510 ATTATAATATTCATACAAAAAA
1 ATTACAATATTCATACAAAAAA
* *
4818532 TTTAAAATATTCATACAAAA
1 ATTACAATATTCATACAAAA
4818552 TTCTAATCTA
Statistics
Matches: 230, Mismatches: 42, Indels: 66
0.68 0.12 0.20
Matches are distributed among these distances:
18 4 0.02
19 30 0.13
20 32 0.14
21 28 0.12
22 79 0.34
23 18 0.08
24 9 0.04
25 1 0.00
26 6 0.03
27 17 0.07
28 1 0.00
29 5 0.02
ACGTcount: A:0.55, C:0.13, G:0.01, T:0.32
Consensus pattern (22 bp):
ATTACAATATTCATACAAAAAA
Found at i:4818312 original size:89 final size:88
Alignment explanation
Indices: 4818219--4818529 Score: 363
Period size: 89 Copynumber: 3.5 Consensus size: 88
4818209 ATTGCAAAAT
*
4818219 TACAATATTACAATATTCATACAAAAAAATTGCAATATTCATACAAAATTATAATATTACAACAT
1 TACAAAATTACAATATTCATACAAAAAAATTGCAATATTCATACAAAATTATAATATTACAA-AT
*
4818284 TCATACAAAAAAATATAATATTCA
65 TCATACAAAAAATTATAATATTCA
*
4818308 TACAAAATTACAATATTCATACAAAAAAATTGCAATATTCATACAAAACTATAATATTATTACAA
1 TACAAAATTACAATATTCATACAAAAAAATTGCAATATTCATACAAAA-T-T-ATAATATTACAA
4818373 TATTCATACAAAAAATTTATAATATTCA
63 -ATTCATACAAAAAA-TTATAATATTCA
* * *
4818401 TACAAAATTACAATATTCATAC-AAAAAATT--ACTA---ATCCAAAACTATAA-A-TACAAATT
1 TACAAAATTACAATATTCATACAAAAAAATTGCAATATTCATACAAAATTATAATATTACAAA-T
* * *
4818458 TAATTATAAAATAATTACAATATTCA
65 TCA-TACAAAA-AATTATAATATTCA
* **
4818484 TACAACATTACAATATTCAT--AAAAAAATTATAATATTCATACAAAA
1 TACAAAATTACAATATTCATACAAAAAAATTGCAATATTCATACAAAA
4818530 AATTTAAAAT
Statistics
Matches: 195, Mismatches: 14, Indels: 28
0.82 0.06 0.12
Matches are distributed among these distances:
81 1 0.01
82 16 0.08
83 37 0.19
84 8 0.04
85 1 0.01
87 14 0.07
89 47 0.24
90 4 0.02
91 1 0.01
92 33 0.17
93 33 0.17
ACGTcount: A:0.54, C:0.13, G:0.01, T:0.32
Consensus pattern (88 bp):
TACAAAATTACAATATTCATACAAAAAAATTGCAATATTCATACAAAATTATAATATTACAAATT
CATACAAAAAATTATAATATTCA
Found at i:4818372 original size:41 final size:40
Alignment explanation
Indices: 4818276--4818529 Score: 151
Period size: 41 Copynumber: 6.0 Consensus size: 40
4818266 ATTATAATAT
* *
4818276 TACAACATTCATACAAAAAAATATAATATTCATACAAAAT
1 TACAATATTCATACAAAAAAATATAATATTCATACAAAAC
4818316 TACAATATTCATACAAAAAAAT-TGCAATATTCATACAAAAC
1 TACAATATTCATACAAAAAAATAT--AATATTCATACAAAAC
* *
4818357 TATAATATTATTACAATATTCATACAAAAAATTTATAATATTCATACAAAAT
1 -----------TACAATATTCATACAAAAAA-ATATAATATTCATACAAAAC
* * *
4818409 TACAATATTCATAC-AAAAAAT-TACTAATCCAAAACTATAAA-
1 TACAATATTCATACAAAAAAATATAAT-ATTC-ATAC-A-AAAC
* * * * * *
4818450 TACAA-ATTTAATTATAAAATAATTACAATATTCATACAACAT
1 TACAATA-TTCA-TACAAAA-AAATATAATATTCATACAAAAC
*
4818492 TACAATATTCATA-AAAAAATTATAATATTCATACAAAA
1 TACAATATTCATACAAAAAAATATAATATTCATACAAAA
4818530 AATTTAAAAT
Statistics
Matches: 169, Mismatches: 19, Indels: 53
0.70 0.08 0.22
Matches are distributed among these distances:
38 3 0.02
39 24 0.14
40 34 0.20
41 42 0.25
42 14 0.08
43 7 0.04
44 6 0.04
45 2 0.01
52 35 0.21
53 1 0.01
54 1 0.01
ACGTcount: A:0.55, C:0.13, G:0.00, T:0.31
Consensus pattern (40 bp):
TACAATATTCATACAAAAAAATATAATATTCATACAAAAC
Done.