Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D01
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: 64473564
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1880000 characters in sequence are not A, C, G, or T
File 13 of 213
Found at i:3647158 original size:18 final size:18
Alignment explanation
Indices: 3647135--3647256 Score: 74
Period size: 18 Copynumber: 6.4 Consensus size: 18
3647125 AATAACTTAC
3647135 AACTTACATAATACATTT
1 AACTTACATAATACATTT
*
3647153 AACTTACATTACTTACA--T
1 AACTTACA-TA-ATACATTT
*
3647171 AA--TACATAATA-ACTTAC
1 AACTTACATAATACA-TT-T
3647188 AACTTACATAATACATTTAACTT
1 AACTTACATAATACA--T---TT
3647211 ACAACTTACATAATACATTT
1 --AACTTACATAATACATTT
* *
3647231 GACTGACATAATACATTT
1 AACTTACATAATACATTT
3647249 AACTTACA
1 AACTTACA
3647257 ACTTACACAA
Statistics
Matches: 80, Mismatches: 9, Indels: 30
0.67 0.08 0.25
Matches are distributed among these distances:
13 1 0.01
14 2 0.03
15 2 0.03
16 4 0.05
17 2 0.03
18 33 0.41
19 11 0.14
20 7 0.09
21 1 0.01
23 1 0.01
24 1 0.01
25 15 0.19
ACGTcount: A:0.44, C:0.19, G:0.02, T:0.35
Consensus pattern (18 bp):
AACTTACATAATACATTT
Found at i:3647199 original size:26 final size:26
Alignment explanation
Indices: 3647116--3647521 Score: 579
Period size: 26 Copynumber: 16.1 Consensus size: 26
3647106 ATTTTATTAA
3647116 ATAATACATAATAACTTACAACTTAC
1 ATAATACATAATAACTTACAACTTAC
*
3647142 ATAATACAT-TTAACTTACATTACTTAC
1 ATAATACATAATAACTTACA--ACTTAC
3647169 ATAATACATAATAACTTACAACTTAC
1 ATAATACATAATAACTTACAACTTAC
*
3647195 ATAATACAT-TTAACTTACAACTTAC
1 ATAATACATAATAACTTACAACTTAC
* *
3647220 ATAATAC---AT---TT--GACTGAC
1 ATAATACATAATAACTTACAACTTAC
*
3647238 ATAATACATT-TAACTTACAACTTAC
1 ATAATACATAATAACTTACAACTTAC
*
3647263 ACAATACATAATAACTTACAACTTAC
1 ATAATACATAATAACTTACAACTTAC
3647289 ATAATACATAATAACTTACAACTTAC
1 ATAATACATAATAACTTACAACTTAC
*
3647315 ACAATACATAATAACTTACAACTTAC
1 ATAATACATAATAACTTACAACTTAC
3647341 ATAATACATAATAACTTACAACTTAC
1 ATAATACATAATAACTTACAACTTAC
* *
3647367 ATAATACAT-TTAACTTGCAACTTAC
1 ATAATACATAATAACTTACAACTTAC
*
3647392 ACAATACATAATAACTTACAACTTAC
1 ATAATACATAATAACTTACAACTTAC
3647418 ATAATACATAATAACTTACAACTTAC
1 ATAATACATAATAACTTACAACTTAC
*
3647444 ATAATACAT-TTAACTTACAACTTAC
1 ATAATACATAATAACTTACAACTTAC
* *
3647469 ACAATACAT-TTAACTTACAACTTAC
1 ATAATACATAATAACTTACAACTTAC
3647494 ATAATACATAATAACTTACAACTTAC
1 ATAATACATAATAACTTACAACTTAC
3647520 AT
1 AT
3647522 TTAACTTACA
Statistics
Matches: 343, Mismatches: 23, Indels: 28
0.87 0.06 0.07
Matches are distributed among these distances:
18 12 0.03
20 3 0.01
23 3 0.01
25 113 0.33
26 188 0.55
27 15 0.04
28 9 0.03
ACGTcount: A:0.47, C:0.20, G:0.01, T:0.32
Consensus pattern (26 bp):
ATAATACATAATAACTTACAACTTAC
Found at i:3647367 original size:19 final size:19
Alignment explanation
Indices: 3647293--3647423 Score: 65
Period size: 19 Copynumber: 7.5 Consensus size: 19
3647283 ACTTACATAA
3647293 TACATAATAACTTACAACT
1 TACATAATAACTTACAACT
* * *
3647312 TACACAAT-ACATAATAACT
1 TACATAATAAC-TTACAACT
*
3647331 TAC-----AACTTACATA-A
1 TACATAATAACTTACA-ACT
3647345 TACATAATAACTTACAACT
1 TACATAATAACTTACAACT
*
3647364 TACATAAT-ACATT-TAACT
1 TACATAATAAC-TTACAACT
* * *
3647382 TGCA-ACTTAC--ACAA--
1 TACATAATAACTTACAACT
3647396 TACATAATAACTTACAACT
1 TACATAATAACTTACAACT
3647415 TACATAATA
1 TACATAATA
3647424 CATAATAACT
Statistics
Matches: 81, Mismatches: 14, Indels: 34
0.63 0.11 0.26
Matches are distributed among these distances:
14 9 0.11
15 7 0.09
16 2 0.02
17 6 0.07
18 14 0.17
19 43 0.53
ACGTcount: A:0.48, C:0.21, G:0.01, T:0.31
Consensus pattern (19 bp):
TACATAATAACTTACAACT
Found at i:3647397 original size:77 final size:76
Alignment explanation
Indices: 3647240--3647521 Score: 492
Period size: 77 Copynumber: 3.7 Consensus size: 76
3647230 TGACTGACAT
* * *
3647240 AATACATTTAACTTACAACTTACACAATACATAATAACTTACAACTTACATAATACATAATAACT
1 AATACATATAACTTACAACTTACATAATACATAATAACTTACAACTTACATAATACAT-TTAACT
3647305 TACAACTTACAC
65 TACAACTTACAC
3647317 AATACATAATAACTTACAACTTACATAATACATAATAACTTACAACTTACATAATACATTTAACT
1 AATACAT-ATAACTTACAACTTACATAATACATAATAACTTACAACTTACATAATACATTTAACT
*
3647382 TGCAACTTACAC
65 TACAACTTACAC
3647394 AATACATAATAACTTACAACTTACATAATACATAATAACTTACAACTTACATAATACATTTAACT
1 AATACAT-ATAACTTACAACTTACATAATACATAATAACTTACAACTTACATAATACATTTAACT
3647459 TACAACTTACAC
65 TACAACTTACAC
*
3647471 AATACATTTAACTTACAACTTACATAATACATAATAACTTACAACTTACAT
1 AATACATATAACTTACAACTTACATAATACATAATAACTTACAACTTACAT
3647522 TTAACTTACA
Statistics
Matches: 198, Mismatches: 6, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
76 43 0.22
77 106 0.54
78 49 0.25
ACGTcount: A:0.48, C:0.21, G:0.00, T:0.31
Consensus pattern (76 bp):
AATACATATAACTTACAACTTACATAATACATAATAACTTACAACTTACATAATACATTTAACTT
ACAACTTACAC
Found at i:3647529 original size:11 final size:10
Alignment explanation
Indices: 3647513--3647566 Score: 55
Period size: 9 Copynumber: 5.7 Consensus size: 10
3647503 AATAACTTAC
3647513 AACTTACATTT
1 AACTTACA-TT
3647524 AACTTACA-T
1 AACTTACATT
3647533 AA--TACATTT
1 AACTTACA-TT
3647542 AACTTACA-T
1 AACTTACATT
3647551 AACTTACA-T
1 AACTTACATT
3647560 AACTTAC
1 AACTTAC
3647567 CATTGCAATT
Statistics
Matches: 39, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
7 4 0.10
9 23 0.59
11 12 0.31
ACGTcount: A:0.43, C:0.20, G:0.00, T:0.37
Consensus pattern (10 bp):
AACTTACATT
Found at i:3647550 original size:18 final size:18
Alignment explanation
Indices: 3647487--3647552 Score: 89
Period size: 18 Copynumber: 3.6 Consensus size: 18
3647477 TTTAACTTAC
*
3647487 AACTTACATAATACATAAT
1 AACTTACATAATACAT-TT
*
3647506 AACTTACA-ACTTACATTT
1 AACTTACATA-ATACATTT
3647524 AACTTACATAATACATTT
1 AACTTACATAATACATTT
3647542 AACTTACATAA
1 AACTTACATAA
3647553 CTTACATAAC
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
18 28 0.67
19 14 0.33
ACGTcount: A:0.47, C:0.18, G:0.00, T:0.35
Consensus pattern (18 bp):
AACTTACATAATACATTT
Found at i:3647562 original size:18 final size:18
Alignment explanation
Indices: 3647402--3647566 Score: 69
Period size: 18 Copynumber: 9.5 Consensus size: 18
3647392 ACAATACATA
3647402 ATAACTTAC--AACTTAC
1 ATAACTTACATAACTTAC
*
3647418 ATAATACATA-ATAACTTAC
1 AT-A-ACTTACATAACTTAC
3647437 --AACTTACATAA--TAC
1 ATAACTTACATAACTTAC
3647451 ATTTAACTTAC--AACTTAC
1 A--TAACTTACATAACTTAC
*
3647469 ACAA--TACATTTAACTTAC
1 ATAACTTACA--TAACTTAC
*
3647487 --AACTTACATAATACATA-
1 ATAACTTACAT-A-ACTTAC
3647504 ATAACTTAC--AACTTAC
1 ATAACTTACATAACTTAC
3647520 ATTTAACTTACATAA--TAC
1 A--TAACTTACATAACTTAC
3647538 ATTTAACTTACATAACTTAC
1 A--TAACTTACATAACTTAC
3647558 ATAACTTAC
1 ATAACTTAC
3647567 CATTGCAATT
Statistics
Matches: 116, Mismatches: 5, Indels: 54
0.66 0.03 0.31
Matches are distributed among these distances:
14 6 0.05
15 8 0.07
16 16 0.14
17 2 0.02
18 64 0.55
19 14 0.12
20 6 0.05
ACGTcount: A:0.45, C:0.21, G:0.00, T:0.34
Consensus pattern (18 bp):
ATAACTTACATAACTTAC
Found at i:3653330 original size:14 final size:14
Alignment explanation
Indices: 3653311--3653344 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
3653301 ATTGCTATTG
3653311 GTTGCTTTTGAAAT
1 GTTGCTTTTGAAAT
3653325 GTTGCTTTTGAAAT
1 GTTGCTTTTGAAAT
*
3653339 TTTGCT
1 GTTGCT
3653345 ACAGGAGGGC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.18, C:0.09, G:0.21, T:0.53
Consensus pattern (14 bp):
GTTGCTTTTGAAAT
Found at i:3653510 original size:42 final size:42
Alignment explanation
Indices: 3653398--3653785 Score: 427
Period size: 42 Copynumber: 9.2 Consensus size: 42
3653388 CAAAAATAGT
* * *
3653398 GGCGTTTTTGTATAAAAGCGCCACTAAAGAACATGTTCTTTTGC
1 GGCGTTTTT-TA-ATAAGCGCCGCTAAAGAACATGTTCTTTAGC
* * ** *
3653442 GGCG-TTTGTAAAAAATGCCACTAAAGAACATGTTCTTTAGC
1 GGCGTTTTTTAATAAGCGCCGCTAAAGAACATGTTCTTTAGC
* *** * * *
3653483 GGCGATTAGAAAAAAACGCCGCTAAAGAACATGATCTTTAGC
1 GGCGTTTTTTAATAAGCGCCGCTAAAGAACATGTTCTTTAGC
** *
3653525 GGCGTTTTCCATTAAGCGCCGCTAAAGAACATGTTCTTTAGC
1 GGCGTTTTTTAATAAGCGCCGCTAAAGAACATGTTCTTTAGC
** * *
3653567 GGCGTTTTTTCCTAAGCGCCGCTAAAGAACATGGTCTTTAGT
1 GGCGTTTTTTAATAAGCGCCGCTAAAGAACATGTTCTTTAGC
* * * *
3653609 GGCATTTTTTTACAAACGCCGCTAAAGAACATGTTCTTTAGC
1 GGCGTTTTTTAATAAGCGCCGCTAAAGAACATGTTCTTTAGC
** *
3653651 GGCGTTTTTTTCTAAGCGCCGCTAAAGAACATGATCTTTAGC
1 GGCGTTTTTTAATAAGCGCCGCTAAAGAACATGTTCTTTAGC
** *
3653693 GGCGTTTTTTTCTAAGCGCCGCTAAAGAACATGATCTTTAGC
1 GGCGTTTTTTAATAAGCGCCGCTAAAGAACATGTTCTTTAGC
** * *
3653735 GGCGTTTTTTTCTAAGCGCCGCTAAAGAACATGGTCTTTAAC
1 GGCGTTTTTTAATAAGCGCCGCTAAAGAACATGTTCTTTAGC
3653777 GGCGTTTTT
1 GGCGTTTTT
3653786 GTTTGTAAAC
Statistics
Matches: 306, Mismatches: 37, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
41 32 0.10
42 267 0.87
43 3 0.01
44 4 0.01
ACGTcount: A:0.27, C:0.20, G:0.21, T:0.32
Consensus pattern (42 bp):
GGCGTTTTTTAATAAGCGCCGCTAAAGAACATGTTCTTTAGC
Found at i:3654487 original size:21 final size:19
Alignment explanation
Indices: 3654450--3654524 Score: 123
Period size: 19 Copynumber: 3.8 Consensus size: 19
3654440 AATCATATAT
3654450 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
3654469 TCTAAGATTGCATATATCATA
1 TCTAAGATTGC--ATATCATA
*
3654490 TTTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
3654509 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
3654525 CTCAAAAATT
Statistics
Matches: 52, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
19 34 0.65
21 18 0.35
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.39
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:3654500 original size:40 final size:41
Alignment explanation
Indices: 3654446--3654523 Score: 149
Period size: 40 Copynumber: 1.9 Consensus size: 41
3654436 ACAAAATCAT
3654446 ATATTCTAAGATTGCATATCATATCTAAGATTGCATATATC
1 ATATTCTAAGATTGCATATCATATCTAAGATTGCATATATC
3654487 ATATT-TAAGATTGCATATCATATCTAAGATTGCATAT
1 ATATTCTAAGATTGCATATCATATCTAAGATTGCATAT
3654524 CCTCAAAAAT
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
40 32 0.86
41 5 0.14
ACGTcount: A:0.37, C:0.13, G:0.10, T:0.40
Consensus pattern (41 bp):
ATATTCTAAGATTGCATATCATATCTAAGATTGCATATATC
Found at i:3657564 original size:18 final size:18
Alignment explanation
Indices: 3657541--3657633 Score: 159
Period size: 18 Copynumber: 5.2 Consensus size: 18
3657531 TACGACCGTT
3657541 TACGGTACTATTCACGTA
1 TACGGTACTATTCACGTA
3657559 TACGGTACTATTCACGTA
1 TACGGTACTATTCACGTA
*
3657577 TACAGTACTATTCACGTA
1 TACGGTACTATTCACGTA
*
3657595 TACGGCACTATTCACGTA
1 TACGGTACTATTCACGTA
*
3657613 TACGGTACTGTTCACGTA
1 TACGGTACTATTCACGTA
3657631 TAC
1 TAC
3657634 AGTAGTTGGG
Statistics
Matches: 70, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 70 1.00
ACGTcount: A:0.28, C:0.24, G:0.16, T:0.32
Consensus pattern (18 bp):
TACGGTACTATTCACGTA
Found at i:3664205 original size:24 final size:23
Alignment explanation
Indices: 3664162--3664206 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 23
3664152 AAACTTGACA
*
3664162 TTTTTCTAATTTGACTTTTAATT
1 TTTTTCTAATTTGAATTTTAATT
3664185 TTTTATCTAATTT-AATATTTAA
1 TTTT-TCTAATTTGAAT-TTTAA
3664207 ACTCAAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 6 0.32
24 13 0.68
ACGTcount: A:0.29, C:0.07, G:0.02, T:0.62
Consensus pattern (23 bp):
TTTTTCTAATTTGAATTTTAATT
Found at i:3669297 original size:31 final size:31
Alignment explanation
Indices: 3669249--3669312 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
3669239 GTAACTAGAT
* * *
3669249 TATTCAAAAGTTTTCATTTGAGTCATTGAAC
1 TATTAAAAAATTTTCATTTAAGTCATTGAAC
*
3669280 TATTAAAAAATTTTCATTTAATTCATTGAAC
1 TATTAAAAAATTTTCATTTAAGTCATTGAAC
3669311 TA
1 TA
3669313 CTTGAAAGTG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.38, C:0.11, G:0.08, T:0.44
Consensus pattern (31 bp):
TATTAAAAAATTTTCATTTAAGTCATTGAAC
Found at i:3673359 original size:39 final size:39
Alignment explanation
Indices: 3673300--3673377 Score: 138
Period size: 39 Copynumber: 2.0 Consensus size: 39
3673290 TTTATGAAAT
3673300 GAAACAGAGATAGGAACTATGGCAGACGAGGAACATAAA
1 GAAACAGAGATAGGAACTATGGCAGACGAGGAACATAAA
* *
3673339 GAAATAGAGATAGGAACTATGGCAGAGGAGGAACATAAA
1 GAAACAGAGATAGGAACTATGGCAGACGAGGAACATAAA
3673378 ATATGTGAGA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.49, C:0.10, G:0.29, T:0.12
Consensus pattern (39 bp):
GAAACAGAGATAGGAACTATGGCAGACGAGGAACATAAA
Found at i:3675141 original size:42 final size:42
Alignment explanation
Indices: 3675090--3675376 Score: 443
Period size: 42 Copynumber: 6.8 Consensus size: 42
3675080 GTTTACAAAC
* *
3675090 AAAAACGCCGTTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
1 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAA
3675132 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAA
1 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAA
*
3675174 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAAAA
1 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAA
* *
3675216 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCG-TTTGTAA
1 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAG-AA
* * *
3675258 AAAAATGCCACTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
1 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAA
* *
3675300 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTA-AGG
1 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGA-A
*
3675342 GAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCG
1 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCG
3675377 TTTTTTTTCT
Statistics
Matches: 226, Mismatches: 16, Indels: 6
0.91 0.06 0.02
Matches are distributed among these distances:
41 3 0.01
42 220 0.97
43 3 0.01
ACGTcount: A:0.33, C:0.21, G:0.22, T:0.24
Consensus pattern (42 bp):
AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAA
Found at i:3675407 original size:43 final size:42
Alignment explanation
Indices: 3675090--3675477 Score: 394
Period size: 42 Copynumber: 9.2 Consensus size: 42
3675080 GTTTACAAAC
* * *
3675090 AAAAACGCCGTTAAAGACCATGTTCTTTAGCGGCG-CTTAGAA
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTA-AA
* *
3675132 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCG-CTTAGAA
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTA-AA
* * *
3675174 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAAAA
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTAAA
3675216 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTGT-AA
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGTTT-TAAA
* * * *
3675258 AAAAATGCCACTAAAGACCATGTTCTTTAGCGGCG-CTTAGAA
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTA-AA
* *
3675300 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCG-CTTAAGG
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTAA-A
* * ***
3675342 GAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGTTTTTTTT
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCG-TTTTAAA
** * * * *
3675385 CTAATCGCCGCTAAAGAACATGTTCTTTAGTGGCATTTT--T
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTAAA
* * * *
3675425 ACAAACGCCGCAAAAGAACATGTTCTTTAGTGGCGCTTTTATAC
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCG-TTTTA-AA
3675469 AAAAACGCC
1 AAAAACGCC
3675478 ACTATTTTTG
Statistics
Matches: 301, Mismatches: 34, Indels: 20
0.85 0.10 0.06
Matches are distributed among these distances:
40 32 0.11
41 6 0.02
42 222 0.74
43 31 0.10
44 10 0.03
ACGTcount: A:0.32, C:0.21, G:0.20, T:0.27
Consensus pattern (42 bp):
AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTAAA
Found at i:3675554 original size:14 final size:14
Alignment explanation
Indices: 3675531--3675564 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
3675521 GCCCTCCTGT
*
3675531 AGCAAAATTTCAAA
1 AGCAACATTTCAAA
3675545 AGCAACATTTCAAA
1 AGCAACATTTCAAA
3675559 AGCAAC
1 AGCAAC
3675565 CAATAGCAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.53, C:0.21, G:0.09, T:0.18
Consensus pattern (14 bp):
AGCAACATTTCAAA
Found at i:3675856 original size:21 final size:21
Alignment explanation
Indices: 3675788--3675858 Score: 79
Period size: 21 Copynumber: 3.4 Consensus size: 21
3675778 TTTTGCTCTG
* *
3675788 CTCTGCTTCTCTTGCTGCAGC
1 CTCTGCTTCCCTCGCTGCAGC
* *
3675809 CTCCGCTTCCCTCGCTGCAGT
1 CTCTGCTTCCCTCGCTGCAGC
* * *
3675830 CGCTGCTTCCCTCGCTTCCGC
1 CTCTGCTTCCCTCGCTGCAGC
3675851 CTCTGCTT
1 CTCTGCTT
3675859 TAAGTTGTAG
Statistics
Matches: 40, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.03, C:0.45, G:0.18, T:0.34
Consensus pattern (21 bp):
CTCTGCTTCCCTCGCTGCAGC
Found at i:3681356 original size:11 final size:9
Alignment explanation
Indices: 3681308--3681395 Score: 64
Period size: 9 Copynumber: 9.9 Consensus size: 9
3681298 AATTGCAATG
3681308 GTAAGTTAT
1 GTAAGTTAT
3681317 GTAAGTTAT
1 GTAAGTTAT
3681326 GTAAGTTAAAT
1 GTAAGTT--AT
3681337 GT-A-TTAT
1 GTAAGTTAT
3681344 GTAAGTTAAAT
1 GTAAGTT--AT
3681355 GTAAG-T-T
1 GTAAGTTAT
3681362 GTAAGTTAT
1 GTAAGTTAT
*
3681371 -TATGTATTAT
1 GTAAG--TTAT
3681381 GTAAG-T-T
1 GTAAGTTAT
3681388 GTAAGTTA
1 GTAAGTTA
3681396 AATGTATTGT
Statistics
Matches: 64, Mismatches: 2, Indels: 26
0.70 0.02 0.28
Matches are distributed among these distances:
7 16 0.25
8 7 0.11
9 21 0.33
10 6 0.09
11 14 0.22
ACGTcount: A:0.35, C:0.00, G:0.20, T:0.44
Consensus pattern (9 bp):
GTAAGTTAT
Found at i:3681387 original size:26 final size:26
Alignment explanation
Indices: 3681353--3681656 Score: 398
Period size: 26 Copynumber: 12.1 Consensus size: 26
3681343 TGTAAGTTAA
3681353 ATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
*
3681379 ATGTAAGTTGTAAGTTA-AATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
* *
3681404 GTGTAAGTTGTAAGTTA-AATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
* *
3681429 GTGTAAGTTGCAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
* *
3681455 GTGTAAGTTGCAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
3681481 ATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
* *
3681507 GTGTAAGTTGTAAGTTA-AATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
* *
3681532 ATGTCA---GTCA---A--ATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
3681550 ATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
3681576 ATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
*
3681602 ATGTAAGTAATGTAAGTTA-AATGTATT
1 ATGTAAGT--TGTAAGTTATTATGTATT
3681629 ATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
3681655 AT
1 AT
3681657 TTAATAAAAT
Statistics
Matches: 251, Mismatches: 15, Indels: 24
0.87 0.05 0.08
Matches are distributed among these distances:
18 12 0.05
19 1 0.00
21 3 0.01
22 3 0.01
24 1 0.00
25 67 0.27
26 140 0.56
27 15 0.06
28 9 0.04
ACGTcount: A:0.32, C:0.01, G:0.20, T:0.46
Consensus pattern (26 bp):
ATGTAAGTTGTAAGTTATTATGTATT
Found at i:3681488 original size:19 final size:19
Alignment explanation
Indices: 3681489--3681609 Score: 58
Period size: 18 Copynumber: 6.4 Consensus size: 19
3681479 TTATGTAAGT
*
3681489 TGTAAGTTATTATGTATTG
1 TGTAAGTTATTATGTATTA
3681508 TGTAAGTTGTAAGTTAAATGTATTA
1 TGTAAG-T-T-A-TT--ATGTATTA
* * *
3681533 TGTCAGTCA-AATGTATTA
1 TGTAAGTTATTATGTATTA
* *
3681551 TGTAAGTT-GTAAG--TTA
1 TGTAAGTTATTATGTATTA
* *
3681567 T-TATG-TATTATGTAAGT-
1 TGTAAGTTATTATGT-ATTA
3681584 TGTAAGTTATTATGTATTA
1 TGTAAGTTATTATGTATTA
3681603 TGTAAGT
1 TGTAAGT
3681610 AATGTAAGTT
Statistics
Matches: 74, Mismatches: 14, Indels: 28
0.64 0.12 0.24
Matches are distributed among these distances:
14 1 0.01
15 6 0.08
16 4 0.05
17 1 0.01
18 22 0.30
19 21 0.28
20 1 0.01
21 1 0.01
22 2 0.03
23 2 0.03
24 1 0.01
25 12 0.16
ACGTcount: A:0.31, C:0.02, G:0.20, T:0.47
Consensus pattern (19 bp):
TGTAAGTTATTATGTATTA
Found at i:3681555 original size:121 final size:121
Alignment explanation
Indices: 3681353--3681656 Score: 430
Period size: 121 Copynumber: 2.4 Consensus size: 121
3681343 TGTAAGTTAA
3681353 ATGTAAGTTGTAAGTTATTATGTATTATGTAAGTTGTAAGTTAAATGTATTGTGTAAGTTGTAAG
1 ATGTAAGTTGTAAGTTATTATGTATTATGTAAGTTGTAAGTTAAATGTA---T-T-A--TGTAAG
* * *
3681418 TTAAATGTATTGTGTAAGTTGCAAGTTATTATGTATTGTGTAAGTTGCAAGTTATTATGTATT
59 TCAAATGTATTATGTAAGTTGCAAGTTATTATGTATTATGTAAGTTGCAAGTTATTATGTATT
* *
3681481 ATGTAAGTTGTAAGTTATTATGTATTGTGTAAGTTGTAAGTTAAATGTATTATGTCAGTCAAATG
1 ATGTAAGTTGTAAGTTATTATGTATTATGTAAGTTGTAAGTTAAATGTATTATGTAAGTCAAATG
* *
3681546 TATTATGTAAGTTGTAAGTTATTATGTATTATGTAAGTTGTAAGTTATTATGTATT
66 TATTATGTAAGTTGCAAGTTATTATGTATTATGTAAGTTGCAAGTTATTATGTATT
* *
3681602 ATGTAAGTAATGTAAGTTA-AATGTATTATGTAAGTTGTAAGTTATTATGTATTAT
1 ATGTAAGT--TGTAAGTTATTATGTATTATGTAAGTTGTAAGTTA-AATGTATTAT
3681657 TTAATAAAAT
Statistics
Matches: 163, Mismatches: 10, Indels: 11
0.89 0.05 0.06
Matches are distributed among these distances:
121 71 0.44
122 23 0.14
123 19 0.12
124 1 0.01
125 1 0.01
128 48 0.29
ACGTcount: A:0.32, C:0.01, G:0.20, T:0.46
Consensus pattern (121 bp):
ATGTAAGTTGTAAGTTATTATGTATTATGTAAGTTGTAAGTTAAATGTATTATGTAAGTCAAATG
TATTATGTAAGTTGCAAGTTATTATGTATTATGTAAGTTGCAAGTTATTATGTATT
Found at i:3681637 original size:18 final size:18
Alignment explanation
Indices: 3681515--3681558 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
3681505 TTGTGTAAGT
3681515 TGTAAGTTAAATGTATTA
1 TGTAAGTTAAATGTATTA
* *
3681533 TGTCAGTCAAATGTATTA
1 TGTAAGTTAAATGTATTA
3681551 TGTAAGTT
1 TGTAAGTT
3681559 GTAAGTTATT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.34, C:0.05, G:0.18, T:0.43
Consensus pattern (18 bp):
TGTAAGTTAAATGTATTA
Found at i:3681649 original size:19 final size:19
Alignment explanation
Indices: 3681572--3681652 Score: 84
Period size: 19 Copynumber: 4.5 Consensus size: 19
3681562 AGTTATTATG
3681572 TATTATGTAAGTTGTAAGT
1 TATTATGTAAGTTGTAAGT
*
3681591 TATTATGT-ATTATGTAAG-
1 TATTATGTAAGT-TGTAAGT
*
3681609 TA--ATGTAAG-T-TAAAT
1 TATTATGTAAGTTGTAAGT
3681624 GTATTATGTAAGTTGTAAGT
1 -TATTATGTAAGTTGTAAGT
3681644 TATTATGTA
1 TATTATGTA
3681653 TTATTTAATA
Statistics
Matches: 50, Mismatches: 4, Indels: 16
0.71 0.06 0.23
Matches are distributed among these distances:
14 3 0.06
15 1 0.02
16 6 0.12
17 1 0.02
18 11 0.22
19 24 0.48
20 4 0.08
ACGTcount: A:0.35, C:0.00, G:0.19, T:0.47
Consensus pattern (19 bp):
TATTATGTAAGTTGTAAGT
Found at i:3681934 original size:13 final size:13
Alignment explanation
Indices: 3681916--3681986 Score: 106
Period size: 13 Copynumber: 5.5 Consensus size: 13
3681906 ATTTATAATT
3681916 ATTTAAGTAATAA
1 ATTTAAGTAATAA
* *
3681929 ATTTAAGTAACAT
1 ATTTAAGTAATAA
3681942 ATTTAAGTAATAA
1 ATTTAAGTAATAA
* *
3681955 ATTTAAGTAACAT
1 ATTTAAGTAATAA
3681968 ATTTAAGTAATAA
1 ATTTAAGTAATAA
3681981 ATTTAA
1 ATTTAA
3681987 ACAAATTTTA
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 50 1.00
ACGTcount: A:0.51, C:0.03, G:0.07, T:0.39
Consensus pattern (13 bp):
ATTTAAGTAATAA
Found at i:3681945 original size:26 final size:26
Alignment explanation
Indices: 3681915--3681986 Score: 144
Period size: 26 Copynumber: 2.8 Consensus size: 26
3681905 TATTTATAAT
3681915 TATTTAAGTAATAAATTTAAGTAACA
1 TATTTAAGTAATAAATTTAAGTAACA
3681941 TATTTAAGTAATAAATTTAAGTAACA
1 TATTTAAGTAATAAATTTAAGTAACA
3681967 TATTTAAGTAATAAATTTAA
1 TATTTAAGTAATAAATTTAA
3681987 ACAAATTTTA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 46 1.00
ACGTcount: A:0.50, C:0.03, G:0.07, T:0.40
Consensus pattern (26 bp):
TATTTAAGTAATAAATTTAAGTAACA
Found at i:3682013 original size:17 final size:17
Alignment explanation
Indices: 3681991--3682289 Score: 161
Period size: 17 Copynumber: 16.6 Consensus size: 17
3681981 ATTTAAACAA
3681991 ATTTTAGTAAGTAATGT
1 ATTTTAGTAAGTAATGT
3682008 ATTTTAGTAAGTAATGT
1 ATTTTAGTAAGTAATGT
*
3682025 ATTTTAGTAA-TAAATTT
1 ATTTTAGTAAGT-AATGT
3682042 AAACAAATTTTAGTAAGTAATGT
1 ------ATTTTAGTAAGTAATGT
* * *
3682065 ATTTAAGTAATTAAT-A
1 ATTTTAGTAAGTAATGT
* *
3682081 AATTTA--AA-CAA---
1 ATTTTAGTAAGTAATGT
3682092 ATTTTAGTAAGTAATGT
1 ATTTTAGTAAGTAATGT
3682109 ATTTTAGTAAGTAATGT
1 ATTTTAGTAAGTAATGT
*
3682126 ATTTTAGTAA-TAAATTT
1 ATTTTAGTAAGT-AATGT
3682143 AAACAAATTTTAGTAAGTAATGT
1 ------ATTTTAGTAAGTAATGT
* *
3682166 ATTTTAG-AAATAAATTT
1 ATTTTAGTAAGT-AATGT
*
3682183 AAACAAATTTATGTAAGTAATGT
1 -----ATTTTA-GTAAGTAATGT
3682206 ATTTTAGTAAGTAATGT
1 ATTTTAGTAAGTAATGT
*
3682223 ATTTTAGTAA-TAAATTT
1 ATTTTAGTAAGT-AATGT
*
3682240 AAACAAATTTTAGTAAGTAATTT
1 ------ATTTTAGTAAGTAATGT
3682263 ATTTTAGTAAGTAATGT
1 ATTTTAGTAAGTAATGT
3682280 ATTTTAGTAA
1 ATTTTAGTAA
3682290 TAAATTTAAC
Statistics
Matches: 224, Mismatches: 20, Indels: 76
0.70 0.06 0.24
Matches are distributed among these distances:
11 5 0.02
13 4 0.02
14 4 0.02
16 10 0.04
17 137 0.61
18 5 0.02
22 5 0.02
23 48 0.21
24 6 0.03
ACGTcount: A:0.43, C:0.02, G:0.12, T:0.44
Consensus pattern (17 bp):
ATTTTAGTAAGTAATGT
Found at i:3682037 original size:57 final size:57
Alignment explanation
Indices: 3681958--3682298 Score: 375
Period size: 57 Copynumber: 6.5 Consensus size: 57
3681948 GTAATAAATT
** *
3681958 TAAGTAACATATTTAAGTAATAAATTTAAACAAATTTTAGTAAGTAATGTATTTTAG
1 TAAGTAATGTATTTTAGTAATAAATTTAAACAAATTTTAGTAAGTAATGTATTTTAG
3682015 TAAGTAATGTATTTTAGTAATAAATTTAAACAAATTTTAGTAAGTAATGTA--TT--
1 TAAGTAATGTATTTTAGTAATAAATTTAAACAAATTTTAGTAAGTAATGTATTTTAG
* * *
3682068 TAAGTAAT-TA----A-T-A-AATTTAAACA-AATTTT-AGTAAGTAATGTATTTTAG
1 TAAGTAATGTATTTTAGTAATAAATTTAA-ACAAATTTTAGTAAGTAATGTATTTTAG
3682116 TAAGTAATGTATTTTAGTAATAAATTTAAACAAATTTTAGTAAGTAATGTATTTTAG
1 TAAGTAATGTATTTTAGTAATAAATTTAAACAAATTTTAGTAAGTAATGTATTTTAG
* *
3682173 -AAATAA---A-TTTA--AACAAATTT-----A----T-GTAAGTAATGTATTTTAG
1 TAAGTAATGTATTTTAGTAATAAATTTAAACAAATTTTAGTAAGTAATGTATTTTAG
*
3682213 TAAGTAATGTATTTTAGTAATAAATTTAAACAAATTTTAGTAAGTAATTTATTTTAG
1 TAAGTAATGTATTTTAGTAATAAATTTAAACAAATTTTAGTAAGTAATGTATTTTAG
3682270 TAAGTAATGTATTTTAGTAATAAATTTAA
1 TAAGTAATGTATTTTAGTAATAAATTTAA
3682299 CATTCAATCG
Statistics
Matches: 238, Mismatches: 14, Indels: 64
0.75 0.04 0.20
Matches are distributed among these distances:
40 18 0.08
41 6 0.03
44 14 0.06
45 16 0.07
46 4 0.02
47 9 0.04
48 9 0.04
49 2 0.01
50 8 0.03
52 7 0.03
53 10 0.04
54 1 0.00
55 4 0.02
56 17 0.07
57 113 0.47
ACGTcount: A:0.44, C:0.02, G:0.11, T:0.43
Consensus pattern (57 bp):
TAAGTAATGTATTTTAGTAATAAATTTAAACAAATTTTAGTAAGTAATGTATTTTAG
Found at i:3682052 original size:40 final size:40
Alignment explanation
Indices: 3682008--3682118 Score: 177
Period size: 44 Copynumber: 2.7 Consensus size: 40
3681998 TAAGTAATGT
3682008 ATTTTAGTAAGTAATGTATTTTAGTAATAAATTTAAACAA
1 ATTTTAGTAAGTAATGTATTTTAGTAATAAATTTAAACAA
*
3682048 ATTTTAGTAAGTAATGTATTTAAGTAATTAATAAATTTAAACAA
1 ATTTTAGTAAGTAATGTATTT---T-AGTAATAAATTTAAACAA
3682092 ATTTTAGTAAGTAATGTATTTTAGTAA
1 ATTTTAGTAAGTAATGTATTTTAGTAA
3682119 GTAATGTATT
Statistics
Matches: 65, Mismatches: 2, Indels: 8
0.87 0.03 0.11
Matches are distributed among these distances:
40 25 0.38
41 1 0.02
43 1 0.02
44 38 0.58
ACGTcount: A:0.44, C:0.02, G:0.11, T:0.43
Consensus pattern (40 bp):
ATTTTAGTAAGTAATGTATTTTAGTAATAAATTTAAACAA
Found at i:3682094 original size:101 final size:100
Alignment explanation
Indices: 3681975--3682277 Score: 533
Period size: 101 Copynumber: 3.0 Consensus size: 100
3681965 CATATTTAAG
3681975 TAATAAATTTAAACAAATTTTAGTAAGTAATGTATTTTAGTAAGTAATGTATTTTAGTAATAAAT
1 TAATAAATTTAAACAAATTTTAGTAAGTAATGTATTTTAGTAAGTAATGTATTTTAGTAATAAAT
*
3682040 TTAAACAAATTTTAGTAAGTAATGTATTTAAGTAA
66 TTAAACAAATTTTAGTAAGTAATGTATTTTAGTAA
3682075 TTAATAAATTTAAACAAATTTTAGTAAGTAATGTATTTTAGTAAGTAATGTATTTTAGTAATAAA
1 -TAATAAATTTAAACAAATTTTAGTAAGTAATGTATTTTAGTAAGTAATGTATTTTAGTAATAAA
3682140 TTTAAACAAATTTTAGTAAGTAATGTATTTTAG--A
65 TTTAAACAAATTTTAGTAAGTAATGTATTTTAGTAA
3682174 -AATAAATTTAAACAAA-TTTATGTAAGTAATGTATTTTAGTAAGTAATGTATTTTAGTAATAAA
1 TAATAAATTTAAACAAATTTTA-GTAAGTAATGTATTTTAGTAAGTAATGTATTTTAGTAATAAA
*
3682237 TTTAAACAAATTTTAGTAAGTAATTTATTTTAGTAA
65 TTTAAACAAATTTTAGTAAGTAATGTATTTTAGTAA
3682273 GTAAT
1 -TAAT
3682278 GTATTTTAGT
Statistics
Matches: 195, Mismatches: 2, Indels: 10
0.94 0.01 0.05
Matches are distributed among these distances:
96 4 0.02
97 90 0.46
99 2 0.01
101 99 0.51
ACGTcount: A:0.44, C:0.02, G:0.11, T:0.43
Consensus pattern (100 bp):
TAATAAATTTAAACAAATTTTAGTAAGTAATGTATTTTAGTAAGTAATGTATTTTAGTAATAAAT
TTAAACAAATTTTAGTAAGTAATGTATTTTAGTAA
Found at i:3682156 original size:40 final size:40
Alignment explanation
Indices: 3682109--3682215 Score: 189
Period size: 40 Copynumber: 2.7 Consensus size: 40
3682099 TAAGTAATGT
3682109 ATTTTAGTAAGTAATGTATTTTAGTAATAAATTTAAACAA
1 ATTTTAGTAAGTAATGTATTTTAGTAATAAATTTAAACAA
*
3682149 ATTTTAGTAAGTAATGTATTTTAGAAATAAATTTAAACAA
1 ATTTTAGTAAGTAATGTATTTTAGTAATAAATTTAAACAA
3682189 A-TTTATGTAAGTAATGTATTTTAGTAA
1 ATTTTA-GTAAGTAATGTATTTTAGTAA
3682216 GTAATGTATT
Statistics
Matches: 64, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
39 4 0.06
40 60 0.94
ACGTcount: A:0.44, C:0.02, G:0.11, T:0.43
Consensus pattern (40 bp):
ATTTTAGTAAGTAATGTATTTTAGTAATAAATTTAAACAA
Found at i:3682269 original size:97 final size:97
Alignment explanation
Indices: 3681958--3682266 Score: 521
Period size: 97 Copynumber: 3.1 Consensus size: 97
3681948 GTAATAAATT
** *
3681958 TAAGTAACATATTTAAGTAATAAATTTAAACAAATTTTAGTAAGTAATGTATTTTAGTAAGTAAT
1 TAAGTAATGTATTTAAGAAATAAATTTAAACAAATTTTAGTAAGTAATGTATTTTAGTAAGTAAT
3682023 GTATTTTAGTAATAAATTTAAACAAATTTTAG
66 GTATTTTAGTAATAAATTTAAACAAATTTTAG
3682055 TAAGTAATGTATTTAAGTAATTAATAAATTTAAACAAATTTTAGTAAGTAATGTATTTTAGTAAG
1 TAAGTAATGTATTTAAG--A--AATAAATTTAAACAAATTTTAGTAAGTAATGTATTTTAGTAAG
3682120 TAATGTATTTTAGTAATAAATTTAAACAAATTTTAG
62 TAATGTATTTTAGTAATAAATTTAAACAAATTTTAG
*
3682156 TAAGTAATGTATTTTAGAAATAAATTTAAACAAA-TTTATGTAAGTAATGTATTTTAGTAAGTAA
1 TAAGTAATGTATTTAAGAAATAAATTTAAACAAATTTTA-GTAAGTAATGTATTTTAGTAAGTAA
3682220 TGTATTTTAGTAATAAATTTAAACAAATTTTAG
65 TGTATTTTAGTAATAAATTTAAACAAATTTTAG
*
3682253 TAAGTAATTTATTT
1 TAAGTAATGTATTT
3682267 TAGTAAGTAA
Statistics
Matches: 202, Mismatches: 5, Indels: 10
0.93 0.02 0.05
Matches are distributed among these distances:
96 4 0.02
97 102 0.50
99 1 0.00
101 95 0.47
ACGTcount: A:0.44, C:0.02, G:0.11, T:0.43
Consensus pattern (97 bp):
TAAGTAATGTATTTAAGAAATAAATTTAAACAAATTTTAGTAAGTAATGTATTTTAGTAAGTAAT
GTATTTTAGTAATAAATTTAAACAAATTTTAG
Found at i:3683268 original size:380 final size:380
Alignment explanation
Indices: 3682567--3683329 Score: 1467
Period size: 380 Copynumber: 2.0 Consensus size: 380
3682557 AGCCAGCAAC
3682567 ATATAAATAAAAAATGATAAATAAACCAATACCCACAGCGTAAAAAAATTTTTTTTAATTAAAAC
1 ATATAAATAAAAAATGATAAATAAACCAATACCCACAGCGTAAAAAAATTTTTTTTAATTAAAAC
3682632 TCCCTTTTAAAACTCAAAAATAATAATTAAAGTAACAAAATCCAAAATTTAAACATTTGGAGGTG
66 TCCCTTTTAAAACTCAAAAATAATAATTAAAGTAACAAAATCCAAAATTTAAACATTTGGAGGTG
3682697 TTTTTTTAAGAAAACCGAGGTGGGAAACATAGGAATAAATACCTCAATTTCCTGGACTTCGAAGC
131 TTTTTTTAAGAAAACCGAGGTGGGAAACATAGGAATAAATACCTCAATTTCCTGGACTTCGAAGC
3682762 AAACTACTGCAAAAAATAAAAATAAAAAGGAAAACATAAGTAAGTTAGTTCCAAATAAACAGGAA
196 AAACTACTGCAAAAAATAAAAATAAAAAGGAAAACATAAGTAAGTTAGTTCCAAATAAACAGGAA
3682827 AGAATTAGTATAAAACTTAAATATAACAAAATCCAAAATCCATCATGTACAACGCTATTAAACTT
261 AGAATTAGTATAAAACTTAAATATAACAAAATCCAAAATCCATCATGTACAACGCTATTAAACTT
3682892 TAAGTTATTTTATGAGTTTTCTTCCAAAAAAAAATCTAAACAAAATAATCACAAT
326 TAAGTTATTTTATGAGTTTTCTTCCAAAAAAAAATCTAAACAAAATAATCACAAT
3682947 ATATAAATAAAAAATGATAAATAAACCAATACCCACAGCGT-AAAAAATTTTTTTTAATTAAAAC
1 ATATAAATAAAAAATGATAAATAAACCAATACCCACAGCGTAAAAAAATTTTTTTTAATTAAAAC
***
3683011 TCCCTTTTAAAACTCAAAAATAATAATTAAAGTAACATAAGA-CTTTAATTTAAACATTTGGAGG
66 TCCCTTTTAAAACTCAAAAATAATAATTAAAGTAACA-AA-ATCCAAAATTTAAACATTTGGAGG
3683075 TGTTTTTTTAAGAAAACCGAGGTGGGAAACATAGGAATAAATACCTCAATTTCCTGGACTTCGAA
129 TGTTTTTTTAAGAAAACCGAGGTGGGAAACATAGGAATAAATACCTCAATTTCCTGGACTTCGAA
3683140 GCAAACTACTGCAAAAAATAAAAATAAAAAGGAAAACATAAGTAAGTTAGTTCCAAATAAACAGG
194 GCAAACTACTGCAAAAAATAAAAATAAAAAGGAAAACATAAGTAAGTTAGTTCCAAATAAACAGG
3683205 AAAGAATTAGTATAAAACTTAAATATAACAAAATCCAAAATCCATCATGTACAACGCTATTAAAC
259 AAAGAATTAGTATAAAACTTAAATATAACAAAATCCAAAATCCATCATGTACAACGCTATTAAAC
3683270 TTTAAGTTATTTTATGAGTTTTCTTCCAAAAAAAAATCTAAACAAAATAATCACAAT
324 TTTAAGTTATTTTATGAGTTTTCTTCCAAAAAAAAATCTAAACAAAATAATCACAAT
3683327 ATA
1 ATA
3683330 ATCCAAAATA
Statistics
Matches: 378, Mismatches: 3, Indels: 4
0.98 0.01 0.01
Matches are distributed among these distances:
379 60 0.16
380 317 0.84
381 1 0.00
ACGTcount: A:0.49, C:0.14, G:0.10, T:0.28
Consensus pattern (380 bp):
ATATAAATAAAAAATGATAAATAAACCAATACCCACAGCGTAAAAAAATTTTTTTTAATTAAAAC
TCCCTTTTAAAACTCAAAAATAATAATTAAAGTAACAAAATCCAAAATTTAAACATTTGGAGGTG
TTTTTTTAAGAAAACCGAGGTGGGAAACATAGGAATAAATACCTCAATTTCCTGGACTTCGAAGC
AAACTACTGCAAAAAATAAAAATAAAAAGGAAAACATAAGTAAGTTAGTTCCAAATAAACAGGAA
AGAATTAGTATAAAACTTAAATATAACAAAATCCAAAATCCATCATGTACAACGCTATTAAACTT
TAAGTTATTTTATGAGTTTTCTTCCAAAAAAAAATCTAAACAAAATAATCACAAT
Found at i:3683342 original size:10 final size:11
Alignment explanation
Indices: 3683311--3683343 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
3683301 AAAAATCTAA
3683311 ACAAAATAATC
1 ACAAAATAATC
*
3683322 ACAATATAATC
1 ACAAAATAATC
3683333 -CAAAATAATC
1 ACAAAATAATC
3683343 A
1 A
3683344 GGTTGTTTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
10 9 0.47
11 10 0.53
ACGTcount: A:0.61, C:0.18, G:0.00, T:0.21
Consensus pattern (11 bp):
ACAAAATAATC
Found at i:3683553 original size:11 final size:11
Alignment explanation
Indices: 3683537--3683576 Score: 64
Period size: 11 Copynumber: 3.7 Consensus size: 11
3683527 GATGATAATA
3683537 CATTAGTTACC
1 CATTAGTTACC
3683548 CATTAGTTACC
1 CATTAGTTACC
*
3683559 CACTAGTTACC
1 CATTAGTTACC
3683570 CA-TAGTT
1 CATTAGTT
3683577 TGAGATATTC
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
10 5 0.18
11 23 0.82
ACGTcount: A:0.28, C:0.28, G:0.10, T:0.35
Consensus pattern (11 bp):
CATTAGTTACC
Found at i:3684122 original size:14 final size:14
Alignment explanation
Indices: 3684103--3684132 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
3684093 CACGAACAGC
3684103 AAGATGATTAACTA
1 AAGATGATTAACTA
3684117 AAGATGATTAACTA
1 AAGATGATTAACTA
3684131 AA
1 AA
3684133 AACCTTTTAT
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:0.53, C:0.07, G:0.13, T:0.27
Consensus pattern (14 bp):
AAGATGATTAACTA
Found at i:3685477 original size:27 final size:27
Alignment explanation
Indices: 3685445--3685496 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
3685435 TCTTACTTTT
* *
3685445 AAATAATTAATTACCAATTTATTTAAC
1 AAATAAATAATTACCAACTTATTTAAC
*
3685472 AAATAAATAATTACTAACTTATTTA
1 AAATAAATAATTACCAACTTATTTA
3685497 TTTGTTTATT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.50, C:0.10, G:0.00, T:0.40
Consensus pattern (27 bp):
AAATAAATAATTACCAACTTATTTAAC
Found at i:3685587 original size:8 final size:10
Alignment explanation
Indices: 3685564--3685600 Score: 65
Period size: 10 Copynumber: 3.7 Consensus size: 10
3685554 TAATAACTAT
3685564 ATATATATCC
1 ATATATATCC
*
3685574 ATATATATTC
1 ATATATATCC
3685584 ATATATATCC
1 ATATATATCC
3685594 ATATATA
1 ATATATA
3685601 AGTAAAAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
10 25 1.00
ACGTcount: A:0.43, C:0.14, G:0.00, T:0.43
Consensus pattern (10 bp):
ATATATATCC
Found at i:3686619 original size:82 final size:82
Alignment explanation
Indices: 3686500--3686676 Score: 327
Period size: 82 Copynumber: 2.2 Consensus size: 82
3686490 GCTACCGGAA
*
3686500 AAAACGCCACTAACTTTTCAATTACAGAAAGAAACGGTGACGTTTTCACAAAATTGTAGACATAT
1 AAAACGCCACTAAATTTTCAATTACAGAAAGAAACGGTGACGTTTTCACAAAATTGTAGACATAT
*
3686565 TTGCGGCGTTTTACCTT
66 TTACGGCGTTTTACCTT
3686582 AAAACGCCACTAAATTTTCAATTACAGAAAGAAACGGTGACGTTTTCACAAAATTGTAGACATAT
1 AAAACGCCACTAAATTTTCAATTACAGAAAGAAACGGTGACGTTTTCACAAAATTGTAGACATAT
*
3686647 TTACGGCGTTTTCCCTT
66 TTACGGCGTTTTACCTT
3686664 AAAACGCCACTAA
1 AAAACGCCACTAA
3686677 TAGAGTACAC
Statistics
Matches: 92, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
82 92 1.00
ACGTcount: A:0.36, C:0.20, G:0.15, T:0.29
Consensus pattern (82 bp):
AAAACGCCACTAAATTTTCAATTACAGAAAGAAACGGTGACGTTTTCACAAAATTGTAGACATAT
TTACGGCGTTTTACCTT
Found at i:3686901 original size:41 final size:41
Alignment explanation
Indices: 3686816--3687009 Score: 205
Period size: 41 Copynumber: 4.7 Consensus size: 41
3686806 AACACGAACT
* * * * *
3686816 TTAGCGGCGCTTAG-CAAAAAATGCCGCTAAAGA-ACAGAGAA
1 TTAGCGGCGCTCAGAC-AAAAACGCCACTAATGATAC-GAGCA
* *
3686857 TTAGTGGCGCTCAGATAAAAACGCCACTAATGATACGAGCA
1 TTAGCGGCGCTCAGACAAAAACGCCACTAATGATACGAGCA
* * * *
3686898 TTAGCGGCGCTTAGACAAAAACGCCGCTAAAGA-ACAGAGAA
1 TTAGCGGCGCTCAGACAAAAACGCCACTAATGATAC-GAGCA
* *
3686939 TTAGTGGCGCTCAGATAAAAACGCCACTAATGATACGAGCA
1 TTAGCGGCGCTCAGACAAAAACGCCACTAATGATACGAGCA
* *
3686980 TTAGCGGCGCTTAGACAAAAACGCCGCTAA
1 TTAGCGGCGCTCAGACAAAAACGCCACTAA
3687010 AGGTTTAAAA
Statistics
Matches: 126, Mismatches: 23, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
40 2 0.02
41 120 0.95
42 4 0.03
ACGTcount: A:0.38, C:0.22, G:0.23, T:0.16
Consensus pattern (41 bp):
TTAGCGGCGCTCAGACAAAAACGCCACTAATGATACGAGCA
Found at i:3686953 original size:82 final size:82
Alignment explanation
Indices: 3686816--3687011 Score: 367
Period size: 82 Copynumber: 2.4 Consensus size: 82
3686806 AACACGAACT
*
3686816 TTAGCGGCGCTTAG-CAAAAAATGCCGCTAAAGAACAGAGAATTAGTGGCGCTCAGATAAAAACG
1 TTAGCGGCGCTTAGAC-AAAAACGCCGCTAAAGAACAGAGAATTAGTGGCGCTCAGATAAAAACG
3686880 CCACTAATGATACGAGCA
65 CCACTAATGATACGAGCA
3686898 TTAGCGGCGCTTAGACAAAAACGCCGCTAAAGAACAGAGAATTAGTGGCGCTCAGATAAAAACGC
1 TTAGCGGCGCTTAGACAAAAACGCCGCTAAAGAACAGAGAATTAGTGGCGCTCAGATAAAAACGC
3686963 CACTAATGATACGAGCA
66 CACTAATGATACGAGCA
3686980 TTAGCGGCGCTTAGACAAAAACGCCGCTAAAG
1 TTAGCGGCGCTTAGACAAAAACGCCGCTAAAG
3687012 GTTTAAAAAA
Statistics
Matches: 112, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
82 111 0.99
83 1 0.01
ACGTcount: A:0.38, C:0.22, G:0.23, T:0.16
Consensus pattern (82 bp):
TTAGCGGCGCTTAGACAAAAACGCCGCTAAAGAACAGAGAATTAGTGGCGCTCAGATAAAAACGC
CACTAATGATACGAGCA
Found at i:3688698 original size:28 final size:27
Alignment explanation
Indices: 3688619--3688700 Score: 83
Period size: 29 Copynumber: 2.9 Consensus size: 27
3688609 AATATGATTT
* * *
3688619 TATTAATTCATATTTTTAATGGCATTAAA
1 TATTAATTTATAATTTTAA--GAATTAAA
* *
3688648 TATTATTTTTTAATTTTAGAGAATTAATA
1 TATTAATTTATAATTTTA-AGAATTAA-A
3688677 TATTAATTTATAATTTTAAGAATT
1 TATTAATTTATAATTTTAAGAATT
3688701 GAAAAGTGGT
Statistics
Matches: 44, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
28 12 0.27
29 31 0.70
30 1 0.02
ACGTcount: A:0.39, C:0.02, G:0.06, T:0.52
Consensus pattern (27 bp):
TATTAATTTATAATTTTAAGAATTAAA
Found at i:3688951 original size:44 final size:43
Alignment explanation
Indices: 3688884--3689155 Score: 271
Period size: 43 Copynumber: 6.3 Consensus size: 43
3688874 GTTTTTACCG
* *
3688884 ACAAACGCCTCTAAAGACTAGGACCTTTAGCGGCGCTTTCCCC
1 ACAAACGCCGCTAAAGACCAGGACCTTTAGCGGCGCTTTCCCC
* *
3688927 ACAAATGCTGCTAAAAGACCAGGACCTTTAGCGGCGCTTTCCCC
1 ACAAACGCCGCT-AAAGACCAGGACCTTTAGCGGCGCTTTCCCC
*
3688971 ACAAACACCGCTAAAGACCAGGACCTTTAGCGGCGC-TTCCCC
1 ACAAACGCCGCTAAAGACCAGGACCTTTAGCGGCGCTTTCCCC
* * * * ***
3689013 ACACACGCCACTATAGACCAAGACCTTTAGCGGCGCTTTTGTC
1 ACAAACGCCGCTAAAGACCAGGACCTTTAGCGGCGCTTTCCCC
* * ** ***
3689056 ACAAACGCCACTATAGACCACAACCTTTAGCGGCGCTTTTGTC
1 ACAAACGCCGCTAAAGACCAGGACCTTTAGCGGCGCTTTCCCC
* * * * * * *
3689099 ACAAATGTCGCTATAGAGCA-AACCTTTAGCGACGCTTCTCGCC
1 ACAAACGCCGCTAAAGACCAGGACCTTTAGCGGCGCTT-TCCCC
3689142 A-AAACGCCGCTAAA
1 ACAAACGCCGCTAAA
3689156 AACATATCAT
Statistics
Matches: 198, Mismatches: 28, Indels: 7
0.85 0.12 0.03
Matches are distributed among these distances:
42 63 0.32
43 96 0.48
44 39 0.20
ACGTcount: A:0.28, C:0.33, G:0.18, T:0.20
Consensus pattern (43 bp):
ACAAACGCCGCTAAAGACCAGGACCTTTAGCGGCGCTTTCCCC
Found at i:3689074 original size:85 final size:86
Alignment explanation
Indices: 3688884--3689093 Score: 260
Period size: 85 Copynumber: 2.4 Consensus size: 86
3688874 GTTTTTACCG
* * * ** *
3688884 ACAAACGCCTCTAAAGACTAGGACCTTTAGCGGCGCTTTCCCCACAAATGCTGCTAAAAGACCAG
1 ACAAACGCCACTAAAGACCAGGACCTTTAGCGGCGC-TTCCCCACAAACGCCACTAAAAGACCAA
3688949 GACCTTTAGCGGCGCTTTCCCC
65 GACCTTTAGCGGCGCTTTCCCC
* * * *
3688971 ACAAACACCGCTAAAGACCAGGACCTTTAGCGGCGCTTCCCCACACACGCCACT-ATAGACCAAG
1 ACAAACGCCACTAAAGACCAGGACCTTTAGCGGCGCTTCCCCACAAACGCCACTAAAAGACCAAG
***
3689035 ACCTTTAGCGGCGCTTTTGTC
66 ACCTTTAGCGGCGCTTTCCCC
* **
3689056 ACAAACGCCACTATAGACCACAACCTTTAGCGGCGCTT
1 ACAAACGCCACTAAAGACCAGGACCTTTAGCGGCGCTT
3689094 TTGTCACAAA
Statistics
Matches: 106, Mismatches: 17, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
85 59 0.56
86 14 0.13
87 33 0.31
ACGTcount: A:0.28, C:0.34, G:0.19, T:0.20
Consensus pattern (86 bp):
ACAAACGCCACTAAAGACCAGGACCTTTAGCGGCGCTTCCCCACAAACGCCACTAAAAGACCAAG
ACCTTTAGCGGCGCTTTCCCC
Found at i:3689124 original size:85 final size:84
Alignment explanation
Indices: 3688906--3689135 Score: 237
Period size: 85 Copynumber: 2.7 Consensus size: 84
3688896 AAAGACTAGG
* *
3688906 ACCTTTAGCGGCGCTTTCCCCACAAATGCTGCTAAAAGACCAGGACCTTTAGCGGCGCTTTCCCC
1 ACCTTTAGCGGCGCTTTCCCCACAAATGC-GCT-ATAGACCA-AACCTTTAGCGGCGCTTTCCCC
* **
3688971 ACAAACACCGCTAAAGACCAGG
63 ACAAACACCACTAAAGACCACA
* * * ***
3688993 ACCTTTAGCGGCGC-TTCCCCACACACGCCACTATAGACCAAGACCTTTAGCGGCGCTTTTGTCA
1 ACCTTTAGCGGCGCTTTCCCCACAAATG-CGCTATAGACCAA-ACCTTTAGCGGCGCTTTCCCCA
* *
3689057 CAAACGCCACTATAGACCACA
64 CAAACACCACTAAAGACCACA
*** * *
3689078 ACCTTTAGCGGCGCTTTTGTCACAAATGTCGCTATAGAGCAAACCTTTAGCGACGCTT
1 ACCTTTAGCGGCGCTTTCCCCACAAATG-CGCTATAGACCAAACCTTTAGCGGCGCTT
3689136 CTCGCCAAAA
Statistics
Matches: 118, Mismatches: 22, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
85 71 0.60
86 32 0.27
87 15 0.13
ACGTcount: A:0.27, C:0.33, G:0.19, T:0.22
Consensus pattern (84 bp):
ACCTTTAGCGGCGCTTTCCCCACAAATGCGCTATAGACCAAACCTTTAGCGGCGCTTTCCCCACA
AACACCACTAAAGACCACA
Found at i:3691639 original size:7 final size:7
Alignment explanation
Indices: 3691620--3691667 Score: 53
Period size: 7 Copynumber: 7.0 Consensus size: 7
3691610 ACTAATTAAT
*
3691620 CTAAACC
1 CTAACCC
3691627 CTAACCC
1 CTAACCC
*
3691634 CCAA-CC
1 CTAACCC
* *
3691640 CGAATCC
1 CTAACCC
3691647 CTAACCC
1 CTAACCC
3691654 CTAACCC
1 CTAACCC
3691661 CTAACCC
1 CTAACCC
3691668 ATAAACCTTA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
6 5 0.14
7 30 0.86
ACGTcount: A:0.31, C:0.54, G:0.02, T:0.12
Consensus pattern (7 bp):
CTAACCC
Found at i:3692257 original size:41 final size:41
Alignment explanation
Indices: 3692195--3692444 Score: 367
Period size: 41 Copynumber: 6.1 Consensus size: 41
3692185 GTAAAATATT
* * *
3692195 TAAAGCCCTGAGCATTAGCGGCGCTTCTTCAAAACCGTCGC
1 TAAAACCCTGAGCATTAGCGGCGCTTCTTCAAAAACGCCGC
* *
3692236 TAAAACCCTGAACATTAGCGGCGCTTCTTCAAAAGCGCCGC
1 TAAAACCCTGAGCATTAGCGGCGCTTCTTCAAAAACGCCGC
* * *
3692277 TAAATCCCTGAGCATTCGCGGCGCTTCTTTAAAAACGCCGC
1 TAAAACCCTGAGCATTAGCGGCGCTTCTTCAAAAACGCCGC
* *
3692318 TAAAACCCTGAGCATTAGCGGTGCTTATTCAAAAACGCCGC
1 TAAAACCCTGAGCATTAGCGGCGCTTCTTCAAAAACGCCGC
* *
3692359 TAAAGCCCTAAGCATTAGCGGCGCTTCATT-AAAAACGCCGC
1 TAAAACCCTGAGCATTAGCGGCGCTTC-TTCAAAAACGCCGC
*
3692400 TAAATCCCTGAGCATTAGCGGCGCTTCTTCAAAAACGCCGC
1 TAAAACCCTGAGCATTAGCGGCGCTTCTTCAAAAACGCCGC
3692441 TAAA
1 TAAA
3692445 GCCCCAAAAG
Statistics
Matches: 187, Mismatches: 20, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
40 2 0.01
41 183 0.98
42 2 0.01
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.22
Consensus pattern (41 bp):
TAAAACCCTGAGCATTAGCGGCGCTTCTTCAAAAACGCCGC
Found at i:3695432 original size:14 final size:14
Alignment explanation
Indices: 3695413--3695442 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
3695403 TTAATGAAAA
*
3695413 TAAAAGTAGGGGAC
1 TAAAAGTAGAGGAC
3695427 TAAAAGTAGAGGAC
1 TAAAAGTAGAGGAC
3695441 TA
1 TA
3695443 TATTCTAAAA
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:0.47, C:0.07, G:0.30, T:0.17
Consensus pattern (14 bp):
TAAAAGTAGAGGAC
Found at i:3700496 original size:40 final size:40
Alignment explanation
Indices: 3700405--3700707 Score: 380
Period size: 40 Copynumber: 7.6 Consensus size: 40
3700395 TCCTCGTTCA
* * * * ** *
3700405 AATGCCTTCGGGACATAGCCCAGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
3700444 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
3700484 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
3700524 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
3700564 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
* ** * *
3700604 AATGCCTTCGGGACTTAACCCGGATATAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
* * * * *
3700644 AAGGCCTTC-GGATCTTAATCCGGATATATTC-ACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTA-ACAAC-TCGCACG
* *
3700684 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
3700708 CAGCATTCAA
Statistics
Matches: 238, Mismatches: 21, Indels: 9
0.89 0.08 0.03
Matches are distributed among these distances:
39 35 0.15
40 195 0.82
41 8 0.03
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
Found at i:3700588 original size:120 final size:119
Alignment explanation
Indices: 3700370--3700707 Score: 394
Period size: 120 Copynumber: 2.8 Consensus size: 119
3700360 AAACCACGTA
* * ** ** * * * * *
3700370 CCTTCGGGATTTAA-CCGGATATAGCTCCTCGTTCAAATGCCTTCGGGACATAGCCCAGTTTTAG
1 CCTTCGGGACTTAACCCGGATATAACAACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTAA
* *
3700434 TAACTCACACAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACGAATG
66 CAACTCGCACAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACGAATG
* *
3700488 CCTTCGGGACTTAACCCGGATTTAACAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAA
1 CCTTCGGGACTTAACCCGGATATAACAACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTAA
3700553 CAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACGAATG
66 CAACTCGCAC-AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACGAATG
** * * * *
3700608 CCTTCGGGACTTAACCCGGATATAGTATCTCGCACAAAGGCCTTC-GGATCTTAATCCGGATATA
1 CCTTCGGGACTTAACCCGGATATAACAACTCGCACAAATGCCTTCGGGA-CTTAACCCGGATTTA
* * * *
3700672 TTC-ACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
65 -ACAAC-TCGCACAATGCCTTCGGGACTTAACCCGGA
3700708 CAGCATTCAA
Statistics
Matches: 188, Mismatches: 27, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
118 13 0.07
119 49 0.26
120 120 0.64
121 6 0.03
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.25
Consensus pattern (119 bp):
CCTTCGGGACTTAACCCGGATATAACAACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTAA
CAACTCGCACAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACGAATG
Found at i:3708629 original size:40 final size:40
Alignment explanation
Indices: 3708380--3708603 Score: 387
Period size: 40 Copynumber: 5.6 Consensus size: 40
3708370 TCCTCGTTCA
* * * ** *
3708380 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
3708419 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
3708459 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
3708499 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
3708539 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
3708579 AATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACTTAACCCGGAT
3708604 ATAGTATCTC
Statistics
Matches: 178, Mismatches: 6, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
39 33 0.19
40 145 0.81
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
Found at i:3708642 original size:40 final size:40
Alignment explanation
Indices: 3708345--3708682 Score: 220
Period size: 40 Copynumber: 8.5 Consensus size: 40
3708335 AAACCACGTA
* * ** *
3708345 CCTTCGGGATTTAA-CCGGATATAGCT-CCTCGTTCAAATG
1 CCTTCGGGACTTAACCCGGATATAG-TATCTCGCACAAAGG
* * * * * * *
3708384 CCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-AATG
1 CCTTCGGGACTTAACCCGGATATAGTATCTCGCACAAAGG
* ** * * *
3708423 CCTTCGGGACTTAACCCGGATTTAACAACTCGCACGAATG
1 CCTTCGGGACTTAACCCGGATATAGTATCTCGCACAAAGG
* ** * * *
3708463 CCTTCGGGACTTAACCCGGATTTAACAACTCGCACGAATG
1 CCTTCGGGACTTAACCCGGATATAGTATCTCGCACAAAGG
* ** * * *
3708503 CCTTCGGGACTTAACCCGGATTTAACAACTCGCACGAATG
1 CCTTCGGGACTTAACCCGGATATAGTATCTCGCACAAAGG
* ** * * *
3708543 CCTTCGGGACTTAACCCGGATTTAACAACTCGCACGAATG
1 CCTTCGGGACTTAACCCGGATATAGTATCTCGCACAAAGG
3708583 CCTTCGGGACTTAACCCGGATATAGTATCTCGCACAAAGG
1 CCTTCGGGACTTAACCCGGATATAGTATCTCGCACAAAGG
** * *
3708623 CCTTC-GGATCTTAGTCCGGATATATTCA-CTTAGCACAAA-G
1 CCTTCGGGA-CTTAACCCGGATATAGT-ATC-TCGCACAAAGG
* *
3708663 CCTTCAGGACTTAGCCCGGA
1 CCTTCGGGACTTAACCCGGA
3708683 CAGCATTCAA
Statistics
Matches: 266, Mismatches: 26, Indels: 13
0.87 0.09 0.04
Matches are distributed among these distances:
39 48 0.18
40 206 0.77
41 12 0.05
ACGTcount: A:0.26, C:0.29, G:0.20, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAACCCGGATATAGTATCTCGCACAAAGG
Found at i:3708642 original size:120 final size:119
Alignment explanation
Indices: 3708345--3708643 Score: 397
Period size: 120 Copynumber: 2.5 Consensus size: 119
3708335 AAACCACGTA
* * ** * *
3708345 CCTTCGGGATTTAA-CCGGATATAGCT-CCTCGTTCAAATGCCTTCGGGACATAGCCCGGTTTTA
1 CCTTCGGGACTTAACCCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTA
**
3708408 GTAACTCACACAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACGAATG
65 ACAACTCACACAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACGAATG
* ** * *
3708463 CCTTCGGGACTTAACCCGGATTTAACAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAA
1 CCTTCGGGACTTAACCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAA
*
3708528 CAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACGAATG
66 CAACTCACAC-AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACGAATG
* * *
3708583 CCTTCGGGACTTAACCCGGATATAGTATCTCGCACAAAGGCCTTC-GGATCTTAGTCCGGAT
1 CCTTCGGGACTTAACCCGGATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAGCCCGGAT
3708644 ATATTCACTT
Statistics
Matches: 155, Mismatches: 22, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
118 13 0.08
119 49 0.32
120 93 0.60
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.25
Consensus pattern (119 bp):
CCTTCGGGACTTAACCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAA
CAACTCACACAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACGAATG
Found at i:3708643 original size:80 final size:80
Alignment explanation
Indices: 3708345--3708629 Score: 376
Period size: 80 Copynumber: 3.6 Consensus size: 80
3708335 AAACCACGTA
* * ** ** * * * *
3708345 CCTTCGGGATTTAA-CCGGATATAGCTCCTCGTTCAAATGCCTTCGGGACATAGCCCGGTTTTAG
1 CCTTCGGGACTTAACCCGGATATAACAACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTAA
* *
3708409 TAACTCACAC-AATG
66 CAACTCGCACGAATG
* *
3708423 CCTTCGGGACTTAACCCGGATTTAACAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAA
1 CCTTCGGGACTTAACCCGGATATAACAACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTAA
3708488 CAACTCGCACGAATG
66 CAACTCGCACGAATG
* *
3708503 CCTTCGGGACTTAACCCGGATTTAACAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAA
1 CCTTCGGGACTTAACCCGGATATAACAACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTAA
3708568 CAACTCGCACGAATG
66 CAACTCGCACGAATG
** * *
3708583 CCTTCGGGACTTAACCCGGATATAGTATCTCGCACAAAGGCCTTCGG
1 CCTTCGGGACTTAACCCGGATATAACAACTCGCACAAATGCCTTCGG
3708630 ATCTTAGTCC
Statistics
Matches: 185, Mismatches: 20, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
78 13 0.07
79 47 0.25
80 125 0.68
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (80 bp):
CCTTCGGGACTTAACCCGGATATAACAACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTAA
CAACTCGCACGAATG
Found at i:3708666 original size:120 final size:119
Alignment explanation
Indices: 3708345--3708682 Score: 360
Period size: 120 Copynumber: 2.8 Consensus size: 119
3708335 AAACCACGTA
* * ** ** * * * * * *
3708345 CCTTCGGGATTTAA-CCGGATATAGCTCCTCGTTCAAATGCCTTCGGGACATAGCCCGGTTTTAG
1 CCTTCGGGACTTAACCCGGATATAACAACTCGCACAAAGGCCTTCGGGACTTAACCCGGATATAA
*
3708409 TAACTCA-CACAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACGAATG
66 CAACT-AGCACAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACGAATG
* * * *
3708463 CCTTCGGGACTTAACCCGGATTTAACAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAA
1 CCTTCGGGACTTAACCCGGATATAACAACTCGCACAAAGGCCTTCGGGACTTAACCCGGATATAA
*
3708528 CAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACGAATG
66 CAACTAGCAC-AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACGAATG
** * **
3708583 CCTTCGGGACTTAACCCGGATATAGTATCTCGCACAAAGGCCTTC-GGATCTTAGTCCGGATATA
1 CCTTCGGGACTTAACCCGGATATAACAACTCGCACAAAGGCCTTCGGGA-CTTAACCCGGATATA
* * * *
3708647 TTC-ACTTAGCACAAAGCCTTCAGGACTTAGCCCGGA
65 -ACAAC-TAGCACAATGCCTTCGGGACTTAACCCGGA
3708683 CAGCATTCAA
Statistics
Matches: 186, Mismatches: 28, Indels: 10
0.83 0.12 0.04
Matches are distributed among these distances:
118 13 0.07
119 49 0.26
120 118 0.63
121 6 0.03
ACGTcount: A:0.26, C:0.29, G:0.20, T:0.25
Consensus pattern (119 bp):
CCTTCGGGACTTAACCCGGATATAACAACTCGCACAAAGGCCTTCGGGACTTAACCCGGATATAA
CAACTAGCACAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACGAATG
Found at i:3708691 original size:41 final size:41
Alignment explanation
Indices: 3708614--3708691 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
3708604 ATAGTATCTC
* * *
3708614 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
3708655 GCACAAA-GCCTTCAGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
3708692 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:3712667 original size:18 final size:18
Alignment explanation
Indices: 3712644--3712736 Score: 114
Period size: 18 Copynumber: 5.2 Consensus size: 18
3712634 CCCAACTACT
*
3712644 GTATACGTGAACAGTACC
1 GTATACGTGAATAGTACC
*
3712662 GTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACC
* * *
3712680 ATATATGTGAATAGTATC
1 GTATACGTGAATAGTACC
* *
3712698 GTATACGTGAATAGTGCT
1 GTATACGTGAATAGTACC
*
3712716 GTATACGTAAATAGTACC
1 GTATACGTGAATAGTACC
3712734 GTA
1 GTA
3712737 AACGGTCGTA
Statistics
Matches: 61, Mismatches: 14, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 61 1.00
ACGTcount: A:0.33, C:0.14, G:0.23, T:0.30
Consensus pattern (18 bp):
GTATACGTGAATAGTACC
Found at i:3722120 original size:27 final size:27
Alignment explanation
Indices: 3722056--3722122 Score: 89
Period size: 27 Copynumber: 2.5 Consensus size: 27
3722046 GATGGAGGGC
**
3722056 CTGCCACAGGCGGCACCAATGGTGCTT
1 CTGCCACAGGCGGCACCAATGGTGCCA
* * *
3722083 GTGGCAGAGGCGGCACCAATGGTGCCA
1 CTGCCACAGGCGGCACCAATGGTGCCA
3722110 CTGCCACAGGCGG
1 CTGCCACAGGCGG
3722123 TACCCCCTTT
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.19, C:0.31, G:0.36, T:0.13
Consensus pattern (27 bp):
CTGCCACAGGCGGCACCAATGGTGCCA
Found at i:3728356 original size:22 final size:22
Alignment explanation
Indices: 3728329--3728378 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
3728319 AACACTTTTT
3728329 AATAATGAAAAAGG-AAAAGAAA
1 AATAAT-AAAAAGGTAAAAGAAA
* * *
3728351 AATAATTAAATGGTATAAGAAA
1 AATAATAAAAAGGTAAAAGAAA
3728373 AATAAT
1 AATAAT
3728379 TTTTAATAAG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 5 0.21
22 19 0.79
ACGTcount: A:0.66, C:0.00, G:0.14, T:0.20
Consensus pattern (22 bp):
AATAATAAAAAGGTAAAAGAAA
Found at i:3728559 original size:13 final size:13
Alignment explanation
Indices: 3728541--3728572 Score: 50
Period size: 11 Copynumber: 2.6 Consensus size: 13
3728531 ATATTATTTT
3728541 AAATAATTTATAA
1 AAATAATTTATAA
3728554 AAATAA--TATAA
1 AAATAATTTATAA
3728565 AAATAATT
1 AAATAATT
3728573 AAACATTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 4
0.81 0.00 0.19
Matches are distributed among these distances:
11 11 0.65
13 6 0.35
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (13 bp):
AAATAATTTATAA
Found at i:3731598 original size:20 final size:21
Alignment explanation
Indices: 3731573--3731611 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
3731563 AATTAAATTT
*
3731573 ATTTAAA-ATAAAAATATTAA
1 ATTTAAATAAAAAAATATTAA
3731593 ATTTAAATAAAAAAATATT
1 ATTTAAATAAAAAAATATT
3731612 TTCAACTTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (21 bp):
ATTTAAATAAAAAAATATTAA
Found at i:3731793 original size:9 final size:9
Alignment explanation
Indices: 3731781--3731859 Score: 54
Period size: 9 Copynumber: 8.3 Consensus size: 9
3731771 TATATTGATT
3731781 AAAATTATAAA
1 AAAATTAT--A
3731792 AAAATTATA
1 AAAATTATA
*
3731801 CATAA-TATA
1 -AAAATTATA
*
3731810 AATAATTCAAA
1 AA-AATT-ATA
3731821 AAAATT-TA
1 AAAATTATA
*
3731829 AAAATTTTA
1 AAAATTATA
*
3731838 AAAATTTTA
1 AAAATTATA
3731847 TAAAATTATA
1 -AAAATTATA
3731857 AAA
1 AAA
3731860 TATATAAATA
Statistics
Matches: 57, Mismatches: 5, Indels: 14
0.75 0.07 0.18
Matches are distributed among these distances:
8 8 0.14
9 21 0.37
10 16 0.28
11 12 0.21
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (9 bp):
AAAATTATA
Found at i:3731833 original size:8 final size:9
Alignment explanation
Indices: 3731819--3731859 Score: 55
Period size: 9 Copynumber: 4.4 Consensus size: 9
3731809 AAATAATTCA
*
3731819 AAAAAATTT
1 AAAAATTTT
3731828 AAAAATTTT
1 AAAAATTTT
3731837 AAAAATTTT
1 AAAAATTTT
*
3731846 ATAAAATTAT
1 A-AAAATTTT
3731856 AAAA
1 AAAA
3731860 TATATAAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
9 21 0.72
10 8 0.28
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (9 bp):
AAAAATTTT
Found at i:3732171 original size:20 final size:19
Alignment explanation
Indices: 3732124--3732172 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 19
3732114 AAATTTCAAC
3732124 TTTATATATTATTTTGATA
1 TTTATATATTATTTTGATA
3732143 TTT-TAATATTAATATTT-ATA
1 TTTAT-ATATT-AT-TTTGATA
3732163 TTTATATATT
1 TTTATATATT
3732173 TTAGAATTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
18 1 0.04
19 8 0.31
20 13 0.50
21 4 0.15
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (19 bp):
TTTATATATTATTTTGATA
Found at i:3740162 original size:20 final size:20
Alignment explanation
Indices: 3740131--3740178 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 20
3740121 GTTGGTATTA
3740131 CTTAAA-AAA-TTTGGTACAC
1 CTTAAAGAAATTTTGGTAC-C
3740150 CTTAAAGAAATTTTGGTACC
1 CTTAAAGAAATTTTGGTACC
3740170 CTTCAAAGA
1 CTT-AAAGA
3740179 TTTCAGATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
19 6 0.23
20 7 0.27
21 13 0.50
ACGTcount: A:0.40, C:0.17, G:0.12, T:0.31
Consensus pattern (20 bp):
CTTAAAGAAATTTTGGTACC
Found at i:3740407 original size:42 final size:40
Alignment explanation
Indices: 3740361--3740442 Score: 101
Period size: 40 Copynumber: 2.0 Consensus size: 40
3740351 AATATGTGAA
* *
3740361 AAAAAATTGTAACACATTAAAAATAATAATTTTTGGTGTATT
1 AAAAAATTGTAACAC-GTAAAAA-AATAAATTTTGGTGTATT
* * *
3740403 AAAAAATTTTAATACGTAAAAAAATAAATTTTGGTTTATT
1 AAAAAATTGTAACACGTAAAAAAATAAATTTTGGTGTATT
3740443 GGTAAACAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
40 16 0.46
41 6 0.17
42 13 0.37
ACGTcount: A:0.49, C:0.04, G:0.09, T:0.39
Consensus pattern (40 bp):
AAAAAATTGTAACACGTAAAAAAATAAATTTTGGTGTATT
Found at i:3740665 original size:38 final size:39
Alignment explanation
Indices: 3740583--3740665 Score: 96
Period size: 38 Copynumber: 2.2 Consensus size: 39
3740573 TTTCCAAATC
* * * * *
3740583 AATACCAATATTTCTAACACGGTATCAATATTTTAAAGG
1 AATACCAATACTTCTAACACGATACCAATATTTGAAAAG
* *
3740622 GATACCAA-ACTTCTAATACGATACCAATATTTGAAAAG
1 AATACCAATACTTCTAACACGATACCAATATTTGAAAAG
3740660 AATACC
1 AATACC
3740666 CAAATTTTTA
Statistics
Matches: 36, Mismatches: 8, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
38 29 0.81
39 7 0.19
ACGTcount: A:0.43, C:0.18, G:0.10, T:0.29
Consensus pattern (39 bp):
AATACCAATACTTCTAACACGATACCAATATTTGAAAAG
Found at i:3754552 original size:17 final size:17
Alignment explanation
Indices: 3754530--3754562 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
3754520 CTATGTATTT
3754530 TTAAAT-TAAAATATATA
1 TTAAATCTAAAA-ATATA
3754547 TTAAATCTAAAAATAT
1 TTAAATCTAAAAATAT
3754563 GGTTTTTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (17 bp):
TTAAATCTAAAAATATA
Found at i:3755255 original size:9 final size:9
Alignment explanation
Indices: 3755241--3755275 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
3755231 TAGTTTGATG
3755241 TTCGAATTA
1 TTCGAATTA
3755250 TTCGAATTA
1 TTCGAATTA
* *
3755259 TCCGAGTTA
1 TTCGAATTA
3755268 TTCGAATT
1 TTCGAATT
3755276 CGAAAACTCA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.29, C:0.14, G:0.14, T:0.43
Consensus pattern (9 bp):
TTCGAATTA
Found at i:3756937 original size:6 final size:6
Alignment explanation
Indices: 3756893--3756941 Score: 53
Period size: 6 Copynumber: 7.8 Consensus size: 6
3756883 CCGAACACAC
* * *
3756893 CAGTAAA CAGTAA TCAGTAA CGGTAG CAGTAA CAATAA CAGTAA CAGTA
1 CAGT-AA CAGTAA -CAGTAA CAGTAA CAGTAA CAGTAA CAGTAA CAGTA
3756942 TTCGACACAC
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
6 25 0.71
7 10 0.29
ACGTcount: A:0.47, C:0.16, G:0.18, T:0.18
Consensus pattern (6 bp):
CAGTAA
Found at i:3757004 original size:38 final size:39
Alignment explanation
Indices: 3756928--3757007 Score: 110
Period size: 39 Copynumber: 2.1 Consensus size: 39
3756918 GCAGTAACAA
*
3756928 TAACAGTAACAGTATTCGACACACAAAGTGTCGAATCAG
1 TAACAGTAACAGTATTCGACACACAAAGTGCCGAATCAG
* *
3756967 TAACAGTAACAGTATTCGGCACA-TAAGTGCCTG-ATCAG
1 TAACAGTAACAGTATTCGACACACAAAGTGCC-GAATCAG
3757005 TAA
1 TAA
3757008 GCCGGCAAAT
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
38 14 0.38
39 23 0.62
ACGTcount: A:0.39, C:0.20, G:0.19, T:0.23
Consensus pattern (39 bp):
TAACAGTAACAGTATTCGACACACAAAGTGCCGAATCAG
Found at i:3757529 original size:4 final size:4
Alignment explanation
Indices: 3757522--3757546 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
3757512 TATATATATA
3757522 TATT TATT TATT TATT TATT TATT T
1 TATT TATT TATT TATT TATT TATT T
3757547 TCCAATCAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TATT
Found at i:3758416 original size:12 final size:12
Alignment explanation
Indices: 3758399--3758432 Score: 52
Period size: 11 Copynumber: 2.8 Consensus size: 12
3758389 AAAACCCTAG
3758399 TTTTTCCTTTTC
1 TTTTTCCTTTTC
3758411 TTTTT-CTTTTC
1 TTTTTCCTTTTC
3758422 TTCTTTCCTTT
1 TT-TTTCCTTT
3758433 CCCCTGTTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
11 8 0.40
12 8 0.40
13 4 0.20
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (12 bp):
TTTTTCCTTTTC
Found at i:3761022 original size:19 final size:19
Alignment explanation
Indices: 3761000--3761037 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
3760990 AATTTAATTT
*
3761000 ATTAGTAATAAATTACTAA
1 ATTACTAATAAATTACTAA
*
3761019 ATTACTAATAAGTTACTAA
1 ATTACTAATAAATTACTAA
3761038 TAAATTTATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.50, C:0.08, G:0.05, T:0.37
Consensus pattern (19 bp):
ATTACTAATAAATTACTAA
Found at i:3761157 original size:19 final size:19
Alignment explanation
Indices: 3761133--3761310 Score: 136
Period size: 19 Copynumber: 9.1 Consensus size: 19
3761123 ATATCCCGAC
3761133 ATTACAATATTCATACAAA
1 ATTACAATATTCATACAAA
*
3761152 ATTACAATATTCTTACAAA
1 ATTACAATATTCATACAAA
*
3761171 ATTACAATA-T--TACAAT
1 ATTACAATATTCATACAAA
* *
3761187 ATT-C-ATA--CAAAAAAA
1 ATTACAATATTCATACAAA
*
3761202 ATTGCAATATTCATATAAAATCATAA
1 ATTACAATATTC--AT---A-CA-AA
3761228 TATTACAATATTCATACAAAAAA
1 -ATTACAATATTCATAC---AAA
3761251 ATTACAATATTCATACAAA
1 ATTACAATATTCATACAAA
*
3761270 ATTACAACATTCATACAAAAA
1 ATTACAATATTCATAC--AAA
3761291 ATTACAATATTCATACAAA
1 ATTACAATATTCATACAAA
3761310 A
1 A
3761311 AAATTAGAAT
Statistics
Matches: 130, Mismatches: 10, Indels: 38
0.73 0.06 0.21
Matches are distributed among these distances:
14 3 0.02
15 7 0.05
16 9 0.07
17 3 0.02
18 1 0.01
19 50 0.38
21 20 0.15
22 17 0.13
23 2 0.02
24 2 0.02
25 3 0.02
26 2 0.02
27 11 0.08
ACGTcount: A:0.54, C:0.15, G:0.01, T:0.31
Consensus pattern (19 bp):
ATTACAATATTCATACAAA
Found at i:3761182 original size:27 final size:26
Alignment explanation
Indices: 3761150--3761276 Score: 142
Period size: 27 Copynumber: 5.1 Consensus size: 26
3761140 TATTCATACA
*
3761150 AAATTACAATATTCTTACAAAATTAC
1 AAATTACAATATTCATACAAAATTAC
3761176 AATATTACAATATTCATACAAAA--A-
1 AA-ATTACAATATTCATACAAAATTAC
* * * *
3761200 AAATTGCAATATTCATATAAAATCAT
1 AAATTACAATATTCATACAAAATTAC
3761226 AATATTACAATATTCATAC-AAA--A-
1 AA-ATTACAATATTCATACAAAATTAC
3761249 AAATTACAATATTCATACAAAATTAC
1 AAATTACAATATTCATACAAAATTAC
3761275 AA
1 AA
3761277 CATTCATACA
Statistics
Matches: 87, Mismatches: 5, Indels: 18
0.79 0.05 0.16
Matches are distributed among these distances:
22 16 0.18
23 23 0.26
24 3 0.03
25 3 0.03
26 9 0.10
27 33 0.38
ACGTcount: A:0.54, C:0.13, G:0.01, T:0.31
Consensus pattern (26 bp):
AAATTACAATATTCATACAAAATTAC
Found at i:3761230 original size:50 final size:48
Alignment explanation
Indices: 3761086--3761310 Score: 233
Period size: 50 Copynumber: 4.9 Consensus size: 48
3761076 TTATAAAATA
* * *
3761086 ATTACAATATTCATACAAAAAATTACAATA-T--TACAATATATCCCGAC
1 ATTACAATATTCATACAAAAAATTACAATATTCATACAA-A-ATCACAAT
* *
3761133 ATTACAATATTCATAC--AAAATTACAATATTCTTACAAAATTACAAT
1 ATTACAATATTCATACAAAAAATTACAATATTCATACAAAATCACAAT
* * *
3761179 ATTACAATATTCATACAAAAAAAATTGCAATATTCATATAAAATCATAAT
1 ATTACAATATTCATAC--AAAAAATTACAATATTCATACAAAATCACAAT
3761229 ATTACAATATTCATACAAAAAAATTACAATATTCAT-----A-CA-AA-
1 ATTACAATATTCATAC-AAAAAATTACAATATTCATACAAAATCACAAT
*
3761270 ATTACAACATTCATACAAAAAATTACAATATTCATACAAAA
1 ATTACAATATTCATACAAAAAATTACAATATTCATACAAAA
3761311 AAATTAGAAT
Statistics
Matches: 155, Mismatches: 11, Indels: 26
0.81 0.06 0.14
Matches are distributed among these distances:
40 19 0.12
41 15 0.10
42 2 0.01
43 2 0.01
44 1 0.01
45 13 0.08
46 21 0.14
47 17 0.11
48 5 0.03
49 19 0.12
50 41 0.26
ACGTcount: A:0.53, C:0.16, G:0.01, T:0.31
Consensus pattern (48 bp):
ATTACAATATTCATACAAAAAATTACAATATTCATACAAAATCACAAT
Found at i:3761267 original size:22 final size:21
Alignment explanation
Indices: 3761267--3761323 Score: 87
Period size: 21 Copynumber: 2.7 Consensus size: 21
3761257 ATATTCATAC
*
3761267 AAAATTACAACATTCATACAA
1 AAAATTACAATATTCATACAA
3761288 AAAATTACAATATTCATACAAA
1 AAAATTACAATATTCATAC-AA
*
3761310 AAAATTAGAATATT
1 AAAATTACAATATT
3761324 TATATATACA
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
21 18 0.55
22 15 0.45
ACGTcount: A:0.58, C:0.12, G:0.02, T:0.28
Consensus pattern (21 bp):
AAAATTACAATATTCATACAA
Found at i:3761301 original size:40 final size:41
Alignment explanation
Indices: 3761229--3761310 Score: 148
Period size: 40 Copynumber: 2.0 Consensus size: 41
3761219 AAATCATAAT
*
3761229 ATTACAATATTCATACAAAAAAATTACAATATTCATACAAA
1 ATTACAACATTCATACAAAAAAATTACAATATTCATACAAA
3761270 ATTACAACATTCATAC-AAAAAATTACAATATTCATACAAA
1 ATTACAACATTCATACAAAAAAATTACAATATTCATACAAA
3761310 A
1 A
3761311 AAATTAGAAT
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
40 25 0.62
41 15 0.38
ACGTcount: A:0.56, C:0.16, G:0.00, T:0.28
Consensus pattern (41 bp):
ATTACAACATTCATACAAAAAAATTACAATATTCATACAAA
Found at i:3761378 original size:7 final size:7
Alignment explanation
Indices: 3761368--3761392 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
3761358 CTAAATATAG
3761368 ATAATTA
1 ATAATTA
3761375 ATAATTA
1 ATAATTA
3761382 ATAATTA
1 ATAATTA
3761389 ATAA
1 ATAA
3761393 CAAAAAATTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (7 bp):
ATAATTA
Found at i:3761422 original size:12 final size:12
Alignment explanation
Indices: 3761405--3761430 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
3761395 AAAAATTCAC
3761405 AATATCTTCTAA
1 AATATCTTCTAA
3761417 AATATCTTCTAA
1 AATATCTTCTAA
3761429 AA
1 AA
3761431 AAATTCACAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.46, C:0.15, G:0.00, T:0.38
Consensus pattern (12 bp):
AATATCTTCTAA
Found at i:3761530 original size:13 final size:13
Alignment explanation
Indices: 3761508--3761537 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
3761498 ATGTATAAAC
*
3761508 AAAATTATTTACT
1 AAAATAATTTACT
3761521 AAAATAATTTACT
1 AAAATAATTTACT
3761534 AAAA
1 AAAA
3761538 GGTAATTGTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.37
Consensus pattern (13 bp):
AAAATAATTTACT
Found at i:3761566 original size:13 final size:13
Alignment explanation
Indices: 3761548--3761616 Score: 70
Period size: 13 Copynumber: 5.2 Consensus size: 13
3761538 GGTAATTGTG
3761548 AATTTTAGTAAAT
1 AATTTTAGTAAAT
3761561 AATTTTAGTAAAT
1 AATTTTAGTAAAT
*
3761574 AATTTGTA-TAAACA
1 AATTT-TAGTAAA-T
* *
3761588 AATTATA-AAAAT
1 AATTTTAGTAAAT
3761600 AATTTTTAGTAAAT
1 AA-TTTTAGTAAAT
3761614 AAT
1 AAT
3761617 ACATTACCTT
Statistics
Matches: 46, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
12 2 0.04
13 32 0.70
14 12 0.26
ACGTcount: A:0.51, C:0.01, G:0.06, T:0.42
Consensus pattern (13 bp):
AATTTTAGTAAAT
Found at i:3761745 original size:42 final size:42
Alignment explanation
Indices: 3761690--3761785 Score: 149
Period size: 42 Copynumber: 2.3 Consensus size: 42
3761680 CTTTTAGTAA
**
3761690 ATTATTTTAGTAAATAGTTTTGTTTATACA-TAAAGGTAATGT
1 ATTATTTTAGTAAATAAATTTGTTTATA-ATTAAAGGTAATGT
*
3761732 ATTATTTTAGTAAATAAATTTGTTTATAATTTAAGGTAATGT
1 ATTATTTTAGTAAATAAATTTGTTTATAATTAAAGGTAATGT
3761774 ATTATTTTAGTA
1 ATTATTTTAGTA
3761786 TATTTATGTA
Statistics
Matches: 50, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
41 1 0.02
42 49 0.98
ACGTcount: A:0.36, C:0.01, G:0.12, T:0.50
Consensus pattern (42 bp):
ATTATTTTAGTAAATAAATTTGTTTATAATTAAAGGTAATGT
Found at i:3762133 original size:8 final size:8
Alignment explanation
Indices: 3762120--3762229 Score: 58
Period size: 8 Copynumber: 12.4 Consensus size: 8
3762110 TTTTTGTATG
3762120 AATATTGT
1 AATATTGT
3762128 AATATTGT
1 AATATTGT
*
3762136 AATTTTGTAT
1 AATATTG--T
3762146 GAATATTGT
1 -AATATTGT
*
3762155 AATTTTGTAT
1 AATATTG--T
3762165 GAATATTGT
1 -AATATTGT
*
3762174 AATTTTGT
1 AATATTGT
*
3762182 AATTTTGTAT
1 AATATTG--T
3762192 GAATATTGT
1 -AATATTGT
* * *
3762201 AATGTCGGG
1 AATAT-TGT
3762210 ATATATTGT
1 A-ATATTGT
3762219 AATATTGT
1 AATATTGT
3762227 AAT
1 AAT
3762230 TTTTTGTATG
Statistics
Matches: 79, Mismatches: 12, Indels: 22
0.70 0.11 0.19
Matches are distributed among these distances:
8 48 0.61
9 7 0.09
10 6 0.08
11 18 0.23
ACGTcount: A:0.33, C:0.01, G:0.16, T:0.50
Consensus pattern (8 bp):
AATATTGT
Found at i:3762141 original size:27 final size:27
Alignment explanation
Indices: 3762111--3762203 Score: 121
Period size: 27 Copynumber: 3.7 Consensus size: 27
3762101 AATGTAATTT
3762111 TTTTGTATGAATATTGTAATATTGTAA
1 TTTTGTATGAATATTGTAATATTGTAA
3762138 --TT-T-TG--TA-TG-AATATTGTAA
1 TTTTGTATGAATATTGTAATATTGTAA
*
3762157 TTTTGTATGAATATTGTAATTTTGTAA
1 TTTTGTATGAATATTGTAATATTGTAA
3762184 TTTTGTATGAATATTGTAAT
1 TTTTGTATGAATATTGTAAT
3762204 GTCGGGATAT
Statistics
Matches: 57, Mismatches: 1, Indels: 16
0.77 0.01 0.22
Matches are distributed among these distances:
19 10 0.18
20 2 0.04
21 4 0.07
22 1 0.02
23 4 0.07
24 1 0.02
25 4 0.07
26 2 0.04
27 29 0.51
ACGTcount: A:0.31, C:0.00, G:0.15, T:0.54
Consensus pattern (27 bp):
TTTTGTATGAATATTGTAATATTGTAA
Found at i:3762182 original size:46 final size:45
Alignment explanation
Indices: 3762048--3762251 Score: 231
Period size: 46 Copynumber: 4.5 Consensus size: 45
3762038 TTGAATTAGT
* *
3762048 ATTTTGTATGAATATTGTAATTTT-TTG--TA-TG-AATGTTATA
1 ATTTTGTATGAATATTGTAATTTTGTTGAATATTGTAATATTGTA
*
3762088 ATTTTGTATGAATAATGTAATTTTTTTGTATGAATATTGTAATATTGTA
1 ATTTTGTATGAATATTGTAA---TTTTGT-TGAATATTGTAATATTGTA
*
3762137 ATTTTGTATGAATATTGTAATTTTGTATGAATATTGTAATTTTGTA
1 ATTTTGTATGAATATTGTAATTTTGT-TGAATATTGTAATATTGTA
* * *
3762183 ATTTTGTATGAATATTGTAATGTCG-GGATATATTGTAATATTGTA
1 ATTTTGTATGAATATTGTAATTTTGTTGA-ATATTGTAATATTGTA
3762228 ATTTTTTGTATGAATATTGTAATT
1 A--TTTTGTATGAATATTGTAATT
3762252 ATTTTATAAT
Statistics
Matches: 142, Mismatches: 10, Indels: 17
0.84 0.06 0.10
Matches are distributed among these distances:
40 19 0.13
43 4 0.03
44 3 0.02
45 18 0.13
46 48 0.34
47 22 0.15
48 2 0.01
49 26 0.18
ACGTcount: A:0.31, C:0.00, G:0.16, T:0.53
Consensus pattern (45 bp):
ATTTTGTATGAATATTGTAATTTTGTTGAATATTGTAATATTGTA
Found at i:3762203 original size:19 final size:19
Alignment explanation
Indices: 3761969--3762182 Score: 173
Period size: 19 Copynumber: 11.4 Consensus size: 19
3761959 ATTCTAATTT
3761969 TTTTGTATGAATATTGTAA
1 TTTTGTATGAATATTGTAA
*
3761988 TTTTTTATGAATATTGTAA
1 TTTTGTATGAATATTGTAA
*
3762007 TTATTTTAT-AATTAAATTTGT-A
1 TT-TTGTATGAA-T--A-TTGTAA
* *
3762029 TTTATAGTTTTGAAT-TAGT-A
1 TTT-T-G-TATGAATATTGTAA
3762049 TTTTGTATGAATATTGTAA
1 TTTTGTATGAATATTGTAA
* *
3762068 TTTTTTGTATGAATGTTATAA
1 --TTTTGTATGAATATTGTAA
*
3762089 TTTTGTATGAATAATGTAA
1 TTTTGTATGAATATTGTAA
*
3762108 TTTT-TTTG--TA-TG-AA
1 TTTTGTATGAATATTGTAA
*
3762122 TATTG--T-AATATTGTAA
1 TTTTGTATGAATATTGTAA
3762138 TTTTGTATGAATATTGTAA
1 TTTTGTATGAATATTGTAA
3762157 TTTTGTATGAATATTGTAA
1 TTTTGTATGAATATTGTAA
3762176 TTTTGTA
1 TTTTGTA
3762183 ATTTTGTATG
Statistics
Matches: 160, Mismatches: 14, Indels: 42
0.74 0.06 0.19
Matches are distributed among these distances:
13 1 0.01
14 7 0.04
15 4 0.03
16 8 0.05
17 6 0.04
18 8 0.05
19 80 0.50
20 14 0.09
21 18 0.11
22 5 0.03
23 4 0.03
24 3 0.02
25 2 0.01
ACGTcount: A:0.31, C:0.00, G:0.14, T:0.55
Consensus pattern (19 bp):
TTTTGTATGAATATTGTAA
Found at i:3762321 original size:19 final size:19
Alignment explanation
Indices: 3762299--3762336 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
3762289 TATAAATTTA
*
3762299 TTAGTAACTTATTAGTAAT
1 TTAGTAACTTATTACTAAT
*
3762318 TTAGTAATTTATTACTAAT
1 TTAGTAACTTATTACTAAT
3762337 AAATTAAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.37, C:0.05, G:0.08, T:0.50
Consensus pattern (19 bp):
TTAGTAACTTATTACTAAT
Found at i:3764934 original size:43 final size:43
Alignment explanation
Indices: 3764873--3764974 Score: 177
Period size: 43 Copynumber: 2.4 Consensus size: 43
3764863 CCGTATTTTA
* *
3764873 CCGATGGTGCCCGAGGCTCTCGCACGACCAAGGGCTTAGTTTG
1 CCGATGGTGCCCGAGGCTCTCGCACGACCAAGGGCCTAGGTTG
3764916 CCGATGGTGCCCGAGGCTCTCGCACGACCAAGGGCCTAGGTTG
1 CCGATGGTGCCCGAGGCTCTCGCACGACCAAGGGCCTAGGTTG
*
3764959 TCGATGGTGCCCGAGG
1 CCGATGGTGCCCGAGG
3764975 TTGCCGATGG
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 56 1.00
ACGTcount: A:0.16, C:0.30, G:0.35, T:0.19
Consensus pattern (43 bp):
CCGATGGTGCCCGAGGCTCTCGCACGACCAAGGGCCTAGGTTG
Found at i:3764977 original size:19 final size:19
Alignment explanation
Indices: 3764953--3764995 Score: 77
Period size: 19 Copynumber: 2.3 Consensus size: 19
3764943 CCAAGGGCCT
*
3764953 AGGTTGTCGATGGTGCCCG
1 AGGTTGCCGATGGTGCCCG
3764972 AGGTTGCCGATGGTGCCCG
1 AGGTTGCCGATGGTGCCCG
3764991 AGGTT
1 AGGTT
3764996 CCCGCACATC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.12, C:0.21, G:0.42, T:0.26
Consensus pattern (19 bp):
AGGTTGCCGATGGTGCCCG
Found at i:3764989 original size:62 final size:61
Alignment explanation
Indices: 3764913--3765035 Score: 167
Period size: 62 Copynumber: 2.0 Consensus size: 61
3764903 AGGGCTTAGT
* ** *
3764913 TTGCCGATGGTGCCCGAGGCTCTCGCACGA-CCAAGGGCCTAGGTTGTCGATGGTGCCCGAGG
1 TTGCCGATGGTGCCCGAGGCTCCCGCAC-ATCCAAGCACCAAGG-TGTCGATGGTGCCCGAGG
* *
3764975 TTGCCGATGGTGCCCGAGGTTCCCGCACATCCAAGCACCAAGGTGTCGATGGTGCTCGAGG
1 TTGCCGATGGTGCCCGAGGCTCCCGCACATCCAAGCACCAAGGTGTCGATGGTGCCCGAGG
3765036 CTCCCGCACG
Statistics
Matches: 54, Mismatches: 6, Indels: 3
0.86 0.10 0.05
Matches are distributed among these distances:
61 18 0.33
62 36 0.67
ACGTcount: A:0.16, C:0.29, G:0.35, T:0.20
Consensus pattern (61 bp):
TTGCCGATGGTGCCCGAGGCTCCCGCACATCCAAGCACCAAGGTGTCGATGGTGCCCGAGG
Found at i:3765026 original size:42 final size:42
Alignment explanation
Indices: 3764979--3765118 Score: 124
Period size: 42 Copynumber: 3.3 Consensus size: 42
3764969 CCGAGGTTGC
*
3764979 CGATGGTGCCCGAGGTTCCCGCACATCCAAGCACCAAGGTGT
1 CGATGGTGCCCGAGGCTCCCGCACATCCAAGCACCAAGGTGT
* ** *
3765021 CGATGGTGCTCGAGGCTCCCGCACGA-CCAAGGGCCTAGGT-T
1 CGATGGTGCCCGAGGCTCCCGCAC-ATCCAAGCACCAAGGTGT
** * * *
3765062 ACCGACAGTGTCCGAGGCTCCCGCACAT-CATAGCACCGAGGTGC
1 --CGATGGTGCCCGAGGCTCCCGCACATCCA-AGCACCAAGGTGT
*
3765106 CGATGGTGTCCGA
1 CGATGGTGCCCGA
3765119 CCCTTTTTTA
Statistics
Matches: 77, Mismatches: 15, Indels: 12
0.74 0.14 0.12
Matches are distributed among these distances:
41 1 0.01
42 47 0.61
43 29 0.38
ACGTcount: A:0.20, C:0.33, G:0.31, T:0.16
Consensus pattern (42 bp):
CGATGGTGCCCGAGGCTCCCGCACATCCAAGCACCAAGGTGT
Found at i:3765155 original size:23 final size:22
Alignment explanation
Indices: 3765123--3765182 Score: 84
Period size: 23 Copynumber: 2.6 Consensus size: 22
3765113 GTCCGACCCT
*
3765123 TTTTTAATTAAAATTAAAATTATA
1 TTTTT-ATTAAAATTAAAACTA-A
3765147 TTTTTATTAAAATTAAAACTAA
1 TTTTTATTAAAATTAAAACTAA
*
3765169 TTGTTATTAAAATT
1 TTTTTATTAAAATT
3765183 GTATCAAATT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
22 14 0.41
23 15 0.44
24 5 0.15
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.50
Consensus pattern (22 bp):
TTTTTATTAAAATTAAAACTAA
Found at i:3765309 original size:34 final size:35
Alignment explanation
Indices: 3765237--3765315 Score: 117
Period size: 34 Copynumber: 2.3 Consensus size: 35
3765227 ATCTAACATT
* *
3765237 TTGTTAGTAAAATTATTAATTGTTAATTGTATTAA
1 TTGTTACTAAAATTATAAATTGTTAATTGTATTAA
3765272 TTGTTACTAAAATTATCAAATTGTTAA-T-TATTAA
1 TTGTTACTAAAATTAT-AAATTGTTAATTGTATTAA
3765306 TTGTTACTAA
1 TTGTTACTAA
3765316 CATTTTGTTA
Statistics
Matches: 41, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
34 16 0.39
35 16 0.39
36 9 0.22
ACGTcount: A:0.38, C:0.04, G:0.09, T:0.49
Consensus pattern (35 bp):
TTGTTACTAAAATTATAAATTGTTAATTGTATTAA
Found at i:3765320 original size:83 final size:85
Alignment explanation
Indices: 3765229--3765397 Score: 288
Period size: 83 Copynumber: 2.0 Consensus size: 85
3765219 TTTGTAAAAT
3765229 CTAACATTTTGTTAGTAAAATTATTAATTGTTAATTGTATTAATTGTTACTAAAATTATCAAATT
1 CTAACATTTTGTTAGTAAAATTATTAATTGTTAATTGTATTAATTGTTACTAAAATTATCAAATT
*
3765294 GT-T-AATTATTAATTGTTA
66 ATATAAATTATTAATTGTTA
* *
3765312 CTAACATTTTGTTAGTAAAATTATTAATTGTTAATTGTATTAATTGTTAGTAAATTTATCAAATT
1 CTAACATTTTGTTAGTAAAATTATTAATTGTTAATTGTATTAATTGTTACTAAAATTATCAAATT
3765377 ATATCAAATTATTAATTGTTA
66 ATAT-AAATTATTAATTGTTA
3765398 ATTGTATTAA
Statistics
Matches: 80, Mismatches: 3, Indels: 3
0.93 0.03 0.03
Matches are distributed among these distances:
83 64 0.80
84 1 0.01
86 15 0.19
ACGTcount: A:0.38, C:0.05, G:0.08, T:0.49
Consensus pattern (85 bp):
CTAACATTTTGTTAGTAAAATTATTAATTGTTAATTGTATTAATTGTTACTAAAATTATCAAATT
ATATAAATTATTAATTGTTA
Found at i:3766082 original size:21 final size:21
Alignment explanation
Indices: 3766056--3766100 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
3766046 ATAAAATTTT
*
3766056 TTTATAATATATATTTTA-AAA
1 TTTATAATATA-ACTTTAGAAA
3766077 TTTATAATATAACTTTAGAAA
1 TTTATAATATAACTTTAGAAA
3766098 TTT
1 TTT
3766101 TTTGTCATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 5 0.23
21 17 0.77
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.51
Consensus pattern (21 bp):
TTTATAATATAACTTTAGAAA
Found at i:3770898 original size:9 final size:9
Alignment explanation
Indices: 3770878--3770961 Score: 82
Period size: 9 Copynumber: 9.1 Consensus size: 9
3770868 TTTTTTTTAC
3770878 TTTTAAAA-
1 TTTTAAAAT
3770886 TTTTAAAAT
1 TTTTAAAAT
3770895 TTTTAAAAT
1 TTTTAAAAT
** *
3770904 TTATATTTACT
1 TT-T-TAAAAT
3770915 TTTTAAAA-
1 TTTTAAAAT
3770923 TTTTAAGAAT
1 TTTTAA-AAT
3770933 TTTTAAATAT
1 TTTTAAA-AT
*
3770943 TTTTACAAT
1 TTTTAAAAT
3770952 TTTTAAAAT
1 TTTTAAAAT
3770961 T
1 T
3770962 CAGACTAAAA
Statistics
Matches: 62, Mismatches: 8, Indels: 11
0.77 0.10 0.14
Matches are distributed among these distances:
8 14 0.23
9 27 0.44
10 16 0.26
11 5 0.08
ACGTcount: A:0.40, C:0.02, G:0.01, T:0.56
Consensus pattern (9 bp):
TTTTAAAAT
Found at i:3770922 original size:29 final size:28
Alignment explanation
Indices: 3770886--3770961 Score: 91
Period size: 29 Copynumber: 2.7 Consensus size: 28
3770876 ACTTTTAAAA
**
3770886 TTTTAAAATTTTTAAAATTTATATTTACT
1 TTTTAAAATTTTTAAAATTTATAAATA-T
*
3770915 TTTTAAAA-TTTTAAGAATTTTTAAATAT
1 TTTTAAAATTTTTAA-AATTTATAAATAT
*
3770943 TTTTACAATTTTTAAAATT
1 TTTTAAAATTTTTAAAATT
3770962 CAGACTAAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
28 18 0.44
29 23 0.56
ACGTcount: A:0.39, C:0.03, G:0.01, T:0.57
Consensus pattern (28 bp):
TTTTAAAATTTTTAAAATTTATAAATAT
Found at i:3770955 original size:37 final size:36
Alignment explanation
Indices: 3770854--3770961 Score: 114
Period size: 37 Copynumber: 3.0 Consensus size: 36
3770844 ATTTTTTATA
* * * *
3770854 TAAAATCTTTAAATTTTTTTTTAC-TTTTAAAATTT
1 TAAAATTTTTAAAATTATATTTACTTTTTAAAATTT
3770889 TAAAATTTTTAAAATTTATATTTACTTTTTAAAATTT
1 TAAAATTTTTAAAA-TTATATTTACTTTTTAAAATTT
*
3770926 TAAGAATTTTT-AAA-TATTTTTACAATTTTTAAAATT
1 TAA-AATTTTTAAAATTATATTTAC--TTTTTAAAATT
3770962 CAGACTAAAA
Statistics
Matches: 63, Mismatches: 5, Indels: 8
0.83 0.07 0.11
Matches are distributed among these distances:
35 20 0.32
36 8 0.13
37 28 0.44
38 7 0.11
ACGTcount: A:0.39, C:0.04, G:0.01, T:0.56
Consensus pattern (36 bp):
TAAAATTTTTAAAATTATATTTACTTTTTAAAATTT
Found at i:3775315 original size:14 final size:14
Alignment explanation
Indices: 3775274--3775319 Score: 51
Period size: 14 Copynumber: 3.2 Consensus size: 14
3775264 TATTGAACAC
3775274 TATATAAATTT-T-T
1 TATA-AAATTTATAT
3775287 TATAAATATTTTATAT
1 TATAAA-A-TTTATAT
3775303 TATAAAATTTATAT
1 TATAAAATTTATAT
3775317 TAT
1 TAT
3775320 TTTTTACCTG
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
12 2 0.07
13 5 0.17
14 13 0.45
15 2 0.07
16 7 0.24
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (14 bp):
TATAAAATTTATAT
Found at i:3781899 original size:9 final size:9
Alignment explanation
Indices: 3781887--3781972 Score: 84
Period size: 9 Copynumber: 9.2 Consensus size: 9
3781877 ATTTTTTTAC
3781887 TTTTAAAAT
1 TTTTAAAAT
*
3781896 TTTTAAATT
1 TTTTAAAAT
*
3781905 TTTTATAAT
1 TTTTAAAAT
**
3781914 TTATATTTAAT
1 TT-T-TAAAAT
3781925 TTTTAAAA-
1 TTTTAAAAT
3781933 TTTTAAGAAT
1 TTTTAA-AAT
3781943 TTTTAAATAT
1 TTTTAAA-AT
*
3781953 TTTTATAAT
1 TTTTAAAAT
3781962 TTTTAAAAT
1 TTTTAAAAT
3781971 TT
1 TT
3781973 AGACTAAAAT
Statistics
Matches: 64, Mismatches: 8, Indels: 10
0.78 0.10 0.12
Matches are distributed among these distances:
8 6 0.09
9 35 0.55
10 16 0.25
11 7 0.11
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.60
Consensus pattern (9 bp):
TTTTAAAAT
Found at i:3781908 original size:18 final size:17
Alignment explanation
Indices: 3781887--3781972 Score: 82
Period size: 19 Copynumber: 4.6 Consensus size: 17
3781877 ATTTTTTTAC
3781887 TTTTAAAATTTTTAAATT
1 TTTTAAAATTTTTAAA-T
* *
3781905 TTTTATAATTTATATTTAAT
1 TTTTA-AAATT-T-TTAAAT
*
3781925 TTTTAAAATTTTAAGAAT
1 TTTTAAAATTTTTA-AAT
3781943 TTTTAAATATTTTTATAAT
1 TTTTAAA-ATTTTTA-AAT
3781962 TTTTAAAATTT
1 TTTTAAAATTT
3781973 AGACTAAAAT
Statistics
Matches: 56, Mismatches: 7, Indels: 10
0.77 0.10 0.14
Matches are distributed among these distances:
17 1 0.02
18 20 0.36
19 24 0.43
20 7 0.12
21 4 0.07
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.60
Consensus pattern (17 bp):
TTTTAAAATTTTTAAAT
Found at i:3781914 original size:10 final size:9
Alignment explanation
Indices: 3781887--3781972 Score: 59
Period size: 10 Copynumber: 9.1 Consensus size: 9
3781877 ATTTTTTTAC
*
3781887 TTTTAAAAT
1 TTTTAAATT
3781896 TTTTAAATT
1 TTTTAAATT
3781905 TTTTATAATT
1 TTTTA-AATT
*
3781915 TATATTTAA-T
1 T-T-TTAAATT
*
3781925 TTTTAAA-A
1 TTTTAAATT
*
3781933 TTTTAAGAAT
1 TTTTAA-ATT
3781943 TTTTAAATAT
1 TTTTAAAT-T
3781953 TTTTATAATT
1 TTTTA-AATT
*
3781963 TTTAAAATT
1 TTTTAAATT
3781972 T
1 T
3781973 AGACTAAAAT
Statistics
Matches: 63, Mismatches: 7, Indels: 14
0.75 0.08 0.17
Matches are distributed among these distances:
8 10 0.16
9 21 0.33
10 24 0.38
11 6 0.10
12 2 0.03
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.60
Consensus pattern (9 bp):
TTTTAAATT
Found at i:3781962 original size:37 final size:35
Alignment explanation
Indices: 3781862--3781972 Score: 116
Period size: 37 Copynumber: 3.0 Consensus size: 35
3781852 ATTTTTTATA
* * *
3781862 TAAAATCTTTAAAATATTTTTTTACTTTTAAAATTTT
1 TAAAAT-TTTTAAATATTTTTTAATTTTTAAAA-TTT
*
3781899 TAAATTTTTTATAAT-TTATATTTAATTTTTAAAATTT
1 TAAAATTTTTA-AATATT-T-TTTAATTTTTAAAATTT
3781936 TAAGAATTTTTAAATATTTTTATAATTTTTAAAATTT
1 TAA-AATTTTTAAATATTTTT-TAATTTTTAAAATTT
3781973 AGACTAAAAT
Statistics
Matches: 63, Mismatches: 5, Indels: 12
0.79 0.06 0.15
Matches are distributed among these distances:
36 8 0.13
37 34 0.54
38 21 0.33
ACGTcount: A:0.39, C:0.02, G:0.01, T:0.59
Consensus pattern (35 bp):
TAAAATTTTTAAATATTTTTTAATTTTTAAAATTT
Found at i:3782163 original size:22 final size:22
Alignment explanation
Indices: 3782132--3782203 Score: 62
Period size: 22 Copynumber: 3.5 Consensus size: 22
3782122 AGAATAACTA
*
3782132 AAATATTTAATTTCAAAAAATT
1 AAATAATTAATTTCAAAAAATT
** * *
3782154 AAATAATTAA----AATGACTA
1 AAATAATTAATTTCAAAAAATT
*
3782172 AAATATTTAATTTCAAAAAATT
1 AAATAATTAATTTCAAAAAATT
3782194 AAATAATTAA
1 AAATAATTAA
3782204 AACAAAAAAA
Statistics
Matches: 35, Mismatches: 11, Indels: 8
0.65 0.20 0.15
Matches are distributed among these distances:
18 13 0.37
22 22 0.63
ACGTcount: A:0.58, C:0.04, G:0.01, T:0.36
Consensus pattern (22 bp):
AAATAATTAATTTCAAAAAATT
Found at i:3782172 original size:40 final size:40
Alignment explanation
Indices: 3782128--3782205 Score: 156
Period size: 40 Copynumber: 1.9 Consensus size: 40
3782118 CGGAAGAATA
3782128 ACTAAAATATTTAATTTCAAAAAATTAAATAATTAAAATG
1 ACTAAAATATTTAATTTCAAAAAATTAAATAATTAAAATG
3782168 ACTAAAATATTTAATTTCAAAAAATTAAATAATTAAAA
1 ACTAAAATATTTAATTTCAAAAAATTAAATAATTAAAA
3782206 CAAAAAAATT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.59, C:0.05, G:0.01, T:0.35
Consensus pattern (40 bp):
ACTAAAATATTTAATTTCAAAAAATTAAATAATTAAAATG
Found at i:3790706 original size:21 final size:21
Alignment explanation
Indices: 3790680--3790720 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
3790670 ATCTGCTCAA
*
3790680 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGTTGTGGAGTAC
3790701 ACTCCACCTGTTGTGGAGTA
1 ACTCCACCTGTTGTGGAGTA
3790721 TTGCTCGTCT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.20, C:0.27, G:0.22, T:0.32
Consensus pattern (21 bp):
ACTCCACCTGTTGTGGAGTAC
Found at i:3801086 original size:26 final size:26
Alignment explanation
Indices: 3801057--3801108 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
3801047 CCAATGAATC
3801057 GGGGAATCAGCACACAGCAACCCCTT
1 GGGGAATCAGCACACAGCAACCCCTT
**
3801083 GGGGAATCAGCACTTAGCAACCCCTT
1 GGGGAATCAGCACACAGCAACCCCTT
3801109 TCACATTTCA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.29, C:0.33, G:0.23, T:0.15
Consensus pattern (26 bp):
GGGGAATCAGCACACAGCAACCCCTT
Found at i:3801282 original size:103 final size:103
Alignment explanation
Indices: 3801033--3801389 Score: 533
Period size: 103 Copynumber: 3.5 Consensus size: 103
3801023 GGTGGATTCT
* *
3801033 GCACTTAGCAACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCT-TGGGGAATCAGCACT
1 GCACTTAGCAACCACCAATGAATAGGGGAATCAGCACACAGCAACCCCTCGGGGGAATCAGCACT
* *
3801097 TAGCAA-CCCCTTTCACATTTCAG-ATGCGGTGGAATCA
66 TAGCAACCCCCTTTCACATTT-AGAATACGGTGGGATCA
* * ***
3801134 GCACTTAGCAACCACCAAATGAGTCGGGGAATCAGCACTTTGCAACCCCTCGGGGGAATCAGCAC
1 GCACTTAGCAACCACC-AATGAATAGGGGAATCAGCACACAGCAACCCCTCGGGGGAATCAGCAC
3801199 TTAGCAACCCCCTTTCACATTTAGAATACGGTGGGATCA
65 TTAGCAACCCCCTTTCACATTTAGAATACGGTGGGATCA
* ** *
3801238 GCACTTAGCAACCACCAAT-AGGTAGGGGAATCAGCACTTAGCAACCCCTCGGGAGAATCAGCAC
1 GCACTTAGCAACCACCAATGA-ATAGGGGAATCAGCACACAGCAACCCCTCGGGGGAATCAGCAC
*
3801302 TTAGCAACCCCCTTTCACATTTAAAATACGGTGGGATCA
65 TTAGCAACCCCCTTTCACATTTAGAATACGGTGGGATCA
3801341 GCACTTAGCAACCACCAATGAATAGGGGAATCAGCACACAGCAACCCCT
1 GCACTTAGCAACCACCAATGAATAGGGGAATCAGCACACAGCAACCCCT
3801390 TTATAAGCAA
Statistics
Matches: 236, Mismatches: 14, Indels: 10
0.91 0.05 0.04
Matches are distributed among these distances:
101 16 0.07
102 30 0.13
103 147 0.62
104 43 0.18
ACGTcount: A:0.31, C:0.29, G:0.21, T:0.18
Consensus pattern (103 bp):
GCACTTAGCAACCACCAATGAATAGGGGAATCAGCACACAGCAACCCCTCGGGGGAATCAGCACT
TAGCAACCCCCTTTCACATTTAGAATACGGTGGGATCA
Found at i:3803405 original size:11 final size:10
Alignment explanation
Indices: 3803391--3803474 Score: 59
Period size: 9 Copynumber: 8.4 Consensus size: 10
3803381 AAATTAAAAA
3803391 AAAAGTATTTT
1 AAAA-TATTTT
*
3803402 AAAAATAGTTT
1 -AAAATATTTT
**
3803413 AAAAT-TTAA
1 AAAATATTTT
* *
3803422 AAAAAATTTA
1 AAAATATTTT
3803432 AAAAGTATTTT
1 AAAA-TATTTT
3803443 AAAAATATTTT
1 -AAAATATTTT
3803454 -AAA-ATTTT
1 AAAATATTTT
3803462 AAAAT-TTTT
1 AAAATATTTT
3803471 AAAA
1 AAAA
3803475 AGTGTTTTAA
Statistics
Matches: 59, Mismatches: 8, Indels: 13
0.74 0.10 0.16
Matches are distributed among these distances:
8 5 0.08
9 19 0.32
10 12 0.20
11 15 0.25
12 8 0.14
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (10 bp):
AAAATATTTT
Found at i:3803436 original size:41 final size:40
Alignment explanation
Indices: 3803367--3803486 Score: 141
Period size: 41 Copynumber: 2.9 Consensus size: 40
3803357 AAAAATTTAT
* *
3803367 TTTAAAAATTAAAAAAATTAAAAAAAAAGTATTTTAAAAATAG
1 TTTAAAATTTAAAAAAATT---TAAAAAGTATTTTAAAAATAG
*
3803410 TTTAAAATTTAAAAAAAATTTAAAAAGTATTTTAAAAATAT
1 TTTAAAATTT-AAAAAAATTTAAAAAGTATTTTAAAAATAG
* ** *
3803451 TTTAAAATTTTAAAATTTTTAAAAAGTGTTTTAAAA
1 TTTAAAATTTAAAAAAATTTAAAAAGTATTTTAAAA
3803487 TTAAAAAAAT
Statistics
Matches: 69, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
40 22 0.32
41 29 0.42
43 9 0.13
44 9 0.13
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.38
Consensus pattern (40 bp):
TTTAAAATTTAAAAAAATTTAAAAAGTATTTTAAAAATAG
Found at i:3803483 original size:29 final size:30
Alignment explanation
Indices: 3803424--3803494 Score: 92
Period size: 29 Copynumber: 2.4 Consensus size: 30
3803414 AAATTTAAAA
3803424 AAAATTTAAAAAGTATTTTAAAAATATTTT
1 AAAATTTAAAAAGTATTTTAAAAATATTTT
* *
3803454 AAAATTTTAAAA-T-TTTTAAAAAGTGTTTT
1 AAAATTTAAAAAGTATTTTAAAAA-TATTTT
*
3803483 AAAATTAAAAAA
1 AAAATTTAAAAA
3803495 ATAAAAATAA
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
28 9 0.25
29 16 0.44
30 11 0.31
ACGTcount: A:0.55, C:0.00, G:0.04, T:0.41
Consensus pattern (30 bp):
AAAATTTAAAAAGTATTTTAAAAATATTTT
Found at i:3813095 original size:23 final size:23
Alignment explanation
Indices: 3813067--3813113 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
3813057 GTCTTTCTAC
*
3813067 TTAGGTTTAATCAATATTAAATT
1 TTAGGTTTAATCAATATAAAATT
*
3813090 TTAGGTTTAATCAGTATAAAATT
1 TTAGGTTTAATCAATATAAAATT
3813113 T
1 T
3813114 AAGAAAATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.38, C:0.04, G:0.11, T:0.47
Consensus pattern (23 bp):
TTAGGTTTAATCAATATAAAATT
Found at i:3814245 original size:19 final size:19
Alignment explanation
Indices: 3814223--3814263 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
3814213 TTTATTAGTA
3814223 AACAATTTTTAAATTACAT
1 AACAATTTTTAAATTACAT
*
3814242 AACAATTTTTAAATTATAT
1 AACAATTTTTAAATTACAT
3814261 AAC
1 AAC
3814264 TTACATAACT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.49, C:0.10, G:0.00, T:0.41
Consensus pattern (19 bp):
AACAATTTTTAAATTACAT
Found at i:3814319 original size:17 final size:18
Alignment explanation
Indices: 3814299--3814332 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
3814289 ACATTTTTAA
3814299 TATATATTTTT-AAAATC
1 TATATATTTTTCAAAATC
*
3814316 TATATTTTTTTCAAAAT
1 TATATATTTTTCAAAAT
3814333 TTATCAATCA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.38, C:0.06, G:0.00, T:0.56
Consensus pattern (18 bp):
TATATATTTTTCAAAATC
Found at i:3814357 original size:25 final size:25
Alignment explanation
Indices: 3814329--3814379 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
3814319 ATTTTTTTCA
*
3814329 AAATTTATCAATCATAGCATAACTT
1 AAATTTATCAACCATAGCATAACTT
*
3814354 AAATTTATCAACCATATCATAACTT
1 AAATTTATCAACCATAGCATAACTT
3814379 A
1 A
3814380 TATATAAACT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.45, C:0.18, G:0.02, T:0.35
Consensus pattern (25 bp):
AAATTTATCAACCATAGCATAACTT
Found at i:3814472 original size:19 final size:19
Alignment explanation
Indices: 3814448--3814491 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
3814438 TATAAACTTG
3814448 CATAACAATTTTTAAATTA
1 CATAACAATTTTTAAATTA
*
3814467 CATAACAATTTTTAGATTA
1 CATAACAATTTTTAAATTA
*
3814486 TATAAC
1 CATAAC
3814492 TTACATAACT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.45, C:0.11, G:0.02, T:0.41
Consensus pattern (19 bp):
CATAACAATTTTTAAATTA
Found at i:3814547 original size:17 final size:18
Alignment explanation
Indices: 3814527--3814560 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
3814517 ACATTTTTAA
3814527 TATATATTTTT-AAAATC
1 TATATATTTTTCAAAATC
*
3814544 TATATTTTTTTCAAAAT
1 TATATATTTTTCAAAAT
3814561 TTATCAATCA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.38, C:0.06, G:0.00, T:0.56
Consensus pattern (18 bp):
TATATATTTTTCAAAATC
Done.