Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032244.1 Gossypioides kirkii chromosome KI_01
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: 38174113
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 1000 characters in sequence are not A, C, G, or T
File 112 of 126
Found at i:33440253 original size:43 final size:43
Alignment explanation
Indices: 33440205--33440304 Score: 157
Period size: 43 Copynumber: 2.3 Consensus size: 43
33440195 ATTCATTGAT
33440205 ATGTTATTAAATTATATTACTTGACTCGTGTTAATATGGTGAC
1 ATGTTATTAAATTATATTACTTGACTCGTGTTAATATGGTGAC
* ** *
33440248 ATGTTACTAAATTATATTACTTGACTTTTGTTAATATTGTGAC
1 ATGTTATTAAATTATATTACTTGACTCGTGTTAATATGGTGAC
33440291 ATGTTATT-AATTAT
1 ATGTTATTAAATTAT
33440305 GTAATTCATC
Statistics
Matches: 52, Mismatches: 5, Indels: 1
0.90 0.09 0.02
Matches are distributed among these distances:
42 6 0.12
43 46 0.88
ACGTcount: A:0.31, C:0.08, G:0.13, T:0.48
Consensus pattern (43 bp):
ATGTTATTAAATTATATTACTTGACTCGTGTTAATATGGTGAC
Found at i:33441346 original size:14 final size:14
Alignment explanation
Indices: 33441327--33441372 Score: 58
Period size: 14 Copynumber: 3.3 Consensus size: 14
33441317 TTTGCATAAA
*
33441327 TTAAACCTTAAACC
1 TTAAACCCTAAACC
33441341 TTAAACCCTAAACAC
1 TTAAACCCTAAAC-C
*
33441356 -TAAACCCTAGACC
1 TTAAACCCTAAACC
33441369 TTAA
1 TTAA
33441373 TTCTCTAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
13 1 0.04
14 26 0.93
15 1 0.04
ACGTcount: A:0.43, C:0.30, G:0.02, T:0.24
Consensus pattern (14 bp):
TTAAACCCTAAACC
Found at i:33441617 original size:26 final size:26
Alignment explanation
Indices: 33441577--33441626 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
33441567 CCTTAAACCA
*
33441577 AAATACAAACATAAAAATTATTAATT
1 AAATACAAACATAAAAATAATTAATT
** *
33441603 AAATACAAATTTAAACATAATTAA
1 AAATACAAACATAAAAATAATTAA
33441627 ATTCAAATTC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.62, C:0.08, G:0.00, T:0.30
Consensus pattern (26 bp):
AAATACAAACATAAAAATAATTAATT
Found at i:33444544 original size:21 final size:21
Alignment explanation
Indices: 33444514--33444567 Score: 101
Period size: 21 Copynumber: 2.6 Consensus size: 21
33444504 TGAATTCTCT
33444514 TAATT-AAAGGTATTAAATAC
1 TAATTGAAAGGTATTAAATAC
33444534 TAATTGAAAGGTATTAAATAC
1 TAATTGAAAGGTATTAAATAC
33444555 TAATTGAAAGGTA
1 TAATTGAAAGGTA
33444568 AGTTAAAGTA
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
20 5 0.15
21 28 0.85
ACGTcount: A:0.48, C:0.04, G:0.15, T:0.33
Consensus pattern (21 bp):
TAATTGAAAGGTATTAAATAC
Found at i:33446217 original size:20 final size:20
Alignment explanation
Indices: 33446192--33446245 Score: 81
Period size: 20 Copynumber: 2.7 Consensus size: 20
33446182 AGTCTTCAAG
33446192 GTATCGATAGAAGTGGAGTT
1 GTATCGATAGAAGTGGAGTT
*
33446212 GTATCGATAGCAGTGGAGTT
1 GTATCGATAGAAGTGGAGTT
* *
33446232 CTATCGGTAGAAGT
1 GTATCGATAGAAGT
33446246 CTCACTGGAG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.28, C:0.09, G:0.33, T:0.30
Consensus pattern (20 bp):
GTATCGATAGAAGTGGAGTT
Found at i:33454591 original size:22 final size:22
Alignment explanation
Indices: 33454533--33454592 Score: 59
Period size: 22 Copynumber: 2.7 Consensus size: 22
33454523 CAAAAATGAT
*
33454533 AAAATTTTAATTTAATCATTTA
1 AAAATTATAATTTAATCATTTA
* * *
33454555 AAAATTACACTTTTA-CTATTGTA
1 AAAATTATAATTTAATC-ATT-TA
33454578 AAAATTATAATTTAA
1 AAAATTATAATTTAA
33454593 CTTCGGTCCC
Statistics
Matches: 29, Mismatches: 7, Indels: 3
0.74 0.18 0.08
Matches are distributed among these distances:
21 1 0.03
22 14 0.48
23 14 0.48
ACGTcount: A:0.47, C:0.07, G:0.02, T:0.45
Consensus pattern (22 bp):
AAAATTATAATTTAATCATTTA
Found at i:33456752 original size:22 final size:23
Alignment explanation
Indices: 33456727--33456769 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
33456717 TTCCAACTTG
33456727 ATATGTTGGAGG-ATCATCAACA
1 ATATGTTGGAGGCATCATCAACA
*
33456749 ATATGTTGGAGGCATTATCAA
1 ATATGTTGGAGGCATCATCAA
33456770 TTTGGAATCA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.35, C:0.12, G:0.23, T:0.30
Consensus pattern (23 bp):
ATATGTTGGAGGCATCATCAACA
Found at i:33459240 original size:17 final size:17
Alignment explanation
Indices: 33459218--33459256 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
33459208 CTCCACCTTG
* *
33459218 ACAAGAATTCTTTACGA
1 ACAAGAACTCTTAACGA
33459235 ACAAGAACTCTTAACGA
1 ACAAGAACTCTTAACGA
33459252 ACAAG
1 ACAAG
33459257 TTCTCCACCT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.46, C:0.21, G:0.13, T:0.21
Consensus pattern (17 bp):
ACAAGAACTCTTAACGA
Found at i:33463228 original size:21 final size:22
Alignment explanation
Indices: 33463192--33463237 Score: 67
Period size: 21 Copynumber: 2.1 Consensus size: 22
33463182 ACCCATTAAG
33463192 CCCAAATCCTATTTAAAACAAA
1 CCCAAATCCTATTTAAAACAAA
* *
33463214 CCCAAATTC-ATTTAAACCAAA
1 CCCAAATCCTATTTAAAACAAA
33463235 CCC
1 CCC
33463238 TTTTGAACCA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 14 0.64
22 8 0.36
ACGTcount: A:0.46, C:0.33, G:0.00, T:0.22
Consensus pattern (22 bp):
CCCAAATCCTATTTAAAACAAA
Found at i:33463301 original size:10 final size:10
Alignment explanation
Indices: 33463288--33463365 Score: 57
Period size: 10 Copynumber: 7.6 Consensus size: 10
33463278 AGTCAAACCA
33463288 TTGACCGACG
1 TTGACCGACG
* ***
33463298 TTGACTGGTA
1 TTGACCGACG
*
33463308 TTGATCGACG
1 TTGACCGACG
*
33463318 TTGACCGGCG
1 TTGACCGACG
*
33463328 TTGACCGGCG
1 TTGACCGACG
33463338 TTGACCGACTG
1 TTGACCGAC-G
* *
33463349 TCGACTGACCG
1 TTGACCGA-CG
33463360 TTGACC
1 TTGACC
33463366 ATTGACCGTT
Statistics
Matches: 50, Mismatches: 16, Indels: 3
0.72 0.23 0.04
Matches are distributed among these distances:
10 37 0.74
11 12 0.24
12 1 0.02
ACGTcount: A:0.17, C:0.27, G:0.31, T:0.26
Consensus pattern (10 bp):
TTGACCGACG
Found at i:33463331 original size:20 final size:20
Alignment explanation
Indices: 33463286--33463344 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
33463276 CAAGTCAAAC
*
33463286 CATTGACCGACGTTGACTGG
1 CATTGACCGACGTTGACCGG
* *
33463306 TATTGATCGACGTTGACCGG
1 CATTGACCGACGTTGACCGG
* *
33463326 CGTTGACCGGCGTTGACCG
1 CATTGACCGACGTTGACCG
33463345 ACTGTCGACT
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.17, C:0.25, G:0.32, T:0.25
Consensus pattern (20 bp):
CATTGACCGACGTTGACCGG
Found at i:33464441 original size:3 final size:3
Alignment explanation
Indices: 33464429--33464461 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
33464419 TATTCTATTC
33464429 TAT T-T TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
33464462 TTGGGATGTA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.07
3 27 0.93
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (3 bp):
TAT
Found at i:33470446 original size:21 final size:22
Alignment explanation
Indices: 33470410--33470455 Score: 76
Period size: 21 Copynumber: 2.1 Consensus size: 22
33470400 ACCCATTAAG
33470410 CCCAAATCCTATTTAAACCAAA
1 CCCAAATCCTATTTAAACCAAA
*
33470432 CCCAAATTC-ATTTAAACCAAA
1 CCCAAATCCTATTTAAACCAAA
33470453 CCC
1 CCC
33470456 TTTTGAACCA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 15 0.65
22 8 0.35
ACGTcount: A:0.43, C:0.35, G:0.00, T:0.22
Consensus pattern (22 bp):
CCCAAATCCTATTTAAACCAAA
Found at i:33470519 original size:10 final size:10
Alignment explanation
Indices: 33470506--33470541 Score: 54
Period size: 10 Copynumber: 3.6 Consensus size: 10
33470496 AGTCAAACCA
*
33470506 TTGACCGACG
1 TTGACCGGCG
*
33470516 TTGACCGGCA
1 TTGACCGGCG
33470526 TTGACCGGCG
1 TTGACCGGCG
33470536 TTGACC
1 TTGACC
33470542 TACCGTCGAC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.17, C:0.31, G:0.31, T:0.22
Consensus pattern (10 bp):
TTGACCGGCG
Found at i:33470529 original size:20 final size:20
Alignment explanation
Indices: 33470504--33470541 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
33470494 CAAGTCAAAC
33470504 CATTGACCGACGTTGACCGG
1 CATTGACCGACGTTGACCGG
*
33470524 CATTGACCGGCGTTGACC
1 CATTGACCGACGTTGACC
33470542 TACCGTCGAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.18, C:0.32, G:0.29, T:0.21
Consensus pattern (20 bp):
CATTGACCGACGTTGACCGG
Found at i:33470584 original size:14 final size:13
Alignment explanation
Indices: 33470550--33470589 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
33470540 CCTACCGTCG
33470550 ACTGACCGTTGAC
1 ACTGACCGTTGAC
**
33470563 TTTGACCGTTGATC
1 ACTGACCGTTGA-C
33470577 ACTGACCGTTGAC
1 ACTGACCGTTGAC
33470590 TTTTTTTCGA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
13 11 0.50
14 11 0.50
ACGTcount: A:0.20, C:0.28, G:0.23, T:0.30
Consensus pattern (13 bp):
ACTGACCGTTGAC
Found at i:33471652 original size:3 final size:3
Alignment explanation
Indices: 33471640--33471678 Score: 62
Period size: 3 Copynumber: 13.3 Consensus size: 3
33471630 TATTCTATTC
*
33471640 TAT T-T TAT TAT TAT TAT TGT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
33471679 TTGGGATGTA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
2 2 0.06
3 31 0.94
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (3 bp):
TAT
Found at i:33477286 original size:2 final size:2
Alignment explanation
Indices: 33477273--33477303 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
33477263 TAGGTGGTGG
*
33477273 AT AT AC AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
33477304 AAAGGACTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:33478001 original size:16 final size:17
Alignment explanation
Indices: 33477969--33478002 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
33477959 TTTATATAAC
*
33477969 TACAAATTCACATACAT
1 TACAAATACACATACAT
33477986 TACAAATACA-ATACAT
1 TACAAATACACATACAT
33478002 T
1 T
33478003 GAACTTACAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.50, C:0.21, G:0.00, T:0.29
Consensus pattern (17 bp):
TACAAATACACATACAT
Found at i:33478315 original size:22 final size:22
Alignment explanation
Indices: 33478287--33478349 Score: 99
Period size: 22 Copynumber: 2.9 Consensus size: 22
33478277 AACAAAATGG
33478287 ACAGTGAGATTCTCTGGCATGA
1 ACAGTGAGATTCTCTGGCATGA
* *
33478309 ACAGTGATATTCTCTGACATGA
1 ACAGTGAGATTCTCTGGCATGA
*
33478331 ATAGTGAGATTCTCTGGCA
1 ACAGTGAGATTCTCTGGCA
33478350 ATATTCACTG
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 36 1.00
ACGTcount: A:0.29, C:0.17, G:0.24, T:0.30
Consensus pattern (22 bp):
ACAGTGAGATTCTCTGGCATGA
Found at i:33478385 original size:92 final size:91
Alignment explanation
Indices: 33478269--33478447 Score: 259
Period size: 92 Copynumber: 2.0 Consensus size: 91
33478259 ATATTTCCTA
* * *
33478269 CAAGAAAAAACAAAATGGACAGTGAGATTCTCTGGCATGAACAGTGATATTCTCTGACATGAATA
1 CAAGAAAAAACAAAATGAACAGTGAGATTCTCTGACATGAACAATGATATTCTCTGACATGAATA
* *
33478334 GTGAGATTCTCTGGCAATATTCACTG
66 ATGAGATTCTCTGACAATATTCACTG
* * * * *
33478360 CAAGAAAAAAACAAAATGAATAGTGAGATTCTTTGACATGAACAATGATATTCTTTTACATTAAT
1 CAAG-AAAAAACAAAATGAACAGTGAGATTCTCTGACATGAACAATGATATTCTCTGACATGAAT
33478425 AATGAGATTCTCTGACAATATTC
65 AATGAGATTCTCTGACAATATTC
33478448 TCTTGTAATT
Statistics
Matches: 77, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
91 4 0.05
92 73 0.95
ACGTcount: A:0.40, C:0.15, G:0.17, T:0.29
Consensus pattern (91 bp):
CAAGAAAAAACAAAATGAACAGTGAGATTCTCTGACATGAACAATGATATTCTCTGACATGAATA
ATGAGATTCTCTGACAATATTCACTG
Found at i:33478412 original size:22 final size:22
Alignment explanation
Indices: 33478383--33478441 Score: 73
Period size: 22 Copynumber: 2.7 Consensus size: 22
33478373 AAATGAATAG
33478383 TGAGATTCTTTGACATGAACAA
1 TGAGATTCTTTGACATGAACAA
* * * *
33478405 TGATATTCTTTTACATTAATAA
1 TGAGATTCTTTGACATGAACAA
*
33478427 TGAGATTCTCTGACA
1 TGAGATTCTTTGACA
33478442 ATATTCTCTT
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.34, C:0.14, G:0.14, T:0.39
Consensus pattern (22 bp):
TGAGATTCTTTGACATGAACAA
Found at i:33480119 original size:61 final size:60
Alignment explanation
Indices: 33480023--33480146 Score: 221
Period size: 61 Copynumber: 2.0 Consensus size: 60
33480013 ATTTTTGTTT
* *
33480023 CGCATCATTTCTTCGCTTCTAATTGGTTGTTTAACGTCACGTCACCTCCCCTTGCATCCTC
1 CGCATCATTTCTTCGCTTCTAATTGGTTGTGTAACGCCACGTCACCT-CCCTTGCATCCTC
33480084 CGCATCATTTCTTCGCTTCTAATTGGTTGTGTAACGCCACGTCACCTCCCTTGCATCCTC
1 CGCATCATTTCTTCGCTTCTAATTGGTTGTGTAACGCCACGTCACCTCCCTTGCATCCTC
33480144 CGC
1 CGC
33480147 CACATATCTA
Statistics
Matches: 61, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
60 16 0.26
61 45 0.74
ACGTcount: A:0.15, C:0.35, G:0.15, T:0.35
Consensus pattern (60 bp):
CGCATCATTTCTTCGCTTCTAATTGGTTGTGTAACGCCACGTCACCTCCCTTGCATCCTC
Found at i:33489435 original size:18 final size:18
Alignment explanation
Indices: 33489414--33489448 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
33489404 AAAGAGATAT
* *
33489414 TAATTAATAATATTATTA
1 TAATAAATAATAATATTA
33489432 TAATAAATAATAATATT
1 TAATAAATAATAATATT
33489449 TTATTATTTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (18 bp):
TAATAAATAATAATATTA
Found at i:33489461 original size:21 final size:21
Alignment explanation
Indices: 33489412--33489466 Score: 60
Period size: 21 Copynumber: 2.6 Consensus size: 21
33489402 CAAAAGAGAT
33489412 ATTAATTAATAATATTATTATA
1 ATTAA-TAATAATATTATTATA
*
33489434 ATAAATAATAATATT-TTATTA
1 ATTAATAATAATATTATTA-TA
*
33489455 TTTAAT-ATAATA
1 ATTAATAATAATA
33489467 AAATATAAGA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
20 9 0.31
21 16 0.55
22 4 0.14
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
ATTAATAATAATATTATTATA
Found at i:33493935 original size:29 final size:28
Alignment explanation
Indices: 33493865--33494105 Score: 143
Period size: 29 Copynumber: 8.2 Consensus size: 28
33493855 ACCCGAGGGC
*
33493865 AAAATGGTAATTTTTGGTGAAA-TCGGGGT
1 AAAATGGTAA-TTTTGG-AAAATTCGGGGT
* * *
33493894 CGAAAATAG-AATTTTAGAAAATTTGGGGAT
1 --AAAATGGTAATTTTGGAAAATTCGGGG-T
* **
33493924 AAAATGGTAATTTTGGTGAAA-TCAGGATT
1 AAAATGGTAATTTTGG-AAAATTC-GGGGT
* * *
33493953 AAAAATGG-AATTTTAGAGAGTTCGGGGGT
1 -AAAATGGTAATTTTGGAAAATTC-GGGGT
*
33493982 AAAATGGTAATTTTTGGTGAAA-TCGGGGTT
1 AAAATGGTAA-TTTTGG-AAAATTCGGGG-T
*
33494012 AAAATGG-AATTTTGGAAAGTTCGAGGGT
1 AAAATGGTAATTTTGGAAAATTCG-GGGT
** *
33494040 AAAATGGTAATTTTTGGAAGTTTAGGGGT
1 AAAATGGTAA-TTTTGGAAAATTCGGGGT
**
33494069 AAAATGGTAATTTTTGGAAGTTTCGGGGT
1 AAAATGGTAA-TTTTGGAAAATTCGGGGT
33494098 CAAAATGG
1 -AAAATGG
33494106 ATTTTTTTTG
Statistics
Matches: 167, Mismatches: 27, Indels: 33
0.74 0.12 0.15
Matches are distributed among these distances:
27 2 0.01
28 34 0.20
29 76 0.46
30 48 0.29
31 7 0.04
ACGTcount: A:0.34, C:0.03, G:0.29, T:0.33
Consensus pattern (28 bp):
AAAATGGTAATTTTGGAAAATTCGGGGT
Found at i:33493951 original size:28 final size:29
Alignment explanation
Indices: 33493920--33494053 Score: 107
Period size: 30 Copynumber: 4.6 Consensus size: 29
33493910 GAAAATTTGG
33493920 GGATAAAATGGTAATTTTGGTGAAATC-A
1 GGATAAAATGGTAATTTTGGTGAAATCGA
* * ** *
33493948 GGATTAAAAATGG-AATTTTAGAGAGTTCGG
1 GGA-T-AAAATGGTAATTTTGGTGAAATCGA
* *
33493978 GGGTAAAATGGTAATTTTTGGTGAAATCGG
1 GGATAAAATGGTAA-TTTTGGTGAAATCGA
*
33494008 GGTTAAAATGG-AATTTT-G-GAAAGTTCGA
1 GGATAAAATGGTAATTTTGGTGAAA--TCGA
*
33494036 GGGTAAAATGGTAATTTT
1 GGATAAAATGGTAATTTT
33494054 TGGAAGTTTA
Statistics
Matches: 85, Mismatches: 13, Indels: 15
0.75 0.12 0.13
Matches are distributed among these distances:
26 4 0.05
27 1 0.01
28 27 0.32
29 23 0.27
30 30 0.35
ACGTcount: A:0.35, C:0.03, G:0.29, T:0.33
Consensus pattern (29 bp):
GGATAAAATGGTAATTTTGGTGAAATCGA
Found at i:33493958 original size:58 final size:57
Alignment explanation
Indices: 33493865--33494056 Score: 260
Period size: 58 Copynumber: 3.3 Consensus size: 57
33493855 ACCCGAGGGC
* * * *
33493865 AAAATGGTAATTTTTGGTGAAATCGGGGTCGAAAATAGAATTTTAGAAAATTTGGGGAT
1 AAAATGGTAATTTTTGGTGAAATCGGGGT-TAAAATGGAATTTTAGAAAGTTCGGGG-T
* * *
33493924 AAAATGGTAA-TTTTGGTGAAATCAGGATTAAAAATGGAATTTTAGAGAGTTCGGGGGT
1 AAAATGGTAATTTTTGGTGAAATCGGGGTT-AAAATGGAATTTTAGAAAGTTC-GGGGT
*
33493982 AAAATGGTAATTTTTGGTGAAATCGGGGTTAAAATGGAATTTTGGAAAGTTCGAGGGT
1 AAAATGGTAATTTTTGGTGAAATCGGGGTTAAAATGGAATTTTAGAAAGTTCG-GGGT
33494040 AAAATGGTAATTTTTGG
1 AAAATGGTAATTTTTGG
33494057 AAGTTTAGGG
Statistics
Matches: 118, Mismatches: 11, Indels: 9
0.86 0.08 0.07
Matches are distributed among these distances:
57 1 0.01
58 86 0.73
59 31 0.26
ACGTcount: A:0.35, C:0.03, G:0.29, T:0.33
Consensus pattern (57 bp):
AAAATGGTAATTTTTGGTGAAATCGGGGTTAAAATGGAATTTTAGAAAGTTCGGGGT
Found at i:33494023 original size:87 final size:87
Alignment explanation
Indices: 33493918--33494085 Score: 202
Period size: 87 Copynumber: 1.9 Consensus size: 87
33493908 TAGAAAATTT
* *
33493918 GGGGATAAAATGGTAATTTTGGTGAAA-TC-AGGATTAAAAATGG-AATTTTA-GAGAGTTCGGG
1 GGGGATAAAATGGTAATTTT-G-GAAAGTCGAGG-GT-AAAATGGTAATTTTAGGA-AGTTCAGG
33493979 GGTAAAATGGTAATTTTTGGTGAAATC
61 GGTAAAATGGTAATTTTTGGTGAAATC
* * *
33494006 GGGGTTAAAATGG-AATTTTGGAAAGTTCGAGGGTAAAATGGTAATTTTTGGAAGTTTAGGGGTA
1 GGGGATAAAATGGTAATTTTGGAAAG-TCGAGGGTAAAATGGTAATTTTAGGAAGTTCAGGGGTA
33494070 AAATGGTAATTTTTGG
65 AAATGGTAATTTTTGG
33494086 AAGTTTCGGG
Statistics
Matches: 70, Mismatches: 5, Indels: 11
0.81 0.06 0.13
Matches are distributed among these distances:
85 4 0.06
86 8 0.11
87 41 0.59
88 17 0.24
ACGTcount: A:0.33, C:0.02, G:0.31, T:0.33
Consensus pattern (87 bp):
GGGGATAAAATGGTAATTTTGGAAAGTCGAGGGTAAAATGGTAATTTTAGGAAGTTCAGGGGTAA
AATGGTAATTTTTGGTGAAATC
Found at i:33494068 original size:58 final size:56
Alignment explanation
Indices: 33493865--33494145 Score: 187
Period size: 58 Copynumber: 4.8 Consensus size: 56
33493855 ACCCGAGGGC
* * * * * * *
33493865 AAAATGGTAATTTTTGGTGAA-ATCGGGGTCGAAAATAGAATTTTAGAAAATTTGGGGAT
1 AAAATGGTAATTTTT-G-GAATTTAGGGGT-TAAAATGGAATTTTGGAAAGTTCGGGG-T
* * * * * *
33493924 AAAATGGTAATTTTGGTGAAATCA-GGATTAAAAATGGAATTTTAGAGAGTTCGGGGGT
1 AAAATGGTAATTTTTG-GAATTTAGGGGTT-AAAATGGAATTTTGGAAAGTTC-GGGGT
* *
33493982 AAAATGGTAATTTTTGGTGAA-ATCGGGGTTAAAATGGAATTTTGGAAAGTTCGAGGGT
1 AAAATGGTAATTTTT-G-GAATTTAGGGGTTAAAATGGAATTTTGGAAAGTTCG-GGGT
33494040 AAAATGGTAATTTTTGGAAGTTTAGGGG-TAAAATGGTAATTTTTGG-AAGTTTCGGGGT
1 AAAATGGTAATTTTTGGAA-TTTAGGGGTTAAAATGG-AA-TTTTGGAAAG-TTCGGGGT
** * *
33494098 CAAAATGGATTTTTTTTGAAATTTTA-GGGTTAAAATGCAATTTCTGGA
1 -AAAATGG-TAATTTTTGGAA-TTTAGGGGTTAAAATGGAATTT-TGGA
33494146 CTGTTTGGGG
Statistics
Matches: 182, Mismatches: 24, Indels: 31
0.77 0.10 0.13
Matches are distributed among these distances:
56 3 0.02
57 10 0.05
58 97 0.53
59 52 0.29
60 20 0.11
ACGTcount: A:0.34, C:0.04, G:0.28, T:0.35
Consensus pattern (56 bp):
AAAATGGTAATTTTTGGAATTTAGGGGTTAAAATGGAATTTTGGAAAGTTCGGGGT
Found at i:33494113 original size:30 final size:29
Alignment explanation
Indices: 33493977--33494105 Score: 151
Period size: 29 Copynumber: 4.4 Consensus size: 29
33493967 AGAGAGTTCG
*
33493977 GGGGTAAAATGGTAATTTTTGGTGAA--ATC
1 GGGGTAAAATGGTAATTTTT-G-GAAGTTTC
33494006 GGGGTTAAAATGG-AA-TTTTGGAAAG-TTC
1 GGGG-TAAAATGGTAATTTTTGG-AAGTTTC
*
33494034 GAGGGTAAAATGGTAATTTTTGGAAGTTTA
1 G-GGGTAAAATGGTAATTTTTGGAAGTTTC
33494064 GGGGTAAAATGGTAATTTTTGGAAGTTTC
1 GGGGTAAAATGGTAATTTTTGGAAGTTTC
33494093 GGGGTCAAAATGG
1 GGGGT-AAAATGG
33494106 ATTTTTTTTG
Statistics
Matches: 89, Mismatches: 3, Indels: 15
0.83 0.03 0.14
Matches are distributed among these distances:
26 1 0.01
27 3 0.03
28 15 0.17
29 46 0.52
30 24 0.27
ACGTcount: A:0.31, C:0.03, G:0.33, T:0.33
Consensus pattern (29 bp):
GGGGTAAAATGGTAATTTTTGGAAGTTTC
Found at i:33494133 original size:30 final size:30
Alignment explanation
Indices: 33493981--33494134 Score: 97
Period size: 30 Copynumber: 5.2 Consensus size: 30
33493971 AGTTCGGGGG
**
33493981 TAAAATGGTAATTTTTGGTGAAA--TCGGGGT
1 TAAAATGGTAATTTTT--TGAAATTTTAGGGT
* **
33494011 TAAAATGG-AA-TTTTGGAAAGTTCGAGGG-
1 TAAAATGGTAATTTTTTGAAA-TTTTAGGGT
* * *
33494039 TAAAATGGTAA-TTTTTGGAAGTTTAGGGG
1 TAAAATGGTAATTTTTTGAAATTTTAGGGT
* * **
33494068 TAAAATGGTAATTTTTGGAAGTTTCGGGGT
1 TAAAATGGTAATTTTTTGAAATTTTAGGGT
* *
33494098 CAAAATGG-ATTTTTTTTGAAATTTTAGGGT
1 TAAAATGGTA-ATTTTTTGAAATTTTAGGGT
33494128 TAAAATG
1 TAAAATG
33494135 CAATTTCTGG
Statistics
Matches: 94, Mismatches: 23, Indels: 14
0.72 0.18 0.11
Matches are distributed among these distances:
26 4 0.04
28 17 0.18
29 26 0.28
30 47 0.50
ACGTcount: A:0.32, C:0.03, G:0.28, T:0.38
Consensus pattern (30 bp):
TAAAATGGTAATTTTTTGAAATTTTAGGGT
Found at i:33496069 original size:7 final size:6
Alignment explanation
Indices: 33496050--33496131 Score: 64
Period size: 6 Copynumber: 13.8 Consensus size: 6
33496040 TTAATATTAT
* *
33496050 TTTAAA TTTAAA TTTAAA -ATAAA TTTAAA TAAATAAA TTTAAA TTTAAGA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA T--TTAAA TTTAAA TTTAA-A
* * *
33496100 --TAAA TTTAAA TTCAAA -ATAAA TTTAAA ATTAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAA
33496132 TTTGAACTTA
Statistics
Matches: 60, Mismatches: 9, Indels: 14
0.72 0.11 0.17
Matches are distributed among these distances:
4 1 0.02
5 10 0.17
6 43 0.72
7 1 0.02
8 5 0.08
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.40
Consensus pattern (6 bp):
TTTAAA
Found at i:33496072 original size:11 final size:11
Alignment explanation
Indices: 33496058--33496109 Score: 56
Period size: 11 Copynumber: 4.9 Consensus size: 11
33496048 ATTTTAAATT
33496058 TAAATTTAAAA
1 TAAATTTAAAA
33496069 TAAATTT-AAA
1 TAAATTTAAAA
*
33496079 TAAA--TAAATT
1 TAAATTTAAA-A
*
33496089 TAAATTTAAGA
1 TAAATTTAAAA
33496100 TAAATTTAAA
1 TAAATTTAAA
33496110 TTCAAAATAA
Statistics
Matches: 33, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
8 1 0.03
9 2 0.06
10 11 0.33
11 16 0.48
12 3 0.09
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (11 bp):
TAAATTTAAAA
Found at i:33496072 original size:17 final size:17
Alignment explanation
Indices: 33496052--33496131 Score: 112
Period size: 17 Copynumber: 4.9 Consensus size: 17
33496042 AATATTATTT
33496052 TAAATTTAAATTTAAAA
1 TAAATTTAAATTTAAAA
33496069 TAAATTTAAA--T-AAA
1 TAAATTTAAATTTAAAA
*
33496083 TAAATTTAAATTTAAGA
1 TAAATTTAAATTTAAAA
*
33496100 TAAATTTAAATTCAAAA
1 TAAATTTAAATTTAAAA
*
33496117 TAAATTTAAAATTAA
1 TAAATTTAAATTTAA
33496132 TTTGAACTTA
Statistics
Matches: 55, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
14 13 0.24
15 1 0.02
16 1 0.02
17 40 0.73
ACGTcount: A:0.59, C:0.01, G:0.01, T:0.39
Consensus pattern (17 bp):
TAAATTTAAATTTAAAA
Found at i:33496134 original size:11 final size:11
Alignment explanation
Indices: 33496033--33496134 Score: 51
Period size: 11 Copynumber: 8.7 Consensus size: 11
33496023 TTTTTTATTT
*
33496033 ATTAATTTTAAT
1 ATTAA-TTTAAA
*
33496045 ATTATTTTAAA
1 ATTAATTTAAA
*
33496056 TTTAAATTTAAA
1 ATT-AATTTAAA
*
33496068 ATAAATTTAAATAA
1 ATTAATTT--A-AA
*
33496082 ATAAATTTAAA
1 ATTAATTTAAA
* **
33496093 TTTAAGATAAA
1 ATTAATTTAAA
* *
33496104 TTTAAATTCAAA
1 ATT-AATTTAAA
*
33496116 ATAAATTTAAA
1 ATTAATTTAAA
33496127 ATTAATTT
1 ATTAATTT
33496135 GAACTTAAAA
Statistics
Matches: 68, Mismatches: 17, Indels: 11
0.71 0.18 0.11
Matches are distributed among these distances:
11 38 0.56
12 19 0.28
13 1 0.01
14 10 0.15
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.45
Consensus pattern (11 bp):
ATTAATTTAAA
Found at i:33496144 original size:28 final size:28
Alignment explanation
Indices: 33496058--33496134 Score: 91
Period size: 31 Copynumber: 2.6 Consensus size: 28
33496048 ATTTTAAATT
**
33496058 TAAATTTAAAATAAATTTAAATAAATAAA
1 TAAATTTAAAATAAATTTAAATTCA-AAA
*
33496087 TTTAAATTTAAGATAAATTTAAATTCAAAA
1 --TAAATTTAAAATAAATTTAAATTCAAAA
*
33496117 TAAATTTAAAATTAATTT
1 TAAATTTAAAATAAATTT
33496135 GAACTTAAAA
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
28 16 0.39
30 3 0.07
31 22 0.54
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.40
Consensus pattern (28 bp):
TAAATTTAAAATAAATTTAAATTCAAAA
Found at i:33500232 original size:21 final size:21
Alignment explanation
Indices: 33500207--33500247 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
33500197 TTAGAGTTTC
33500207 TAGGACA-CATTAAACACACTT
1 TAGGACATCA-TAAACACACTT
*
33500228 TAGGACATCATAAACTCACT
1 TAGGACATCATAAACACACT
33500248 AATTAACATG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 16 0.89
22 2 0.11
ACGTcount: A:0.41, C:0.24, G:0.10, T:0.24
Consensus pattern (21 bp):
TAGGACATCATAAACACACTT
Found at i:33503661 original size:59 final size:59
Alignment explanation
Indices: 33503569--33503758 Score: 263
Period size: 60 Copynumber: 3.2 Consensus size: 59
33503559 TTAATATAAC
* * *
33503569 ATTTGGTACTTGAACTTGACATTTTTTCTTAATTTGGTATTTAAACTTTTTTTGACTCA
1 ATTTGGTACCTGAACTTGACATTTTTTCCTAATTTGGTATCTAAACTTTTTTTGACTCA
* * * * *
33503628 ATTTGGTACCTGAACTTGATACTTTTTCCTAATTTGGTACCTAAACTTTCTTTGAACCCA
1 ATTTGGTACCTGAACTTGACATTTTTTCCTAATTTGGTATCTAAACTTTTTTTG-ACTCA
* * *
33503688 ATTTGGTACCTGAACTTGGCATTTTTTCCTAATTTGGTATCTAAGCTTTTTTTAGATTCA
1 ATTTGGTACCTGAACTTGACATTTTTTCCTAATTTGGTATCTAAACTTTTTTT-GACTCA
33503748 ATTTGGTACCT
1 ATTTGGTACCT
33503759 AAATTTATTA
Statistics
Matches: 113, Mismatches: 16, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
59 47 0.42
60 65 0.58
61 1 0.01
ACGTcount: A:0.23, C:0.16, G:0.13, T:0.47
Consensus pattern (59 bp):
ATTTGGTACCTGAACTTGACATTTTTTCCTAATTTGGTATCTAAACTTTTTTTGACTCA
Found at i:33503691 original size:29 final size:28
Alignment explanation
Indices: 33503599--33503704 Score: 95
Period size: 31 Copynumber: 3.6 Consensus size: 28
33503589 ATTTTTTCTT
** * *
33503599 AATTTGGTATTTAAACTTTTTTTGACTC
1 AATTTGGTACCTAAACTTTCTTTGACCC
* ** *
33503627 AATTTGGTACCTGAACTTGATACTTTTTCCT
1 AATTTGGTACCTAAACTT--T-CTTTGACCC
33503658 AATTTGGTACCTAAACTTTCTTTGAACCC
1 AATTTGGTACCTAAACTTTCTTTG-ACCC
*
33503687 AATTTGGTACCTGAACTT
1 AATTTGGTACCTAAACTT
33503705 GGCATTTTTT
Statistics
Matches: 61, Mismatches: 13, Indels: 7
0.75 0.16 0.09
Matches are distributed among these distances:
28 19 0.31
29 20 0.33
30 1 0.02
31 21 0.34
ACGTcount: A:0.25, C:0.18, G:0.12, T:0.44
Consensus pattern (28 bp):
AATTTGGTACCTAAACTTTCTTTGACCC
Found at i:33504005 original size:59 final size:59
Alignment explanation
Indices: 33503907--33504070 Score: 276
Period size: 59 Copynumber: 2.8 Consensus size: 59
33503897 TTAAAAAAAA
* * *
33503907 TTAAGTACCAAATTAGAAAAAAAGAGTTAA-GTTCAGGTACCAAATTGGACCTCAAAAAGT
1 TTAAGTACCAACTTA-AAAAAAAGTGTCAAGGTT-AGGTACCAAATTGGACCTCAAAAAGT
33503967 TTAAGTACCAACTTAAAAAAAAGTGTCAAGGTTAGGTACCAAATTGGACCTCAAAAAGT
1 TTAAGTACCAACTTAAAAAAAAGTGTCAAGGTTAGGTACCAAATTGGACCTCAAAAAGT
33504026 TTAAGTACCAACTTAAAAAAAAGTGTCAAGGTTAGGTACCAAATT
1 TTAAGTACCAACTTAAAAAAAAGTGTCAAGGTTAGGTACCAAATT
33504071 AGGAAAAATG
Statistics
Matches: 100, Mismatches: 3, Indels: 3
0.94 0.03 0.03
Matches are distributed among these distances:
59 83 0.83
60 17 0.17
ACGTcount: A:0.45, C:0.14, G:0.16, T:0.24
Consensus pattern (59 bp):
TTAAGTACCAACTTAAAAAAAAGTGTCAAGGTTAGGTACCAAATTGGACCTCAAAAAGT
Found at i:33504085 original size:30 final size:29
Alignment explanation
Indices: 33504043--33504160 Score: 98
Period size: 30 Copynumber: 3.9 Consensus size: 29
33504033 CCAACTTAAA
33504043 AAAAAGTGTCAAGGTTAGGTACCAAATTAGG
1 AAAAA-TGTCAA-GTTAGGTACCAAATTAGG
*
33504074 AAAAATGTCAAGTTTGAGTACCAAATT-GG
1 AAAAATGTCAAGTTAG-GTACCAAATTAGG
** *
33504103 ACCAAAA--AAAAGTTTAGGTACCAAATTAAG
1 A--AAAATGTCAAG-TTAGGTACCAAATTAGG
* *
33504133 AAAAGTGTCAAATTCAGGTACCAAATTA
1 AAAAATGTCAAGTT-AGGTACCAAATTA
33504161 TATATTAAGC
Statistics
Matches: 70, Mismatches: 9, Indels: 17
0.73 0.09 0.18
Matches are distributed among these distances:
28 3 0.04
29 22 0.31
30 36 0.51
31 9 0.13
ACGTcount: A:0.46, C:0.12, G:0.19, T:0.24
Consensus pattern (29 bp):
AAAAATGTCAAGTTAGGTACCAAATTAGG
Found at i:33504098 original size:89 final size:90
Alignment explanation
Indices: 33503984--33504160 Score: 236
Period size: 89 Copynumber: 2.0 Consensus size: 90
33503974 CCAACTTAAA
** *
33503984 AAAAAGTGTCAAGGTTAGGTACCAAATTGGACC-TCAAAAAGTTTAAGTACCAACTTAAAAAAAA
1 AAAAAGTGTCAAGGTTAGGTACCAAATTGGACCAAAAAAAAGTTTAAGTACCAAATT-AAAAAAA
*
33504048 GTGTCAAGGTT-AGGTACCAAATTAGG
65 GTGTCAA-ATTCAGGTACCAAATTAGG
* * *
33504074 AAAAA-TGTCAA-GTTTGAGTACCAAATTGGACCAAAAAAAAGTTTAGGTACCAAATTAAGAAAA
1 AAAAAGTGTCAAGGTTAG-GTACCAAATTGGACCAAAAAAAAGTTTAAGTACCAAATTAAAAAAA
33504137 GTGTCAAATTCAGGTACCAAATTA
65 GTGTCAAATTCAGGTACCAAATTA
33504161 TATATTAAGC
Statistics
Matches: 77, Mismatches: 7, Indels: 7
0.85 0.08 0.08
Matches are distributed among these distances:
88 6 0.08
89 47 0.61
90 24 0.31
ACGTcount: A:0.45, C:0.13, G:0.18, T:0.24
Consensus pattern (90 bp):
AAAAAGTGTCAAGGTTAGGTACCAAATTGGACCAAAAAAAAGTTTAAGTACCAAATTAAAAAAAG
TGTCAAATTCAGGTACCAAATTAGG
Found at i:33520216 original size:23 final size:23
Alignment explanation
Indices: 33520173--33520216 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
33520163 GAAATTGAAT
* *
33520173 TGTAATTTTTAAGATAGTAAACA
1 TGTAATTTTTAAAAAAGTAAACA
*
33520196 TGTAATTTTTAAAAAATTAAA
1 TGTAATTTTTAAAAAAGTAAA
33520217 TTAAAATTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.48, C:0.02, G:0.09, T:0.41
Consensus pattern (23 bp):
TGTAATTTTTAAAAAAGTAAACA
Found at i:33524922 original size:31 final size:31
Alignment explanation
Indices: 33524850--33524923 Score: 79
Period size: 27 Copynumber: 2.5 Consensus size: 31
33524840 TATCATAGTA
*
33524850 TAATTTTAATATTTAATTTCGTACTTAAGTT
1 TAATTTTAATATTTAATTTCGTACTGAAGTT
33524881 T--TTTT--TATTTAATTAT-GTATCTGAA-TT
1 TAATTTTAATATTTAATT-TCGTA-CTGAAGTT
33524908 TAATTTTAATATTTAA
1 TAATTTTAATATTTAA
33524924 ATTTATTATT
Statistics
Matches: 36, Mismatches: 1, Indels: 12
0.73 0.02 0.24
Matches are distributed among these distances:
27 15 0.42
28 5 0.14
29 8 0.22
31 8 0.22
ACGTcount: A:0.32, C:0.04, G:0.05, T:0.58
Consensus pattern (31 bp):
TAATTTTAATATTTAATTTCGTACTGAAGTT
Found at i:33532262 original size:19 final size:19
Alignment explanation
Indices: 33532220--33532266 Score: 53
Period size: 18 Copynumber: 2.5 Consensus size: 19
33532210 ATCTCCTTTC
33532220 CCTTCAGTCTCAATCGTATG
1 CCTTCA-TCTCAATCGTATG
* *
33532240 -CTTCATCTCAATCTTTTG
1 CCTTCATCTCAATCGTATG
33532258 CCTTC-TCTC
1 CCTTCATCTC
33532267 TCTTTCTAGA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
18 15 0.62
19 9 0.38
ACGTcount: A:0.15, C:0.34, G:0.09, T:0.43
Consensus pattern (19 bp):
CCTTCATCTCAATCGTATG
Found at i:33534017 original size:6 final size:6
Alignment explanation
Indices: 33534006--33534051 Score: 92
Period size: 6 Copynumber: 7.7 Consensus size: 6
33533996 CGTCCCTTAT
33534006 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATAT
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATAT
33534052 GTGTGTGTTT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 40 1.00
ACGTcount: A:0.50, C:0.15, G:0.00, T:0.35
Consensus pattern (6 bp):
ATATAC
Found at i:33539766 original size:29 final size:29
Alignment explanation
Indices: 33539734--33539957 Score: 94
Period size: 29 Copynumber: 7.7 Consensus size: 29
33539724 TTGACTTTTG
33539734 AGGGTAAAAATGTAATTTTTGGTGAAATT
1 AGGGTAAAAATGTAATTTTTGGTGAAATT
* **
33539763 AGGGTCAAAAATGGAA-TTTT--ACAAAGTT
1 AGGGT-AAAAATGTAATTTTTGGTGAAA-TT
* ** *
33539791 CGAGGATAAAACGGTAATTTTTGGTGAAATCG
1 --AGGGTAAAAATGTAATTTTTGGTGAAAT-T
* ***
33539823 AGGCTAAAAATG-GGGTTTT-G-GAAAGTT
1 AGGGTAAAAATGTAATTTTTGGTGAAA-TT
*
33539850 AATGGGT-AAAATGGTAA-TTTCGGTGAAATT
1 -A-GGGTAAAAAT-GTAATTTTTGGTGAAATT
* *
33539880 AGGGTTAAAATGGAA-TTTT-G-GAAATTT
1 AGGGTAAAAATGTAATTTTTGGTGAAA-TT
33539907 CAAGGGT-AAAATGGTAATTTTTGGTGAAATT
1 --AGGGTAAAAAT-GTAATTTTTGGTGAAATT
* *
33539938 GGGGTTAAAAATGGAATTTT
1 AGGG-TAAAAATGTAATTTT
33539958 GAAAAGTTCG
Statistics
Matches: 144, Mismatches: 26, Indels: 49
0.66 0.12 0.22
Matches are distributed among these distances:
26 4 0.03
27 10 0.07
28 25 0.17
29 44 0.31
30 41 0.28
31 13 0.09
32 7 0.05
ACGTcount: A:0.37, C:0.04, G:0.27, T:0.33
Consensus pattern (29 bp):
AGGGTAAAAATGTAATTTTTGGTGAAATT
Found at i:33539801 original size:59 final size:58
Alignment explanation
Indices: 33539733--33540034 Score: 261
Period size: 59 Copynumber: 5.0 Consensus size: 58
33539723 TTTGACTTTT
*
33539733 GAGGGTAAAAAT-GTAATTTTTGGTGAAATTAGGGTCAAAAATGGAATTTTACAAAGTTC
1 GAGGGT-AAAATGGTAATTTTTGGTGAAATTAGGGT-AAAAATGGAATTTTAGAAAGTTC
* * * * ** *
33539792 GAGGATAAAACGGTAATTTTTGGTGAAATCGAGGCTAAAAATGGGGTTTTGGAAAGTT-
1 GAGGGTAAAATGGTAATTTTTGGTGAAAT-TAGGGTAAAAATGGAATTTTAGAAAGTTC
* * * * *
33539850 AATGGGTAAAATGGTAA-TTTCGGTGAAATTAGGGTTAAAATGGAATTTTGGAAATTTC
1 GA-GGGTAAAATGGTAATTTTTGGTGAAATTAGGGTAAAAATGGAATTTTAGAAAGTTC
* *
33539908 AAGGGTAAAATGGTAATTTTTGGTGAAATTGGGGTTAAAAATGGAATTTT-GAAAAGTTC
1 GAGGGTAAAATGGTAATTTTTGGTGAAATTAGGG-TAAAAATGGAATTTTAG-AAAGTTC
* *** *
33539967 GGGGGGGGGGGGGTAAAATGGTAATTTTTGGTGAAACCGGGGTCAAAAATGGAATTTTGGAAAGT
1 --------GAGGGTAAAATGGTAATTTTTGGTGAAATTAGGGT-AAAAATGGAATTTTAGAAAGT
33540032 TC
57 TC
33540034 G
1 G
33540035 GGGACTAGAG
Statistics
Matches: 200, Mismatches: 26, Indels: 34
0.77 0.10 0.13
Matches are distributed among these distances:
57 36 0.18
58 34 0.17
59 73 0.37
60 4 0.02
66 1 0.00
67 51 0.25
68 1 0.00
ACGTcount: A:0.35, C:0.04, G:0.30, T:0.31
Consensus pattern (58 bp):
GAGGGTAAAATGGTAATTTTTGGTGAAATTAGGGTAAAAATGGAATTTTAGAAAGTTC
Found at i:33539896 original size:116 final size:118
Alignment explanation
Indices: 33539735--33539965 Score: 306
Period size: 116 Copynumber: 2.0 Consensus size: 118
33539725 TGACTTTTGA
* *
33539735 GGGTAAAAATGTAATTTTTGGTGAAATTAGGGTCAAAAATGGAATTTTACAAAGTTCGAGGATAA
1 GGGTAAAAATGTAATTTTCGGTGAAATTAGGGTCAAAAATGGAATTTTACAAAGTTCAAGGATAA
** *
33539800 AACGGTAATTTTTGGTGAAATCGAGGCTAAAAATGGGGTTTTGGAAAGTTAAT
66 AACGGTAATTTTTGGTGAAATCGAGGCTAAAAATGGAATTTTGAAAAGTTAAT
* ** * *
33539853 GGGT-AAAATGGTAA-TTTCGGTGAAATTAGGGT-TAAAATGGAATTTTGGAAATTTCAAGGGTA
1 GGGTAAAAAT-GTAATTTTCGGTGAAATTAGGGTCAAAAATGGAATTTTACAAAGTTCAAGGATA
* * * *
33539915 AAATGGTAATTTTTGGTGAAATTGGGGTTAAAAATGGAATTTTGAAAAGTT
65 AAACGGTAATTTTTGGTGAAATCGAGGCTAAAAATGGAATTTTGAAAAGTT
33539966 CGGGGGGGGG
Statistics
Matches: 98, Mismatches: 14, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
116 68 0.69
117 22 0.22
118 8 0.08
ACGTcount: A:0.37, C:0.03, G:0.27, T:0.33
Consensus pattern (118 bp):
GGGTAAAAATGTAATTTTCGGTGAAATTAGGGTCAAAAATGGAATTTTACAAAGTTCAAGGATAA
AACGGTAATTTTTGGTGAAATCGAGGCTAAAAATGGAATTTTGAAAAGTTAAT
Found at i:33539958 original size:29 final size:29
Alignment explanation
Indices: 33539856--33539958 Score: 108
Period size: 29 Copynumber: 3.6 Consensus size: 29
33539846 AGTTAATGGG
*
33539856 TAAAATGGTAATTTCGGTGAAATTAGGGT
1 TAAAATGGTAATTTTGGTGAAATTAGGGT
33539885 TAAAATGG-AATTTT-G-GAAATTTCAAGGG-
1 TAAAATGGTAATTTTGGTGAAA-TT--AGGGT
*
33539913 TAAAATGGTAATTTTTGGTGAAATTGGGGT
1 TAAAATGGTAA-TTTTGGTGAAATTAGGGT
33539943 TAAAAATGG-AATTTTG
1 T-AAAATGGTAATTTTG
33539959 AAAAGTTCGG
Statistics
Matches: 63, Mismatches: 2, Indels: 18
0.76 0.02 0.22
Matches are distributed among these distances:
26 4 0.06
27 3 0.05
28 13 0.21
29 22 0.35
30 7 0.11
31 10 0.16
32 4 0.06
ACGTcount: A:0.36, C:0.02, G:0.26, T:0.36
Consensus pattern (29 bp):
TAAAATGGTAATTTTGGTGAAATTAGGGT
Found at i:33540018 original size:67 final size:67
Alignment explanation
Indices: 33539910--33540037 Score: 220
Period size: 67 Copynumber: 1.9 Consensus size: 67
33539900 GAAATTTCAA
** *
33539910 GGGTAAAATGGTAATTTTTGGTGAAATTGGGGTTAAAAATGGAATTTTGAAAAGTTCGGGGGGGG
1 GGGTAAAATGGTAATTTTTGGTGAAACCGGGGTCAAAAATGGAATTTTGAAAAGTTCGGGGGGGG
33539975 GG
66 GG
*
33539977 GGGTAAAATGGTAATTTTTGGTGAAACCGGGGTCAAAAATGGAATTTTGGAAAGTTCGGGG
1 GGGTAAAATGGTAATTTTTGGTGAAACCGGGGTCAAAAATGGAATTTTGAAAAGTTCGGGG
33540038 ACTAGAGAGC
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
67 57 1.00
ACGTcount: A:0.30, C:0.04, G:0.37, T:0.29
Consensus pattern (67 bp):
GGGTAAAATGGTAATTTTTGGTGAAACCGGGGTCAAAAATGGAATTTTGAAAAGTTCGGGGGGGG
GG
Found at i:33540799 original size:14 final size:14
Alignment explanation
Indices: 33540782--33540812 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
33540772 CTTCTTACCC
33540782 TTTTCTTTTCTTCT
1 TTTTCTTTTCTTCT
*
33540796 TTTTCTTTTTTTCT
1 TTTTCTTTTCTTCT
33540810 TTT
1 TTT
33540813 AAAAAACAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (14 bp):
TTTTCTTTTCTTCT
Found at i:33541754 original size:17 final size:17
Alignment explanation
Indices: 33541732--33541794 Score: 67
Period size: 16 Copynumber: 3.8 Consensus size: 17
33541722 TCTTAAATGT
33541732 ATTTAAATTTAAAACAA
1 ATTTAAATTTAAAACAA
*
33541749 ATTTAAATTT-AAATAA
1 ATTTAAATTTAAAACAA
* **
33541765 ATTTAAAATTAATTCAA
1 ATTTAAATTTAAAACAA
*
33541782 ACTT-AATTTAAAA
1 ATTTAAATTTAAAA
33541795 TCCAAGTTGG
Statistics
Matches: 36, Mismatches: 9, Indels: 3
0.75 0.19 0.06
Matches are distributed among these distances:
16 20 0.56
17 16 0.44
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.40
Consensus pattern (17 bp):
ATTTAAATTTAAAACAA
Found at i:33541778 original size:27 final size:27
Alignment explanation
Indices: 33541735--33541787 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
33541725 TAAATGTATT
* *
33541735 TAAATTTAAAACAAATTTAAATTTAAA
1 TAAATTTAAAACAAATTCAAACTTAAA
**
33541762 TAAATTTAAAATTAATTCAAACTTAA
1 TAAATTTAAAACAAATTCAAACTTAA
33541788 TTTAAAATCC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.57, C:0.06, G:0.00, T:0.38
Consensus pattern (27 bp):
TAAATTTAAAACAAATTCAAACTTAAA
Found at i:33544214 original size:31 final size:30
Alignment explanation
Indices: 33544179--33544242 Score: 85
Period size: 31 Copynumber: 2.1 Consensus size: 30
33544169 TTAAATTATT
*
33544179 AATAAT-AAAATTTCACTTTAATCTTTTTAAA
1 AATAATAAAAATTTCA-TTTAAT-TCTTTAAA
*
33544210 AATAATAAAAATTTGATTTAATTCTTTAAA
1 AATAATAAAAATTTCATTTAATTCTTTAAA
33544240 AAT
1 AAT
33544243 TTATGATGAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
30 10 0.33
31 12 0.40
32 8 0.27
ACGTcount: A:0.48, C:0.06, G:0.02, T:0.44
Consensus pattern (30 bp):
AATAATAAAAATTTCATTTAATTCTTTAAA
Found at i:33548008 original size:25 final size:25
Alignment explanation
Indices: 33547980--33548029 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
33547970 TCTCGAAAAA
33547980 TATTTTAAA-AATCGAAAAAAATGGG
1 TATTTTAAATAATC-AAAAAAATGGG
*
33548005 TATTTTAAATGATCAAAAAAATGGG
1 TATTTTAAATAATCAAAAAAATGGG
33548030 AGTCACCACC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 20 0.87
26 3 0.13
ACGTcount: A:0.50, C:0.04, G:0.16, T:0.30
Consensus pattern (25 bp):
TATTTTAAATAATCAAAAAAATGGG
Found at i:33549074 original size:29 final size:29
Alignment explanation
Indices: 33549040--33549132 Score: 91
Period size: 29 Copynumber: 3.2 Consensus size: 29
33549030 CCAAAAATGC
33549040 AATTTTTGGATGACCAGGGGTAAAATGGT
1 AATTTTTGGATGACCAGGGGTAAAATGGT
* * ** *
33549069 AATTTTTGGATGATCGGGGGTAAAGCGAT
1 AATTTTTGGATGACCAGGGGTAAAATGGT
* *
33549098 AA-TTTTGGA-CACTTCAGGGGTGAAATGGT
1 AATTTTTGGATGAC--CAGGGGTAAAATGGT
33549127 AATTTT
1 AATTTT
33549133 AGAAGTTTAG
Statistics
Matches: 49, Mismatches: 12, Indels: 5
0.74 0.18 0.08
Matches are distributed among these distances:
27 1 0.02
28 7 0.14
29 38 0.78
30 3 0.06
ACGTcount: A:0.29, C:0.08, G:0.30, T:0.33
Consensus pattern (29 bp):
AATTTTTGGATGACCAGGGGTAAAATGGT
Found at i:33549174 original size:30 final size:30
Alignment explanation
Indices: 33549138--33549272 Score: 166
Period size: 30 Copynumber: 4.5 Consensus size: 30
33549128 ATTTTAGAAG
*
33549138 TTTAGGGGTAAAAATATAATTTTTGGAAAA
1 TTTAGGGGTCAAAATATAATTTTTGGAAAA
* * *
33549168 TTTAGGGGTTAAAATATAATTTTTAGAAAG
1 TTTAGGGGTCAAAATATAATTTTTGGAAAA
* *
33549198 TTTGGGGGTCAAAATATAATTTTTGGAAAG
1 TTTAGGGGTCAAAATATAATTTTTGGAAAA
* *
33549228 TTTAAGGGTCAAAATATAATCTTT-GAAAA
1 TTTAGGGGTCAAAATATAATTTTTGGAAAA
33549257 GTTT-GAGGGTCAAAAT
1 -TTTAG-GGGTCAAAAT
33549273 GTGATTTCTA
Statistics
Matches: 92, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
29 4 0.04
30 88 0.96
ACGTcount: A:0.39, C:0.03, G:0.21, T:0.36
Consensus pattern (30 bp):
TTTAGGGGTCAAAATATAATTTTTGGAAAA
Found at i:33549216 original size:60 final size:60
Alignment explanation
Indices: 33549129--33549272 Score: 202
Period size: 60 Copynumber: 2.4 Consensus size: 60
33549119 GAAATGGTAA
* * * *
33549129 TTTTAG-AAGTTTAGGGGTAAAAATATAATTTTTGGAAAATTTAGGGGTTAAAATATAAT
1 TTTTAGAAAGTTTGGGGGTCAAAATATAATTTTTGGAAAATTTAAGGGTCAAAATATAAT
*
33549188 TTTTAGAAAGTTTGGGGGTCAAAATATAATTTTTGGAAAGTTTAAGGGTCAAAATATAAT
1 TTTTAGAAAGTTTGGGGGTCAAAATATAATTTTTGGAAAATTTAAGGGTCAAAATATAAT
* *
33549248 CTTT-GAAAAGTTTGAGGGTCAAAAT
1 TTTTAG-AAAGTTTGGGGGTCAAAAT
33549273 GTGATTTCTA
Statistics
Matches: 76, Mismatches: 7, Indels: 3
0.88 0.08 0.03
Matches are distributed among these distances:
59 7 0.09
60 69 0.91
ACGTcount: A:0.39, C:0.03, G:0.22, T:0.37
Consensus pattern (60 bp):
TTTTAGAAAGTTTGGGGGTCAAAATATAATTTTTGGAAAATTTAAGGGTCAAAATATAAT
Found at i:33549287 original size:30 final size:29
Alignment explanation
Indices: 33549126--33549291 Score: 142
Period size: 30 Copynumber: 5.6 Consensus size: 29
33549116 GGTGAAATGG
* *
33549126 TAATTTT-AGAAGTTT-AGGGGTAAAAATA
1 TAATTTTGAAAAGTTTGA-GGGTCAAAATA
*
33549154 TAATTTTTGGAAAA-TTT-AGGGGTTAAAATA
1 TAA-TTTT-GAAAAGTTTGA-GGGTCAAAATA
* *
33549184 TAATTTTTAGAAAGTTTGGGGGTCAAAATA
1 TAATTTTGA-AAAGTTTGAGGGTCAAAATA
* *
33549214 TAATTTTTGGAAAGTTTAAGGGTCAAAATA
1 TAA-TTTTGAAAAGTTTGAGGGTCAAAATA
*
33549244 TAATCTTTGAAAAGTTTGAGGGTCAAAATG
1 TAAT-TTTGAAAAGTTTGAGGGTCAAAATA
* *
33549274 TGATTTCTAAAAAGTTTG
1 TAATTT-TGAAAAGTTTG
33549292 GGGACCTTTT
Statistics
Matches: 115, Mismatches: 14, Indels: 16
0.79 0.10 0.11
Matches are distributed among these distances:
28 4 0.03
29 14 0.12
30 90 0.78
31 7 0.06
ACGTcount: A:0.39, C:0.03, G:0.21, T:0.37
Consensus pattern (29 bp):
TAATTTTGAAAAGTTTGAGGGTCAAAATA
Found at i:33549288 original size:60 final size:60
Alignment explanation
Indices: 33549126--33549290 Score: 160
Period size: 60 Copynumber: 2.8 Consensus size: 60
33549116 GGTGAAATGG
* * * * *
33549126 TAATTTT-AG-AAGTTT-AGGGGTAAAAATATAATTTTTGGAAAA-TTTAGGGGTTAAAATA
1 TAATTTTGAGAAAGTTTGA-GGGTCAAAATATAATTTCT-AAAAAGTTTAAGGGTCAAAATA
* * * **
33549184 TAATTTTTAGAAAGTTTGGGGGTCAAAATATAATTTTTGGAAAGTTTAAGGGTCAAAATA
1 TAATTTTGAGAAAGTTTGAGGGTCAAAATATAATTTCTAAAAAGTTTAAGGGTCAAAATA
* *
33549244 TAATCTTTGA-AAAGTTTGAGGGTCAAAATGTGATTTCTAAAAAGTTT
1 TAAT-TTTGAGAAAGTTTGAGGGTCAAAATATAATTTCTAAAAAGTTT
33549291 GGGGACCTTT
Statistics
Matches: 90, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
58 7 0.08
59 6 0.07
60 73 0.81
61 4 0.04
ACGTcount: A:0.39, C:0.03, G:0.21, T:0.38
Consensus pattern (60 bp):
TAATTTTGAGAAAGTTTGAGGGTCAAAATATAATTTCTAAAAAGTTTAAGGGTCAAAATA
Found at i:33550685 original size:209 final size:208
Alignment explanation
Indices: 33550322--33550904 Score: 848
Period size: 209 Copynumber: 2.8 Consensus size: 208
33550312 GCTTCATCTC
* * * * *
33550322 TTGGTCTACTTTTCTGTATCTTATCAGGAAGATGACCGCA-CAACTTGTTTTAATCCACTT-TTC
1 TTGGTCTACTTCTCAGTATCTTATCAAGAAGATGACCGCATC-ACTTATTTTAATCCGCTTCTT-
** * *
33550385 TGTATCTCATCAGGAAGACGGATTTGGTCCCCTACTCTGTATCTCATCAGGAAGACGACCGCTTT
64 TGTATCTCATCAGGAAGAC-GATTTGGTCTACTTCTCTGTATCTCATCAGGAAGACGACCGTTTT
* *
33550450 ATTGCTTCGACCTGCTTCTTAGTATCTCATCAGGAAGTTGAGATTCGAAGTTTCGCTCACATTGA
128 ATTGCTTCGACCTGCTTCTCAGTATCTCATCAGGAAGTTGAGATTCGAAGTTTCACTCACATTGA
* *
33550515 GATTGGTTTCATTGAT
193 GATTGGTTTCACTAAT
* *
33550531 TTGGTCTACTTCTCAGTATCTCATCAAGAAGATAACCGCATCACTTATTTTAATCCGCTTCTTTG
1 TTGGTCTACTTCTCAGTATCTTATCAAGAAGATGACCGCATCACTTATTTTAATCCGCTTCTTTG
33550596 TATCTCATCAGGAAGACAGATTTGGTCTACTTCTCTGTATCTCATCAGGAAGACGACCGTTTTAT
66 TATCTCATCAGGAAGAC-GATTTGGTCTACTTCTCTGTATCTCATCAGGAAGACGACCGTTTTAT
* *
33550661 TGCTTCGACCTGCTTCTCAGTATCTCATCAGGAAGTTGGGATTCGAAGTTTCACTCACATTGAGC
130 TGCTTCGACCTGCTTCTCAGTATCTCATCAGGAAGTTGAGATTCGAAGTTTCACTCACATTGAGA
33550726 TTGGTTTCACTAAT
195 TTGGTTTCACTAAT
* * ***
33550740 TTGGTTTACTTCTCAGTATCTTATCAAGAAGATGACCGCATCACTTATTTTAATTCGCTTCTCCA
1 TTGGTCTACTTCTCAGTATCTTATCAAGAAGATGACCGCATCACTTATTTTAATCCGCTTCTTTG
* * **
33550805 TATCTCATCAGGAAGACGAATCTGGT-TCACTTCTCTGTATCTTATCAGGAAGATAACCGTTTTA
66 TATCTCATCAGGAAGACG-ATTTGGTCT-ACTTCTCTGTATCTCATCAGGAAGACGACCGTTTTA
*
33550869 TTGCTTCGACCTGCTTCTCAGTATCTCATCAAGAAG
129 TTGCTTCGACCTGCTTCTCAGTATCTCATCAGGAAG
33550905 AAGACTGCCT
Statistics
Matches: 340, Mismatches: 30, Indels: 8
0.90 0.08 0.02
Matches are distributed among these distances:
208 2 0.01
209 335 0.99
210 3 0.01
ACGTcount: A:0.24, C:0.23, G:0.17, T:0.36
Consensus pattern (208 bp):
TTGGTCTACTTCTCAGTATCTTATCAAGAAGATGACCGCATCACTTATTTTAATCCGCTTCTTTG
TATCTCATCAGGAAGACGATTTGGTCTACTTCTCTGTATCTCATCAGGAAGACGACCGTTTTATT
GCTTCGACCTGCTTCTCAGTATCTCATCAGGAAGTTGAGATTCGAAGTTTCACTCACATTGAGAT
TGGTTTCACTAAT
Found at i:33551586 original size:50 final size:50
Alignment explanation
Indices: 33551484--33551973 Score: 292
Period size: 50 Copynumber: 9.9 Consensus size: 50
33551474 CATGGTATCG
** ** * *
33551484 CATCTTCTTAGGTACC-GGTTAACCGTTATGGCCTTAACCTTTTCCTTCA
1 CATCTTCTTAGGTACCGGGTTCGCCGTTGCGGCCTCAACCTTTCCCTTCA
* * *
33551533 CATCTTCTTAGGTACCGGGTTCACCGTTGCGGTCTCAACCTTTCCCTTTA
1 CATCTTCTTAGGTACCGGGTTCGCCGTTGCGGCCTCAACCTTTCCCTTCA
* * *** * ** *
33551583 CATCTTTTTAAGGTATCAAATTCGCCATTGTAGCCTCAATCC-TCCCCTGTCA
1 CATCTTCTT-AGGTACCGGGTTCGCCGTTGCGGCCTCAA-CCTTTCCCT-TCA
* ** * * * *
33551635 TC-TCTTCAT-GGTACTAGGTTCGTCGTTGTGACCTCAACCTTTCCCATCA
1 -CATCTTCTTAGGTACCGGGTTCGCCGTTGCGGCCTCAACCTTTCCCTTCA
* *
33551684 CATCTT-TTGAGGTACCGGGTTCGCCATTGCAGCCTCAAGCC-TTCCCTTCA
1 CATCTTCTT-AGGTACCGGGTTCGCCGTTGCGGCCTCAA-CCTTTCCCTTCA
* ** ** * *
33551734 AATC-T-TTATGGTACAAGGTTTACCGTTACGGCCTCAACCTTTTCGCTT-A
1 CATCTTCTTA-GGTACCGGGTTCGCCGTTGCGGCCTCAACC-TTTCCCTTCA
* * * * ** *
33551783 CATCTTCAT-GGTATCGAGTTCGTCGTTGCAACCTCAACCTTTCCCATCA
1 CATCTTCTTAGGTACCGGGTTCGCCGTTGCGGCCTCAACCTTTCCCTTCA
* * *
33551832 CATCTTCTTAGGTACCGGGTTCGCCGTTACGGCCTCAATCTTTCCCATCA
1 CATCTTCTTAGGTACCGGGTTCGCCGTTGCGGCCTCAACCTTTCCCTTCA
* * ** * * ** *
33551882 CATCTTTTTAGGAACTAGTTTCGCTGTCACGG--TTAATCC-TTCCCTT--
1 CATCTTCTTAGGTACCGGGTTCGCCGTTGCGGCCTCAA-CCTTTCCCTTCA
33551928 CATCTT-TTCATGGTACCGGGTTCGCCGTTGCGGCCTCAACCTTTCC
1 CATCTTCTT-A-GGTACCGGGTTCGCCGTTGCGGCCTCAACCTTTCC
33551974 TTGTCAAACT
Statistics
Matches: 329, Mismatches: 89, Indels: 46
0.71 0.19 0.10
Matches are distributed among these distances:
45 2 0.01
46 7 0.02
47 15 0.05
48 22 0.07
49 90 0.27
50 155 0.47
51 28 0.09
52 9 0.03
53 1 0.00
ACGTcount: A:0.18, C:0.31, G:0.17, T:0.35
Consensus pattern (50 bp):
CATCTTCTTAGGTACCGGGTTCGCCGTTGCGGCCTCAACCTTTCCCTTCA
Found at i:33551775 original size:99 final size:98
Alignment explanation
Indices: 33551550--33551889 Score: 281
Period size: 99 Copynumber: 3.4 Consensus size: 98
33551540 TTAGGTACCG
* * * * * * *
33551550 GGTTCACCGTTGCGGTCTCAACCTTTCCCTTTACATCTTTTTAAGGTATCAAATTCGCCATTGTA
1 GGTTCACCGTTACGGCCTCAACCTTTCCCATCACATC-TTTTAAGGTATCGAGTTCGCCATTGCA
* ** * *
33551615 GCCTCAATCCTCCCCTGTCATCTCTTCATGGTACTA
65 GCCTCAA-CCTTCCCT-TCAAATCTTTATGGTACAA
** ** * * * *
33551651 GGTTCGTCGTTGTGACCTCAACCTTTCCCATCACATCTTTTGAGGTACCGGGTTCGCCATTGCAG
1 GGTTCACCGTTACGGCCTCAACCTTTCCCATCACATCTTTTAAGGTATCGAGTTCGCCATTGCAG
33551716 CCTCAAGCCTTCCCTTCAAATCTTTATGGTACAA
66 CCTCAA-CCTTCCCTTCAAATCTTTATGGTACAA
* * * * * * *
33551750 GGTTTACCGTTACGGCCTCAACCTTTTCGC-TTACATC-TTCATGGTATCGAGTTCGTCGTTGCA
1 GGTTCACCGTTACGGCCTCAACC-TTTCCCATCACATCTTTTAAGGTATCGAGTTCGCCATTGCA
* * * **
33551813 ACCTCAACCTTTCCCATCACATCTTCT-TAGGTACCG
65 GCCTCAACC-TTCCCTTCAAATCTT-TAT-GGTACAA
* *
33551849 GGTTCGCCGTTACGGCCTCAATCTTTCCCATCACATCTTTT
1 GGTTCACCGTTACGGCCTCAACCTTTCCCATCACATCTTTT
33551890 TAGGAACTAG
Statistics
Matches: 188, Mismatches: 45, Indels: 13
0.76 0.18 0.05
Matches are distributed among these distances:
97 2 0.01
98 44 0.23
99 70 0.37
100 42 0.22
101 30 0.16
ACGTcount: A:0.18, C:0.31, G:0.16, T:0.35
Consensus pattern (98 bp):
GGTTCACCGTTACGGCCTCAACCTTTCCCATCACATCTTTTAAGGTATCGAGTTCGCCATTGCAG
CCTCAACCTTCCCTTCAAATCTTTATGGTACAA
Found at i:33552900 original size:24 final size:24
Alignment explanation
Indices: 33552873--33552960 Score: 76
Period size: 24 Copynumber: 3.7 Consensus size: 24
33552863 CACCTCAACC
33552873 TCTCT-TTTTCTTTTTTCCCTTTTT
1 TCTCTATTTTCTTTTTT-CCTTTTT
33552897 TCTCTATTTTC-TTTTTCCTTTTT
1 TCTCTATTTTCTTTTTTCCTTTTT
* * *
33552920 CCT-TTTTCCTTCTTTTTTTC-TTTT
1 TCTCTATT--TTCTTTTTTCCTTTTT
* *
33552944 TCTTTCTTTTCTTTTTT
1 TCTCTATTTTCTTTTTT
33552961 ATTTATTTTT
Statistics
Matches: 54, Mismatches: 5, Indels: 11
0.77 0.07 0.16
Matches are distributed among these distances:
22 3 0.06
23 18 0.33
24 19 0.35
25 14 0.26
ACGTcount: A:0.01, C:0.23, G:0.00, T:0.76
Consensus pattern (24 bp):
TCTCTATTTTCTTTTTTCCTTTTT
Found at i:33552906 original size:9 final size:8
Alignment explanation
Indices: 33552873--33552959 Score: 69
Period size: 7 Copynumber: 11.1 Consensus size: 8
33552863 CACCTCAACC
33552873 TCTCTTTT
1 TCTCTTTT
33552881 TCT-TTTT
1 TCTCTTTT
*
33552888 TCCCTTTTT
1 TCTC-TTTT
*
33552897 TCTCTATT
1 TCTCTTTT
33552905 T-TCTTTT
1 TCTCTTTT
33552912 TC-CTTTT
1 TCTCTTTT
33552919 TC-CTTTT
1 TCTCTTTT
33552926 TCCTTCTTTT
1 T-C-TCTTTT
*
33552936 TTTCTTTT
1 TCTCTTTT
33552944 TCT-TTCTT
1 TCTCTT-TT
33552952 T-TCTTTT
1 TCTCTTTT
33552959 T
1 T
33552960 TATTTATTTT
Statistics
Matches: 65, Mismatches: 6, Indels: 17
0.74 0.07 0.19
Matches are distributed among these distances:
7 31 0.48
8 21 0.32
9 7 0.11
10 6 0.09
ACGTcount: A:0.01, C:0.23, G:0.00, T:0.76
Consensus pattern (8 bp):
TCTCTTTT
Found at i:33552910 original size:31 final size:32
Alignment explanation
Indices: 33552875--33552959 Score: 102
Period size: 31 Copynumber: 2.7 Consensus size: 32
33552865 CCTCAACCTC
*
33552875 TCTTTTTCTTTTTTCCCTTTT--TTCTCTATTT
1 TCTTTTTCTTTTTTCCTTTTTCCTTCT-TATTT
* *
33552906 TCTTTTTCCTTTTTCCTTTTTCCTTCTTTTTT
1 TCTTTTTCTTTTTTCCTTTTTCCTTCTTATTT
*
33552938 TCTTTTTCTTTCTTTTCTTTTT
1 TCTTTTTCTTT-TTTCCTTTTT
33552960 TATTTATTTT
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
31 19 0.41
32 14 0.30
33 13 0.28
ACGTcount: A:0.01, C:0.22, G:0.00, T:0.76
Consensus pattern (32 bp):
TCTTTTTCTTTTTTCCTTTTTCCTTCTTATTT
Found at i:33552918 original size:38 final size:37
Alignment explanation
Indices: 33552876--33552948 Score: 103
Period size: 38 Copynumber: 1.9 Consensus size: 37
33552866 CTCAACCTCT
*
33552876 CTTTTTCTTTTTTCC-CTTTTTTCTCTATTTTCTTTTTC
1 CTTTTTCCTTTTTCCTCTTTTTT-TCT-TTTTCTTTTTC
33552914 CTTTTTCCTTTTTCCTTCTTTTTTTCTTTTTCTTT
1 CTTTTTCCTTTTTCC-TCTTTTTTTCTTTTTCTTT
33552949 CTTTTCTTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
38 22 0.69
39 3 0.09
40 7 0.22
ACGTcount: A:0.01, C:0.23, G:0.00, T:0.75
Consensus pattern (37 bp):
CTTTTTCCTTTTTCCTCTTTTTTTCTTTTTCTTTTTC
Found at i:33552942 original size:18 final size:18
Alignment explanation
Indices: 33552877--33552953 Score: 61
Period size: 18 Copynumber: 4.1 Consensus size: 18
33552867 TCAACCTCTC
33552877 TTTTTCTTTTTTCC--CTT
1 TTTTTC-TTTTTCCTTCTT
*
33552894 TTTTCTCTATTTT-CTTTTT
1 TTTT-TCT-TTTTCCTTCTT
33552913 CCTTTTTCCTTTTTCCTTCTT
1 --TTTTT-CTTTTTCCTTCTT
*
33552934 TTTTTCTTTTTCTTTCTT
1 TTTTTCTTTTTCCTTCTT
33552952 TT
1 TT
33552954 CTTTTTTATT
Statistics
Matches: 49, Mismatches: 3, Indels: 15
0.73 0.04 0.22
Matches are distributed among these distances:
17 6 0.12
18 20 0.41
19 7 0.14
20 5 0.10
21 11 0.22
ACGTcount: A:0.01, C:0.22, G:0.00, T:0.77
Consensus pattern (18 bp):
TTTTTCTTTTTCCTTCTT
Found at i:33556500 original size:16 final size:17
Alignment explanation
Indices: 33556470--33556502 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
33556460 TGATGCAAAT
33556470 ACAAACAAAAAAAAGAG
1 ACAAACAAAAAAAAGAG
*
33556487 ACAAA-AAAAGAAAGAG
1 ACAAACAAAAAAAAGAG
33556503 TTAGCAAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.76, C:0.09, G:0.15, T:0.00
Consensus pattern (17 bp):
ACAAACAAAAAAAAGAG
Found at i:33558174 original size:28 final size:29
Alignment explanation
Indices: 33558133--33558266 Score: 132
Period size: 29 Copynumber: 4.6 Consensus size: 29
33558123 AACGGAGTCA
* *
33558133 AAAAT-GTAATTTTTGGATGA-TCGGGGGC
1 AAAATGGTAATTTTTGGA-CATTCGGGGGT
33558161 AAAATGGTAATTTTTGGACATTCGGGGGT
1 AAAATGGTAATTTTTGGACATTCGGGGGT
* *
33558190 AAAAAGATAA-TTTTGGACACTTCGGGGGT
1 AAAATGGTAATTTTTGGACA-TTCGGGGGT
* * *
33558219 GAAATGGTAATTTTTGGAAAATTCGAGGGT
1 AAAATGGTAATTTTTGG-ACATTCGGGGGT
*
33558249 CAAAAT-ATAATTTTTGGA
1 -AAAATGGTAATTTTTGGA
33558267 AAGTTTGGGG
Statistics
Matches: 89, Mismatches: 11, Indels: 11
0.80 0.10 0.10
Matches are distributed among these distances:
28 15 0.17
29 44 0.49
30 24 0.27
31 6 0.07
ACGTcount: A:0.33, C:0.07, G:0.28, T:0.33
Consensus pattern (29 bp):
AAAATGGTAATTTTTGGACATTCGGGGGT
Found at i:33560111 original size:6 final size:6
Alignment explanation
Indices: 33560102--33560191 Score: 64
Period size: 6 Copynumber: 15.3 Consensus size: 6
33560092 ATTTTTAAAA
* * * *
33560102 TAAATT TAAATT TAAA-G TAAATT TAAACT TAAA-A TAAGTT TAAATT
1 TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT
* *
33560148 TAAA-A TAAATT CAAATTT TAAA-- TAAATT TAAAATT TAAAATT TA
1 TAAATT TAAATT TAAA-TT TAAATT TAAATT T-AAATT T-AAATT TA
33560192 GGCTCAATTA
Statistics
Matches: 66, Mismatches: 11, Indels: 14
0.73 0.12 0.15
Matches are distributed among these distances:
4 4 0.06
5 11 0.17
6 33 0.50
7 18 0.27
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.41
Consensus pattern (6 bp):
TAAATT
Found at i:33560115 original size:17 final size:17
Alignment explanation
Indices: 33560095--33560188 Score: 134
Period size: 17 Copynumber: 5.5 Consensus size: 17
33560085 AATTTTAATT
33560095 TTTAAAATAAATTTAAA
1 TTTAAAATAAATTTAAA
*
33560112 TTTAAAGTAAATTTAAA
1 TTTAAAATAAATTTAAA
* *
33560129 CTTAAAATAAGTTTAAA
1 TTTAAAATAAATTTAAA
*
33560146 TTTAAAATAAATTCAAA
1 TTTAAAATAAATTTAAA
*
33560163 TTTTAAATAAATTTAAAA
1 TTTAAAATAAATTT-AAA
33560181 TTTAAAAT
1 TTTAAAAT
33560189 TTAGGCTCAA
Statistics
Matches: 66, Mismatches: 10, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
17 56 0.85
18 10 0.15
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.40
Consensus pattern (17 bp):
TTTAAAATAAATTTAAA
Found at i:33560536 original size:33 final size:33
Alignment explanation
Indices: 33560494--33560569 Score: 143
Period size: 33 Copynumber: 2.3 Consensus size: 33
33560484 AGGAAGAATC
*
33560494 TTGAATCATCTTGATCGCTTCTAAACTTTTTGT
1 TTGAATCATCTTGATCGCTTCTAAACTATTTGT
33560527 TTGAATCATCTTGATCGCTTCTAAACTATTTGT
1 TTGAATCATCTTGATCGCTTCTAAACTATTTGT
33560560 TTGAATCATC
1 TTGAATCATC
33560570 ACACCTGTAT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 42 1.00
ACGTcount: A:0.24, C:0.18, G:0.12, T:0.46
Consensus pattern (33 bp):
TTGAATCATCTTGATCGCTTCTAAACTATTTGT
Found at i:33563737 original size:6 final size:6
Alignment explanation
Indices: 33563701--33563804 Score: 78
Period size: 6 Copynumber: 18.0 Consensus size: 6
33563691 GACTTTGATT
* * * *
33563701 TTTAAG TTTAAA -TTAAT TTTAAA TTT-TA TTTAGA TTTAAA TTT--A
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
* *
33563745 TCTTAAA TTTAAA TTTATTTA TTTAAA TTT-AC TTTAAA TTTAAA TTT-AA
1 T-TTAAA TTTAAA TTTA--AA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
33563794 -TTAAA TTTAAA
1 TTTAAA TTTAAA
33563805 AATAATATTA
Statistics
Matches: 78, Mismatches: 10, Indels: 20
0.72 0.09 0.19
Matches are distributed among these distances:
4 4 0.05
5 18 0.23
6 49 0.63
7 2 0.03
8 5 0.06
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.55
Consensus pattern (6 bp):
TTTAAA
Found at i:33563738 original size:17 final size:16
Alignment explanation
Indices: 33563713--33563804 Score: 116
Period size: 17 Copynumber: 5.7 Consensus size: 16
33563703 TAAGTTTAAA
*
33563713 TTAATTTTAAATTTTAT
1 TTAAATTTAAA-TTTAT
*
33563730 TTAGATTTAAATTTAT
1 TTAAATTTAAATTTAT
33563746 CTTAAATTTAAATTTAT
1 -TTAAATTTAAATTTAT
33563763 TT--ATTTAAATTTACT
1 TTAAATTTAAATTTA-T
*
33563778 TTAAATTTAAATTTAA
1 TTAAATTTAAATTTAT
33563794 TTAAATTTAAA
1 TTAAATTTAAA
33563805 AATAATATTA
Statistics
Matches: 67, Mismatches: 4, Indels: 9
0.84 0.05 0.11
Matches are distributed among these distances:
14 11 0.16
15 3 0.04
16 18 0.27
17 35 0.52
ACGTcount: A:0.41, C:0.02, G:0.01, T:0.55
Consensus pattern (16 bp):
TTAAATTTAAATTTAT
Found at i:33563795 original size:11 final size:11
Alignment explanation
Indices: 33563701--33563804 Score: 68
Period size: 11 Copynumber: 9.0 Consensus size: 11
33563691 GACTTTGATT
33563701 TTTAAGTTTAAA
1 TTTAA-TTTAAA
33563713 -TTAATTTTAAA
1 TTTAA-TTTAAA
* *
33563724 TTTTATTTAGA
1 TTTAATTTAAA
**
33563735 TTTAAATTTATC
1 TTT-AATTTAAA
*
33563747 TTAAATTTAAA
1 TTTAATTTAAA
33563758 TTTATTTATTTAAA
1 TTTA---ATTTAAA
*
33563772 TTTACTTTAAA
1 TTTAATTTAAA
33563783 TTTAAATTT-AA
1 TTT-AATTTAAA
*
33563794 TTAAATTTAAA
1 TTTAATTTAAA
33563805 AATAATATTA
Statistics
Matches: 72, Mismatches: 13, Indels: 15
0.72 0.13 0.15
Matches are distributed among these distances:
10 5 0.07
11 42 0.58
12 14 0.19
14 11 0.15
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.55
Consensus pattern (11 bp):
TTTAATTTAAA
Found at i:33565838 original size:59 final size:59
Alignment explanation
Indices: 33565670--33566032 Score: 522
Period size: 58 Copynumber: 6.2 Consensus size: 59
33565660 AAACTTTTTG
* * * * *
33565670 AAAATTA-CATTTTAACCTCGAACCTTCCAAAATTTCATTTTTAACCCCGGTTTCACCA
1 AAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCA
* * *
33565728 AAAATTACCATTTTA-CCCCGAAGTTTTCAAAATTCTATTTTTAACCCCGATTTCACCA
1 AAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCA
*
33565786 AAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCTCGATTTCACCA
1 AAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCA
* *
33565845 AAAATTACCATTTTA-CCCCGAATTTTCTAAAATTCCATTTTTAACCCCGATTTCACCA
1 AAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCA
* *
33565903 AAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCTCGATTTCATC-
1 AAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCA
* * *
33565961 AAAATTACCATTTTACCCTCGAAGC-CTCAAAAATTCCATTTTTAACCCCGATTTCACC-
1 AAAATTACCATTTTACCCCCGAA-CTTTCCAAAATTCCATTTTTAACCCCGATTTCACCA
*
33566019 AAAATTATCATTTT
1 AAAATTACCATTTT
33566033 GCCCTCGGGT
Statistics
Matches: 277, Mismatches: 24, Indels: 8
0.90 0.08 0.03
Matches are distributed among these distances:
58 177 0.64
59 100 0.36
ACGTcount: A:0.33, C:0.28, G:0.04, T:0.35
Consensus pattern (59 bp):
AAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCA
Found at i:33565844 original size:117 final size:118
Alignment explanation
Indices: 33565670--33566032 Score: 567
Period size: 117 Copynumber: 3.1 Consensus size: 118
33565660 AAACTTTTTG
* * * * * *
33565670 AAAATTA-CATTTTAACCTCGAACCTTCCAAAATTTCATTTTTAACCCCGGTTTCACCAAAAATT
1 AAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCTCGATTTCACCAAAAATT
*
33565734 ACCATTTTACCCCGAAGTTTTC-AAAATTCTATTTTTAACCCCGATTTCACCA
66 ACCATTTTACCCCGAAGTTTTCAAAAATTCCATTTTTAACCCCGATTTCACCA
33565786 AAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCTCGATTTCACCAAAAATT
1 AAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCTCGATTTCACCAAAAATT
*
33565851 ACCATTTTACCCCGAA-TTTTCTAAAATTCCATTTTTAACCCCGATTTCACCA
66 ACCATTTTACCCCGAAGTTTTCAAAAATTCCATTTTTAACCCCGATTTCACCA
*
33565903 AAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCTCGATTTCATC-AAAATT
1 AAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCTCGATTTCACCAAAAATT
**
33565967 ACCATTTTACCCTCGAAG-CCTCAAAAATTCCATTTTTAACCCCGATTTCACC-
66 ACCATTTTACCC-CGAAGTTTTCAAAAATTCCATTTTTAACCCCGATTTCACCA
*
33566019 AAAATTATCATTTT
1 AAAATTACCATTTT
33566033 GCCCTCGGGT
Statistics
Matches: 231, Mismatches: 12, Indels: 8
0.92 0.05 0.03
Matches are distributed among these distances:
116 43 0.19
117 188 0.81
ACGTcount: A:0.33, C:0.28, G:0.04, T:0.35
Consensus pattern (118 bp):
AAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCTCGATTTCACCAAAAATT
ACCATTTTACCCCGAAGTTTTCAAAAATTCCATTTTTAACCCCGATTTCACCA
Found at i:33565967 original size:175 final size:173
Alignment explanation
Indices: 33565670--33566074 Score: 528
Period size: 175 Copynumber: 2.3 Consensus size: 173
33565660 AAACTTTTTG
* * * * *
33565670 AAAATTACATTTTAACCTCGAACCTTCCAAAATTTCATTTTTAACCCCGGTTTCACCAAAAATTA
1 AAAATTACATTTT-ACCCCGAACTTTCTAAAATTCCATTTTTAACCCCGATTTCACCAAAAATTA
* * *
33565735 CCATTTTACCCCGAAGTTTTCAAAATTCTATTTTTAACCCCGATTTCACCAAAAATTACCATTTT
65 CCATTTTACCCCGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCAAAAATTACCATTTT
* * *
33565800 ACCCCCGAA-CTTTCCAAAATTCCATTTTTAACCTCGATTTCACC
130 ACCCCCGAAGC-CTCAAAAATTCCATTTTTAACCCCGATTTCACC
*
33565844 AAAAATTACCATTTTACCCCGAATTTTCTAAAATTCCATTTTTAACCCCGATTTCACCAAAAATT
1 -AAAATTA-CATTTTACCCCGAACTTTCTAAAATTCCATTTTTAACCCCGATTTCACCAAAAATT
* *
33565909 ACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCTCGATTTCATC-AAAATTACCATT
64 ACCATTTTA-CCCCGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCAAAAATTACCATT
*
33565973 TTACCCTCGAAGCCTCAAAAATTCCATTTTTAACCCCGATTTCACC
128 TTACCCCCGAAGCCTCAAAAATTCCATTTTTAACCCCGATTTCACC
* ** * * *
33566019 AAAATTATCATTTTGCCCTCG-GGTATCTAAAAGTCCAATTTTCAACCCCGATTTCA
1 AAAATTA-CATTTTACCC-CGAACTTTCTAAAATTCC-ATTTTTAACCCCGATTTCA
33566075 TCGGTTCTTA
Statistics
Matches: 203, Mismatches: 22, Indels: 10
0.86 0.09 0.04
Matches are distributed among these distances:
174 27 0.13
175 132 0.65
176 44 0.22
ACGTcount: A:0.32, C:0.28, G:0.05, T:0.35
Consensus pattern (173 bp):
AAAATTACATTTTACCCCGAACTTTCTAAAATTCCATTTTTAACCCCGATTTCACCAAAAATTAC
CATTTTACCCCGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTA
CCCCCGAAGCCTCAAAAATTCCATTTTTAACCCCGATTTCACC
Found at i:33566038 original size:58 final size:58
Alignment explanation
Indices: 33565670--33566074 Score: 498
Period size: 58 Copynumber: 6.9 Consensus size: 58
33565660 AAACTTTTTG
* * *
33565670 AAAATTA-CATTTTAACCTCGAACCTTCCAAAATTTCATTTTTAACCCCGGTTTCACCA
1 AAAATTACCATTTTACCCTCGAA-CTTCCAAAATTCCATTTTTAACCCCGATTTCACCA
* * *
33565728 AAAATTACCATTTTACCC-CGAAGTTTTCAAAATTCTATTTTTAACCCCGATTTCACCA
1 AAAATTACCATTTTACCCTCGAA-CTTCCAAAATTCCATTTTTAACCCCGATTTCACCA
* *
33565786 AAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCTCGATTTCACCA
1 AAAATTACCATTTTACCCTCGAAC-TTCCAAAATTCCATTTTTAACCCCGATTTCACCA
* *
33565845 AAAATTACCATTTTACCC-CGAATTTTCTAAAATTCCATTTTTAACCCCGATTTCACCA
1 AAAATTACCATTTTACCCTCGAA-CTTCCAAAATTCCATTTTTAACCCCGATTTCACCA
* * *
33565903 AAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCTCGATTTCATC-
1 AAAATTACCATTTTACCCTCGAAC-TTCCAAAATTCCATTTTTAACCCCGATTTCACCA
* *
33565961 AAAATTACCATTTTACCCTCGAAGCCTCAAAAATTCCATTTTTAACCCCGATTTCACC-
1 AAAATTACCATTTTACCCTCGAA-CTTCCAAAATTCCATTTTTAACCCCGATTTCACCA
* * ** * * *
33566019 AAAATTATCATTTTGCCCTCG-GGTATCTAAAAGTCCAATTTTCAACCCCGATTTCA
1 AAAATTACCATTTTACCCTCGAACT-TCCAAAATTCC-ATTTTTAACCCCGATTTCA
33566075 TCGGTTCTTA
Statistics
Matches: 307, Mismatches: 31, Indels: 18
0.86 0.09 0.05
Matches are distributed among these distances:
57 9 0.03
58 201 0.65
59 97 0.32
ACGTcount: A:0.32, C:0.28, G:0.05, T:0.35
Consensus pattern (58 bp):
AAAATTACCATTTTACCCTCGAACTTCCAAAATTCCATTTTTAACCCCGATTTCACCA
Found at i:33577973 original size:68 final size:67
Alignment explanation
Indices: 33577888--33578554 Score: 979
Period size: 68 Copynumber: 9.9 Consensus size: 67
33577878 ATCATTTCCA
* *
33577888 ATCCGCTTGAAATTGAAGTAGAGTGGATAACAAGTCTTCATCTCTGAAATTGAAGTAAGAGCAAC
1 ATCC-CTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAAC
33577953 GTC
65 GTC
* * *
33577956 ATCCGCTTGAAATTGAAGTAGAGTGGATAACAAGTCTTCATCTCTGAGATTGAAGTAAGAGCAAC
1 ATCC-CTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAAC
33578021 GTC
65 GTC
* *
33578024 ATTCCCTTGAGATTGAAGTAGAGTGGATAACACGTATTTATCTCTGAAATTGAAGTAAGAGCAAC
1 A-TCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAAC
*
33578089 GCC
65 GTC
* * * *
33578092 AATCCCCTGAAATTAAAGTAGAGTGGATAACAAGTCTTCATCTCTGAAATTGAAGTAAGAGCAAC
1 -ATCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAAC
33578157 GTC
65 GTC
*
33578160 ATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTAAAATTGAAGTAAGAGCAAC
1 AT-CCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAAC
*
33578225 GTT
65 GTC
* *
33578228 ATCCCTTTGAAATTGAAGTAGAGTGGATAACAAGTCTTCATCTCTGAAATTGAAGTAAGAGCAAC
1 ATCCC-TTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAAC
33578293 GTC
65 GTC
33578296 ATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAAC
1 AT-CCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAAC
33578361 GTC
65 GTC
*
33578364 ATCCCCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTTATCTCTAAAATTGAAGTAAGAGCAA
1 AT-CCCTTGAAATTGAAGTAGAG-TGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAA
*
33578429 TGTC
64 CGTC
* * *
33578433 ATCCC------CTGAAGTAGAGTGGATAACATGTCTTTATCTCTGAAATTGAAGTAAGAGCAATG
1 ATCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAACG
33578492 TC
66 TC
* * *
33578494 ATCCTCTTGAAATTGAAGTAGAGTGGATAACACGCCTTTATCTATGAATTTGAAGT-AGAGC
1 ATCC-CTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGC
33578555 TAGATATCAA
Statistics
Matches: 550, Mismatches: 36, Indels: 27
0.90 0.06 0.04
Matches are distributed among these distances:
61 47 0.09
62 11 0.02
67 10 0.02
68 430 0.78
69 52 0.09
ACGTcount: A:0.35, C:0.16, G:0.21, T:0.28
Consensus pattern (67 bp):
ATCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAACG
TC
Found at i:33578476 original size:61 final size:62
Alignment explanation
Indices: 33578377--33578497 Score: 217
Period size: 61 Copynumber: 2.0 Consensus size: 62
33578367 CCCTTGAAAT
33578377 TGAAGTAGAGTTGGATAACACGTCTTTATCTCTAAAATTGAAGTAAGAGCAATGTCATCCCC
1 TGAAGTAGAGTTGGATAACACGTCTTTATCTCTAAAATTGAAGTAAGAGCAATGTCATCCCC
* *
33578439 TGAAGTAGAG-TGGATAACATGTCTTTATCTCTGAAATTGAAGTAAGAGCAATGTCATCC
1 TGAAGTAGAGTTGGATAACACGTCTTTATCTCTAAAATTGAAGTAAGAGCAATGTCATCC
33578498 TCTTGAAATT
Statistics
Matches: 57, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
61 47 0.82
62 10 0.18
ACGTcount: A:0.34, C:0.16, G:0.21, T:0.30
Consensus pattern (62 bp):
TGAAGTAGAGTTGGATAACACGTCTTTATCTCTAAAATTGAAGTAAGAGCAATGTCATCCCC
Found at i:33578881 original size:11 final size:11
Alignment explanation
Indices: 33578862--33578950 Score: 70
Period size: 11 Copynumber: 8.0 Consensus size: 11
33578852 ACTTTGATTT
*
33578862 TTAAGTTTAAA
1 TTAAATTTAAA
*
33578873 TTAATTTTAAA
1 TTAAATTTAAA
** *
33578884 TTTTATTTAGAT
1 TTAAATTTA-AA
**
33578896 TTAAATTTATC
1 TTAAATTTAAA
33578907 TTAAATTTAAA
1 TTAAATTTAAA
* *
33578918 TTTACTTTAAA
1 TTAAATTTAAA
* *
33578929 TTTAATTTTAA
1 TTAAATTTAAA
33578940 TTAAATTTAAA
1 TTAAATTTAAA
33578951 AATAATATTA
Statistics
Matches: 60, Mismatches: 17, Indels: 2
0.76 0.22 0.03
Matches are distributed among these distances:
11 52 0.87
12 8 0.13
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (11 bp):
TTAAATTTAAA
Found at i:33578898 original size:17 final size:16
Alignment explanation
Indices: 33578873--33578950 Score: 93
Period size: 17 Copynumber: 4.7 Consensus size: 16
33578863 TAAGTTTAAA
*
33578873 TTAATTTTAAATTTTAT
1 TTAAATTTAAA-TTTAT
*
33578890 TTAGATTTAAATTTAT
1 TTAAATTTAAATTTAT
33578906 CTTAAATTTAAATTTACT
1 -TTAAATTTAAATTTA-T
* *
33578924 TTAAATTTAATTTTAA
1 TTAAATTTAAATTTAT
33578940 TTAAATTTAAA
1 TTAAATTTAAA
33578951 AATAATATTA
Statistics
Matches: 53, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
16 15 0.28
17 37 0.70
18 1 0.02
ACGTcount: A:0.41, C:0.03, G:0.01, T:0.55
Consensus pattern (16 bp):
TTAAATTTAAATTTAT
Found at i:33578949 original size:6 final size:6
Alignment explanation
Indices: 33578861--33578950 Score: 68
Period size: 6 Copynumber: 16.0 Consensus size: 6
33578851 GACTTTGATT
* * * *
33578861 TTTAAG TTTAAA -TTAAT TTTAAA TTT-TA TTTAGA TTTAAA TTT--A
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
* *
33578905 TCTTAAA TTTAAA TTT-AC TTTAAA TTT-AA TTTTAA -TTAAA TTTAAA
1 T-TTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
33578951 AATAATATTA
Statistics
Matches: 67, Mismatches: 9, Indels: 16
0.73 0.10 0.17
Matches are distributed among these distances:
4 2 0.03
5 23 0.34
6 40 0.60
7 2 0.03
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.54
Consensus pattern (6 bp):
TTTAAA
Found at i:33581201 original size:28 final size:28
Alignment explanation
Indices: 33581044--33581204 Score: 87
Period size: 29 Copynumber: 5.6 Consensus size: 28
33581034 CCGATTTCAC
* **
33581044 CAAAAATTACCATTTTACCCTTGAATTTT
1 CAAAAATTACCATTTTACCCTCGAA-CAT
* * ** *
33581073 CTAAAATT-CCATTTTTAACCCTAGTTTCAC
1 CAAAAATTACCA-TTTT-ACCCTCG-AACAT
*
33581103 CAAAAATTACCATTTTACCCTCGAACTTT
1 CAAAAATTACCATTTTACCCTCGAAC-AT
* * * *
33581132 CCAAAATT-CCATTTTTAACCTTGATTTCAT
1 CAAAAATTACCA-TTTTACCCTCGA--ACAT
*
33581162 C-AAAATTACCATTTTACCCTCGAAGCCT
1 CAAAAATTACCATTTTACCCTCGAA-CAT
33581190 CAAAAATT-CCATTTT
1 CAAAAATTACCATTTT
33581205 TAACCCTAAT
Statistics
Matches: 99, Mismatches: 22, Indels: 23
0.69 0.15 0.16
Matches are distributed among these distances:
28 17 0.17
29 56 0.57
30 22 0.22
31 4 0.04
ACGTcount: A:0.33, C:0.25, G:0.04, T:0.38
Consensus pattern (28 bp):
CAAAAATTACCATTTTACCCTCGAACAT
Found at i:33581275 original size:58 final size:59
Alignment explanation
Indices: 33580830--33581276 Score: 544
Period size: 59 Copynumber: 7.6 Consensus size: 59
33580820 TTTTGATCCT
* *
33580830 GAACCTTCCAAAATTCCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCCT
1 GAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCCC
* * *
33580889 AAACTTTCCAAAATTCCATTTTTAACCCCGATTTTACCAAAAATTACCATTTTACCCCT
1 GAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCCC
* * * * * * *
33580948 AAATTTTCCAAAATTCAATTTTTAACCTCGGTTTCACCAAAAATTACCTTTTTACCCCT
1 GAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCCC
**
33581007 GAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCTT
1 GAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCCC
* * * *
33581066 GAATTTTCTAAAATTCCATTTTTAA-CCCTAGTTTCACCAAAAATTACCATTTTACCCTC
1 GAACTTTCCAAAATTCCATTTTTAACCCCGA-TTTCACCAAAAATTACCATTTTACCCCC
** * *
33581125 GAACTTTCCAAAATTCCATTTTTAACCTTGATTTCATC-AAAATTACCATTTTACCCTC
1 GAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCCC
* * ** *
33581183 GAAGC-CTCAAAAATTCCATTTTTAACCCTAATTTCACC-AAAATTACTATTTTACCCCC
1 GAA-CTTTCCAAAATTCCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCCC
* * * * *
33581241 G-AGTATCCAAAAGTCCCGTTTTCAACCCCGATTTCA
1 GAACTTTCCAAAA-TTCCATTTTTAACCCCGATTTCA
33581277 TCGGTTCTTA
Statistics
Matches: 342, Mismatches: 41, Indels: 11
0.87 0.10 0.03
Matches are distributed among these distances:
57 7 0.02
58 92 0.27
59 241 0.70
60 2 0.01
ACGTcount: A:0.32, C:0.28, G:0.04, T:0.36
Consensus pattern (59 bp):
GAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCCC
Found at i:33582528 original size:12 final size:12
Alignment explanation
Indices: 33582513--33582537 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
33582503 AATTTTCCAT
33582513 AAAAATTATAAA
1 AAAAATTATAAA
33582525 AAAAATTATAAA
1 AAAAATTATAAA
33582537 A
1 A
33582538 TTTAAAATAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (12 bp):
AAAAATTATAAA
Found at i:33582562 original size:19 final size:19
Alignment explanation
Indices: 33582520--33582564 Score: 51
Period size: 18 Copynumber: 2.5 Consensus size: 19
33582510 CATAAAAATT
33582520 ATAA-AAAA-AATTATAAA
1 ATAATAAAATAATTATAAA
* *
33582537 AT-TTAAAATAATTTTAAA
1 ATAATAAAATAATTATAAA
33582555 ATAATAAAAT
1 ATAATAAAAT
33582565 TGATATAAAC
Statistics
Matches: 22, Mismatches: 3, Indels: 4
0.76 0.10 0.14
Matches are distributed among these distances:
17 6 0.27
18 10 0.45
19 6 0.27
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (19 bp):
ATAATAAAATAATTATAAA
Found at i:33595038 original size:26 final size:25
Alignment explanation
Indices: 33594983--33595039 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 25
33594973 GATGACCAAC
*
33594983 TTATATTTTATTTAAACTGATTGAT
1 TTATATTTTATTTAAAATGATTGAT
* *
33595008 CTATATTATTATTTAAAATAGGTTG-T
1 TTATATT-TTATTTAAAAT-GATTGAT
33595034 TTATAT
1 TTATAT
33595040 AAATCATCAT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
25 6 0.23
26 16 0.62
27 4 0.15
ACGTcount: A:0.33, C:0.04, G:0.09, T:0.54
Consensus pattern (25 bp):
TTATATTTTATTTAAAATGATTGAT
Found at i:33602565 original size:30 final size:28
Alignment explanation
Indices: 33602529--33602629 Score: 107
Period size: 29 Copynumber: 3.5 Consensus size: 28
33602519 ATTCTGGGGT
33602529 AAAATGGTAATTTTAGAAGTGTCGAGGTCA
1 AAAAT-GTAATTTTAGAAGT-TCGAGGTCA
* *
33602559 AAAATGGAATTTTAGGAAGTTCGAGGT-T
1 AAAATGTAATTTTA-GAAGTTCGAGGTCA
*
33602587 AAAATGTAATTTTTGGAAGTTTCG-GGTTCA
1 AAAATGTAA-TTTTAGAAG-TTCGAGG-TCA
33602617 AAAATGTAATTTT
1 AAAATGTAATTTT
33602630 TGGAAGTTTG
Statistics
Matches: 61, Mismatches: 5, Indels: 11
0.79 0.06 0.14
Matches are distributed among these distances:
28 14 0.23
29 28 0.46
30 19 0.31
ACGTcount: A:0.36, C:0.05, G:0.24, T:0.36
Consensus pattern (28 bp):
AAAATGTAATTTTAGAAGTTCGAGGTCA
Found at i:33602591 original size:58 final size:58
Alignment explanation
Indices: 33602528--33602637 Score: 152
Period size: 58 Copynumber: 1.9 Consensus size: 58
33602518 TATTCTGGGG
33602528 TAAAATGGTAA-TTTTAGAAGTGTCGAGG-TCAAAAATGGAATTTTAGGAAGTTCGAGGT
1 TAAAAT-GTAATTTTTAGAAGTGTCG-GGTTCAAAAATGGAATTTTAGGAAGTTCGAGGT
* * * *
33602586 TAAAATGTAATTTTTGGAAGTTTCGGGTTCAAAAATGTAATTTTTGGAAGTT
1 TAAAATGTAATTTTTAGAAGTGTCGGGTTCAAAAATGGAATTTTAGGAAGTT
33602638 TGGGGAATTT
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
57 6 0.13
58 40 0.87
ACGTcount: A:0.35, C:0.05, G:0.25, T:0.36
Consensus pattern (58 bp):
TAAAATGTAATTTTTAGAAGTGTCGGGTTCAAAAATGGAATTTTAGGAAGTTCGAGGT
Found at i:33602630 original size:30 final size:31
Alignment explanation
Indices: 33602529--33602638 Score: 133
Period size: 30 Copynumber: 3.7 Consensus size: 31
33602519 ATTCTGGGGT
* *
33602529 AAAATGGTAA-TTTTAGAAGTGTCGAGG-TCA
1 AAAAT-GTAATTTTTGGAAGTTTCGAGGTTCA
* *
33602559 AAAATGGAATTTTAGGAAG-TTCGAGGTT--
1 AAAATGTAATTTTTGGAAGTTTCGAGGTTCA
33602587 AAAATGTAATTTTTGGAAGTTTCG-GGTTCA
1 AAAATGTAATTTTTGGAAGTTTCGAGGTTCA
33602617 AAAATGTAATTTTTGGAAGTTT
1 AAAATGTAATTTTTGGAAGTTT
33602639 GGGGAATTTT
Statistics
Matches: 69, Mismatches: 6, Indels: 10
0.81 0.07 0.12
Matches are distributed among these distances:
28 21 0.30
29 13 0.19
30 35 0.51
ACGTcount: A:0.35, C:0.05, G:0.25, T:0.36
Consensus pattern (31 bp):
AAAATGTAATTTTTGGAAGTTTCGAGGTTCA
Found at i:33603999 original size:3 final size:3
Alignment explanation
Indices: 33603909--33603981 Score: 58
Period size: 3 Copynumber: 23.7 Consensus size: 3
33603899 TTATTAAAAA
* * * *
33603909 TAT TAT TAT TAT TAT TAT TAT TAA TAGT TGT TAA TGT TA- TACT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TA-T TAT
* *
33603955 TAC TAT TAA TAT TAT TATT TAT TAT TA
1 TAT TAT TAT TAT TAT TA-T TAT TAT TA
33603982 AAACTTTCCT
Statistics
Matches: 54, Mismatches: 12, Indels: 8
0.73 0.16 0.11
Matches are distributed among these distances:
2 2 0.04
3 46 0.85
4 6 0.11
ACGTcount: A:0.34, C:0.03, G:0.04, T:0.59
Consensus pattern (3 bp):
TAT
Found at i:33605601 original size:59 final size:60
Alignment explanation
Indices: 33605495--33605972 Score: 566
Period size: 59 Copynumber: 8.1 Consensus size: 60
33605485 TTGGACTCGC
* * * * * * *
33605495 AGGGGCAAAATGGTAATTTTCGATGAACTCGAGGTCAAAAA-GAGAATTTTGGAAAATTCG
1 AGGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATG-GAATTTTGGAAAGTTCG
* * * * *
33605555 A-GGGTAAAATAGTATTTTTTGGTTAAATCGGGGTTAAAAATGGAATTTTAGAAAGTT-T
1 AGGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTCG
* * *
33605613 AGGGGTAAAATGGTAATTTTTGGTGAAATCAGGGTTAAAAATGAAATTTTGGACAGTTCG
1 AGGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTCG
* ** **
33605673 A-GGGTAAAATGGCAATTTTTGGTGAAATCGGGGTTAAAAATGGAA-TTTCAAAAGTTTT
1 AGGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTCG
* * *
33605731 AGGGGT-AAATGGTAATTTTTGGTGAAACCGGGGTTGAAAATGGAATTTTGGAAAGTT-T
1 AGGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTCG
* *
33605789 AGGGGTAAAATGGTAATTTTTGGTGAGACCGGGGTTGAAAAA-GGAATTTTGGAAAGTTCG
1 AGGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTT-AAAAATGGAATTTTGGAAAGTTCG
* * * * *
33605849 A-GGGTAAAATAGTAATTTTTGGTGAAACCGAGGTTGAAAATGGAATTTTGGAAAGTT-T
1 AGGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTCG
* *
33605907 AGGGGTAAAATGGTAATTTTTGGTGAGATCGGGGTT-AAAATAGAATTTTGGAAAGTTCG
1 AGGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTCG
33605966 -GGGGTAA
1 AGGGGTAA
33605973 TTTTTGGACC
Statistics
Matches: 360, Mismatches: 47, Indels: 24
0.84 0.11 0.06
Matches are distributed among these distances:
58 85 0.24
59 267 0.74
60 8 0.02
ACGTcount: A:0.35, C:0.05, G:0.29, T:0.31
Consensus pattern (60 bp):
AGGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTCG
Found at i:33605776 original size:176 final size:176
Alignment explanation
Indices: 33605556--33605972 Score: 588
Period size: 176 Copynumber: 2.4 Consensus size: 176
33605546 GAAAATTCGA
* * * *
33605556 GGGTAAAATAGTATTTTTTGGTTAAATCGGGGTTAAAAATGGAATTTTAGAAAGTTTAGGGGTAA
1 GGGTAAAATGGTAATTTTTGGTGAAATCGGGGTT-AAAATGGAATTTTGGAAAGTTTAGGGGTAA
* * *
33605621 AATGGTAATTTTTGGTGAAATCAGGGTT-AAAAATGAAATTTTGGACAGTTCGAGGGTAAAATGG
65 AATGGTAATTTTTGGTGAAACCAGGGTTGAAAAA-GAAATTTTGGAAAGTTCGAGGGTAAAATAG
* *
33605685 CAATTTTTGGTGAAATCGGGGTTAAAAATGGAA-TTTCAAAAGTTTTAG
129 CAATTTTTGGTGAAACCGAGGTTAAAAATGGAATTTTCAAAAG-TTTAG
*
33605733 GGGT-AAATGGTAATTTTTGGTGAAACCGGGGTTGAAAATGGAATTTTGGAAAGTTTAGGGGTAA
1 GGGTAAAATGGTAATTTTTGGTGAAATCGGGGTT-AAAATGGAATTTTGGAAAGTTTAGGGGTAA
* * * *
33605797 AATGGTAATTTTTGGTGAGACCGGGGTTGAAAAAGGAATTTTGGAAAGTTCGAGGGTAAAATAGT
65 AATGGTAATTTTTGGTGAAACCAGGGTTGAAAAAGAAATTTTGGAAAGTTCGAGGGTAAAATAGC
* **
33605862 AATTTTTGGTGAAACCGAGGTTGAAAATGGAATTTTGGAAAGTTTAG
130 AATTTTTGGTGAAACCGAGGTTAAAAATGGAATTTTCAAAAGTTTAG
* * **
33605909 GGGTAAAATGGTAATTTTTGGTGAGATCGGGGTTAAAATAGAATTTTGGAAAGTTCGGGGGTAA
1 GGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAATGGAATTTTGGAAAGTTTAGGGGTAA
33605973 TTTTTGGACC
Statistics
Matches: 214, Mismatches: 23, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
176 171 0.80
177 43 0.20
ACGTcount: A:0.34, C:0.04, G:0.30, T:0.32
Consensus pattern (176 bp):
GGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAATGGAATTTTGGAAAGTTTAGGGGTAAA
ATGGTAATTTTTGGTGAAACCAGGGTTGAAAAAGAAATTTTGGAAAGTTCGAGGGTAAAATAGCA
ATTTTTGGTGAAACCGAGGTTAAAAATGGAATTTTCAAAAGTTTAG
Found at i:33605969 original size:29 final size:29
Alignment explanation
Indices: 33605584--33605970 Score: 138
Period size: 30 Copynumber: 13.2 Consensus size: 29
33605574 TGGTTAAATC
* *
33605584 GGGGTTAAAAATGGAATTTTAGAAAGTTTA
1 GGGGTT-AAAATGGAATTTTGGAAAGTTCA
33605614 GGGG-TAAAATGGTAATTTTTGGTGAAA--TCA
1 GGGGTTAAAATGG-AA-TTTT-G-GAAAGTTCA
* *
33605644 -GGGTTAAAAATGAAATTTTGGACAGTTC-
1 GGGGTT-AAAATGGAATTTTGGAAAGTTCA
33605672 GAGGG-TAAAATGGCAATTTTTGGTGAAA--TC-
1 G-GGGTTAAAATGG-AA-TTTT-G-GAAAGTTCA
** *
33605702 GGGGTTAAAAATGGAA-TTTCAAAAGTTTTA
1 GGGGTT-AAAATGGAATTTTGGAAAG-TTCA
*
33605732 GGGG-T-AAATGGTAATTTTTGGTGAAA---CC
1 GGGGTTAAAATGG-AA-TTTT-G-GAAAGTTCA
*
33605760 GGGGTTGAAAATGGAATTTTGGAAAGTTTA
1 GGGGTT-AAAATGGAATTTTGGAAAGTTCA
** * *
33605790 GGGG-TAAAATGGTAATTTTTGGTGAG-ACC
1 GGGGTTAAAATGG-AA-TTTTGGAAAGTTCA
*
33605819 GGGGTTGAAAAAGGAATTTTGGAAAGTTC-
1 GGGGTT-AAAATGGAATTTTGGAAAGTTCA
* *
33605848 GAGGG-TAAAATAGTAATTTTTGGTGAAA---CC
1 G-GGGTTAAAAT-GGAA-TTTT-G-GAAAGTTCA
* *
33605878 GAGGTTGAAAATGGAATTTTGGAAAGTTTA
1 GGGGTT-AAAATGGAATTTTGGAAAGTTCA
** *
33605908 GGGG-TAAAATGGTAATTTTTGGTGAGATC-
1 GGGGTTAAAATGG-AA-TTTTGGAAAGTTCA
* *
33605937 GGGGTTAAAATAGAATTTTGGAAAGTTCG
1 GGGGTTAAAATGGAATTTTGGAAAGTTCA
33605966 GGGGT
1 GGGGT
33605971 AATTTTTGGA
Statistics
Matches: 267, Mismatches: 39, Indels: 103
0.65 0.10 0.25
Matches are distributed among these distances:
26 3 0.01
27 17 0.06
28 53 0.20
29 66 0.25
30 82 0.31
31 32 0.12
32 14 0.05
ACGTcount: A:0.34, C:0.04, G:0.31, T:0.32
Consensus pattern (29 bp):
GGGGTTAAAATGGAATTTTGGAAAGTTCA
Found at i:33606289 original size:162 final size:164
Alignment explanation
Indices: 33606050--33606383 Score: 503
Period size: 164 Copynumber: 2.0 Consensus size: 164
33606040 GGCATCCAGA
* ** * * * *
33606050 AGTCAAAGGACGAATTTGTAAATCTTGAAAAATTCTTGGGCCAATTTTGTAATTAAATAAAAGTT
1 AGTCAAAGAACGAATTTAAAAATCTTCAAAAATTCCTGGGCCAATTTTGTAATTAAACAAAAATT
*
33606115 GATTTAAGGATTAAATTAAAACAAA-TT-AAAAATGACAGGGATTAAACACATAAATAAACCAAA
66 GATTTAAGGATTAAATTAAAACAAATTTAAAAAATGACAGGGACTAAACACATAAATAAACCAAA
33606178 AAGTGACACGTGGCAGCCTCTGGTGAAGTCAAAC
131 AAGTGACACGTGGCAGCCTCTGGTGAAGTCAAAC
* * *
33606212 AGTCAAAGAACTAATTTAAAAATC-TCAAAAGATTCCTGGGTCAATTTTGTAATTAAGCAAAAAT
1 AGTCAAAGAACGAATTTAAAAATCTTCAAAA-ATTCCTGGGCCAATTTTGTAATTAAACAAAAAT
* * *
33606276 TGATTTGAGGATTAAATTAAAACAAATTTAAAAAATGACAGGGACTAGATACATAAATAAACCAA
65 TGATTTAAGGATTAAATTAAAACAAATTTAAAAAATGACAGGGACTAAACACATAAATAAACCAA
*
33606341 AAAGTGACACGTGGCAGCCTCTGGTGCAGTCAAAC
130 AAAGTGACACGTGGCAGCCTCTGGTGAAGTCAAAC
33606376 AGTCAAAG
1 AGTCAAAG
33606384 GACCAAATTG
Statistics
Matches: 154, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
161 5 0.03
162 73 0.47
163 2 0.01
164 74 0.48
ACGTcount: A:0.45, C:0.13, G:0.17, T:0.25
Consensus pattern (164 bp):
AGTCAAAGAACGAATTTAAAAATCTTCAAAAATTCCTGGGCCAATTTTGTAATTAAACAAAAATT
GATTTAAGGATTAAATTAAAACAAATTTAAAAAATGACAGGGACTAAACACATAAATAAACCAAA
AAGTGACACGTGGCAGCCTCTGGTGAAGTCAAAC
Found at i:33606611 original size:22 final size:22
Alignment explanation
Indices: 33606563--33606615 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 22
33606553 GCGAGTACTA
*
33606563 TAAATATCATTTTTTTAGGTTTTT
1 TAAA-ATCATTTTTTCA-GTTTTT
33606587 TAAAATCATTTTTTCA-TTTTCT
1 TAAAATCATTTTTTCAGTTTT-T
33606609 TAAAATC
1 TAAAATC
33606616 GACCCCCTCT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
21 4 0.15
22 8 0.30
23 11 0.41
24 4 0.15
ACGTcount: A:0.30, C:0.09, G:0.04, T:0.57
Consensus pattern (22 bp):
TAAAATCATTTTTTCAGTTTTT
Found at i:33607298 original size:21 final size:23
Alignment explanation
Indices: 33607272--33607324 Score: 65
Period size: 21 Copynumber: 2.4 Consensus size: 23
33607262 ATATATTAAA
* *
33607272 TATTATTATTTTTAAAGT-TA-T
1 TATTATTATTATTAAAGTACATT
*
33607293 TATTATCATTATTAAAGTACATT
1 TATTATTATTATTAAAGTACATT
33607316 TATTATTAT
1 TATTATTAT
33607325 CGAAACCTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
21 16 0.62
22 1 0.04
23 9 0.35
ACGTcount: A:0.36, C:0.04, G:0.04, T:0.57
Consensus pattern (23 bp):
TATTATTATTATTAAAGTACATT
Found at i:33608093 original size:18 final size:17
Alignment explanation
Indices: 33608057--33608138 Score: 94
Period size: 18 Copynumber: 4.7 Consensus size: 17
33608047 GCTTTTTAAT
* *
33608057 TTTAATTTTAAAAT-TA
1 TTTAAATTTAAAATAAA
*
33608073 TTTCAAATTTAAACTAAA
1 TTT-AAATTTAAAATAAA
33608091 TTTAAATTTTAAAATAAA
1 TTTAAA-TTTAAAATAAA
*
33608109 TTTAAATTTAAAAATGAA
1 TTTAAATTT-AAAATAAA
33608127 TTTAAATTTAAA
1 TTTAAATTTAAA
33608139 TTTAAAGTAA
Statistics
Matches: 57, Mismatches: 5, Indels: 7
0.83 0.07 0.10
Matches are distributed among these distances:
16 3 0.05
17 18 0.32
18 36 0.63
ACGTcount: A:0.51, C:0.02, G:0.01, T:0.45
Consensus pattern (17 bp):
TTTAAATTTAAAATAAA
Found at i:33608099 original size:35 final size:36
Alignment explanation
Indices: 33608054--33608173 Score: 109
Period size: 41 Copynumber: 3.2 Consensus size: 36
33608044 TGGGCTTTTT
* * *
33608054 AATTTTAATTTTAAAAT-TATTTCAAATTT-AAACTA
1 AATTTAAATTTTAAAATAAATTT-AAATTTAAAAATA
*
33608089 AATTTAAATTTTAAAATAAATTTAAATTTAAAAATG
1 AATTTAAATTTTAAAATAAATTTAAATTTAAAAATA
* * *
33608125 AATTTAAATTTAAATTTAAAGTAAATTTAATTTTAGAAATA
1 AATTTAAA--T---TTTAAAATAAATTTAAATTTAAAAATA
33608166 AATTTAAA
1 AATTTAAA
33608174 AATCATTTTA
Statistics
Matches: 70, Mismatches: 8, Indels: 8
0.81 0.09 0.09
Matches are distributed among these distances:
35 22 0.31
36 16 0.23
38 1 0.01
41 31 0.44
ACGTcount: A:0.52, C:0.02, G:0.03, T:0.44
Consensus pattern (36 bp):
AATTTAAATTTTAAAATAAATTTAAATTTAAAAATA
Found at i:33608101 original size:7 final size:6
Alignment explanation
Indices: 33608051--33608173 Score: 78
Period size: 6 Copynumber: 21.0 Consensus size: 6
33608041 TTTTGGGCTT
* * * *
33608051 TTTAAT TTTAAT TTTAAA ATT--A TTTCAAA TTTAAA -CTAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTT-AAA TTTAAA TTTAAA TTTAAA
* ** *
33608097 TTTTAAA -ATAAA TTTAAA TTTAAA AATGAA TTTAAA TTTAAA TTTAAA
1 -TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
* * *
33608145 -GTAAA TTTAAT TTTAGAA -ATAAA TTTAAA
1 TTTAAA TTTAAA TTTA-AA TTTAAA TTTAAA
33608174 AATCATTTTA
Statistics
Matches: 89, Mismatches: 19, Indels: 18
0.71 0.15 0.14
Matches are distributed among these distances:
4 3 0.03
5 14 0.16
6 61 0.69
7 11 0.12
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (6 bp):
TTTAAA
Found at i:33608152 original size:41 final size:42
Alignment explanation
Indices: 33608087--33608173 Score: 131
Period size: 41 Copynumber: 2.1 Consensus size: 42
33608077 AAATTTAAAC
*
33608087 TAAATTTAAATTTTAAAATAAATTTAAATTTAAAAATGAATT
1 TAAATTTAAATTTTAAAATAAATTTAAATTTAAAAATAAATT
* * *
33608129 TAAATTTAAA-TTTAAAGTAAATTTAATTTTAGAAATAAATT
1 TAAATTTAAATTTTAAAATAAATTTAAATTTAAAAATAAATT
33608170 TAAA
1 TAAA
33608174 AATCATTTTA
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
41 31 0.76
42 10 0.24
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (42 bp):
TAAATTTAAATTTTAAAATAAATTTAAATTTAAAAATAAATT
Found at i:33608184 original size:41 final size:41
Alignment explanation
Indices: 33608095--33608199 Score: 111
Period size: 41 Copynumber: 2.5 Consensus size: 41
33608085 ACTAAATTTA
* **
33608095 AATTTTAAAATAAATTTAAATTTAAAAATGAATTTAAATTT
1 AATTTTAAAATAAATTTAAATTTAAAAATAAATTTAAAAAT
* * * *
33608136 AAATTTAAAGTAAATTTAATTTTAGAAATAAATTTAAAAAT
1 AATTTTAAAATAAATTTAAATTTAAAAATAAATTTAAAAAT
* * *
33608177 CATTTTAAACTTAAATTAAAATT
1 AATTTTAAA-ATAAATTTAAATT
33608200 GACCCAAAAT
Statistics
Matches: 51, Mismatches: 12, Indels: 1
0.80 0.19 0.02
Matches are distributed among these distances:
41 41 0.80
42 10 0.20
ACGTcount: A:0.53, C:0.02, G:0.03, T:0.42
Consensus pattern (41 bp):
AATTTTAAAATAAATTTAAATTTAAAAATAAATTTAAAAAT
Found at i:33608191 original size:24 final size:24
Alignment explanation
Indices: 33608105--33608197 Score: 75
Period size: 24 Copynumber: 3.7 Consensus size: 24
33608095 AATTTTAAAA
33608105 TAAATTTAAATTTAAAAATGAA-TT
1 TAAATTTAAATTTAAAAAT-AATTT
33608129 TAAATTTAAATTTAAAGTAAATTTAATTT
1 TAAATTTAAATTT-AA--AAA--TAATTT
* *
33608158 TAGAA-ATAAATTTAAAAATCATTT
1 TA-AATTTAAATTTAAAAATAATTT
*
33608182 TAAACTTAAA-TTAAAA
1 TAAATTTAAATTTAAAA
33608198 TTGACCCAAA
Statistics
Matches: 58, Mismatches: 3, Indels: 17
0.74 0.04 0.22
Matches are distributed among these distances:
23 8 0.14
24 24 0.41
25 2 0.03
26 3 0.05
27 3 0.05
28 4 0.07
29 12 0.21
30 2 0.03
ACGTcount: A:0.54, C:0.02, G:0.03, T:0.41
Consensus pattern (24 bp):
TAAATTTAAATTTAAAAATAATTT
Found at i:33608191 original size:59 final size:59
Alignment explanation
Indices: 33608072--33608199 Score: 141
Period size: 59 Copynumber: 2.2 Consensus size: 59
33608062 TTTTAAAATT
** * *
33608072 ATTTCAAATTTAAACTAAATTTAAATTTTAAAATAAATTTAAATTTAAAAATGAATTTAA
1 ATTT-AAATTTAAACTAAATTTAAATTTTAAAATAAATTTAAAAATAAAAATAAACTTAA
* * ***
33608132 ATTTAAATTTAAAGTAAATTT-AATTTTAGAAATAAATTTAAAAATCATTTTAAACTTAA
1 ATTTAAATTTAAACTAAATTTAAATTTTA-AAATAAATTTAAAAATAAAAATAAACTTAA
*
33608191 ATTAAAATT
1 ATTTAAATT
33608200 GACCCAAAAT
Statistics
Matches: 57, Mismatches: 10, Indels: 3
0.81 0.14 0.04
Matches are distributed among these distances:
58 7 0.12
59 46 0.81
60 4 0.07
ACGTcount: A:0.52, C:0.03, G:0.02, T:0.42
Consensus pattern (59 bp):
ATTTAAATTTAAACTAAATTTAAATTTTAAAATAAATTTAAAAATAAAAATAAACTTAA
Found at i:33608670 original size:6 final size:6
Alignment explanation
Indices: 33608661--33608736 Score: 72
Period size: 6 Copynumber: 13.0 Consensus size: 6
33608651 TTAATATTAT
* *
33608661 TTTAAA TTT-AA -TTAAA TTTAAA TTTAAA -ATAAA TTTAAA TAGGTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA T--TTAAA
33608708 TTTAAA TTTAAGA --TAAA TTTAAA TTTAAA
1 TTTAAA TTTAA-A TTTAAA TTTAAA TTTAAA
33608737 ATAAGTTTAA
Statistics
Matches: 58, Mismatches: 4, Indels: 16
0.74 0.05 0.21
Matches are distributed among these distances:
4 3 0.05
5 11 0.19
6 38 0.66
7 1 0.02
8 5 0.09
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.43
Consensus pattern (6 bp):
TTTAAA
Found at i:33608679 original size:17 final size:16
Alignment explanation
Indices: 33608661--33608747 Score: 97
Period size: 17 Copynumber: 5.4 Consensus size: 16
33608651 TTAATATTAT
*
33608661 TTTAAATTTAATTAAA
1 TTTAAATTTAAATAAA
33608677 TTTAAATTTAAAATAAA
1 TTTAAATTT-AAATAAA
**
33608694 TTTAAA--TAGGTAAA
1 TTTAAATTTAAATAAA
33608708 TTTAAATTTAAGATAAA
1 TTTAAATTTAA-ATAAA
*
33608725 TTTAAATTTAAAATAAG
1 TTTAAATTT-AAATAAA
33608742 TTTAAA
1 TTTAAA
33608748 ATCAATTTAA
Statistics
Matches: 60, Mismatches: 6, Indels: 9
0.80 0.08 0.12
Matches are distributed among these distances:
14 11 0.18
15 1 0.02
16 11 0.18
17 35 0.58
18 2 0.03
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.43
Consensus pattern (16 bp):
TTTAAATTTAAATAAA
Found at i:33608684 original size:11 final size:11
Alignment explanation
Indices: 33608661--33608758 Score: 63
Period size: 11 Copynumber: 8.5 Consensus size: 11
33608651 TTAATATTAT
*
33608661 TTTAAATTTAA
1 TTTAAATTAAA
33608672 -TTAAATTTAAA
1 TTTAAA-TTAAA
*
33608683 TTTAAAATAAA
1 TTTAAATTAAA
33608694 TTTAAATAGGTAAA
1 TTTAAAT---TAAA
*
33608708 TTTAAATTTAA
1 TTTAAATTAAA
**
33608719 GATAAATTTAAA
1 TTTAAA-TTAAA
* *
33608731 TTTAAAATAAG
1 TTTAAATTAAA
* *
33608742 TTTAAAATCAA
1 TTTAAATTAAA
33608753 TTTAAA
1 TTTAAA
33608759 CTTTAATTAA
Statistics
Matches: 68, Mismatches: 13, Indels: 12
0.73 0.14 0.13
Matches are distributed among these distances:
10 5 0.07
11 39 0.57
12 13 0.19
14 11 0.16
ACGTcount: A:0.53, C:0.01, G:0.04, T:0.42
Consensus pattern (11 bp):
TTTAAATTAAA
Found at i:33608709 original size:14 final size:12
Alignment explanation
Indices: 33608672--33608758 Score: 67
Period size: 11 Copynumber: 7.4 Consensus size: 12
33608662 TTAAATTTAA
*
33608672 TTAAATTTAAAT
1 TTAAATATAAAT
33608684 TTAAA-ATAAAT
1 TTAAATATAAAT
33608695 TTAAATAGGTAAAT
1 TTAAATA--TAAAT
*
33608709 TTAAATTTAAGA-
1 TTAAATATAA-AT
*
33608721 -TAAATTTAAAT
1 TTAAATATAAAT
*
33608732 TTAAA-ATAAGT
1 TTAAATATAAAT
*
33608743 TTAAA-ATCAAT
1 TTAAATATAAAT
33608754 TTAAA
1 TTAAA
33608759 CTTTAATTAA
Statistics
Matches: 63, Mismatches: 6, Indels: 13
0.77 0.07 0.16
Matches are distributed among these distances:
10 1 0.02
11 37 0.59
12 13 0.21
13 1 0.02
14 11 0.17
ACGTcount: A:0.54, C:0.01, G:0.05, T:0.40
Consensus pattern (12 bp):
TTAAATATAAAT
Found at i:33608711 original size:31 final size:31
Alignment explanation
Indices: 33608673--33608731 Score: 109
Period size: 31 Copynumber: 1.9 Consensus size: 31
33608663 TAAATTTAAT
33608673 TAAATTTAAATTTAAAATAAATTTAAATAGG
1 TAAATTTAAATTTAAAATAAATTTAAATAGG
*
33608704 TAAATTTAAATTTAAGATAAATTTAAAT
1 TAAATTTAAATTTAAAATAAATTTAAAT
33608732 TTAAAATAAG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.54, C:0.00, G:0.05, T:0.41
Consensus pattern (31 bp):
TAAATTTAAATTTAAAATAAATTTAAATAGG
Found at i:33610398 original size:15 final size:15
Alignment explanation
Indices: 33610374--33610407 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
33610364 ATCATTATAT
33610374 TATA-ATCTTTAGGA
1 TATATATCTTTAGGA
33610388 TATATATCTTTAGGA
1 TATATATCTTTAGGA
33610403 TATAT
1 TATAT
33610408 TTATGTCACT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 4 0.21
15 15 0.79
ACGTcount: A:0.35, C:0.06, G:0.12, T:0.47
Consensus pattern (15 bp):
TATATATCTTTAGGA
Found at i:33610676 original size:36 final size:37
Alignment explanation
Indices: 33610621--33610701 Score: 119
Period size: 36 Copynumber: 2.2 Consensus size: 37
33610611 AAATTTATAA
* * *
33610621 AATTAAATTTAATAATTATCTTAATAA-TATTTTATT
1 AATTTAATATAATAATTATCTTAATAAGTATTATATT
*
33610657 AATTTAATATAATATTTATCTTAATAAGTATTATATT
1 AATTTAATATAATAATTATCTTAATAAGTATTATATT
33610694 AATTTAAT
1 AATTTAAT
33610702 TATAGTTGAA
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
36 24 0.60
37 16 0.40
ACGTcount: A:0.44, C:0.02, G:0.01, T:0.52
Consensus pattern (37 bp):
AATTTAATATAATAATTATCTTAATAAGTATTATATT
Found at i:33622607 original size:29 final size:29
Alignment explanation
Indices: 33622572--33622961 Score: 211
Period size: 29 Copynumber: 13.4 Consensus size: 29
33622562 GTCAAAAATA
*
33622572 TAATTTTTGGATTTCGAGGGGTAAAACGG
1 TAATTTTTGGATTTCGAGGGGTAAAATGG
** *
33622601 TAATTTTTGGACACTC-AAGGGTAAAATGG
1 TAATTTTTGGA-TTTCGAGGGGTAAAATGG
*** *
33622630 TAATTTTTGGACACCCGA-TGGTAAAATGG
1 TAATTTTTGGA-TTTCGAGGGGTAAAATGG
*
33622659 TTATTTTTGGATGTTC-AGGGGTAAAATGG
1 TAATTTTTGGAT-TTCGAGGGGTAAAATGG
** * *
33622688 TAATTTTTAAAAAGTTC--GGGATCAAAATGG
1 TAATTTTT--GGATTTCGAGGGGT-AAAATGG
* * * *
33622718 TAATTATTGGACATCCG-GGGGTGAAATGG
1 TAATTTTTGGA-TTTCGAGGGGTAAAATGG
*
33622747 TAATTTTTGGATGTTCG-GGTGTAAAATGG
1 TAATTTTTGGAT-TTCGAGGGGTAAAATGG
* ***
33622776 TAATTTTTGGAAAGTTCGAGGTCAAAAAT-G
1 TAATTTTTGG--ATTTCGAGGGGTAAAATGG
** * *
33622806 TAATTTTTGGACATCCAGGAGTAAAATGG
1 TAATTTTTGGATTTCGAGGGGTAAAATGG
33622835 TAATTTTTGGATGTTCGA-GGGTAAAATGG
1 TAATTTTTGGAT-TTCGAGGGGTAAAATGG
33622864 TAATTTTTGGAAAGTTT---GGGGTCAAAAAT-G
1 TAATTTTTGG--A-TTTCGAGGGGT--AAAATGG
* * * *
33622894 TGATTTTTGGACATCTC-A-TGGTAAAATGA
1 TAATTTTTGG--ATTTCGAGGGGTAAAATGG
*
33622923 TAATTTTT-TATATTC-AGGGGTAAAATGG
1 TAATTTTTGGAT-TTCGAGGGGTAAAATGG
33622951 TAATTTTTGGA
1 TAATTTTTGGA
33622962 AAGTTTAGGG
Statistics
Matches: 282, Mismatches: 52, Indels: 54
0.73 0.13 0.14
Matches are distributed among these distances:
26 2 0.01
27 3 0.01
28 35 0.12
29 166 0.59
30 57 0.20
31 18 0.06
32 1 0.00
ACGTcount: A:0.31, C:0.07, G:0.26, T:0.36
Consensus pattern (29 bp):
TAATTTTTGGATTTCGAGGGGTAAAATGG
Found at i:33622753 original size:88 final size:87
Alignment explanation
Indices: 33622572--33622988 Score: 476
Period size: 88 Copynumber: 4.7 Consensus size: 87
33622562 GTCAAAAATA
* * *
33622572 TAATTTTTGGAT-TTCGAGGGGTAAAACGGTAATTTTTGGACA-CTCAAGGGT--AAAATGGTAA
1 TAATTTTTGGATGTTC-AGGGGTAAAATGGTAATTTTTGGAAAGTTC--GGGTCAAAAAT-GTAA
* *
33622633 TTTTTGGACACCCGATGGTAAAATGG
62 TTTTTGGACATCCGAGGGTAAAATGG
* **
33622659 TTATTTTTGGATGTTCAGGGGTAAAATGGTAATTTTTAAAAAGTTCGGGATC-AAAATGGTAATT
1 TAATTTTTGGATGTTCAGGGGTAAAATGGTAATTTTTGGAAAGTTCGGG-TCAAAAAT-GTAATT
* * *
33622723 ATTGGACATCCGGGGGTGAAATGG
64 TTTGGACATCCGAGGGTAAAATGG
33622747 TAATTTTTGGATGTTC-GGGTGTAAAATGGTAATTTTTGGAAAGTTCGAGGTCAAAAATGTAATT
1 TAATTTTTGGATGTTCAGGG-GTAAAATGGTAATTTTTGGAAAGTTCG-GGTCAAAAATGTAATT
33622811 TTTGGACATCC-AGGAGTAAAATGG
64 TTTGGACATCCGAGG-GTAAAATGG
* *
33622835 TAATTTTTGGATGTTC-GAGGGTAAAATGGTAATTTTTGGAAAGTTTGGGGTCAAAAATGTGATT
1 TAATTTTTGGATGTTCAG-GGGTAAAATGGTAATTTTTGGAAAG-TTCGGGTCAAAAATGTAATT
* *
33622899 TTTGGACATCTC-ATGGTAAAATGA
64 TTTGGACATC-CGAGGGTAAAATGG
* * *
33622923 TAATTTTT-TATATTCAGGGGTAAAATGGTAATTTTTGGAAAGTTTAGGGTCAAAAATGATAATT
1 TAATTTTTGGATGTTCAGGGGTAAAATGGTAATTTTTGGAAAG-TTCGGGTCAAAAATG-TAATT
33622987 TT
64 TT
33622989 GGAAGTTCCA
Statistics
Matches: 292, Mismatches: 25, Indels: 25
0.85 0.07 0.07
Matches are distributed among these distances:
86 3 0.01
87 84 0.29
88 190 0.65
89 15 0.05
ACGTcount: A:0.32, C:0.07, G:0.26, T:0.36
Consensus pattern (87 bp):
TAATTTTTGGATGTTCAGGGGTAAAATGGTAATTTTTGGAAAGTTCGGGTCAAAAATGTAATTTT
TGGACATCCGAGGGTAAAATGG
Found at i:33622786 original size:58 final size:57
Alignment explanation
Indices: 33622572--33622961 Score: 240
Period size: 59 Copynumber: 6.7 Consensus size: 57
33622562 GTCAAAAATA
* * *
33622572 TAATTTTTGGAT-TTCGAGGGGTAAAACGGTAATTTTTGGACACTCAAGGGTAAAATGG
1 TAATTTTTGGATGTTCG-GGTGTAAAATGGTAATTTTTGGACA-TCCAGGGTAAAATGG
*** * * * ** *
33622630 TAATTTTTGGA-CACCCGATGGTAAAATGGTTATTTTTGGATGTTCAGGGGTAAAATGG
1 TAATTTTTGGATGTTCGGGT-GTAAAATGGTAATTTTTGGACATCCA-GGGTAAAATGG
** * * * * *
33622688 TAATTTTTAAAAAGTTCGGGAT-CAAAATGGTAATTATTGGACATCCGGGGGTGAAATGG
1 TAATTTTT-GGATGTTCGGG-TGTAAAATGGTAATTTTTGGACATCC-AGGGTAAAATGG
* *
33622747 TAATTTTTGGATGTTCGGGTGTAAAATGGTAATTTTTGGAAAGTTC-GAGGTCAAAAAT-G
1 TAATTTTTGGATGTTCGGGTGTAAAATGGTAATTTTTGGACA-TCCAG-GGT--AAAATGG
** * * * ** *
33622806 TAATTTTTGGACATCCAGGAGTAAAATGGTAATTTTTGGATGTTCGAGGGTAAAATGG
1 TAATTTTTGGATGTTCGGGTGTAAAATGGTAATTTTTGGA-CATCCAGGGTAAAATGG
* * * * *
33622864 TAATTTTTGGAAAGTTTGGG-GTCAAAAAT-GTGATTTTTGGACATCTCATGGTAAAATGA
1 TAATTTTTGG-ATGTTCGGGTGT--AAAATGGTAATTTTTGGACATC-CAGGGTAAAATGG
* *
33622923 TAATTTTT-TATATTCAGGG-GTAAAATGGTAATTTTTGGA
1 TAATTTTTGGATGTTC-GGGTGTAAAATGGTAATTTTTGGA
33622962 AAGTTTAGGG
Statistics
Matches: 252, Mismatches: 59, Indels: 43
0.71 0.17 0.12
Matches are distributed among these distances:
56 5 0.02
57 24 0.10
58 98 0.39
59 112 0.44
60 12 0.05
61 1 0.00
ACGTcount: A:0.31, C:0.07, G:0.26, T:0.36
Consensus pattern (57 bp):
TAATTTTTGGATGTTCGGGTGTAAAATGGTAATTTTTGGACATCCAGGGTAAAATGG
Found at i:33622809 original size:59 final size:57
Alignment explanation
Indices: 33622566--33623162 Score: 294
Period size: 58 Copynumber: 10.3 Consensus size: 57
33622556 AATGGAGTCA
* * * * * *
33622566 AAAATATAATTTTTGG-ATTTCGAGGGGTAAAACGGTAATTTTTGGACA-CTCAAGGGT
1 AAAATGTAATTTTTGGAAGTTC--GGGGTAAAATGGTAATTTTTGGAAAGTTCGAGGGT
** * * *
33622623 AAAATGGTAATTTTTGGACA-CCCGATGGTAAAATGGTTATTTTTGG-ATGTTC-AGGGGT
1 AAAAT-GTAATTTTTGGA-AGTTCG-GGGTAAAATGGTAATTTTTGGAAAGTTCGA-GGGT
** * * * * *
33622681 AAAATGGTAATTTTTAAAAAGTTCGGGATCAAAATGGTAATTATTGGACA-TCCGGGGGT
1 AAAAT-GTAATTTTT-GGAAGTTCGGGGT-AAAATGGTAATTTTTGGAAAGTTCGAGGGT
* *
33622740 GAAATGGTAATTTTTGGATGTTCGGGTGTAAAATGGTAATTTTTGGAAAGTTCGA-GGT
1 AAAAT-GTAATTTTTGGAAGTTCGGG-GTAAAATGGTAATTTTTGGAAAGTTCGAGGGT
* * *
33622798 CAAAAATGTAATTTTTGGACA-TCCAGGAGTAAAATGGTAATTTTTGG-ATGTTCGAGGGT
1 --AAAATGTAATTTTTGGA-AGTTC-GGGGTAAAATGGTAATTTTTGGAAAGTTCGAGGGT
* * * *
33622857 AAAATGGTAATTTTTGGAAAGTTTGGGGTCAAAAAT-GTGATTTTTGGACA-TCTC-ATGGT
1 AAAAT-GTAATTTTTGG-AAGTTCGGGGT--AAAATGGTAATTTTTGGAAAGT-TCGAGGGT
* *
33622916 AAAATGATAATTTTT-TATA-TTCAGGGGTAAAATGGTAATTTTTGGAAAGTT-TAGGGT
1 AAAATG-TAATTTTTGGA-AGTTC-GGGGTAAAATGGTAATTTTTGGAAAGTTCGAGGGT
* * * *
33622973 CAAAAATGATAA-TTTTGGAAGTTCCAGGGTAAAA-GTGTGA-TTTTGAAAAGGTTTG-GGGTT
1 --AAAATG-TAATTTTTGGAAGTT-CGGGGTAAAATG-GTAATTTTTGGAAA-GTTCGAGGG-T
*
33623033 AAAATGGTAA-TTTTGGAAGTTCAGGGGGAAAAGTGCG--A-TTTTGGAAAGGTTCG-GGGTT
1 AAAAT-GTAATTTTTGGAAGTTC-GGGGTAAAA-TG-GTAATTTTTGGAAA-GTTCGAGGG-T
* * * * * *
33623091 AAAACGATAA-TTTTGGAAGTTTAGGGGCAAAAAT-GTAATTTTTAGAAAGTTTG-GGTT
1 AAAATG-TAATTTTTGGAAG-TTCGGGG-TAAAATGGTAATTTTTGGAAAGTTCGAGGGT
33623148 AAAATGTAATTTTTG
1 AAAATGTAATTTTTG
33623163 TAAAGTTTAT
Statistics
Matches: 425, Mismatches: 64, Indels: 102
0.72 0.11 0.17
Matches are distributed among these distances:
56 9 0.02
57 45 0.11
58 199 0.47
59 154 0.36
60 18 0.04
ACGTcount: A:0.32, C:0.06, G:0.27, T:0.35
Consensus pattern (57 bp):
AAAATGTAATTTTTGGAAGTTCGGGGTAAAATGGTAATTTTTGGAAAGTTCGAGGGT
Done.