Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A05
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: 102776486
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2328156 characters in sequence are not A, C, G, or T
File 318 of 325
Found at i:100255992 original size:17 final size:18
Alignment explanation
Indices: 100255970--100256003 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
100255960 CAGCACTTGT
100255970 AAAAGA-CCAATAAAAGA
1 AAAAGATCCAATAAAAGA
*
100255987 AAAAGATCCTATAAAAG
1 AAAAGATCCAATAAAAG
100256004 TTCCAATATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.65, C:0.12, G:0.12, T:0.12
Consensus pattern (18 bp):
AAAAGATCCAATAAAAGA
Found at i:100258137 original size:20 final size:20
Alignment explanation
Indices: 100258114--100258172 Score: 70
Period size: 20 Copynumber: 3.0 Consensus size: 20
100258104 AAAATATATA
100258114 AAAAT-ATTTTTATACTTTTT
1 AAAATAATTTTTATA-TTTTT
100258134 AAAATAATTTTTA-ATTTTT
1 AAAATAATTTTTATATTTTT
*
100258153 AAAATGA-TTTTATAATTTTT
1 AAAATAATTTTTAT-ATTTTT
100258173 TTGAATTTTA
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
18 5 0.14
19 11 0.31
20 12 0.34
21 7 0.20
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.58
Consensus pattern (20 bp):
AAAATAATTTTTATATTTTT
Found at i:100258163 original size:18 final size:19
Alignment explanation
Indices: 100258114--100258172 Score: 75
Period size: 19 Copynumber: 3.0 Consensus size: 19
100258104 AAAATATATA
100258114 AAAAT-ATTTTTATACTTTTT
1 AAAATAATTTTTA-A-TTTTT
100258134 AAAATAATTTTTAATTTTT
1 AAAATAATTTTTAATTTTT
*
100258153 AAAATGATTTTATAATTTTT
1 AAAATAATTTT-TAATTTTT
100258173 TTGAATTTTA
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
19 15 0.42
20 14 0.39
21 7 0.19
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.58
Consensus pattern (19 bp):
AAAATAATTTTTAATTTTT
Found at i:100258164 original size:30 final size:29
Alignment explanation
Indices: 100258130--100258186 Score: 71
Period size: 29 Copynumber: 1.9 Consensus size: 29
100258120 TTTTTATACT
100258130 TTTTAAAATAATTTTT-AATTTTTAAAATGA
1 TTTTAAAAT-ATTTTTGAA-TTTTAAAATGA
* *
100258160 TTTTATAATTTTTTTGAATTTTAAAAT
1 TTTTAAAATATTTTTGAATTTTAAAAT
100258187 TTAATTAGTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 14 0.58
30 10 0.42
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.58
Consensus pattern (29 bp):
TTTTAAAATATTTTTGAATTTTAAAATGA
Found at i:100261436 original size:3 final size:3
Alignment explanation
Indices: 100261428--100261460 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
100261418 GGAACGGTAG
100261428 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
100261461 TTAACTTCCT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:100268629 original size:26 final size:26
Alignment explanation
Indices: 100268590--100268694 Score: 156
Period size: 26 Copynumber: 4.0 Consensus size: 26
100268580 TGGTACAAAT
*
100268590 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
* * *
100268616 TGTTAATGGATTAGGTAAATATTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
100268642 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
* *
100268668 TGATAATGGTTTAGGTAAATATTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
100268694 T
1 T
100268695 AATGGGCATT
Statistics
Matches: 70, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 70 1.00
ACGTcount: A:0.32, C:0.05, G:0.23, T:0.40
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:100268675 original size:52 final size:52
Alignment explanation
Indices: 100268590--100268694 Score: 183
Period size: 52 Copynumber: 2.0 Consensus size: 52
100268580 TGGTACAAAT
*
100268590 TGATAATGGGTTAGGTAAATGTTCCATGTTAATGGATTAGGTAAATATTTCA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTTCA
* *
100268642 TGATAATGGGTTAGGTAAATGTTTCATGATAATGGTTTAGGTAAATATTTCA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTTCA
100268694 T
1 T
100268695 AATGGGCATT
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 50 1.00
ACGTcount: A:0.32, C:0.05, G:0.23, T:0.40
Consensus pattern (52 bp):
TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTTCA
Found at i:100269435 original size:17 final size:17
Alignment explanation
Indices: 100269413--100269447 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
100269403 AAGAGTGGTC
100269413 AGATTAGTCAAACAGTG
1 AGATTAGTCAAACAGTG
100269430 AGATTAGTCAAACAGTG
1 AGATTAGTCAAACAGTG
100269447 A
1 A
100269448 AACATGCGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.43, C:0.11, G:0.23, T:0.23
Consensus pattern (17 bp):
AGATTAGTCAAACAGTG
Found at i:100271516 original size:18 final size:18
Alignment explanation
Indices: 100271474--100271529 Score: 62
Period size: 18 Copynumber: 3.1 Consensus size: 18
100271464 TATATTTTAA
*
100271474 AATAATTTTTAATGTTTT
1 AATAATTTTTAATATTTT
100271492 AATAATTTTATAATATTTT
1 AATAATTTT-TAATATTTT
*
100271511 TA-AATTTATTAA-ATTTT
1 AATAATTT-TTAATATTTT
100271528 AA
1 AA
100271530 AAAATTAATT
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
17 6 0.18
18 17 0.52
19 10 0.30
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (18 bp):
AATAATTTTTAATATTTT
Found at i:100279582 original size:19 final size:19
Alignment explanation
Indices: 100279549--100279592 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
100279539 CATAAAAATC
* *
100279549 CAAAAAAGTCTAAAAATTA
1 CAAAAAAATCCAAAAATTA
100279568 CAAAAAAATCCAAAAATTA
1 CAAAAAAATCCAAAAATTA
100279587 CAAAAA
1 CAAAAA
100279593 CATCAAATCC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.68, C:0.14, G:0.02, T:0.16
Consensus pattern (19 bp):
CAAAAAAATCCAAAAATTA
Found at i:100291055 original size:176 final size:176
Alignment explanation
Indices: 100290760--100291211 Score: 663
Period size: 176 Copynumber: 2.6 Consensus size: 176
100290750 GCGACATCGA
* * *
100290760 TGAAAATTACAGATCTTATCTCCATGTATCAGCTATGGAGTAGATCAAGAATGGCGAGTCTTATC
1 TGAAAATTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCAAAAATGGCGAGTCTTATC
* * * *
100290825 TCCATGTATTGGTTATGGAGCAGATTTTAGCCACCAGCCTTATCTTTCTGAAGTTGCAGAGAGCA
66 TCCATGTATCGGCTATGGAGCAGATTTTAGCCACCAACCTTATCTGTCTGAAGTTGCAGAGAGCA
100290890 GGTTGAAGATGCAAGTCTTATCTTCCTGAAGTTGCAGGAAACAGAC
131 GGTTGAAGATGCAAGTCTTATCTTCCTGAAGTTGCAGGAAACAGAC
* * *
100290936 TGAAAATTACAGATCTTATCTCCATGTATCGGCTAAGGAGCAGATAAAAAATAGCGAGTCTTATC
1 TGAAAATTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCAAAAATGGCGAGTCTTATC
* *
100291001 TCCATGCATCGGCTATGGAGCAGATTTTAGCCACCAATCTTATCTCGT-TGAAGTTGCAGAGAGC
66 TCCATGTATCGGCTATGGAGCAGATTTTAGCCACCAACCTTATCT-GTCTGAAGTTGCAGAGAGC
* *
100291065 AGGTTGAAGATGCAAGTCTTGTCTTCCTGAAGTTGCAGGAAGCAGAC
130 AGGTTGAAGATGCAAGTCTTATCTTCCTGAAGTTGCAGGAAACAGAC
* * * * * *
100291112 CGAAGATTACAGATCTTATCTCTATGTATCGGCTATGGAGCAGATCGAAGATGGTGAGTCTTATC
1 TGAAAATTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCAAAAATGGCGAGTCTTATC
* * * * *
100291177 TCTATGTATCGACTATGGAGTAAATTTTAACCACC
66 TCCATGTATCGGCTATGGAGCAGATTTTAGCCACC
100291212 GACTTTGTCT
Statistics
Matches: 246, Mismatches: 29, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
176 245 1.00
177 1 0.00
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.29
Consensus pattern (176 bp):
TGAAAATTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCAAAAATGGCGAGTCTTATC
TCCATGTATCGGCTATGGAGCAGATTTTAGCCACCAACCTTATCTGTCTGAAGTTGCAGAGAGCA
GGTTGAAGATGCAAGTCTTATCTTCCTGAAGTTGCAGGAAACAGAC
Found at i:100291155 original size:45 final size:44
Alignment explanation
Indices: 100291105--100291196 Score: 123
Period size: 45 Copynumber: 2.0 Consensus size: 44
100291095 AGTTGCAGGA
*
100291105 AGCAGACCGAAGAT-TACAGATCTTATCTCTATGTATCGGCTATGG
1 AGCAGACCGAAGATGT-CAG-TCTTATCTCTATGTATCGACTATGG
* *
100291150 AGCAGATCGAAGATGGTGAGTCTTATCTCTATGTATCGACTATGG
1 AGCAGACCGAAGAT-GTCAGTCTTATCTCTATGTATCGACTATGG
100291195 AG
1 AG
100291197 TAAATTTTAA
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
45 39 0.93
46 2 0.05
47 1 0.02
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.29
Consensus pattern (44 bp):
AGCAGACCGAAGATGTCAGTCTTATCTCTATGTATCGACTATGG
Found at i:100291502 original size:15 final size:15
Alignment explanation
Indices: 100291482--100291511 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
100291472 CAAAAAAATC
100291482 CAAAAACTACAAAAA
1 CAAAAACTACAAAAA
*
100291497 CAAAAATTACAAAAA
1 CAAAAACTACAAAAA
100291512 AAAGTCCAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.73, C:0.17, G:0.00, T:0.10
Consensus pattern (15 bp):
CAAAAACTACAAAAA
Found at i:100292891 original size:22 final size:22
Alignment explanation
Indices: 100292874--100292916 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
100292864 AAATATTCTC
100292874 TTTTAAATTTATATATATATAT
1 TTTTAAATTTATATATATATAT
* *
100292896 TTTTAAATTTATTTATGTATA
1 TTTTAAATTTATATATATATA
100292917 ATTCGATTCT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.60
Consensus pattern (22 bp):
TTTTAAATTTATATATATATAT
Found at i:100298336 original size:23 final size:23
Alignment explanation
Indices: 100298306--100298433 Score: 100
Period size: 23 Copynumber: 5.6 Consensus size: 23
100298296 TAAGCTGATG
*
100298306 AACAGTAAGCTCTATTGAGCTGT
1 AACAGTAAGCTCTATTGAGCTGA
* *
100298329 AACAGTAAGCTCTATTGATCTAA
1 AACAGTAAGCTCTATTGAGCTGA
* * * *
100298352 AACGGTAAGCTTTTTTGAGTTG-
1 AACAGTAAGCTCTATTGAGCTGA
* *
100298374 AACAGTGAGCTCGTA-CGAGCTGA
1 AACAGTAAGCTC-TATTGAGCTGA
* *
100298397 AACGGTAAGCT-TTTTCGAGCTGAA
1 AACAGTAAGCTCTATT-GAGCTG-A
*
100298421 AACAATAAGCTCT
1 AACAGTAAGCTCT
100298434 TACGAGCTGA
Statistics
Matches: 78, Mismatches: 21, Indels: 10
0.72 0.19 0.09
Matches are distributed among these distances:
21 1 0.01
22 14 0.18
23 52 0.67
24 10 0.13
25 1 0.01
ACGTcount: A:0.32, C:0.17, G:0.22, T:0.29
Consensus pattern (23 bp):
AACAGTAAGCTCTATTGAGCTGA
Found at i:100298400 original size:45 final size:46
Alignment explanation
Indices: 100298351--100298443 Score: 125
Period size: 45 Copynumber: 2.0 Consensus size: 46
100298341 TATTGATCTA
* * * *
100298351 AAACGGTAAGCTTTTTTGAGTTG-AACAGTGAGCTCGTACGAGCTG
1 AAACGGTAAGCTTTTTCGAGCTGAAACAATAAGCTCGTACGAGCTG
*
100298396 AAACGGTAAGCTTTTTCGAGCTGAAAACAATAAGCTCTTACGAGCTG
1 AAACGGTAAGCTTTTTCGAGCTG-AAACAATAAGCTCGTACGAGCTG
100298443 A
1 A
100298444 TATATCGATA
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
45 21 0.51
47 20 0.49
ACGTcount: A:0.31, C:0.17, G:0.25, T:0.27
Consensus pattern (46 bp):
AAACGGTAAGCTTTTTCGAGCTGAAACAATAAGCTCGTACGAGCTG
Found at i:100298429 original size:24 final size:24
Alignment explanation
Indices: 100298381--100298443 Score: 74
Period size: 24 Copynumber: 2.7 Consensus size: 24
100298371 TTGAACAGTG
* **
100298381 AGCTCGTACGAGCTG-AAACGGTA
1 AGCTCTTACGAGCTGAAAACAATA
* *
100298404 AGCTTTTTCGAGCTGAAAACAATA
1 AGCTCTTACGAGCTGAAAACAATA
100298428 AGCTCTTACGAGCTGA
1 AGCTCTTACGAGCTGA
100298444 TATATCGATA
Statistics
Matches: 32, Mismatches: 7, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
23 12 0.38
24 20 0.62
ACGTcount: A:0.32, C:0.21, G:0.24, T:0.24
Consensus pattern (24 bp):
AGCTCTTACGAGCTGAAAACAATA
Found at i:100304552 original size:16 final size:18
Alignment explanation
Indices: 100304525--100304557 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
100304515 TAAAATTGGG
100304525 TTGAGAAAATT-ATTTAA
1 TTGAGAAAATTAATTTAA
100304542 TTGAG-AAATTAATTTA
1 TTGAGAAAATTAATTTA
100304558 GTTAATTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.45, C:0.00, G:0.12, T:0.42
Consensus pattern (18 bp):
TTGAGAAAATTAATTTAA
Found at i:100312835 original size:40 final size:39
Alignment explanation
Indices: 100312735--100312836 Score: 91
Period size: 42 Copynumber: 2.5 Consensus size: 39
100312725 ATATTATTTA
*
100312735 TTATATTATTATACATTATTATATATTATATTACATACATT
1 TTATA-TATTATATATT-TTATATATTATATTACATACATT
* *
100312776 TTACTATATATATATTATTTTATATATTAT-CTATCATA-TTGT
1 TTA-TATAT-TATA-TATTTTATATATTATATTA-CATACAT-T
100312818 TTATATCATTATATATTTT
1 TTATAT-ATTATATATTTT
100312837 GTTTATAATT
Statistics
Matches: 52, Mismatches: 3, Indels: 13
0.76 0.04 0.19
Matches are distributed among these distances:
40 6 0.12
41 16 0.31
42 27 0.52
43 3 0.06
ACGTcount: A:0.35, C:0.07, G:0.01, T:0.57
Consensus pattern (39 bp):
TTATATATTATATATTTTATATATTATATTACATACATT
Found at i:100312838 original size:21 final size:20
Alignment explanation
Indices: 100312775--100312843 Score: 61
Period size: 21 Copynumber: 3.3 Consensus size: 20
100312765 TTACATACAT
*
100312775 TTTACTATA-TATATATTAT-
1 TTTA-TATATTATATATTTTG
*
100312794 TTTATATATTATCTATCATATTG
1 TTTATATATTA--TAT-ATTTTG
100312817 TTTATATCATTATATATTTTG
1 TTTATAT-ATTATATATTTTG
100312838 TTTATA
1 TTTATA
100312844 ATTTTTATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 10
0.76 0.06 0.19
Matches are distributed among these distances:
18 4 0.10
19 6 0.15
21 14 0.34
22 6 0.15
23 7 0.17
24 4 0.10
ACGTcount: A:0.32, C:0.06, G:0.03, T:0.59
Consensus pattern (20 bp):
TTTATATATTATATATTTTG
Found at i:100321466 original size:42 final size:43
Alignment explanation
Indices: 100321409--100321491 Score: 105
Period size: 42 Copynumber: 2.0 Consensus size: 43
100321399 AAAAATTTAG
* * *
100321409 TAAAAAATATCAATTTTAAATATATATTTTAAGA-ATATAAGC
1 TAAAAAATATCAATTTTAAACACACATTTTAAGATATATAAGC
* * *
100321451 TAAAACATATTAATTTTATACACACATTTTAAGATATATAA
1 TAAAAAATATCAATTTTAAACACACATTTTAAGATATATAA
100321492 TTTAAGGAAT
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
42 28 0.82
43 6 0.18
ACGTcount: A:0.51, C:0.07, G:0.04, T:0.39
Consensus pattern (43 bp):
TAAAAAATATCAATTTTAAACACACATTTTAAGATATATAAGC
Found at i:100330717 original size:23 final size:21
Alignment explanation
Indices: 100330675--100330718 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 21
100330665 GTTTTCTTAG
100330675 CAAAAACAACAAAAAAACTAA
1 CAAAAACAACAAAAAAACTAA
*
100330696 CAAAAACTAATAAAGAAAACTAA
1 CAAAAAC-AACAAA-AAAACTAA
100330719 ATCTCCAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 7 0.35
22 5 0.25
23 8 0.40
ACGTcount: A:0.73, C:0.16, G:0.02, T:0.09
Consensus pattern (21 bp):
CAAAAACAACAAAAAAACTAA
Found at i:100334411 original size:18 final size:18
Alignment explanation
Indices: 100334387--100334431 Score: 65
Period size: 18 Copynumber: 2.5 Consensus size: 18
100334377 GCGATTACAC
100334387 GGATGATGAAGG-AGATGA
1 GGATGATGAAGGAAGA-GA
*
100334405 TGATGATGAAGGAAGAGA
1 GGATGATGAAGGAAGAGA
100334423 GGATGATGA
1 GGATGATGA
100334432 TGAAAATGGG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 21 0.88
19 3 0.12
ACGTcount: A:0.40, C:0.00, G:0.42, T:0.18
Consensus pattern (18 bp):
GGATGATGAAGGAAGAGA
Found at i:100347291 original size:2 final size:2
Alignment explanation
Indices: 100347284--100347310 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
100347274 GTTAATAATT
100347284 AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG A
100347311 AGGATCTGGC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:100354439 original size:30 final size:30
Alignment explanation
Indices: 100354403--100354464 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
100354393 GACGAAAATA
100354403 TAAATATAAATAAAAACATTCAACTAGCCT
1 TAAATATAAATAAAAACATTCAACTAGCCT
100354433 TAAATATAAATAAAAACATTCAACTAGCCT
1 TAAATATAAATAAAAACATTCAACTAGCCT
100354463 TA
1 TA
100354465 CTTTCATAAG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.53, C:0.16, G:0.03, T:0.27
Consensus pattern (30 bp):
TAAATATAAATAAAAACATTCAACTAGCCT
Found at i:100360449 original size:9 final size:9
Alignment explanation
Indices: 100360417--100360528 Score: 66
Period size: 9 Copynumber: 12.3 Consensus size: 9
100360407 ATACACTGAT
*
100360417 ATAATAGTG
1 ATAATAGTA
*
100360426 ATAATAATA
1 ATAATAGTA
*
100360435 A-CATAGTA
1 ATAATAGTA
100360443 ATAATAGTA
1 ATAATAGTA
* *
100360452 TTGATAGTA
1 ATAATAGTA
* *
100360461 ATAAAAATA
1 ATAATAGTA
*
100360470 AT-ATATTAA
1 ATAATAGT-A
100360479 ATAATAGTA
1 ATAATAGTA
*
100360488 ATAAAATAGTG
1 AT--AATAGTA
* *
100360499 CTAATAGTC
1 ATAATAGTA
*
100360508 ATAATAGTG
1 ATAATAGTA
*
100360517 ATAATAATA
1 ATAATAGTA
100360526 ATA
1 ATA
100360529 GCATGATAAA
Statistics
Matches: 77, Mismatches: 21, Indels: 10
0.71 0.19 0.09
Matches are distributed among these distances:
8 9 0.12
9 57 0.74
10 4 0.05
11 7 0.09
ACGTcount: A:0.54, C:0.03, G:0.11, T:0.33
Consensus pattern (9 bp):
ATAATAGTA
Found at i:100360459 original size:35 final size:36
Alignment explanation
Indices: 100360420--100360487 Score: 93
Period size: 35 Copynumber: 1.9 Consensus size: 36
100360410 CACTGATATA
* *
100360420 ATAGTGATAATAATAACATAGT-AATAATAGTATTG
1 ATAGTAATAAAAATAACATAGTAAATAATAGTATTG
* *
100360455 ATAGTAATAAAAATAATATATTAAATAATAGTA
1 ATAGTAATAAAAATAACATAGTAAATAATAGTA
100360488 ATAAAATAGT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
35 18 0.64
36 10 0.36
ACGTcount: A:0.54, C:0.01, G:0.10, T:0.34
Consensus pattern (36 bp):
ATAGTAATAAAAATAACATAGTAAATAATAGTATTG
Found at i:100360674 original size:3 final size:3
Alignment explanation
Indices: 100360666--100360833 Score: 69
Period size: 3 Copynumber: 54.3 Consensus size: 3
100360656 AAACATAGAA
* * * * * *
100360666 AAT AAT AAT AAT CAT AAT -AC AAT AGT AAT AAT AAT CAC AAA AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * *
100360713 GAT AAT AAT AAT AAT AAT ATT AA- AGT AA- AGT AAAT AAT AAT ACT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT
* *
100360757 -AT ATAT AAAT ATAT ATAT ACAT ATGT AAT AGA- AAT ACAC ACGAT -AT
1 AAT A-AT -AAT A-AT A-AT A-AT A-AT AAT A-AT AAT A-AT A--AT AAT
*
100360803 AAT AAT AAT AAT AAT AAT AAT AAC AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
100360834 CATATATATA
Statistics
Matches: 122, Mismatches: 30, Indels: 26
0.69 0.17 0.15
Matches are distributed among these distances:
2 7 0.06
3 92 0.75
4 21 0.17
5 2 0.02
ACGTcount: A:0.60, C:0.06, G:0.04, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:100360946 original size:3 final size:3
Alignment explanation
Indices: 100360933--100361016 Score: 50
Period size: 3 Copynumber: 27.3 Consensus size: 3
100360923 GAGGGTATAT
100360933 ATA AT- ATA ATA ATA ATA AT- ATAA ATA ATA ATA TATA CATGA GA-A
1 ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA -ATA -AT-A -ATA
* * * *
100360977 ATA ATG ATA ATA ATA AT- ATAA ATA ACA GTA AAA ATA ATA A
1 ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA A
100361017 AATGAAAAAA
Statistics
Matches: 63, Mismatches: 10, Indels: 16
0.71 0.11 0.18
Matches are distributed among these distances:
2 7 0.11
3 45 0.71
4 9 0.14
5 2 0.03
ACGTcount: A:0.63, C:0.02, G:0.05, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:100361667 original size:14 final size:15
Alignment explanation
Indices: 100361648--100361676 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
100361638 TATTTATTTA
100361648 TTTGG-TTTATTAGG
1 TTTGGTTTTATTAGG
100361662 TTTGGTTTTATTAGG
1 TTTGGTTTTATTAGG
100361677 CCCCGGGCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 5 0.36
15 9 0.64
ACGTcount: A:0.14, C:0.00, G:0.28, T:0.59
Consensus pattern (15 bp):
TTTGGTTTTATTAGG
Found at i:100362214 original size:67 final size:68
Alignment explanation
Indices: 100361931--100362231 Score: 428
Period size: 68 Copynumber: 4.4 Consensus size: 68
100361921 TCTTCTTCCG
* *
100361931 CTGAAACTTCAAGGAGATCTGCTGTGGCTTTTAGCCGCTCCAACGCCATTTCAGGAAGGAGAAAT
1 CTGAAACTTCAAGGAGATCTGCTGTGGCTTTTAGCCGCTCCAACGCCATTTCAGGAAGAAGAGAT
100361996 CCA
66 CCA
* * * *
100361999 CTGAAACTTCAAGGAGATCTGCCGTGGCTTTTAGTCGCTCCAACGTCATTTCAGGAAGAAGAGGT
1 CTGAAACTTCAAGGAGATCTGCTGTGGCTTTTAGCCGCTCCAACGCCATTTCAGGAAGAAGAGAT
* *
100362064 TCG
66 CCA
* * * *
100362067 CTGAAACTTCAAAGAGATCTGCTGTGGCCTTTAACCGCTCCAATGCCATTTCAGGGAA-AAGAGA
1 CTGAAACTTCAAGGAGATCTGCTGTGGCTTTTAGCCGCTCCAACGCCATTTCA-GGAAGAAGAGA
100362131 TCCA
65 TCCA
*
100362135 CTGAAACTTCAAGGAGATCTGTTGTGGCTTTTAGCCGCTCCAACGCCA-TTCAGGGAA-AAGAGA
1 CTGAAACTTCAAGGAGATCTGCTGTGGCTTTTAGCCGCTCCAACGCCATTTCA-GGAAGAAGAGA
*
100362198 TCCT
65 TCCA
*
100362202 CTGAAACTTCAAGGAGATCTGTTGTGGCTT
1 CTGAAACTTCAAGGAGATCTGCTGTGGCTT
100362232 CAAGAAGATA
Statistics
Matches: 208, Mismatches: 24, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
67 48 0.23
68 156 0.75
69 4 0.02
ACGTcount: A:0.27, C:0.23, G:0.24, T:0.26
Consensus pattern (68 bp):
CTGAAACTTCAAGGAGATCTGCTGTGGCTTTTAGCCGCTCCAACGCCATTTCAGGAAGAAGAGAT
CCA
Found at i:100362550 original size:87 final size:86
Alignment explanation
Indices: 100362340--100363031 Score: 886
Period size: 87 Copynumber: 8.0 Consensus size: 86
100362330 ATCTATAATT
* * * * * * *
100362340 TTCAGCCTATTACCCTATTGCTTAGGGGTTTAAGGCCCATCACCTTCAATCTATTTCTCTACTGC
1 TTCA-CCTGTTACCCTACTGCTTAGGGGTTTAAGGTCCATCGCCTTCGATCTGTTTCCCTACTGC
*
100362405 TTAGAGGGTTAAGATCTTGTAAA
65 TTAGGGGGTTAAGATC-TGTAAA
* * * * *
100362428 TTCAGCCTGTTACCCTACTACTTAGGGGTTTAAGGTCAATCGTCTTCGATCTGTTTTCCTACTAC
1 TTCA-CCTGTTACCCTACTGCTTAGGGGTTTAAGGTCCATCGCCTTCGATCTGTTTCCCTACTGC
*
100362493 TTAGGGGGTTAAGATTTGTAAA
65 TTAGGGGGTTAAGATCTGTAAA
* ** * *
100362515 TTCCACCTGTTACCCTACTGCTTAAGGGTTTAAGGTCCATCATCTTTGATCTGTTTCTCTACTGC
1 TT-CACCTGTTACCCTACTGCTTAGGGGTTTAAGGTCCATCGCCTTCGATCTGTTTCCCTACTGC
100362580 TTAGGGGGTTAAGATCTGTAAA
65 TTAGGGGGTTAAGATCTGTAAA
* *
100362602 TTTAACCTGTTACCCTACTGCTTAGGGGTTTAAGGTCCATCGCCTTTGATCTGTTTCCCTACTGC
1 -TTCACCTGTTACCCTACTGCTTAGGGGTTTAAGGTCCATCGCCTTCGATCTGTTTCCCTACTGC
*
100362667 TTAGGGGGTTAAGATTTGTAAA
65 TTAGGGGGTTAAGATCTGTAAA
* * * *
100362689 TCCAACCTGTTACCCTACTGTTTAGGGGTTTAAGGTTCATCGCCTTCGATTTGTTTCCCTACTGC
1 TTC-ACCTGTTACCCTACTGCTTAGGGGTTTAAGGTCCATCGCCTTCGATCTGTTTCCCTACTGC
100362754 TTAGGGGGTTAAGATCTGTAAA
65 TTAGGGGGTTAAGATCTGTAAA
* * * * * * *
100362776 TTTAGCCTGTTACCCTACTACTTAAGGAG-TTAAGGCCCGTCGCTTTCGATTTGTTTCCCTACTG
1 TTCA-CCTGTTACCCTACTGCTT-AGGGGTTTAAGGTCCATCGCCTTCGATCTGTTTCCCTACTG
100362840 CTTAGGGGGTTAAGATCTGTAAA
64 CTTAGGGGGTTAAGATCTGTAAA
* *
100362863 TTCAACCTATTACCCTACTGCTTAGGGGTTTAAGGTTCATCGCCTTCGATCTGTTTCCCTACTGC
1 TTC-ACCTGTTACCCTACTGCTTAGGGGTTTAAGGTCCATCGCCTTCGATCTGTTTCCCTACTGC
100362928 TTAGGGGGTTAAGATCTGTAAA
65 TTAGGGGGTTAAGATCTGTAAA
* * * * * *
100362950 TTTAGCCTGTTACTCTACTACTTAGGGAG-TTAAGGCCCGTCGCTTTCGATCTGTTTCCCTACTG
1 TTCA-CCTGTTACCCTACTGCTTAGGG-GTTTAAGGTCCATCGCCTTCGATCTGTTTCCCTACTG
*
100363014 CTTAGGGGGTCAA-ATCTG
64 CTTAGGGGGTTAAGATCTG
100363032 CTATCTTCAA
Statistics
Matches: 532, Mismatches: 63, Indels: 20
0.87 0.10 0.03
Matches are distributed among these distances:
86 12 0.02
87 443 0.83
88 77 0.14
ACGTcount: A:0.21, C:0.22, G:0.21, T:0.37
Consensus pattern (86 bp):
TTCACCTGTTACCCTACTGCTTAGGGGTTTAAGGTCCATCGCCTTCGATCTGTTTCCCTACTGCT
TAGGGGGTTAAGATCTGTAAA
Found at i:100363112 original size:44 final size:43
Alignment explanation
Indices: 100363034--100363772 Score: 195
Period size: 44 Copynumber: 16.8 Consensus size: 43
100363024 CAAATCTGCT
* *
100363034 ATCTTCAA-CTTGTTC-CTTATAAACACAGGGATGTCATGCTGAA
1 ATCTTCAATC-TGTTCAC-TATAAGCACAGGAATGTCATGCTGAA
* * *
100363077 ATCTTCAATCTGCTTCACTGTAAGCACAGTAATGTCA-GATCTG-T
1 ATCTTCAATCTG-TTCACTATAAGCACAGGAATGTCATG--CTGAA
* * * * * **
100363121 ATCTTCGATCTGTTCCCTATAAACACAGGGATGGCAAAT-CTGTT
1 ATCTTCAATCTGTTCACTATAAGCACAGGAATGTC--ATGCTGAA
* * * * *
100363165 ATTTTCAA-CTTGTTCCCTATAAGCATAGGGATGCCATGCTGAA
1 ATCTTCAATC-TGTTCACTATAAGCACAGGAATGTCATGCTGAA
* * * **
100363208 ATCTTCGATCTGCTTCACTGTAAGCACAGGAATGTCA-GATATGTT
1 ATCTTCAATCTG-TTCACTATAAGCACAGGAATGTCATG--CTGAA
* * * * **
100363253 ATCTTCGATCTGTTCCCTATAAGCACAGGGATGCCAAAT-CTGTT
1 ATCTTCAATCTGTTCACTATAAGCACAGGAATGTC--ATGCTGAA
* * * * *
100363297 ATTTTCAA-CTTGTTCCCTATAAGCATAGGGATGCCATGCTGAA
1 ATCTTCAATC-TGTTCACTATAAGCACAGGAATGTCATGCTGAA
** * * **
100363340 ATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTTA-GATCTGCT
1 ATCTTCAATCTG-TTCACTATAAGCACAGGAATGTCATG--CTGAA
** * * * * **
100363385 ATCTTTGATATGTTTC-CTATAAACACAGGGATGCCAAAT-CTGTT
1 ATCTTCAATCTG-TTCACTATAAGCACAGGAATGTC--ATGCTGAA
* * * *
100363429 ATTTTCAA-CTTGTTCCCTATAAGCATATGG-ATGCCATGCTGAA
1 ATCTTCAATC-TGTTCACTATAAGCACA-GGAATGTCATGCTGAA
* * **
100363472 ATCTTCGATCTGCTTCACTGTAAGCACAGGAATGTCA-GATCTGTT
1 ATCTTCAATCTG-TTCACTATAAGCACAGGAATGTCATG--CTGAA
* * * * * * * * * **
100363517 ACCTTCCATCTATTCCCTACAAGTACAGGGATGCCAAAT-TTGCT
1 ATCTTCAATCTGTTCACTATAAGCACAGGAATGTC--ATGCTGAA
* * * *
100363561 ATTTTCAA-CTTGTTCCCTATAAGCACAGGGATGCCATGCTGAA
1 ATCTTCAATC-TGTTCACTATAAGCACAGGAATGTCATGCTGAA
* * * **
100363604 ATCTTCGATCTGCTTCAGTGTAAGCACAGGAATGTCA-GATCTGTT
1 ATCTTCAATCTG-TTCACTATAAGCACAGGAATGTCATG--CTGAA
* * * * * * * * * **
100363649 ACCTTCCATCTATTCCCTACAAGTATAGGGATGCCAAAT-CTGCT
1 ATCTTCAATCTGTTCACTATAAGCACAGGAATGTC--ATGCTGAA
* * *
100363693 ATTTTCAA-CTTGTTCCCTATAAGCACAGGGATGTCATGCTGAA
1 ATCTTCAATC-TGTTCACTATAAGCACAGGAATGTCATGCTGAA
* * *
100363736 ATCTTCGATCTGCTTCACTGTAAGCACGGGAATGTCA
1 ATCTTCAATCTG-TTCACTATAAGCACAGGAATGTCA
100363773 GATCTGTTAT
Statistics
Matches: 513, Mismatches: 131, Indels: 103
0.69 0.18 0.14
Matches are distributed among these distances:
42 10 0.02
43 97 0.19
44 340 0.66
45 62 0.12
46 4 0.01
ACGTcount: A:0.27, C:0.22, G:0.18, T:0.33
Consensus pattern (43 bp):
ATCTTCAATCTGTTCACTATAAGCACAGGAATGTCATGCTGAA
Found at i:100363839 original size:132 final size:132
Alignment explanation
Indices: 100363024--100363823 Score: 1215
Period size: 132 Copynumber: 6.1 Consensus size: 132
100363014 CTTAGGGGGT
* * * * *
100363024 CAAATCTGCTATCTTCAACTTGTTCCTTATAAACACAGGGATGTCATGCTGAAATCTTCAATCTG
1 CAAATCTGCTATTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTCGATCTG
*
100363089 CTTCACTGTAAGCACAGTAATGTCAGATCTG-TATCTTCGATCTGTTCCCTATAAACACAGGGAT
66 CTTCACTGTAAGCACAGGAATGTCAGATCTGTTATCTTCGATCTGTTCCCTATAAACACAGGGAT
*
100363153 GG
131 GC
* *
100363155 CAAATCTGTTATTTTCAACTTGTTCCCTATAAGCATAGGGATGCCATGCTGAAATCTTCGATCTG
1 CAAATCTGCTATTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTCGATCTG
* *
100363220 CTTCACTGTAAGCACAGGAATGTCAGATATGTTATCTTCGATCTGTTCCCTATAAGCACAGGGAT
66 CTTCACTGTAAGCACAGGAATGTCAGATCTGTTATCTTCGATCTGTTCCCTATAAACACAGGGAT
100363285 GC
131 GC
* * *
100363287 CAAATCTGTTATTTTCAACTTGTTCCCTATAAGCATAGGGATGCCATGCTGAAATCTTTGATCTG
1 CAAATCTGCTATTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTCGATCTG
* * * * *
100363352 CTTCACTGTAAGCACAGGAATGTTAGATCTGCTATCTTTGATATGTTTCCTATAAACACAGGGAT
66 CTTCACTGTAAGCACAGGAATGTCAGATCTGTTATCTTCGATCTGTTCCCTATAAACACAGGGAT
100363417 GC
131 GC
* * *
100363419 CAAATCTGTTATTTTCAACTTGTTCCCTATAAGCATATGGATGCCATGCTGAAATCTTCGATCTG
1 CAAATCTGCTATTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTCGATCTG
* * * * **
100363484 CTTCACTGTAAGCACAGGAATGTCAGATCTGTTACCTTCCATCTATTCCCTACAAGTACAGGGAT
66 CTTCACTGTAAGCACAGGAATGTCAGATCTGTTATCTTCGATCTGTTCCCTATAAACACAGGGAT
100363549 GC
131 GC
*
100363551 CAAATTTGCTATTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTCGATCTG
1 CAAATCTGCTATTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTCGATCTG
* * * * * ** *
100363616 CTTCAGTGTAAGCACAGGAATGTCAGATCTGTTACCTTCCATCTATTCCCTACAAGTATAGGGAT
66 CTTCACTGTAAGCACAGGAATGTCAGATCTGTTATCTTCGATCTGTTCCCTATAAACACAGGGAT
100363681 GC
131 GC
*
100363683 CAAATCTGCTATTTTCAACTTGTTCCCTATAAGCACAGGGATGTCATGCTGAAATCTTCGATCTG
1 CAAATCTGCTATTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTCGATCTG
* * * *
100363748 CTTCACTGTAAGCACGGGAATGTCAGATCTGTTATCTTTGATCTGTTCCTTATAAACATAGGGAT
66 CTTCACTGTAAGCACAGGAATGTCAGATCTGTTATCTTCGATCTGTTCCCTATAAACACAGGGAT
100363813 GC
131 GC
100363815 CAAATCTGC
1 CAAATCTGC
100363824 AATCTTCGAT
Statistics
Matches: 618, Mismatches: 50, Indels: 1
0.92 0.07 0.00
Matches are distributed among these distances:
131 87 0.14
132 531 0.86
ACGTcount: A:0.27, C:0.22, G:0.18, T:0.33
Consensus pattern (132 bp):
CAAATCTGCTATTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTCGATCTG
CTTCACTGTAAGCACAGGAATGTCAGATCTGTTATCTTCGATCTGTTCCCTATAAACACAGGGAT
GC
Found at i:100363950 original size:88 final size:88
Alignment explanation
Indices: 100363848--100364057 Score: 357
Period size: 88 Copynumber: 2.4 Consensus size: 88
100363838 TCTCTGCCGC
* *
100363848 TACAGAGACGCCAAATCATCTTGGATTTACTTCAACGTAAACACATGAAAGCCAAATCAGCTATG
1 TACAGAGATGCCAAATCATCTTGGATCTACTTCAACGTAAACACATGAAAGCCAAATCAGCTATG
*
100363913 TCTTCGATCTGCTCCCCGCCTGG
66 TCTTCGATCTGCTCCCCGCCTGA
* * *
100363936 TACAGAGATGCCAAATCATCTTGGATCTGCTTCAACGTAAACACGTGAAAGCTAAATCAGCTATG
1 TACAGAGATGCCAAATCATCTTGGATCTACTTCAACGTAAACACATGAAAGCCAAATCAGCTATG
100364001 TCTTCGATCTGCTCCCCGCCTGA
66 TCTTCGATCTGCTCCCCGCCTGA
*
100364024 TACAGAGATGCCAAATCATCTTGGATCTGCTTCA
1 TACAGAGATGCCAAATCATCTTGGATCTACTTCA
100364058 GCAAAGGTCA
Statistics
Matches: 116, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
88 116 1.00
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.26
Consensus pattern (88 bp):
TACAGAGATGCCAAATCATCTTGGATCTACTTCAACGTAAACACATGAAAGCCAAATCAGCTATG
TCTTCGATCTGCTCCCCGCCTGA
Found at i:100363951 original size:396 final size:395
Alignment explanation
Indices: 100363145--100363907 Score: 1025
Period size: 396 Copynumber: 1.9 Consensus size: 395
100363135 CCCTATAAAC
* * *
100363145 ACAGGGATGGCAAATCTGTTATTTTCAACTTGTTCCCTATAAGCATAGGGATGCCATGCTGAAAT
1 ACAGGGATGCCAAATCTGCTATTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAAT
* * * *
100363210 CTTCGATCTGCTTCACTGTAAGCACAGGAATGTCAGATATGTTATCTTCGATCTGTTCCCTATAA
66 CTTCGATCTGCTTCACTGTAAGCACAGGAATGTCAGATATGTTACCTTCCATCTATTCCCTACAA
* *
100363275 GCACAGGGATGCCAAATCTGTTATTTTCAACTTGTTCCCTATAAGCATAGGGATGCCATGCTGAA
131 GCACAGGGATGCCAAATCTGCTATTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAA
* *
100363340 ATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTTAGATCTGCTATCTTTGATATGTTTCCTAT
196 ATCTTCGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTTGATATGTTTCCTAT
** * * * * **
100363405 AAACACAGGGATGCCAAATCTGTTATTTTCAACTTGTTCCCTATAAGCATATGGATGCCATGCTG
261 AAACACAGGGATGCCAAATCTGCAATCTTCAACTTGTTCCCTAGAAGCATAAGGACGCCATAAT-
* * * * * * * *
100363470 AAATCTTCGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGTTACCTTCCATCTATTCCCT
325 AAATCTTCGATCTACTTCACTGTAAACACAGGAAAGCCAAATCAGTTACCTTCCATCTATCCCCG
100363535 ACAAGT
390 ACAAGT
*
100363541 ACAGGGATGCCAAATTTGCTATTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAAT
1 ACAGGGATGCCAAATCTGCTATTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAAT
* *
100363606 CTTCGATCTGCTTCAGTGTAAGCACAGGAATGTCAGATCTGTTACCTTCCATCTATTCCCTACAA
66 CTTCGATCTGCTTCACTGTAAGCACAGGAATGTCAGATATGTTACCTTCCATCTATTCCCTACAA
* * *
100363671 GTATAGGGATGCCAAATCTGCTATTTTCAACTTGTTCCCTATAAGCACAGGGATGTCATGCTGAA
131 GCACAGGGATGCCAAATCTGCTATTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAA
* * *
100363736 ATCTTCGATCTGCTTCACTGTAAGCACGGGAATGTCAGATCTGTTATCTTTGATCTG-TTCCTTA
196 ATCTTCGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTTGATATGTTTCC-TA
* * * * **
100363800 TAAACATAGGGATGCCAAATCTGCAATCTTCGATTTGTTCTCT-GCCGC-TACAGAGACGCCA-A
260 TAAACACAGGGATGCCAAATCTGCAATCTTCAACTTGTTCCCTAGAAGCATA-AG-GACGCCATA
* * * *
100363862 AT-CATCTTGGATTTACTTCAAC-GTAAACACATGAAAGCCAAATCAG
323 ATAAATCTTCGATCTACTTC-ACTGTAAACACAGGAAAGCCAAATCAG
100363908 CTATGTCTTC
Statistics
Matches: 319, Mismatches: 44, Indels: 11
0.85 0.12 0.03
Matches are distributed among these distances:
393 31 0.10
394 4 0.01
395 8 0.03
396 276 0.87
ACGTcount: A:0.27, C:0.22, G:0.18, T:0.32
Consensus pattern (395 bp):
ACAGGGATGCCAAATCTGCTATTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAAT
CTTCGATCTGCTTCACTGTAAGCACAGGAATGTCAGATATGTTACCTTCCATCTATTCCCTACAA
GCACAGGGATGCCAAATCTGCTATTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAA
ATCTTCGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTTGATATGTTTCCTAT
AAACACAGGGATGCCAAATCTGCAATCTTCAACTTGTTCCCTAGAAGCATAAGGACGCCATAATA
AATCTTCGATCTACTTCACTGTAAACACAGGAAAGCCAAATCAGTTACCTTCCATCTATCCCCGA
CAAGT
Found at i:100364040 original size:47 final size:47
Alignment explanation
Indices: 100363898--100364041 Score: 126
Period size: 47 Copynumber: 3.2 Consensus size: 47
100363888 ACACATGAAA
*
100363898 GCCAAATCAGCTATGTCTTCGATCTGCTCCCCGCCTGGTACAGAGAT
1 GCCAAATCAGCTATGTCTTCGATCTGCTCCCCGCCTGATACAGAGAT
* ** * * *
100363945 GCCAAAT---C-A--TCTTGGATCTGCTTCAACG--T-AAACACGTGAAA
1 GCCAAATCAGCTATGTCTTCGATCTGC-TCCCCGCCTGATACA-GAG-AT
*
100363986 GCTAAATCAGCTATGTCTTCGATCTGCTCCCCGCCTGATACAGAGAT
1 GCCAAATCAGCTATGTCTTCGATCTGCTCCCCGCCTGATACAGAGAT
100364033 GCCAAATCA
1 GCCAAATCA
100364042 TCTTGGATCT
Statistics
Matches: 70, Mismatches: 15, Indels: 24
0.64 0.14 0.22
Matches are distributed among these distances:
39 3 0.04
40 3 0.04
41 18 0.26
42 4 0.06
43 1 0.01
44 2 0.03
45 1 0.01
46 4 0.06
47 27 0.39
48 3 0.04
49 4 0.06
ACGTcount: A:0.27, C:0.29, G:0.19, T:0.25
Consensus pattern (47 bp):
GCCAAATCAGCTATGTCTTCGATCTGCTCCCCGCCTGATACAGAGAT
Found at i:100365945 original size:26 final size:26
Alignment explanation
Indices: 100365916--100365966 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
100365906 CTTTTTGGCA
*
100365916 TTTTTTGT-TTTGTTTTCTTCTTTTTC
1 TTTTTTGTGTTT-TTTTCTTATTTTTC
*
100365942 TTTTTTGTGTTTTTTTTTTATTTTT
1 TTTTTTGTGTTTTTTTCTTATTTTT
100365967 TTAAATTTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 19 0.86
27 3 0.14
ACGTcount: A:0.02, C:0.06, G:0.08, T:0.84
Consensus pattern (26 bp):
TTTTTTGTGTTTTTTTCTTATTTTTC
Found at i:100365960 original size:21 final size:23
Alignment explanation
Indices: 100365917--100365968 Score: 56
Period size: 21 Copynumber: 2.3 Consensus size: 23
100365907 TTTTTGGCAT
*
100365917 TTTTTGTTTTGTTTTCTTCTTTT-
1 TTTTT-TTGTGTTTTCTTCTTTTA
100365940 TCTTTTTTGTGTTTT-TT-TTTTA
1 T-TTTTTTGTGTTTTCTTCTTTTA
100365962 TTTTTTT
1 TTTTTTT
100365969 AAATTTTGAA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
21 10 0.38
22 3 0.12
23 9 0.35
24 4 0.15
ACGTcount: A:0.02, C:0.06, G:0.08, T:0.85
Consensus pattern (23 bp):
TTTTTTTGTGTTTTCTTCTTTTA
Found at i:100376086 original size:34 final size:34
Alignment explanation
Indices: 100376043--100376113 Score: 142
Period size: 34 Copynumber: 2.1 Consensus size: 34
100376033 TTAACCTTAT
100376043 AAATAAGTGACAAATTCTTCACTATTTTCATTAA
1 AAATAAGTGACAAATTCTTCACTATTTTCATTAA
100376077 AAATAAGTGACAAATTCTTCACTATTTTCATTAA
1 AAATAAGTGACAAATTCTTCACTATTTTCATTAA
100376111 AAA
1 AAA
100376114 GTTAACTTTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 37 1.00
ACGTcount: A:0.44, C:0.14, G:0.06, T:0.37
Consensus pattern (34 bp):
AAATAAGTGACAAATTCTTCACTATTTTCATTAA
Found at i:100376360 original size:67 final size:67
Alignment explanation
Indices: 100376248--100376375 Score: 193
Period size: 67 Copynumber: 1.9 Consensus size: 67
100376238 TGACAATTTC
* * *
100376248 TTCATTATTTTCATTAAAAAGTTAATTTTACTCCCACATTAACTAGATAATACTTTCATAGCTCA
1 TTCATTATTTTCATTAAAAAGTTAATTTTAATCCCACATTAACTAGAGAATACTTCCATAGCTCA
100376313 CT
66 CT
* * * *
100376315 TTCATTATTTTCATTAGAAAGTTAATTTTAATCCCATATTGACTAGAGAGTACTTCCATAG
1 TTCATTATTTTCATTAAAAAGTTAATTTTAATCCCACATTAACTAGAGAATACTTCCATAG
100376376 TTTGCTTCTT
Statistics
Matches: 54, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
67 54 1.00
ACGTcount: A:0.34, C:0.17, G:0.08, T:0.41
Consensus pattern (67 bp):
TTCATTATTTTCATTAAAAAGTTAATTTTAATCCCACATTAACTAGAGAATACTTCCATAGCTCA
CT
Found at i:100376424 original size:23 final size:22
Alignment explanation
Indices: 100376394--100376439 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
100376384 TTCAATGTTT
100376394 CCTTAAAAAAAATAATTTTAACC
1 CCTT-AAAAAAATAATTTTAACC
**
100376417 CCTTAAAAAGTTAATTTTAACC
1 CCTTAAAAAAATAATTTTAACC
100376439 C
1 C
100376440 TCACTGGCTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 17 0.81
23 4 0.19
ACGTcount: A:0.46, C:0.20, G:0.02, T:0.33
Consensus pattern (22 bp):
CCTTAAAAAAATAATTTTAACC
Found at i:100376733 original size:21 final size:22
Alignment explanation
Indices: 100376707--100376748 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
100376697 ACTATTTTCA
100376707 TTAAAAA-TTAATTTTAATCCC
1 TTAAAAAGTTAATTTTAATCCC
100376728 TTAAAAAGTTAATTTTAATCC
1 TTAAAAAGTTAATTTTAATCC
100376749 TGTATTGACT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.43, C:0.12, G:0.02, T:0.43
Consensus pattern (22 bp):
TTAAAAAGTTAATTTTAATCCC
Found at i:100376841 original size:93 final size:94
Alignment explanation
Indices: 100376728--100376944 Score: 258
Period size: 94 Copynumber: 2.3 Consensus size: 94
100376718 TTTTAATCCC
* * * *
100376728 TTAAAAAGTTAATTTTAATCCTGTATTGACTAAAGAACACTCTCAT-GCTCACATTTACTCTA-T
1 TTAAAAATTTAATTTTAATCCCGCATTGACTAAAGAACACTCTCATAGCTCACATTGACT-TACT
* * *
100376791 AAATAAGTGTCAACTTCTTTACTATTTTCA
65 AAAAAAGTATCAACTTCTTCACTATTTTCA
* * * * *
100376821 TTAAAAATTTAATTTCAATCCCGCATTGACTAGAGAACATTCTCATATCTCATATTGACTTACTA
1 TTAAAAATTTAATTTTAATCCCGCATTGACTAAAGAACACTCTCATAGCTCACATTGACTTACTA
* *
100376886 AAAAAGTATTAATTTCTTCACTATTTTCA
66 AAAAAGTATCAACTTCTTCACTATTTTCA
* *
100376915 TTAAAAATTTTAATTTTAATCTCACATTGA
1 TTAAAAA-TTTAATTTTAATCCCGCATTGA
100376945 ATTGGGAATA
Statistics
Matches: 104, Mismatches: 17, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
93 42 0.40
94 43 0.41
95 19 0.18
ACGTcount: A:0.36, C:0.17, G:0.06, T:0.41
Consensus pattern (94 bp):
TTAAAAATTTAATTTTAATCCCGCATTGACTAAAGAACACTCTCATAGCTCACATTGACTTACTA
AAAAAGTATCAACTTCTTCACTATTTTCA
Found at i:100377313 original size:43 final size:44
Alignment explanation
Indices: 100377264--100377347 Score: 161
Period size: 44 Copynumber: 1.9 Consensus size: 44
100377254 CATAGCTCAC
100377264 TTCTTCACTATTTTTATT-AAAAAAGTTAATTTTAATCCCACAA
1 TTCTTCACTATTTTTATTAAAAAAAGTTAATTTTAATCCCACAA
100377307 TTCTTCACTATTTTTATTAAAAAAAGTTAATTTTAATCCCA
1 TTCTTCACTATTTTTATTAAAAAAAGTTAATTTTAATCCCA
100377348 TATTGACTAG
Statistics
Matches: 40, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
43 18 0.45
44 22 0.55
ACGTcount: A:0.37, C:0.15, G:0.02, T:0.45
Consensus pattern (44 bp):
TTCTTCACTATTTTTATTAAAAAAAGTTAATTTTAATCCCACAA
Found at i:100380880 original size:29 final size:31
Alignment explanation
Indices: 100380812--100380872 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 31
100380802 ATAAAAAAAT
* *
100380812 ATATATTTTAATCATAATCAAAATTTTATAC
1 ATATAATTAAATCATAATCAAAATTTTATAC
*
100380843 ATATAATTAAATCAT-ATTAAAATTTATATA
1 ATATAATTAAATCATAATCAAAATTT-TATA
100380873 TTAAATTACA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 9 0.35
31 17 0.65
ACGTcount: A:0.49, C:0.07, G:0.00, T:0.44
Consensus pattern (31 bp):
ATATAATTAAATCATAATCAAAATTTTATAC
Found at i:100385207 original size:36 final size:36
Alignment explanation
Indices: 100385160--100385230 Score: 142
Period size: 36 Copynumber: 2.0 Consensus size: 36
100385150 ATACGGATAC
100385160 TTGCTCAAACGAGCTTTACCACCAACACACATCTGA
1 TTGCTCAAACGAGCTTTACCACCAACACACATCTGA
100385196 TTGCTCAAACGAGCTTTACCACCAACACACATCTG
1 TTGCTCAAACGAGCTTTACCACCAACACACATCTG
100385231 GGCACTGAGT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.32, C:0.34, G:0.11, T:0.23
Consensus pattern (36 bp):
TTGCTCAAACGAGCTTTACCACCAACACACATCTGA
Found at i:100386869 original size:26 final size:27
Alignment explanation
Indices: 100386826--100386876 Score: 70
Period size: 26 Copynumber: 1.9 Consensus size: 27
100386816 TAATTAATAT
100386826 ACATTTAAATAATTATAATCAAAATCC
1 ACATTTAAATAATTATAATCAAAATCC
*
100386853 ACATTATAAA-AA-TATAATTAAAAT
1 ACATT-TAAATAATTATAATCAAAAT
100386877 TTATTCCAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
26 11 0.50
27 7 0.32
28 4 0.18
ACGTcount: A:0.57, C:0.10, G:0.00, T:0.33
Consensus pattern (27 bp):
ACATTTAAATAATTATAATCAAAATCC
Found at i:100387804 original size:25 final size:26
Alignment explanation
Indices: 100387770--100387821 Score: 72
Period size: 25 Copynumber: 2.0 Consensus size: 26
100387760 ATATTAAAAT
*
100387770 TAAAGAAAAC-TAGTTTTTTT-TTTTA
1 TAAAAAAAACTTA-TTTTTTTATTTTA
100387795 TAAAAAAAACTTATTTTTTTATTTTA
1 TAAAAAAAACTTATTTTTTTATTTTA
100387821 T
1 T
100387822 GATATATGTA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
25 16 0.67
26 8 0.33
ACGTcount: A:0.38, C:0.04, G:0.04, T:0.54
Consensus pattern (26 bp):
TAAAAAAAACTTATTTTTTTATTTTA
Found at i:100388227 original size:20 final size:20
Alignment explanation
Indices: 100388208--100388245 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
100388198 TATATTAATA
100388208 AATTTAA-TATTATAAAAAT
1 AATTTAATTATTATAAAAAT
* *
100388227 ACTTTAATTTTTATAAAAA
1 AATTTAATTATTATAAAAA
100388246 CCTAACCTCT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 6 0.38
20 10 0.62
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (20 bp):
AATTTAATTATTATAAAAAT
Found at i:100388523 original size:20 final size:19
Alignment explanation
Indices: 100388500--100388544 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
100388490 TTAAAATGTA
100388500 AAATTATATTTTAAATTCTT
1 AAATTATATTTTAAATT-TT
* *
100388520 AAATTTTTTTTTAAATTTT
1 AAATTATATTTTAAATTTT
100388539 AAATTA
1 AAATTA
100388545 GTAAAAGTAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 7 0.32
20 15 0.68
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (19 bp):
AAATTATATTTTAAATTTT
Found at i:100389049 original size:14 final size:16
Alignment explanation
Indices: 100389027--100389064 Score: 53
Period size: 14 Copynumber: 2.5 Consensus size: 16
100389017 TATGAATAAG
100389027 ATATAAAAT-ATTA-A
1 ATATAAAATCATTATA
*
100389041 ATATTAAATCATTATA
1 ATATAAAATCATTATA
100389057 ATATAAAA
1 ATATAAAA
100389065 GTGACAAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
14 8 0.40
15 4 0.20
16 8 0.40
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.37
Consensus pattern (16 bp):
ATATAAAATCATTATA
Found at i:100396110 original size:5 final size:5
Alignment explanation
Indices: 100396100--100396131 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
100396090 TTGTGTGTTC
100396100 TTTAT TTTA- TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
100396132 TCACAATATA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:100396114 original size:9 final size:9
Alignment explanation
Indices: 100396100--100396130 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
100396090 TTGTGTGTTC
100396100 TTTATTTTA
1 TTTATTTTA
100396109 TTTATTTTA
1 TTTATTTTA
100396118 TTTTATTTTA
1 -TTTATTTTA
100396128 TTT
1 TTT
100396131 TTCACAATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (9 bp):
TTTATTTTA
Found at i:100398727 original size:27 final size:26
Alignment explanation
Indices: 100398667--100398728 Score: 63
Period size: 27 Copynumber: 2.3 Consensus size: 26
100398657 ATTTTATTTT
100398667 ATTTTATTAGGATAATTAATATTAAG
1 ATTTTATTAGGATAATTAATATTAAG
* * *
100398693 ATAATTATTAGGATTATTCAA-ATTTAGG
1 AT-TTTATTAGGATAATT-AATA-TTAAG
100398721 ATTTTATT
1 ATTTTATT
100398729 TTAATTATCT
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
26 2 0.07
27 19 0.66
28 8 0.28
ACGTcount: A:0.39, C:0.02, G:0.11, T:0.48
Consensus pattern (26 bp):
ATTTTATTAGGATAATTAATATTAAG
Found at i:100405194 original size:24 final size:24
Alignment explanation
Indices: 100405158--100405219 Score: 81
Period size: 24 Copynumber: 2.5 Consensus size: 24
100405148 TCTTTTACTT
*
100405158 TTTCTTTTTATTTATTATTT-TCC
1 TTTCTTTTTATTTATTATTTATCA
*
100405181 TTTCTTTTTTATTTATTATTTATTA
1 TTTC-TTTTTATTTATTATTTATCA
100405206 TTTCATTTTTATTT
1 TTTC-TTTTTATTT
100405220 TTAGTTAAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
23 4 0.12
24 16 0.47
25 14 0.41
ACGTcount: A:0.16, C:0.08, G:0.00, T:0.76
Consensus pattern (24 bp):
TTTCTTTTTATTTATTATTTATCA
Found at i:100405221 original size:31 final size:31
Alignment explanation
Indices: 100405150--100405222 Score: 87
Period size: 30 Copynumber: 2.4 Consensus size: 31
100405140 CCAATCTTTC
* *
100405150 TTTTACTTTTTCTTTTTATTTATTATTTTCCT
1 TTTTA-TTTTTATTTTTATTTATTATTTTCAT
*
100405182 TTCT-TTTTTATTTATTATTTATTA-TTTCAT
1 TTTTATTTTTATTT-TTATTTATTATTTTCAT
100405212 TTTTATTTTTA
1 TTTTATTTTTA
100405223 GTTAAATATT
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
30 16 0.46
31 16 0.46
32 3 0.09
ACGTcount: A:0.16, C:0.08, G:0.00, T:0.75
Consensus pattern (31 bp):
TTTTATTTTTATTTTTATTTATTATTTTCAT
Found at i:100405232 original size:25 final size:25
Alignment explanation
Indices: 100405181--100405232 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 25
100405171 ATTATTTTCC
* * *
100405181 TTTCTTTTTTATTTATTATTTATTA
1 TTTCATTTTTATTTATTATTAAATA
100405206 TTTCATTTTTATTT-TTAGTTAAATA
1 TTTCATTTTTATTTATTA-TTAAATA
100405231 TT
1 TT
100405233 AATAAATTTC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
24 3 0.13
25 20 0.87
ACGTcount: A:0.23, C:0.04, G:0.02, T:0.71
Consensus pattern (25 bp):
TTTCATTTTTATTTATTATTAAATA
Found at i:100407111 original size:27 final size:26
Alignment explanation
Indices: 100407051--100407112 Score: 63
Period size: 27 Copynumber: 2.3 Consensus size: 26
100407041 ATTTTATTTT
100407051 ATTTTATTAGGATAATTAATATTAAG
1 ATTTTATTAGGATAATTAATATTAAG
* * *
100407077 ATAATTATTAGGATTATTCAA-ATTTAGG
1 AT-TTTATTAGGATAATT-AATA-TTAAG
100407105 ATTTTATT
1 ATTTTATT
100407113 TTAATTATCT
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
26 2 0.07
27 19 0.66
28 8 0.28
ACGTcount: A:0.39, C:0.02, G:0.11, T:0.48
Consensus pattern (26 bp):
ATTTTATTAGGATAATTAATATTAAG
Found at i:100407127 original size:10 final size:10
Alignment explanation
Indices: 100407108--100407139 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
100407098 ATTTAGGATT
100407108 TTAT-TTTAA
1 TTATCTTTAA
100407117 TTATCTTTAA
1 TTATCTTTAA
100407127 TTATCTTTAA
1 TTATCTTTAA
100407137 TTA
1 TTA
100407140 AATGTATTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 4 0.18
10 18 0.82
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.62
Consensus pattern (10 bp):
TTATCTTTAA
Found at i:100408241 original size:23 final size:21
Alignment explanation
Indices: 100408192--100408248 Score: 69
Period size: 23 Copynumber: 2.6 Consensus size: 21
100408182 AAGATATGAT
*
100408192 ACTTGTGTGCATTTTATTGGC
1 ACTTGTGTGCATTTTATTAGC
*
100408213 GCTTGTGTGCATTTATATTTAGC
1 ACTTGTGTGCATTT-TA-TTAGC
*
100408236 ATTTGTGTGCATT
1 ACTTGTGTGCATT
100408249 CTTGAAGTGT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
21 13 0.43
22 2 0.07
23 15 0.50
ACGTcount: A:0.16, C:0.12, G:0.23, T:0.49
Consensus pattern (21 bp):
ACTTGTGTGCATTTTATTAGC
Found at i:100421419 original size:3 final size:3
Alignment explanation
Indices: 100421411--100421435 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
100421401 GGAGCCAAAT
100421411 GTG GTG GTG GTG GTG GTG GTG GTG G
1 GTG GTG GTG GTG GTG GTG GTG GTG G
100421436 ATGCTGTTGC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.00, G:0.68, T:0.32
Consensus pattern (3 bp):
GTG
Found at i:100423012 original size:41 final size:41
Alignment explanation
Indices: 100422962--100423045 Score: 150
Period size: 41 Copynumber: 2.0 Consensus size: 41
100422952 TAAGTCATTG
*
100422962 ATTAGCACTCAAGAAATCAGAATTTAAACTCCGTTATTGTC
1 ATTAGCACTCAAGAAATCAAAATTTAAACTCCGTTATTGTC
*
100423003 ATTAGCACTCAAGAAATCAAAATTTAAATTCCGTTATTGTC
1 ATTAGCACTCAAGAAATCAAAATTTAAACTCCGTTATTGTC
100423044 AT
1 AT
100423046 ACTCTTTCCT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.38, C:0.18, G:0.11, T:0.33
Consensus pattern (41 bp):
ATTAGCACTCAAGAAATCAAAATTTAAACTCCGTTATTGTC
Found at i:100423382 original size:13 final size:14
Alignment explanation
Indices: 100423342--100423383 Score: 59
Period size: 13 Copynumber: 3.0 Consensus size: 14
100423332 AGTAAAGCTA
100423342 AATTTATAATTTAAT
1 AATTTA-AATTTAAT
*
100423357 AATTTAGATTTAAT
1 AATTTAAATTTAAT
100423371 AA-TTAAATTTAAT
1 AATTTAAATTTAAT
100423384 TGATAGTTCA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
13 10 0.40
14 9 0.36
15 6 0.24
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (14 bp):
AATTTAAATTTAAT
Found at i:100424225 original size:32 final size:30
Alignment explanation
Indices: 100424164--100424225 Score: 81
Period size: 30 Copynumber: 2.0 Consensus size: 30
100424154 ATTATTAAAA
100424164 TATTTTTATATATGTTATTATATTAATTAT
1 TATTTTTATATATGTTATTATATTAATTAT
*
100424194 TATTTTTA-ATAATGTTACTTTTTATTAATTAT
1 TATTTTTATAT-ATGTTA--TTATATTAATTAT
100424226 ATGAAGTAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
29 2 0.07
30 14 0.50
32 12 0.43
ACGTcount: A:0.32, C:0.02, G:0.03, T:0.63
Consensus pattern (30 bp):
TATTTTTATATATGTTATTATATTAATTAT
Found at i:100431726 original size:3 final size:3
Alignment explanation
Indices: 100431683--100431801 Score: 68
Period size: 3 Copynumber: 38.3 Consensus size: 3
100431673 TTTTTTAACC
* *
100431683 TTA TTT TTA -TA TTA TATA TTA TAA TTA TT- TTA TTA TATA TTA TT-
1 TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA T-TA TTA TTA
* * *
100431727 TATA TTA TTA TTA TCTA TTG TATA TTA TTT TTCA TAAA TTA TTA TT-
1 T-TA TTA TTA TTA T-TA TTA T-TA TTA TTA TT-A T-TA TTA TTA TTA
*
100431773 TTA -CA TTA TTA CTTA TATA TTA TTA TTA T
1 TTA TTA TTA TTA -TTA T-TA TTA TTA TTA T
100431802 GTTTTTACTT
Statistics
Matches: 90, Mismatches: 12, Indels: 28
0.69 0.09 0.22
Matches are distributed among these distances:
2 8 0.09
3 61 0.68
4 21 0.23
ACGTcount: A:0.34, C:0.03, G:0.01, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:100431796 original size:14 final size:13
Alignment explanation
Indices: 100431692--100431801 Score: 86
Period size: 13 Copynumber: 8.5 Consensus size: 13
100431682 CTTATTTTTA
100431692 TATTATATATTAT
1 TATTATATATTAT
*
100431705 AATTAT-T-TTAT
1 TATTATATATTAT
100431716 TA-TATATTATT-T
1 TATTATA-TATTAT
100431728 ATATTAT-TATTAT
1 -TATTATATATTAT
*
100431741 CTATTGTATATTAT
1 -TATTATATATTAT
* *
100431755 TTTTCATAAATTAT
1 TATT-ATATATTAT
* *
100431769 TATTTTACATTAT
1 TATTATATATTAT
100431782 TACTTATATATTAT
1 TA-TTATATATTAT
100431796 TATTAT
1 TATTAT
100431802 GTTTTTACTT
Statistics
Matches: 76, Mismatches: 12, Indels: 18
0.72 0.11 0.17
Matches are distributed among these distances:
10 3 0.04
11 5 0.07
12 7 0.09
13 31 0.41
14 30 0.39
ACGTcount: A:0.35, C:0.04, G:0.01, T:0.61
Consensus pattern (13 bp):
TATTATATATTAT
Found at i:100432224 original size:17 final size:18
Alignment explanation
Indices: 100432204--100432259 Score: 64
Period size: 17 Copynumber: 3.2 Consensus size: 18
100432194 TTATATTTTA
100432204 TATTTTTATATAAT-TAT
1 TATTTTTATATAATATAT
*
100432221 TATTCTTATA-AATATAT
1 TATTTTTATATAATATAT
*
100432238 T-TTTATTATATATTATAT
1 TATTT-TTATATAATATAT
100432256 TATT
1 TATT
100432260 AAATATCACA
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
16 5 0.16
17 18 0.56
18 7 0.22
19 2 0.06
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (18 bp):
TATTTTTATATAATATAT
Found at i:100432258 original size:15 final size:16
Alignment explanation
Indices: 100432193--100432265 Score: 60
Period size: 17 Copynumber: 4.6 Consensus size: 16
100432183 TTTCTAAACC
*
100432193 ATTATATTTTA-TATT
1 ATTATATATTATTATT
*
100432208 TTTATATAATTATTATT
1 ATTATAT-ATTATTATT
* * *
100432225 CTTATAAATATATTTTT
1 ATTATATAT-TATTATT
100432242 ATTATATATTA-TATT
1 ATTATATATTATTATT
*
100432257 ATTAAATAT
1 ATTATATAT
100432266 CACATTTTTT
Statistics
Matches: 46, Mismatches: 9, Indels: 6
0.75 0.15 0.10
Matches are distributed among these distances:
15 17 0.37
16 7 0.15
17 22 0.48
ACGTcount: A:0.38, C:0.01, G:0.00, T:0.60
Consensus pattern (16 bp):
ATTATATATTATTATT
Found at i:100432263 original size:30 final size:31
Alignment explanation
Indices: 100432202--100432265 Score: 80
Period size: 31 Copynumber: 2.1 Consensus size: 31
100432192 CATTATATTT
*
100432202 TATATTTTTATATAATTATTATTCTTATAAA
1 TATATTTTTATATAATTATTATTCATATAAA
100432233 TATATTTTTATTATATATTA-TATT-AT-TAAA
1 TATATTTTTA-TATA-ATTATTATTCATATAAA
100432263 TAT
1 TAT
100432266 CACATTTTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
30 7 0.23
31 11 0.37
32 8 0.27
33 4 0.13
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (31 bp):
TATATTTTTATATAATTATTATTCATATAAA
Found at i:100444824 original size:206 final size:205
Alignment explanation
Indices: 100444113--100444872 Score: 1200
Period size: 205 Copynumber: 3.7 Consensus size: 205
100444103 AGATGCTTGT
* *
100444113 ACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTACTTACAAGGAAAAAAATCGAAGACATAGC
1 ACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGG-AACAAATCGAAGACATAGC
** *
100444178 TGATTTGGCTTTCACGTATTTACGTTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTTA
65 TGATTTGGCTTTCACGTGCTTACGTTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCA
* * *
100444243 GAGAACAAATCGAAGTCTGGCATCTCCATTTCGACGTAGAACAGATACATAGCAGATCTCACCTT
130 GAGAACAAATCGAAGTCTGGAATCTCCATTTCGACGGAGAGCAGATACATAGCAGATCTCACCTT
100444308 CAGATGATCTC
195 CAGATGATCTC
* *
100444319 ACTGAAGCAGATCCAAGATGATTTGGCATCCTTGTTCTTACAAGGAACAAATCGAAGACATAGCT
1 ACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCT
* *
100444384 GATTTGGCTTTCACGTGCTTACATTGAAGCAAATCTAAGATGATTTGGTATCTCTGTATTGTCAG
66 GATTTGGCTTTCACGTGCTTACGTTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAG
* * * *
100444449 AGAACAAATTGAAGTCTGGTATCTCCATTTCGACGGAGAGAAGATACATAGCAGATCTCACCTTG
131 AGAACAAATCGAAGTCTGGAATCTCCATTTCGACGGAGAGCAGATACATAGCAGATCTCACCTTC
100444514 AGATGATCTC
196 AGATGATCTC
* * *
100444524 ACTAAAGCAGATCCAAGAT-GATTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGCCATAGCT
1 ACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCT
100444588 GATTTGGCTTTCACGTGCTTACGTTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAG
66 GATTTGGCTTTCACGTGCTTACGTTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAG
* * * *
100444653 AGAACAAATCGAAGTCTGGAATCTCCATATTCGATGGAGGGCAGACACATAGCAGATCTAACCTT
131 AGAACAAATCGAAGTCTGGAATCTCCAT-TTCGACGGAGAGCAGATACATAGCAGATCTCACCTT
* *
100444718 CAAATGAT-TAG
195 CAGATGATCT-C
* * *
100444729 AATGAAGTAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGCT
1 ACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCT
* *
100444794 GATTTGGTTTTCACGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAG
66 GATTTGGCTTTCACGTGCTTACGTTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAG
*
100444859 AGAACAAATTGAAG
131 AGAACAAATCGAAG
100444873 AAGCAGATTT
Statistics
Matches: 511, Mismatches: 40, Indels: 6
0.92 0.07 0.01
Matches are distributed among these distances:
204 131 0.26
205 219 0.43
206 161 0.32
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.28
Consensus pattern (205 bp):
ACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCT
GATTTGGCTTTCACGTGCTTACGTTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAG
AGAACAAATCGAAGTCTGGAATCTCCATTTCGACGGAGAGCAGATACATAGCAGATCTCACCTTC
AGATGATCTC
Found at i:100446530 original size:3 final size:3
Alignment explanation
Indices: 100446487--100446608 Score: 65
Period size: 3 Copynumber: 39.3 Consensus size: 3
100446477 TTTTTTAACC
* *
100446487 TTA TTT TTA -TA TTA TATA TTA TAA TTA TT- TTA TTA TATA TTA TT-
1 TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA T-TA TTA TTA
* * * *
100446531 TATA TTA TTA TTA TCTA TTG TATA TTG TTT TTCA TAAA TTA TTA TTA
1 T-TA TTA TTA TTA T-TA TTA T-TA TTA TTA TT-A T-TA TTA TTA TTA
*
100446578 TT- TTA -CA TTA TTA CTTA TATA TTA TTA TTA T
1 TTA TTA TTA TTA TTA -TTA T-TA TTA TTA TTA T
100446609 GTTTTTACTT
Statistics
Matches: 92, Mismatches: 13, Indels: 28
0.69 0.10 0.21
Matches are distributed among these distances:
2 8 0.09
3 63 0.68
4 21 0.23
ACGTcount: A:0.33, C:0.03, G:0.02, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:100446549 original size:19 final size:18
Alignment explanation
Indices: 100446487--100446662 Score: 82
Period size: 17 Copynumber: 9.5 Consensus size: 18
100446477 TTTTTTAACC
100446487 TTATT-TTTATATTATATA
1 TTATTATTTATATTAT-TA
* *
100446505 TTA-TAATTATTTTATTA
1 TTATTATTTATATTATTA
100446522 TATATTATTTATATTATTA
1 T-TATTATTTATATTATTA
* *
100446541 TTATCTATTGTATATTGTTT
1 TTAT-TATT-TATATTATTA
* *
100446561 TTCATAAATTATTATTATTTTACA
1 TT-ATTATTTA-TATTA--TT--A
*
100446585 TTATTACTTATA-TATTA
1 TTATTATTTATATTATTA
100446602 TTATTATGTT-T-TTACTT-
1 TTATTAT-TTATATTA-TTA
* *
100446619 GTATTATATAT-TTATTA
1 TTATTATTTATATTATTA
100446636 --ATTATTTATATATATTA
1 TTATTATTTATAT-TATTA
100446653 TGTATTATTT
1 T-TATTATTT
100446663 TTTTTGCATA
Statistics
Matches: 121, Mismatches: 16, Indels: 40
0.68 0.09 0.23
Matches are distributed among these distances:
15 8 0.07
16 4 0.03
17 29 0.24
18 20 0.17
19 21 0.17
20 23 0.19
21 4 0.03
22 4 0.03
23 6 0.05
24 2 0.02
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.62
Consensus pattern (18 bp):
TTATTATTTATATTATTA
Found at i:100446604 original size:30 final size:30
Alignment explanation
Indices: 100446488--100446661 Score: 124
Period size: 30 Copynumber: 5.6 Consensus size: 30
100446478 TTTTTAACCT
* *
100446488 TATTTTTATATTATATATTATAATTATTTTA
1 TATTATTAT-TTATATATTATTATTATTTTA
*
100446519 TTATATATTATTTATATTATTATTATCTATTGTA
1 -TAT-TATTATTTATA-TATTATTAT-TATTTTA
* *
100446553 TATTGTT-TTTCATAAATTATTATTATTTTA
1 TATTATTATTT-ATATATTATTATTATTTTA
* * *
100446583 CATTATTACTTATATATTATTATTATGTT-
1 TATTATTATTTATATATTATTATTATTTTA
*
100446612 T-TTACTTGTATTATATATTTATTAATTA-TTTA
1 TATTA-TTAT-TTATATA-TTATT-ATTATTTTA
*
100446644 TATATATTATGTAT-TATT
1 TAT-TATTATTTATATATT
100446662 TTTTTTGCAT
Statistics
Matches: 113, Mismatches: 17, Indels: 26
0.72 0.11 0.17
Matches are distributed among these distances:
28 3 0.03
29 2 0.02
30 36 0.32
31 22 0.19
32 22 0.19
33 20 0.18
34 8 0.07
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.62
Consensus pattern (30 bp):
TATTATTATTTATATATTATTATTATTTTA
Found at i:100446948 original size:21 final size:23
Alignment explanation
Indices: 100446889--100446950 Score: 67
Period size: 23 Copynumber: 2.8 Consensus size: 23
100446879 ATTAATTACT
* *
100446889 TATTTCATAT-TATTCTAAACTTA
1 TATTT-ATATATATTATAAAATTA
100446912 TATTTATATATATTATAAAATTA
1 TATTTATATATATTATAAAATTA
*
100446935 T-TTTAT-TATTTTATAA
1 TATTTATATATATTATAA
100446951 GTTCTTTCAC
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
21 9 0.26
22 9 0.26
23 17 0.49
ACGTcount: A:0.39, C:0.05, G:0.00, T:0.56
Consensus pattern (23 bp):
TATTTATATATATTATAAAATTA
Found at i:100447050 original size:12 final size:12
Alignment explanation
Indices: 100446995--100447058 Score: 51
Period size: 12 Copynumber: 5.4 Consensus size: 12
100446985 TTTCTAAACC
*
100446995 ATTATATTTTAT
1 ATTATATATTAT
* *
100447007 ATTTTATATAATT
1 ATTATATATTA-T
*
100447020 ATTAT-TCTTAT
1 ATTATATATTAT
* *
100447031 A-AATATATTTT
1 ATTATATATTAT
100447042 ATTATATATTAT
1 ATTATATATTAT
100447054 ATTAT
1 ATTAT
100447059 TAAATATCAC
Statistics
Matches: 38, Mismatches: 11, Indels: 6
0.69 0.20 0.11
Matches are distributed among these distances:
10 2 0.05
11 7 0.18
12 24 0.63
13 5 0.13
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.61
Consensus pattern (12 bp):
ATTATATATTAT
Found at i:100464424 original size:17 final size:17
Alignment explanation
Indices: 100464402--100464440 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
100464392 ATGAATTGTT
*
100464402 TTAATTGCAATCTAAAA
1 TTAATTCCAATCTAAAA
100464419 TTAATTCCAATCTAAAA
1 TTAATTCCAATCTAAAA
100464436 TTAAT
1 TTAAT
100464441 CATTTAAACA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.46, C:0.13, G:0.03, T:0.38
Consensus pattern (17 bp):
TTAATTCCAATCTAAAA
Found at i:100467852 original size:22 final size:23
Alignment explanation
Indices: 100467801--100467852 Score: 54
Period size: 22 Copynumber: 2.3 Consensus size: 23
100467791 CTTTTATTTA
* *
100467801 TATAAATAAAATAATAAATATGT
1 TATATATAAAATAATAAATATAT
* *
100467824 AAT-TATACAATAA-AAATATAT
1 TATATATAAAATAATAAATATAT
100467845 TATATATA
1 TATATATA
100467853 TATGATTATG
Statistics
Matches: 23, Mismatches: 5, Indels: 3
0.74 0.16 0.10
Matches are distributed among these distances:
21 9 0.39
22 12 0.52
23 2 0.09
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.37
Consensus pattern (23 bp):
TATATATAAAATAATAAATATAT
Found at i:100467884 original size:97 final size:97
Alignment explanation
Indices: 100467777--100467972 Score: 302
Period size: 97 Copynumber: 2.0 Consensus size: 97
100467767 AATTCATCTA
**
100467777 TTTAATTAATAACTCTTTTATTTATATAAATAAAATAATAAATATGTAATTATACAATAAAAATA
1 TTTAATTAATAACTCTTTTATTTATATAAATAAAATAATAAATACATAATTATACAATAAAAATA
*
100467842 TATTATATATATATGATTATGTTAAAAATATT
66 TATTATATATATATCATTATGTTAAAAATATT
* * *
100467874 TTTAATTAATAACTCTTTTATTTATATAAATAAATTAATAATTACATAATTATATAATAAAAATA
1 TTTAATTAATAACTCTTTTATTTATATAAATAAAATAATAAATACATAATTATACAATAAAAATA
* * * *
100467939 TTTTTTATATTTATCATTATGTTAAATATATT
66 TATTATATATATATCATTATGTTAAAAATATT
100467971 TT
1 TT
100467973 ATTTTTAAAA
Statistics
Matches: 89, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
97 89 1.00
ACGTcount: A:0.46, C:0.04, G:0.02, T:0.48
Consensus pattern (97 bp):
TTTAATTAATAACTCTTTTATTTATATAAATAAAATAATAAATACATAATTATACAATAAAAATA
TATTATATATATATCATTATGTTAAAAATATT
Found at i:100468303 original size:13 final size:15
Alignment explanation
Indices: 100468273--100468304 Score: 50
Period size: 13 Copynumber: 2.3 Consensus size: 15
100468263 ATTTTTTTTA
100468273 TAATAGAAATATAAG
1 TAATAGAAATATAAG
100468288 TAATA-AAATA-AAG
1 TAATAGAAATATAAG
100468301 TAAT
1 TAAT
100468305 TACAACATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 7 0.41
14 5 0.29
15 5 0.29
ACGTcount: A:0.62, C:0.00, G:0.09, T:0.28
Consensus pattern (15 bp):
TAATAGAAATATAAG
Found at i:100468885 original size:3 final size:3
Alignment explanation
Indices: 100468877--100468903 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
100468867 ACCATCTCTA
100468877 ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT
100468904 TTGATTACAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:100471193 original size:26 final size:26
Alignment explanation
Indices: 100471156--100471206 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
100471146 TTGACGTGAT
*
100471156 AAATGATATAGATGTGATATGTTGAC
1 AAATGATATAGATGTGACATGTTGAC
*
100471182 AAATGATGTAGATGTGACATGTTGA
1 AAATGATATAGATGTGACATGTTGA
100471207 TATGTAATGT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.37, C:0.04, G:0.25, T:0.33
Consensus pattern (26 bp):
AAATGATATAGATGTGACATGTTGAC
Found at i:100471374 original size:27 final size:25
Alignment explanation
Indices: 100471344--100471413 Score: 77
Period size: 27 Copynumber: 2.6 Consensus size: 25
100471334 TATTAATTTT
100471344 TTTAAAAATTATAAAAATTATTAAAAA
1 TTTAAAAATTATAAAAA-T-TTAAAAA
* * *
100471371 TTTAAAAATGTTATAGAAATTTGAATA
1 TTTAAAAA--TTATAAAAATTTAAAAA
100471398 TTTAAAAATTATAAAA
1 TTTAAAAATTATAAAA
100471414 TAAAAAATAT
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
25 7 0.19
27 21 0.57
28 1 0.03
29 8 0.22
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.39
Consensus pattern (25 bp):
TTTAAAAATTATAAAAATTTAAAAA
Found at i:100471937 original size:12 final size:12
Alignment explanation
Indices: 100471920--100471953 Score: 54
Period size: 11 Copynumber: 3.0 Consensus size: 12
100471910 CCGGCCCGCC
100471920 TATATTAATTTT
1 TATATTAATTTT
100471932 TATATT-ATTTT
1 TATATTAATTTT
100471943 TATA-TAATTTT
1 TATATTAATTTT
100471954 AAAATATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 1 0.05
11 14 0.67
12 6 0.29
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
TATATTAATTTT
Found at i:100472215 original size:11 final size:11
Alignment explanation
Indices: 100472177--100472216 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
100472167 AATAACAACA
100472177 AAAATAGTAGC
1 AAAATAGTAGC
* * *
100472188 AACATAATAGT
1 AAAATAGTAGC
100472199 AAAATAGTAGC
1 AAAATAGTAGC
100472210 AAAATAG
1 AAAATAG
100472217 GGAGAAAACA
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.57, C:0.07, G:0.15, T:0.20
Consensus pattern (11 bp):
AAAATAGTAGC
Found at i:100475101 original size:10 final size:9
Alignment explanation
Indices: 100475086--100475169 Score: 50
Period size: 10 Copynumber: 9.0 Consensus size: 9
100475076 GGATGCACTT
100475086 TTTTTACTAA
1 TTTTTA-TAA
100475096 TTTTTATAA
1 TTTTTATAA
**
100475105 -TTCCATAA
1 TTTTTATAA
100475113 TTTTTTTATAAA
1 --TTTTTAT-AA
100475125 TTTTTATAA
1 TTTTTATAA
100475134 TTCTTTATAA
1 TT-TTTATAA
*
100475144 -TGTTATAAA
1 TTTTTAT-AA
100475153 TTTCTT-T-A
1 TTT-TTATAA
100475161 TTTTTATAA
1 TTTTTATAA
100475170 ACTTTTAATA
Statistics
Matches: 58, Mismatches: 6, Indels: 21
0.68 0.07 0.25
Matches are distributed among these distances:
7 2 0.03
8 15 0.26
9 11 0.19
10 22 0.38
11 6 0.10
12 2 0.03
ACGTcount: A:0.32, C:0.06, G:0.01, T:0.61
Consensus pattern (9 bp):
TTTTTATAA
Found at i:100475167 original size:18 final size:17
Alignment explanation
Indices: 100475124--100475170 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 17
100475114 TTTTTTATAA
100475124 ATTTTTAT-AATTCTTT
1 ATTTTTATAAATTCTTT
*
100475140 ATAATGTTATAAATTTCTTT
1 AT--TTTTATAAA-TTCTTT
100475160 ATTTTTATAAA
1 ATTTTTATAAA
100475171 CTTTTAATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
16 2 0.08
18 13 0.52
19 2 0.08
20 8 0.32
ACGTcount: A:0.34, C:0.04, G:0.02, T:0.60
Consensus pattern (17 bp):
ATTTTTATAAATTCTTT
Found at i:100475762 original size:140 final size:139
Alignment explanation
Indices: 100475544--100475804 Score: 423
Period size: 140 Copynumber: 1.9 Consensus size: 139
100475534 TTGTTTTTTC
* ** * *
100475544 TTCTTCTTCCTTCTTCCTCTTGTCACTTTGCCTTTTTCTTTTATGGGTTCTTTCAGTATTTTTGG
1 TTCTTCTTCCTTCTTCCTCTCGTCACTTTGCCTTTTTCTTTTATGGGTTCTTTCAACATTTCTGA
* *
100475609 ATTGCTTTGAAAAGAAATTTAAGAACATTTCTAGGTTCATTTTTTCTCTTATTCCTTTTTTTTTC
66 ATTGCTTAGAAAAGAAATTTAAGAACATTTCTAGATTCATTTTTT-TCTTATTCCTTTTTTTTTC
100475674 GATAATTCAT
130 GATAATTCAT
*
100475684 TTCTTCTTCCTTCTTCCTCTCGTCACTTTGCCTTTTTCTTTTCTGGGTTCTTTCAACATTTCTGA
1 TTCTTCTTCCTTCTTCCTCTCGTCACTTTGCCTTTTTCTTTTATGGGTTCTTTCAACATTTCTGA
* *
100475749 ATTGCTTAGAAAAGAAATTTAAGAACATTTTTAGATTCATTTTTTTCTTCTTCCTT
66 ATTGCTTAGAAAAGAAATTTAAGAACATTTCTAGATTCATTTTTTTCTTATTCCTT
100475805 CTTCCTCTCA
Statistics
Matches: 111, Mismatches: 10, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
139 10 0.09
140 101 0.91
ACGTcount: A:0.18, C:0.20, G:0.10, T:0.53
Consensus pattern (139 bp):
TTCTTCTTCCTTCTTCCTCTCGTCACTTTGCCTTTTTCTTTTATGGGTTCTTTCAACATTTCTGA
ATTGCTTAGAAAAGAAATTTAAGAACATTTCTAGATTCATTTTTTTCTTATTCCTTTTTTTTTCG
ATAATTCAT
Found at i:100476823 original size:30 final size:30
Alignment explanation
Indices: 100476758--100476822 Score: 78
Period size: 30 Copynumber: 2.1 Consensus size: 30
100476748 TTTTAATAAG
* *
100476758 TTTTTATAATATTTATAATTTTTTTACCAT
1 TTTTTATAATATTTATAATTTTTTAAACAT
*
100476788 TTTTTATAGT-TTTATAAATTTTTCTAAACAT
1 TTTTTATAATATTTAT-AATTTTT-TAAACAT
100476819 TTTT
1 TTTT
100476823 AATGATTTTA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
29 5 0.17
30 16 0.53
31 9 0.30
ACGTcount: A:0.29, C:0.06, G:0.02, T:0.63
Consensus pattern (30 bp):
TTTTTATAATATTTATAATTTTTTAAACAT
Found at i:100483098 original size:19 final size:19
Alignment explanation
Indices: 100483071--100483110 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
100483061 ATAGGAGCAA
*
100483071 CACTTGATGAACAATCTTT
1 CACTCGATGAACAATCTTT
100483090 CACTCGATGAACAATCTTT
1 CACTCGATGAACAATCTTT
100483109 CA
1 CA
100483111 TCCAAAATCT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.10, T:0.33
Consensus pattern (19 bp):
CACTCGATGAACAATCTTT
Found at i:100494281 original size:5 final size:5
Alignment explanation
Indices: 100494260--100494312 Score: 61
Period size: 5 Copynumber: 10.0 Consensus size: 5
100494250 TTAAAAAATA
* *
100494260 TATAT TAAAT TATTAT TATAT TATAG TATAT TATATT ATATAT TATAT
1 TATAT TATAT TA-TAT TATAT TATAT TATAT TATA-T -TATAT TATAT
100494308 TATAT
1 TATAT
100494313 AAATAAGTAA
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
5 31 0.76
6 6 0.15
7 4 0.10
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.57
Consensus pattern (5 bp):
TATAT
Found at i:100494291 original size:10 final size:9
Alignment explanation
Indices: 100494257--100494313 Score: 59
Period size: 8 Copynumber: 6.6 Consensus size: 9
100494247 GTGTTAAAAA
100494257 ATATATATT
1 ATATATATT
*
100494266 AAAT-TATT
1 ATATATATT
100494274 AT-TATATT
1 ATATATATT
100494282 ATAGTATATT
1 ATA-TATATT
100494292 ATAT-TA-T
1 ATATATATT
100494299 ATATTATATT
1 ATA-TATATT
100494309 ATATA
1 ATATA
100494314 AATAAGTAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 12
0.74 0.04 0.22
Matches are distributed among these distances:
7 5 0.12
8 14 0.35
9 8 0.20
10 13 0.32
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (9 bp):
ATATATATT
Found at i:100494303 original size:12 final size:12
Alignment explanation
Indices: 100494258--100494313 Score: 69
Period size: 12 Copynumber: 4.5 Consensus size: 12
100494248 TGTTAAAAAA
*
100494258 TATATATTAAAT
1 TATATATTATAT
100494270 TAT-TATTATATT
1 TATATATTATA-T
100494282 ATAGTATATTATAT
1 -TA-TATATTATAT
100494296 TATATATTATAT
1 TATATATTATAT
100494308 TATATA
1 TATATA
100494314 AATAAGTAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
11 6 0.15
12 20 0.51
13 4 0.10
14 2 0.05
15 7 0.18
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (12 bp):
TATATATTATAT
Found at i:100495651 original size:18 final size:19
Alignment explanation
Indices: 100495628--100495666 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
100495618 ATATATAGAT
100495628 ATATATATTGAATA-TTGA
1 ATATATATTGAATATTTGA
*
100495646 ATATATATTGATTATTTGA
1 ATATATATTGAATATTTGA
100495665 AT
1 AT
100495667 TGAATTGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.49
Consensus pattern (19 bp):
ATATATATTGAATATTTGA
Found at i:100496016 original size:39 final size:39
Alignment explanation
Indices: 100495906--100496040 Score: 112
Period size: 39 Copynumber: 3.4 Consensus size: 39
100495896 GACCTCGAGT
* ** *
100495906 CGATGAGACACTGGGTGTCACTATATTTTTTCGGATAGATT
1 CGATGAGACACTGGGTGTCA-AATATTACTTCGGATAG-TC
** ** * *
100495947 CGATGAGGTACTGGGTACCAACT-TTACTTCGGATAGGC
1 CGATGAGACACTGGGTGTCAAATATTACTTCGGATAGTC
* *
100495985 CGATGAGACACTGGGTGTCAAATATTGCTTCGAACTA-TC
1 CGATGAGACACTGGGTGTCAAATATTACTTCGGA-TAGTC
*
100496024 CGATGAGGCACTGGGTG
1 CGATGAGACACTGGGTG
100496041 CCATATTGGT
Statistics
Matches: 73, Mismatches: 19, Indels: 6
0.74 0.19 0.06
Matches are distributed among these distances:
38 18 0.25
39 36 0.49
40 3 0.04
41 16 0.22
ACGTcount: A:0.24, C:0.19, G:0.28, T:0.29
Consensus pattern (39 bp):
CGATGAGACACTGGGTGTCAAATATTACTTCGGATAGTC
Found at i:100496184 original size:18 final size:19
Alignment explanation
Indices: 100496163--100496203 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
100496153 AATGAAATGA
100496163 GAAATTGA-AT-TGAGAATT
1 GAAATTGAGATATGAG-ATT
100496181 GAAATTGAGATATGAGATT
1 GAAATTGAGATATGAGATT
100496200 GAAA
1 GAAA
100496204 ACATGAACCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 9 0.43
20 4 0.19
ACGTcount: A:0.46, C:0.00, G:0.24, T:0.29
Consensus pattern (19 bp):
GAAATTGAGATATGAGATT
Found at i:100506002 original size:25 final size:25
Alignment explanation
Indices: 100505968--100506026 Score: 84
Period size: 25 Copynumber: 2.4 Consensus size: 25
100505958 TAAAATCAAT
100505968 TGAAA-GGTGCGTGATGGAAACAAC
1 TGAAACGGTGCGTGATGGAAACAAC
* * *
100505992 TGAAACGGTGCGTGGTGGGAACAAT
1 TGAAACGGTGCGTGATGGAAACAAC
100506017 TGAAACGGTG
1 TGAAACGGTG
100506027 AGTTTTGAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
24 5 0.16
25 26 0.84
ACGTcount: A:0.32, C:0.12, G:0.37, T:0.19
Consensus pattern (25 bp):
TGAAACGGTGCGTGATGGAAACAAC
Found at i:100507251 original size:7 final size:7
Alignment explanation
Indices: 100507239--100507360 Score: 52
Period size: 7 Copynumber: 17.1 Consensus size: 7
100507229 ACTAATTAAT
100507239 CTAAACC
1 CTAAACC
100507246 CTAAACC
1 CTAAACC
*
100507253 TCTTAACCC
1 -C-TAAACC
*
100507262 CT-ATCC
1 CTAAACC
**
100507268 CATAAATA
1 C-TAAACC
*
100507276 CTAAACT
1 CTAAACC
100507283 CTAAACC
1 CTAAACC
*
100507290 CTTAACC
1 CTAAACC
*
100507297 CCAAACC
1 CTAAACC
* *
100507304 CTTACATC
1 C-TAAACC
* *
100507312 TTAAACT
1 CTAAACC
100507319 CT-AACC
1 CTAAACC
100507325 CT-AACC
1 CTAAACC
100507331 CTTAAACC
1 C-TAAACC
*
100507339 CTAAATC
1 CTAAACC
* *
100507346 ATAATCC
1 CTAAACC
100507353 CTAAACC
1 CTAAACC
100507360 C
1 C
100507361 GTAATTCATC
Statistics
Matches: 82, Mismatches: 26, Indels: 14
0.67 0.21 0.11
Matches are distributed among these distances:
6 14 0.17
7 51 0.62
8 12 0.15
9 5 0.06
ACGTcount: A:0.38, C:0.39, G:0.00, T:0.24
Consensus pattern (7 bp):
CTAAACC
Found at i:100507317 original size:36 final size:36
Alignment explanation
Indices: 100507239--100507344 Score: 103
Period size: 36 Copynumber: 3.0 Consensus size: 36
100507229 ACTAATTAAT
* * * *
100507239 CTAAACCCTAAACCTCTTAACCCCTATCCCATAAATA
1 CTAAACTCTAAACC-CTTAACCCCAAACCCTTAAATA
*
100507276 CTAAACTCTAAACCCTTAACCCCAAACCCTTACAT-
1 CTAAACTCTAAACCCTTAACCCCAAACCCTTAAATA
*
100507311 CTTAAACTCT-AACCC-TAACCCTTAAACCC-TAAAT
1 C-TAAACTCTAAACCCTTAACCC-CAAACCCTTAAAT
100507345 CATAATCCCT
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
34 10 0.17
35 12 0.20
36 25 0.42
37 13 0.22
ACGTcount: A:0.38, C:0.38, G:0.00, T:0.25
Consensus pattern (36 bp):
CTAAACTCTAAACCCTTAACCCCAAACCCTTAAATA
Found at i:100507410 original size:7 final size:7
Alignment explanation
Indices: 100507398--100507495 Score: 61
Period size: 7 Copynumber: 13.4 Consensus size: 7
100507388 AGTTAACTCC
*
100507398 TAAACCT
1 TAAACCA
*
100507405 TAAACCC
1 TAAACCA
100507412 TAAACCA
1 TAAACCA
* * *
100507419 TATATCT
1 TAAACCA
100507426 TAAACCA
1 TAAACCA
100507433 TAGTTAACTCA
1 TA---AAC-CA
*
100507444 TAAACCT
1 TAAACCA
*
100507451 TAAACCC
1 TAAACCA
100507458 TAAACCA
1 TAAACCA
* * *
100507465 TATATCT
1 TAAACCA
100507472 TAAACCA
1 TAAACCA
100507479 TAAACCA
1 TAAACCA
*
100507486 TAAACTA
1 TAAACCA
100507493 TAA
1 TAA
100507496 TAATAATTAA
Statistics
Matches: 69, Mismatches: 18, Indels: 8
0.73 0.19 0.08
Matches are distributed among these distances:
7 59 0.86
8 3 0.04
10 3 0.04
11 4 0.06
ACGTcount: A:0.47, C:0.26, G:0.01, T:0.27
Consensus pattern (7 bp):
TAAACCA
Found at i:100507429 original size:21 final size:21
Alignment explanation
Indices: 100507403--100507487 Score: 98
Period size: 21 Copynumber: 3.9 Consensus size: 21
100507393 ACTCCTAAAC
*
100507403 CTTAAACCCTAAACCATATAT
1 CTTAAACCATAAACCATATAT
* *
100507424 CTTAAACCATAGTTAACTCATAAAC
1 CTTAAACCATA---AAC-CATATAT
*
100507449 CTTAAACCCTAAACCATATAT
1 CTTAAACCATAAACCATATAT
100507470 CTTAAACCATAAACCATA
1 CTTAAACCATAAACCATA
100507488 AACTATAATA
Statistics
Matches: 53, Mismatches: 7, Indels: 8
0.78 0.10 0.12
Matches are distributed among these distances:
21 32 0.60
22 3 0.06
24 3 0.06
25 15 0.28
ACGTcount: A:0.45, C:0.27, G:0.01, T:0.27
Consensus pattern (21 bp):
CTTAAACCATAAACCATATAT
Found at i:100507440 original size:46 final size:46
Alignment explanation
Indices: 100507387--100507480 Score: 179
Period size: 46 Copynumber: 2.0 Consensus size: 46
100507377 CTTCAAATAC
*
100507387 TAGTTAACTCCTAAACCTTAAACCCTAAACCATATATCTTAAACCA
1 TAGTTAACTCATAAACCTTAAACCCTAAACCATATATCTTAAACCA
100507433 TAGTTAACTCATAAACCTTAAACCCTAAACCATATATCTTAAACCA
1 TAGTTAACTCATAAACCTTAAACCCTAAACCATATATCTTAAACCA
100507479 TA
1 TA
100507481 AACCATAAAC
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.43, C:0.27, G:0.02, T:0.29
Consensus pattern (46 bp):
TAGTTAACTCATAAACCTTAAACCCTAAACCATATATCTTAAACCA
Found at i:100507700 original size:40 final size:41
Alignment explanation
Indices: 100507650--100507746 Score: 117
Period size: 41 Copynumber: 2.4 Consensus size: 41
100507640 GGGATATGAC
*
100507650 TTTTAGCGGCA-TTTTT-CCAAAAGCGCCGCTAATGCTCTAT
1 TTTTAGCGGCATTTTTTACCAAAA-CACCGCTAATGCTCTAT
* * *
100507690 TTTTCGCGGCATTTTTTACTAAAACACCGCTATTGCTCTAT
1 TTTTAGCGGCATTTTTTACCAAAACACCGCTAATGCTCTAT
* *
100507731 TTTTAGTGGCGTTTTT
1 TTTTAGCGGCATTTTT
100507747 GGTAAAACGC
Statistics
Matches: 48, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
40 10 0.21
41 33 0.69
42 5 0.10
ACGTcount: A:0.20, C:0.22, G:0.16, T:0.42
Consensus pattern (41 bp):
TTTTAGCGGCATTTTTTACCAAAACACCGCTAATGCTCTAT
Found at i:100507760 original size:40 final size:41
Alignment explanation
Indices: 100507650--100507766 Score: 132
Period size: 40 Copynumber: 2.9 Consensus size: 41
100507640 GGGATATGAC
* *
100507650 TTTTAGCGGCA-TTTTT-CCAAAAGCGCCGCTAATGCTCTAT
1 TTTTAGCGGCAGTTTTTACTAAAA-CGCCGCTATTGCTCTAT
* * *
100507690 TTTTCGCGGCATTTTTTACTAAAACACCGCTATTGCTCTAT
1 TTTTAGCGGCAGTTTTTACTAAAACGCCGCTATTGCTCTAT
* **
100507731 TTTTAGTGGC-GTTTTTGGTAAAACGCCGCTATTGCT
1 TTTTAGCGGCAGTTTTTACTAAAACGCCGCTATTGCT
100507767 ATGTGTTTTA
Statistics
Matches: 65, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
40 32 0.49
41 28 0.43
42 5 0.08
ACGTcount: A:0.21, C:0.22, G:0.18, T:0.39
Consensus pattern (41 bp):
TTTTAGCGGCAGTTTTTACTAAAACGCCGCTATTGCTCTAT
Found at i:100509800 original size:27 final size:27
Alignment explanation
Indices: 100509770--100509839 Score: 81
Period size: 26 Copynumber: 2.6 Consensus size: 27
100509760 GTCTCAATTA
** *
100509770 ACTACCTTGTGTTT-GATATCCTGATGG
1 ACTACCTTGTGTTTAG-TATCCAAATAG
*
100509797 ACTACC-CGTGTTTAGTATCCAAATAG
1 ACTACCTTGTGTTTAGTATCCAAATAG
100509823 ACTACCTTGTGTTTAGT
1 ACTACCTTGTGTTTAGT
100509840 GTCTCGGTGG
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
26 20 0.56
27 16 0.44
ACGTcount: A:0.23, C:0.20, G:0.19, T:0.39
Consensus pattern (27 bp):
ACTACCTTGTGTTTAGTATCCAAATAG
Found at i:100517040 original size:18 final size:17
Alignment explanation
Indices: 100517003--100517058 Score: 78
Period size: 16 Copynumber: 3.2 Consensus size: 17
100516993 ATCCAGGTTC
*
100517003 ATTTTTATTTTTTT-TC
1 ATTTTTATTTTTTTATA
100517019 ATTTTTATTTTTTTAGTA
1 ATTTTTATTTTTTTA-TA
100517037 ATTTTATATTTTTTTATA
1 ATTTT-TATTTTTTTATA
100517055 ATTT
1 ATTT
100517059 AAAAAAGAAC
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
16 14 0.39
18 12 0.33
19 10 0.28
ACGTcount: A:0.21, C:0.02, G:0.02, T:0.75
Consensus pattern (17 bp):
ATTTTTATTTTTTTATA
Found at i:100517348 original size:19 final size:19
Alignment explanation
Indices: 100517311--100517348 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
100517301 ATTTTTAAAA
*
100517311 AAAATAAATTTCATGTTAT
1 AAAATAAATTTAATGTTAT
100517330 AAAATAAATTCTAAT-TTAT
1 AAAATAAATT-TAATGTTAT
100517349 TACTTAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 14 0.82
20 3 0.18
ACGTcount: A:0.50, C:0.05, G:0.03, T:0.42
Consensus pattern (19 bp):
AAAATAAATTTAATGTTAT
Found at i:100517525 original size:18 final size:18
Alignment explanation
Indices: 100517504--100517546 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
100517494 ACTTAAGTAA
*
100517504 TAAAAATTAAATTTATTT
1 TAAAAATGAAATTTATTT
*
100517522 TAAATATGAAATTTATTT
1 TAAAAATGAAATTTATTT
100517540 TAAAAAT
1 TAAAAAT
100517547 ATTTCATATT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (18 bp):
TAAAAATGAAATTTATTT
Found at i:100519087 original size:86 final size:85
Alignment explanation
Indices: 100518938--100519197 Score: 395
Period size: 86 Copynumber: 3.1 Consensus size: 85
100518928 CCACTGCTGA
*
100518938 TTTGCAGTTA-TAGCCACTTGTTGTCG-GTGCACAACATATTTGCAGATTAAACAAACTGCCACT
1 TTTGCAGTTACT-GCCACTTGTTGT-GAGTGCACAACATATTTGCAGATTAAACAAACTACCACT
100519001 TGGTTCGTGATTGAACCACATTG
64 TGGTTCGTGATTGAACCACA-TG
* *
100519024 TTTTCAGTTACTGCCACTTTTTGTGAGTGCACAACATATTTGCAGATTAAACAAACTACCACTTG
1 TTTGCAGTTACTGCCACTTGTTGTGAGTGCACAACATATTTGCAGATTAAACAAACTACCACTTG
*
100519089 GTTCGTGA-T--ACCACATA
66 GTTCGTGATTGAACCACATG
*
100519106 TTTGCAGTTACTGCCACTTGTTGTGAGTGCACAACATATTTACAGATTAAACAAACTACCACTTG
1 TTTGCAGTTACTGCCACTTGTTGTGAGTGCACAACATATTTGCAGATTAAACAAACTACCACTTG
*
100519171 GTTTGTGATTGAACCACACTG
66 GTTCGTGATTGAACCACA-TG
100519192 TTTGCA
1 TTTGCA
100519198 AATTAAACTG
Statistics
Matches: 159, Mismatches: 9, Indels: 12
0.88 0.05 0.07
Matches are distributed among these distances:
82 70 0.44
83 7 0.04
85 8 0.05
86 73 0.46
87 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.17, T:0.33
Consensus pattern (85 bp):
TTTGCAGTTACTGCCACTTGTTGTGAGTGCACAACATATTTGCAGATTAAACAAACTACCACTTG
GTTCGTGATTGAACCACATG
Found at i:100520943 original size:21 final size:22
Alignment explanation
Indices: 100520904--100520969 Score: 64
Period size: 21 Copynumber: 3.0 Consensus size: 22
100520894 TTTCTTTTTA
*
100520904 AATTAATTAATATAATAATAC-AT
1 AATTAATT-AT-TTATAATACTAT
* *
100520927 GATTATATTATTT-TAATACTTT
1 AATTA-ATTATTTATAATACTAT
100520949 AATTAATTATTTATAATACTA
1 AATTAATTATTTATAATACTA
100520970 ATTTCGGTAT
Statistics
Matches: 35, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
21 13 0.37
22 13 0.37
23 6 0.17
24 3 0.09
ACGTcount: A:0.45, C:0.05, G:0.02, T:0.48
Consensus pattern (22 bp):
AATTAATTATTTATAATACTAT
Found at i:100521413 original size:21 final size:19
Alignment explanation
Indices: 100521388--100521470 Score: 66
Period size: 21 Copynumber: 4.4 Consensus size: 19
100521378 TTTTTAAAAA
100521388 TTTAAAATTATAATTATAATT
1 TTTAAAATTAT--TTATAATT
* * *
100521409 TTT-AAATCATTTTTTATT
1 TTTAAAATTATTTATAATT
*
100521427 TTTAAAATAATCTTCATAATT
1 TTTAAAATTAT-TT-ATAATT
100521448 TTTAAAATT-TTTA-AA-T
1 TTTAAAATTATTTATAATT
100521464 TTTAAAA
1 TTTAAAA
100521471 AATTAATTAA
Statistics
Matches: 52, Mismatches: 7, Indels: 11
0.74 0.10 0.16
Matches are distributed among these distances:
16 8 0.15
17 2 0.04
18 10 0.19
19 8 0.15
20 9 0.17
21 15 0.29
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.54
Consensus pattern (19 bp):
TTTAAAATTATTTATAATT
Found at i:100521434 original size:39 final size:37
Alignment explanation
Indices: 100521378--100521470 Score: 98
Period size: 39 Copynumber: 2.4 Consensus size: 37
100521368 ATTAATTAAT
* *
100521378 TTTTTAAAAATTTAAAATTATAATT-ATAATTTTTAAATCA
1 TTTTT-AAATTTTAAAATAAT-ATTCATAATTTTTAAA--A
* * *
100521418 TTTTTTATTTTTAAAATAATCTTCATAATTTTTAAAA
1 TTTTTAAATTTTAAAATAATATTCATAATTTTTAAAA
100521455 TTTTTAAATTTTAAAA
1 TTTTTAAATTTTAAAA
100521471 AATTAATTAA
Statistics
Matches: 45, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
37 15 0.33
38 2 0.04
39 23 0.51
40 5 0.11
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (37 bp):
TTTTTAAATTTTAAAATAATATTCATAATTTTTAAAA
Found at i:100525469 original size:47 final size:47
Alignment explanation
Indices: 100525399--100525601 Score: 277
Period size: 47 Copynumber: 4.3 Consensus size: 47
100525389 AGCTTAAGAT
100525399 CGAATGGCCAATGTGATGAATGTGAAAGTGTGTATATGTGATAAGGC
1 CGAATGGCCAATGTGATGAATGTGAAAGTGTGTATATGTGATAAGGC
* *
100525446 TGAATGACCAATGTGATGAATGTGAAAGTGTGTATATGTGATAAGGC
1 CGAATGGCCAATGTGATGAATGTGAAAGTGTGTATATGTGATAAGGC
* * *
100525493 CGAATGGCCAATGTGATGAATGTGAAAGTGCGTACATGAGATAAGGC
1 CGAATGGCCAATGTGATGAATGTGAAAGTGTGTATATGTGATAAGGC
** * *
100525540 CGAATGGTTAATGTGAT-ATATGTGTAA--GTGAATATGTGATAAGGC
1 CGAATGGCCAATGTGATGA-ATGTGAAAGTGTGTATATGTGATAAGGC
*
100525585 CGAATGACCAATTGTGA
1 CGAATGGCCAA-TGTGA
100525602 AAAGTGTGCA
Statistics
Matches: 137, Mismatches: 17, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
45 22 0.16
46 6 0.04
47 109 0.80
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.28
Consensus pattern (47 bp):
CGAATGGCCAATGTGATGAATGTGAAAGTGTGTATATGTGATAAGGC
Found at i:100525726 original size:39 final size:40
Alignment explanation
Indices: 100525672--100525756 Score: 118
Period size: 40 Copynumber: 2.1 Consensus size: 40
100525662 AAATGAATTG
* * * *
100525672 TGCTGAGATTGTATCCGGG-TTAGAGACCCGCTGGCTTTA
1 TGCTGGGATTGTATCCGGGTTTAAAGACCCGCAGGCTTAA
*
100525711 TGCTGGGATTGTATCCGGGTTTAAAGTCCCGCAGGCTTAA
1 TGCTGGGATTGTATCCGGGTTTAAAGACCCGCAGGCTTAA
100525751 TGCTGG
1 TGCTGG
100525757 TGAATTAAGT
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
39 18 0.45
40 22 0.55
ACGTcount: A:0.18, C:0.20, G:0.32, T:0.31
Consensus pattern (40 bp):
TGCTGGGATTGTATCCGGGTTTAAAGACCCGCAGGCTTAA
Found at i:100547494 original size:30 final size:30
Alignment explanation
Indices: 100547460--100547516 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
100547450 TCCTAGTGAC
*
100547460 TTAAAT-AAAGATTTTCGAATAGTTCAGGAT
1 TTAAATCAAA-ATTTTCAAATAGTTCAGGAT
100547490 TTAAATCAAAATTTTCAAATAGTTCAG
1 TTAAATCAAAATTTTCAAATAGTTCAG
100547517 AGATCATTTC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
30 22 0.88
31 3 0.12
ACGTcount: A:0.42, C:0.09, G:0.12, T:0.37
Consensus pattern (30 bp):
TTAAATCAAAATTTTCAAATAGTTCAGGAT
Found at i:100553723 original size:8 final size:7
Alignment explanation
Indices: 100553708--100553751 Score: 52
Period size: 8 Copynumber: 5.9 Consensus size: 7
100553698 ATTTTTTAAA
100553708 TATTTTT
1 TATTTTT
100553715 TACTTTTT
1 TA-TTTTT
100553723 TATTTTT
1 TATTTTT
*
100553730 CATATTTT
1 TAT-TTTT
100553738 TATTTATT
1 TATTT-TT
100553746 TATTTT
1 TATTTT
100553752 CACTTAGATA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
7 12 0.38
8 20 0.62
ACGTcount: A:0.18, C:0.05, G:0.00, T:0.77
Consensus pattern (7 bp):
TATTTTT
Found at i:100553726 original size:15 final size:14
Alignment explanation
Indices: 100553708--100553751 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 14
100553698 ATTTTTTAAA
100553708 TATTTTTTACTTTTT
1 TATTTTTTA-TTTTT
*
100553723 TATTTTTCATATTTT
1 TATTTTTTAT-TTTT
100553738 TATTTATTTATTTT
1 TATTT-TTTATTTT
100553752 CACTTAGATA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
14 1 0.04
15 20 0.80
16 4 0.16
ACGTcount: A:0.18, C:0.05, G:0.00, T:0.77
Consensus pattern (14 bp):
TATTTTTTATTTTT
Found at i:100565439 original size:131 final size:129
Alignment explanation
Indices: 100565253--100565666 Score: 571
Period size: 131 Copynumber: 3.2 Consensus size: 129
100565243 ACATTGAACA
* * * *
100565253 TTGCCTT-ATTTT-AGAATTTTGAAAACATGAGTGAAATTCTAAAGGAATATTCGATTATTTCGA
1 TTGCCTTCGTTTTAAGAATTTTTAAAACATGATTGAAATTCCAAAGGAATATTCGATTATTTCGA
* * * * * *
100565316 AGAAACGGGAAATTGCAACCCAGCACGATAGGGCACGATTCCCCGAATTGCCAAACGTTAAACA
66 AGAAACGGGAAATTGCAACCCAGCACGATTGGGCACGATTCCCCAAATTCCCAAACATCAAACG
* *
100565380 TTACCTTCGTTTTGAAGAATTTTTAAAGACATGATTGAAATTCCAAAGGAATATTCGATTACTTC
1 TTGCCTTCGTTTT-AAGAATTTTTAAA-ACATGATTGAAATTCCAAAGGAATATTCGATTATTTC
* * * * *
100565445 GAAGAAACGGGAAATTGCAACCCAGCATGATTGGGCACAATTCCCTAAATTTCCAAACCTCAAAC
64 GAAGAAACGGGAAATTGCAACCCAGCACGATTGGGCACGATTCCCCAAATTCCCAAACATCAAAC
100565510 G
129 G
* * * *
100565511 TTGCATTCGTTTTAAAAATTTTTAAAACATGGTTGAAATTCCAAAGGAATATTCGATTATTTTGA
1 TTGCCTTCGTTTTAAGAATTTTTAAAACATGATTGAAATTCCAAAGGAATATTCGATTATTTCGA
* * *
100565576 AGAAACGGGAAATTACAACCCAGCACGATTGGGCACGATTCCCCAAATTCCCCAACATCGAACG
66 AGAAACGGGAAATTGCAACCCAGCACGATTGGGCACGATTCCCCAAATTCCCAAACATCAAACG
100565640 TTGCCTTCGTTTTTAAGAATTTTTAAA
1 TTGCCTTCG-TTTTAAGAATTTTTAAA
100565667 TGAATAATTA
Statistics
Matches: 251, Mismatches: 31, Indels: 7
0.87 0.11 0.02
Matches are distributed among these distances:
127 6 0.02
128 4 0.02
129 100 0.40
130 39 0.16
131 102 0.41
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.29
Consensus pattern (129 bp):
TTGCCTTCGTTTTAAGAATTTTTAAAACATGATTGAAATTCCAAAGGAATATTCGATTATTTCGA
AGAAACGGGAAATTGCAACCCAGCACGATTGGGCACGATTCCCCAAATTCCCAAACATCAAACG
Found at i:100566342 original size:21 final size:22
Alignment explanation
Indices: 100566313--100566357 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 22
100566303 AATTATGTGT
*
100566313 AAAATATAAAAATA-AAAATAA
1 AAAAAATAAAAATATAAAATAA
*
100566334 AAAAAATAAAAATATATAATAA
1 AAAAAATAAAAATATAAAATAA
100566356 AA
1 AA
100566358 TATAATCTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 13 0.62
22 8 0.38
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (22 bp):
AAAAAATAAAAATATAAAATAA
Found at i:100572349 original size:20 final size:21
Alignment explanation
Indices: 100572311--100572350 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
100572301 CACACTTTTC
100572311 ATTTTATTTAATAAAAAAATG
1 ATTTTATTTAATAAAAAAATG
100572332 ATTTT-TTTAA-AAATAAAAT
1 ATTTTATTTAATAAA-AAAAT
100572351 AATTGATATA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 3 0.17
20 10 0.56
21 5 0.28
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.45
Consensus pattern (21 bp):
ATTTTATTTAATAAAAAAATG
Done.