Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D04
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 52479919
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.33
Warning! 336953 characters in sequence are not A, C, G, or T
File 104 of 173
Found at i:32192862 original size:32 final size:32
Alignment explanation
Indices: 32192812--32192996 Score: 226
Period size: 32 Copynumber: 5.8 Consensus size: 32
32192802 AGTACAGTAC
* * * *
32192812 TATGATTGGCACAAAGCCATCAGTAGCAGTGA
1 TATGATCGGCACAAAGCCATCAGTAACGGTAA
* *
32192844 TATGATCGACACACAGCCATCAGTAACGGTAA
1 TATGATCGGCACAAAGCCATCAGTAACGGTAA
* *
32192876 TATGATCGGCACCAAGCTATCAGTAACGGTAA
1 TATGATCGGCACAAAGCCATCAGTAACGGTAA
* * * *
32192908 TATAATCGGTACAAAGCTATTAGTAACGGTAA
1 TATGATCGGCACAAAGCCATCAGTAACGGTAA
* *
32192940 TATGATCGGCATAAAGCCACCAGTAACGGTAA
1 TATGATCGGCACAAAGCCATCAGTAACGGTAA
* *
32192972 TATGACCGACACAAAGCCATCAGTA
1 TATGATCGGCACAAAGCCATCAGTA
32192997 GCATCGCAGC
Statistics
Matches: 129, Mismatches: 24, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
32 129 1.00
ACGTcount: A:0.37, C:0.21, G:0.21, T:0.21
Consensus pattern (32 bp):
TATGATCGGCACAAAGCCATCAGTAACGGTAA
Found at i:32193028 original size:26 final size:26
Alignment explanation
Indices: 32192999--32193052 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 26
32192989 CATCAGTAGC
32192999 ATCGCAGCAAAGCAGCCAGCAACAGT
1 ATCGCAGCAAAGCAGCCAGCAACAGT
* * * *
32193025 ATCGCAGGAAAGCTGCCCGCAATAGT
1 ATCGCAGCAAAGCAGCCAGCAACAGT
32193051 AT
1 AT
32193053 ATGTGGCCAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.35, C:0.28, G:0.24, T:0.13
Consensus pattern (26 bp):
ATCGCAGCAAAGCAGCCAGCAACAGT
Found at i:32193199 original size:24 final size:24
Alignment explanation
Indices: 32193172--32193266 Score: 91
Period size: 24 Copynumber: 4.0 Consensus size: 24
32193162 GCTCAGAATC
*
32193172 AGTCATAAAAATCACAAACAAATT
1 AGTCATAAAAATCACAGACAAATT
** *
32193196 AGTCATACCAATCACTGACAAATT
1 AGTCATAAAAATCACAGACAAATT
* ** *
32193220 AGTTATTTAAATCACAGACAAATC
1 AGTCATAAAAATCACAGACAAATT
** *
32193244 AGTCATTTACATCACAGACAAAT
1 AGTCATAAAAATCACAGACAAAT
32193267 CAATCATTTA
Statistics
Matches: 59, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 59 1.00
ACGTcount: A:0.47, C:0.20, G:0.07, T:0.25
Consensus pattern (24 bp):
AGTCATAAAAATCACAGACAAATT
Found at i:32193267 original size:24 final size:24
Alignment explanation
Indices: 32193206--32193278 Score: 101
Period size: 24 Copynumber: 3.0 Consensus size: 24
32193196 AGTCATACCA
* * * *
32193206 ATCACTGACAAATTAGTTATTTAA
1 ATCACAGACAAATCAGTCATTTAC
32193230 ATCACAGACAAATCAGTCATTTAC
1 ATCACAGACAAATCAGTCATTTAC
*
32193254 ATCACAGACAAATCAATCATTTAC
1 ATCACAGACAAATCAGTCATTTAC
32193278 A
1 A
32193279 CTTGAGGGGT
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 44 1.00
ACGTcount: A:0.44, C:0.21, G:0.07, T:0.29
Consensus pattern (24 bp):
ATCACAGACAAATCAGTCATTTAC
Found at i:32193276 original size:48 final size:48
Alignment explanation
Indices: 32193180--32193276 Score: 108
Period size: 48 Copynumber: 2.0 Consensus size: 48
32193170 TCAGTCATAA
* * * * *
32193180 AAATCACAAACAAATTAGTCATACCAATCACTGACAAATTAGTTATTT
1 AAATCACAAACAAATCAGTCATACCAATCACAGACAAATCAATCATTT
*
32193228 AAATCACAGACAAATCAGTCATTTA-C-ATCACAGACAAATCAATCATTT
1 AAATCACAAACAAATCAGTCA--TACCAATCACAGACAAATCAATCATTT
32193276 A
1 A
32193277 CACTTGAGGG
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
48 38 0.93
49 1 0.02
50 2 0.05
ACGTcount: A:0.46, C:0.21, G:0.06, T:0.27
Consensus pattern (48 bp):
AAATCACAAACAAATCAGTCATACCAATCACAGACAAATCAATCATTT
Found at i:32193329 original size:27 final size:27
Alignment explanation
Indices: 32193299--32193492 Score: 107
Period size: 27 Copynumber: 7.2 Consensus size: 27
32193289 AAAATAGTCA
*
32193299 TTTACCCTCTAAGGGCATTACGATCAT
1 TTTACCCTCTAAGGGTATTACGATCAT
*
32193326 TTTA-CCT-TACAGGGGTATTTCGATCAT
1 TTTACCCTCTA-A-GGGTATTACGATCAT
* * *
32193353 TTAACCCTATGAA-GGTATTACGGTCAT
1 TTTACCCTCT-AAGGGTATTACGATCAT
* * *
32193380 TTTACCCTAC-AAGGGCATTA-TAGTTAT
1 TTTACCCT-CTAAGGGTATTACGA-TCAT
* *
32193407 TTTA-CCT-TACAGGGGCATTACGGTCAT
1 TTTACCCTCTA-A-GGGTATTACGATCAT
* * * * * *
32193434 TTTACCCTATGAGGGTTTTTCGGTTAT
1 TTTACCCTCTAAGGGTATTACGATCAT
32193461 TTTACCCTAC-AAGGGTATTACGATCAT
1 TTTACCCT-CTAAGGGTATTACGATCAT
*
32193488 GTTAC
1 TTTAC
32193493 AAATATTGGG
Statistics
Matches: 126, Mismatches: 26, Indels: 30
0.69 0.14 0.16
Matches are distributed among these distances:
25 3 0.02
26 10 0.08
27 102 0.81
28 7 0.06
29 3 0.02
30 1 0.01
ACGTcount: A:0.25, C:0.20, G:0.18, T:0.37
Consensus pattern (27 bp):
TTTACCCTCTAAGGGTATTACGATCAT
Found at i:32193387 original size:81 final size:81
Alignment explanation
Indices: 32193295--32193492 Score: 249
Period size: 81 Copynumber: 2.5 Consensus size: 81
32193285 GGGTAAAATA
* *
32193295 GTCA-TTTACCCT-CTAAGGGCATTACGATCATTTTACCTTACAGGGGTATTTCGATCATTTAAC
1 GTCATTTTACCCTAC-AAGGGCATTACGATCATTTTACCTTACAGGGGCATTACGATCATTTAAC
32193358 CCTATGAAGGTATTACG
65 CCTATGAAGGTATTACG
* * * *
32193375 GTCATTTTACCCTACAAGGGCATTA-TAGTTATTTTACCTTACAGGGGCATTACGGTCATTTTAC
1 GTCATTTTACCCTACAAGGGCATTACGA-TCATTTTACCTTACAGGGGCATTACGATCATTTAAC
* * *
32193439 CCTATGAGGGTTTTTCG
65 CCTATGAAGGTATTACG
* * *
32193456 GTTATTTTACCCTACAAGGGTATTACGATCATGTTAC
1 GTCATTTTACCCTACAAGGGCATTACGATCATTTTAC
32193493 AAATATTGGG
Statistics
Matches: 100, Mismatches: 14, Indels: 7
0.83 0.12 0.06
Matches are distributed among these distances:
80 5 0.05
81 93 0.93
82 2 0.02
ACGTcount: A:0.25, C:0.20, G:0.18, T:0.37
Consensus pattern (81 bp):
GTCATTTTACCCTACAAGGGCATTACGATCATTTTACCTTACAGGGGCATTACGATCATTTAACC
CTATGAAGGTATTACG
Found at i:32193460 original size:54 final size:54
Alignment explanation
Indices: 32193299--32193492 Score: 153
Period size: 54 Copynumber: 3.6 Consensus size: 54
32193289 AAAATAGTCA
* * * * * *
32193299 TTTACCCT-CTAAGGGCATTACGATCATTTTACCTTACAGGGGTATT-TCGATCAT
1 TTTACCCTAC-AAGGGCATTACGGTCATTTTACCCTACAAGGGCATTATAG-TTAT
* * *
32193353 TTAACCCTATGAA-GGTATTACGGTCATTTTACCCTACAAGGGCATTATAGTTAT
1 TTTACCCTA-CAAGGGCATTACGGTCATTTTACCCTACAAGGGCATTATAGTTAT
* * ** * * *
32193407 TTTACCTTACAGGGGCATTACGGTCATTTTACCCTATGAGGG-TTTTTCGGTTAT
1 TTTACCCTACAAGGGCATTACGGTCATTTTACCCTACAAGGGCATTAT-AGTTAT
* * *
32193461 TTTACCCTACAAGGGTATTACGATCATGTTAC
1 TTTACCCTACAAGGGCATTACGGTCATTTTAC
32193493 AAATATTGGG
Statistics
Matches: 111, Mismatches: 24, Indels: 10
0.77 0.17 0.07
Matches are distributed among these distances:
53 4 0.04
54 103 0.93
55 4 0.04
ACGTcount: A:0.25, C:0.20, G:0.18, T:0.37
Consensus pattern (54 bp):
TTTACCCTACAAGGGCATTACGGTCATTTTACCCTACAAGGGCATTATAGTTAT
Found at i:32194595 original size:41 final size:41
Alignment explanation
Indices: 32194536--32194622 Score: 129
Period size: 41 Copynumber: 2.1 Consensus size: 41
32194526 CCTAACAGAG
* * *
32194536 AAAGGAAAAATGGAATTGGAAAGGAAGTATAGATGAAAGCA
1 AAAGAAAAAATGGAATTGGAAAAGAAGTACAGATGAAAGCA
* *
32194577 AAAGAAAAAATGGAATTGGAAAATAAGTACAGATGAAAGTA
1 AAAGAAAAAATGGAATTGGAAAAGAAGTACAGATGAAAGCA
32194618 AAAGA
1 AAAGA
32194623 GAGGATCGAC
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.57, C:0.02, G:0.25, T:0.15
Consensus pattern (41 bp):
AAAGAAAAAATGGAATTGGAAAAGAAGTACAGATGAAAGCA
Found at i:32194912 original size:24 final size:25
Alignment explanation
Indices: 32194874--32194939 Score: 66
Period size: 24 Copynumber: 2.7 Consensus size: 25
32194864 AGCCTTCAAA
* *
32194874 CTCCTTGAAAATCTCCACC-C-CCC
1 CTCCTTGATATTCTCCACCTCACCC
*
32194897 TCTCCTTGATTTTCTCC-CCTCACCC
1 -CTCCTTGATATTCTCCACCTCACCC
*
32194922 CTCCTTGATATCCTCCAC
1 CTCCTTGATATTCTCCAC
32194940 AATCAAATCA
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
23 2 0.06
24 28 0.82
25 4 0.12
ACGTcount: A:0.15, C:0.48, G:0.05, T:0.32
Consensus pattern (25 bp):
CTCCTTGATATTCTCCACCTCACCC
Found at i:32196425 original size:24 final size:24
Alignment explanation
Indices: 32196398--32196448 Score: 86
Period size: 24 Copynumber: 2.1 Consensus size: 24
32196388 ACCATTCCAT
32196398 TTACTTACTTTCCACTT-CATTTAC
1 TTACTTACTTTCCA-TTCCATTTAC
32196422 TTACTTACTTTCCATTCCATTTAC
1 TTACTTACTTTCCATTCCATTTAC
32196446 TTA
1 TTA
32196449 GCATAAGGTT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
23 2 0.08
24 24 0.92
ACGTcount: A:0.22, C:0.27, G:0.00, T:0.51
Consensus pattern (24 bp):
TTACTTACTTTCCATTCCATTTAC
Found at i:32196445 original size:20 final size:20
Alignment explanation
Indices: 32196389--32196448 Score: 68
Period size: 24 Copynumber: 2.8 Consensus size: 20
32196379 AGACGATGAA
32196389 CCATTCCATTTACTTACTTT
1 CCATTCCATTTACTTACTTT
32196409 CCACTT-CATTTACTTACTTACTTT
1 CCA-TTCCA--T--TTACTTACTTT
32196433 CCATTCCATTTACTTA
1 CCATTCCATTTACTTA
32196449 GCATAAGGTT
Statistics
Matches: 34, Mismatches: 0, Indels: 12
0.74 0.00 0.26
Matches are distributed among these distances:
20 12 0.35
21 2 0.06
22 2 0.06
23 2 0.06
24 16 0.47
ACGTcount: A:0.22, C:0.30, G:0.00, T:0.48
Consensus pattern (20 bp):
CCATTCCATTTACTTACTTT
Found at i:32201494 original size:32 final size:33
Alignment explanation
Indices: 32201449--32201529 Score: 119
Period size: 32 Copynumber: 2.5 Consensus size: 33
32201439 TAAATGGTGA
* *
32201449 AGGGTGAGAGAGAGGCGGCATTGG-GTAAGTGG
1 AGGGTGAGAGAGAGGCGACATTGGTGGAAGTGG
* *
32201481 AGGGTGAGGGAGAGGCGACATTGGTGGCAGTGG
1 AGGGTGAGAGAGAGGCGACATTGGTGGAAGTGG
32201514 AGGGTGAGAGAGAGGC
1 AGGGTGAGAGAGAGGC
32201530 AACAACGGAT
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
32 22 0.51
33 21 0.49
ACGTcount: A:0.25, C:0.07, G:0.54, T:0.14
Consensus pattern (33 bp):
AGGGTGAGAGAGAGGCGACATTGGTGGAAGTGG
Found at i:32204660 original size:15 final size:15
Alignment explanation
Indices: 32204652--32204682 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
32204642 TTATTCTTTC
32204652 TTTTATTATTATTAT
1 TTTTATTATTATTAT
32204667 TTTTATTATTATTAT
1 TTTTATTATTATTAT
32204682 T
1 T
32204683 ATAATCTTCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (15 bp):
TTTTATTATTATTAT
Found at i:32204662 original size:3 final size:3
Alignment explanation
Indices: 32204654--32204684 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
32204644 ATTCTTTCTT
*
32204654 TTA TTA TTA TTA TTT TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
32204685 AATCTTCATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (3 bp):
TTA
Found at i:32215623 original size:82 final size:82
Alignment explanation
Indices: 32215484--32215644 Score: 241
Period size: 82 Copynumber: 2.0 Consensus size: 82
32215474 ATTACTTCTG
* * *
32215484 AATTGCACATACGTGCCCTTATTTGTACTTTGGTACCCCTAAATTGCACATAAATGCCTCTGTTT
1 AATTGCACATACGTGCCCCTATTTGTACTTTGGTACCCCTAAATTGCACATAAATGCCCCTATTT
* *
32215549 GTACTTCGGTACCCCTA
66 ATAATTCGGTACCCCTA
* * * *
32215566 AATTGCACATACGTGCCCCTGTTTGTACTTTGGTACCCTTGAATTGCACATATATGCCCCTATTT
1 AATTGCACATACGTGCCCCTATTTGTACTTTGGTACCCCTAAATTGCACATAAATGCCCCTATTT
32215631 ATAATTCGGTACCC
66 ATAATTCGGTACCC
32215645 TTGAATGTAT
Statistics
Matches: 70, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
82 70 1.00
ACGTcount: A:0.23, C:0.27, G:0.15, T:0.35
Consensus pattern (82 bp):
AATTGCACATACGTGCCCCTATTTGTACTTTGGTACCCCTAAATTGCACATAAATGCCCCTATTT
ATAATTCGGTACCCCTA
Found at i:32215645 original size:41 final size:41
Alignment explanation
Indices: 32215481--32215650 Score: 196
Period size: 41 Copynumber: 4.1 Consensus size: 41
32215471 AAGATTACTT
* * *
32215481 CTGAATTGCACATACGTGCCCTTATTTGTACTTTGGTACCC
1 CTGAATTGCACATACATGCCCCTATTTGTACTTCGGTACCC
* * * *
32215522 CTAAATTGCACATAAATGCCTCTGTTTGTACTTCGGTACCC
1 CTGAATTGCACATACATGCCCCTATTTGTACTTCGGTACCC
* * * *
32215563 CTAAATTGCACATACGTGCCCCTGTTTGTACTTTGGTACCC
1 CTGAATTGCACATACATGCCCCTATTTGTACTTCGGTACCC
* * * *
32215604 TTGAATTGCACATATATGCCCCTATTTATAATTCGGTACCC
1 CTGAATTGCACATACATGCCCCTATTTGTACTTCGGTACCC
*
32215645 TTGAAT
1 CTGAAT
32215651 GTATTTCTGT
Statistics
Matches: 110, Mismatches: 19, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
41 110 1.00
ACGTcount: A:0.23, C:0.26, G:0.15, T:0.36
Consensus pattern (41 bp):
CTGAATTGCACATACATGCCCCTATTTGTACTTCGGTACCC
Found at i:32230185 original size:2 final size:2
Alignment explanation
Indices: 32230178--32230203 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
32230168 AAGATCGTCT
32230178 CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA
32230204 AAAAAAAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:32230318 original size:23 final size:23
Alignment explanation
Indices: 32230273--32230318 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
32230263 ACAGCCGTAT
**
32230273 TTTAGTCTTAAACAGATTTTTAG
1 TTTAGTCTTAAACAGATAGTTAG
32230296 TTTAGTCTTAAACATGA-AGTTAG
1 TTTAGTCTTAAACA-GATAGTTAG
32230319 ATCTCCATCA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 18 0.90
24 2 0.10
ACGTcount: A:0.33, C:0.09, G:0.15, T:0.43
Consensus pattern (23 bp):
TTTAGTCTTAAACAGATAGTTAG
Found at i:32236040 original size:126 final size:126
Alignment explanation
Indices: 32235815--32236059 Score: 454
Period size: 126 Copynumber: 1.9 Consensus size: 126
32235805 TGAAATAAGA
*
32235815 TAATGTTGATTTGTTTGGGCATGCTATGTTTTGGTATAATTGTCGTGCCTTTGAATGGTATATTG
1 TAATGTTGATTTGTTTGGGCATGCTATGTTTTGGTATAATTGTCGTGCCTTTGAATGATATATTG
* *
32235880 GTTAGTTGAAATAGGGTCTTCAAATGACATTTTGATGTGTGTTTAGGTGATGTTCAGCTCC
66 GTTAGTTGAAATAGGGTCTTCAAATAACATTTTGATATGTGTTTAGGTGATGTTCAGCTCC
*
32235941 TAATGTTGATTTGTTTGGGCATGCTATGTTTTGGTATAATTGTTGTGCCTTTGAATGATATATTG
1 TAATGTTGATTTGTTTGGGCATGCTATGTTTTGGTATAATTGTCGTGCCTTTGAATGATATATTG
32236006 GTTAGTTGAAATAGGGTCTTCAAATAACATTTTGATATGTGTTTAGGTGATGTT
66 GTTAGTTGAAATAGGGTCTTCAAATAACATTTTGATATGTGTTTAGGTGATGTT
32236060 TAGGTCCCTT
Statistics
Matches: 115, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
126 115 1.00
ACGTcount: A:0.22, C:0.08, G:0.25, T:0.45
Consensus pattern (126 bp):
TAATGTTGATTTGTTTGGGCATGCTATGTTTTGGTATAATTGTCGTGCCTTTGAATGATATATTG
GTTAGTTGAAATAGGGTCTTCAAATAACATTTTGATATGTGTTTAGGTGATGTTCAGCTCC
Found at i:32243263 original size:40 final size:40
Alignment explanation
Indices: 32243195--32243486 Score: 327
Period size: 40 Copynumber: 7.3 Consensus size: 40
32243185 AATTATTATA
* * *
32243195 TAAA-GCACATACGTGCCCCTAG-TCGTACTTCGATACCCC
1 TAAATGCACATACATGCCCCT-GTTTGTACTTCGGTACCCC
* * * **
32243234 TAAATGTATACACATGCCTTTGTTTGTACTTCGGTACCCC
1 TAAATGCACATACATGCCCCTGTTTGTACTTCGGTACCCC
* * *
32243274 TGAACGCACATACATGCCCCTATTTGTACTTCGGTACCCC
1 TAAATGCACATACATGCCCCTGTTTGTACTTCGGTACCCC
* * *
32243314 TGAATGCACATACATGCCCCTGTTTGTGCTTCGGTACCCT
1 TAAATGCACATACATGCCCCTGTTTGTACTTCGGTACCCC
**
32243354 TAAATGCACATAGGTGCCCCTGTTTGTACTTCGGTACCCC
1 TAAATGCACATACATGCCCCTGTTTGTACTTCGGTACCCC
** * *
32243394 CGAATGCACATACTTGCCCCTGTTTATACTTCGGTACCCC
1 TAAATGCACATACATGCCCCTGTTTGTACTTCGGTACCCC
* * * **
32243434 TGAATGCACATACATGCCCCTATTTATACTTTAGTACCCC
1 TAAATGCACATACATGCCCCTGTTTGTACTTCGGTACCCC
*
32243474 TGAATGCACATAC
1 TAAATGCACATAC
32243487 GTGCTCTATT
Statistics
Matches: 216, Mismatches: 35, Indels: 3
0.85 0.14 0.01
Matches are distributed among these distances:
39 5 0.02
40 211 0.98
ACGTcount: A:0.23, C:0.31, G:0.16, T:0.30
Consensus pattern (40 bp):
TAAATGCACATACATGCCCCTGTTTGTACTTCGGTACCCC
Found at i:32243338 original size:80 final size:80
Alignment explanation
Indices: 32243199--32243517 Score: 370
Period size: 80 Copynumber: 4.0 Consensus size: 80
32243189 ATTATATAAA
* * * * * * * * **
32243199 GCACATACGTGCCCCTAGTCGTACTTCGATACCCCTAAATGTATACACATGCCTTTGTTTGTACT
1 GCACATACATGCCCCTATTTGTACTTCGGTACCCCTGAATGCACATACATGCCCCTGTTTGTACT
*
32243264 TCGGTACCCCTGAAC
66 TCGGTACCCCTGAAT
*
32243279 GCACATACATGCCCCTATTTGTACTTCGGTACCCCTGAATGCACATACATGCCCCTGTTTGTGCT
1 GCACATACATGCCCCTATTTGTACTTCGGTACCCCTGAATGCACATACATGCCCCTGTTTGTACT
* *
32243344 TCGGTACCCTTAAAT
66 TCGGTACCCCTGAAT
** * * * *
32243359 GCACATAGGTGCCCCTGTTTGTACTTCGGTACCCCCGAATGCACATACTTGCCCCTGTTTATACT
1 GCACATACATGCCCCTATTTGTACTTCGGTACCCCTGAATGCACATACATGCCCCTGTTTGTACT
32243424 TCGGTACCCCTGAAT
66 TCGGTACCCCTGAAT
* ** * * * *
32243439 GCACATACATGCCCCTATTTATACTTTAGTACCCCTGAATGCACATACGTG-CTCTATTTATACT
1 GCACATACATGCCCCTATTTGTACTTCGGTACCCCTGAATGCACATACATGCCCCTGTTTGTACT
* *
32243503 TTGGTAGCCCTGAAT
66 TCGGTACCCCTGAAT
32243518 CAAATAGTAT
Statistics
Matches: 204, Mismatches: 35, Indels: 1
0.85 0.15 0.00
Matches are distributed among these distances:
79 24 0.12
80 180 0.88
ACGTcount: A:0.22, C:0.30, G:0.16, T:0.31
Consensus pattern (80 bp):
GCACATACATGCCCCTATTTGTACTTCGGTACCCCTGAATGCACATACATGCCCCTGTTTGTACT
TCGGTACCCCTGAAT
Found at i:32243412 original size:120 final size:120
Alignment explanation
Indices: 32243199--32243490 Score: 361
Period size: 120 Copynumber: 2.4 Consensus size: 120
32243189 ATTATATAAA
* * ** * * * * **
32243199 GCACATACGTGCCCCTAGTCGTACTTC-GATACCCCTAAATGTATACACATGCCTTTGTTTGTAC
1 GCACATACATGCCCCTATTTATACTTCAG-TACCCCTAAATGCACATACGTGCCCCTGTTTGTAC
* *
32243263 TTCGGTACCCCTGAACGCACATACATGCCCCTATTTGTACTTCGGTACCCCTGAAT
65 TTCGGTACCCCCGAACGCACATACATGCCCCTATTTATACTTCGGTACCCCTGAAT
* * * * * *
32243319 GCACATACATGCCCCTGTTTGTGCTTCGGTACCCTTAAATGCACATAGGTGCCCCTGTTTGTACT
1 GCACATACATGCCCCTATTTATACTTCAGTACCCCTAAATGCACATACGTGCCCCTGTTTGTACT
* * *
32243384 TCGGTACCCCCGAATGCACATACTTGCCCCTGTTTATACTTCGGTACCCCTGAAT
66 TCGGTACCCCCGAACGCACATACATGCCCCTATTTATACTTCGGTACCCCTGAAT
* *
32243439 GCACATACATGCCCCTATTTATACTTTAGTACCCCTGAATGCACATACGTGC
1 GCACATACATGCCCCTATTTATACTTCAGTACCCCTAAATGCACATACGTGC
32243491 TCTATTTATA
Statistics
Matches: 145, Mismatches: 26, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
120 144 0.99
121 1 0.01
ACGTcount: A:0.22, C:0.32, G:0.16, T:0.30
Consensus pattern (120 bp):
GCACATACATGCCCCTATTTATACTTCAGTACCCCTAAATGCACATACGTGCCCCTGTTTGTACT
TCGGTACCCCCGAACGCACATACATGCCCCTATTTATACTTCGGTACCCCTGAAT
Found at i:32246458 original size:30 final size:30
Alignment explanation
Indices: 32246382--32246462 Score: 126
Period size: 30 Copynumber: 2.7 Consensus size: 30
32246372 GGGTCACACA
* *
32246382 GCCGTGTGCCTCACACAACAATGTGGCCAG
1 GCCGTGTGCCTCACACGACTATGTGGCCAG
*
32246412 GCCGTGTGCCTCACACGACTGTGTGGCCAG
1 GCCGTGTGCCTCACACGACTATGTGGCCAG
*
32246442 GCTGTGTGCCTCACACGACTA
1 GCCGTGTGCCTCACACGACTA
32246463 AGAAACACGC
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 46 1.00
ACGTcount: A:0.19, C:0.33, G:0.28, T:0.20
Consensus pattern (30 bp):
GCCGTGTGCCTCACACGACTATGTGGCCAG
Found at i:32248504 original size:9 final size:9
Alignment explanation
Indices: 32248490--32248520 Score: 62
Period size: 9 Copynumber: 3.4 Consensus size: 9
32248480 TTACTGTCAT
32248490 GAAATAAGA
1 GAAATAAGA
32248499 GAAATAAGA
1 GAAATAAGA
32248508 GAAATAAGA
1 GAAATAAGA
32248517 GAAA
1 GAAA
32248521 ATGATGCGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.23, T:0.10
Consensus pattern (9 bp):
GAAATAAGA
Found at i:32250518 original size:26 final size:26
Alignment explanation
Indices: 32250489--32250550 Score: 88
Period size: 26 Copynumber: 2.4 Consensus size: 26
32250479 CCTGTAAGTG
32250489 TTCTGAAACTGATACATGCTATAATA
1 TTCTGAAACTGATACATGCTATAATA
* * **
32250515 TTCTGAAACTGATATATGTTATGGTA
1 TTCTGAAACTGATACATGCTATAATA
32250541 TTCTGAAACT
1 TTCTGAAACT
32250551 ACTGTAGGTA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.34, C:0.13, G:0.15, T:0.39
Consensus pattern (26 bp):
TTCTGAAACTGATACATGCTATAATA
Found at i:32250699 original size:6 final size:6
Alignment explanation
Indices: 32250688--32250718 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
32250678 GTAAATACTA
32250688 AAACTG AAACTG AAACTG AAACTG AAACTG A
1 AAACTG AAACTG AAACTG AAACTG AAACTG A
32250719 TGCATAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.52, C:0.16, G:0.16, T:0.16
Consensus pattern (6 bp):
AAACTG
Found at i:32262454 original size:24 final size:24
Alignment explanation
Indices: 32262415--32262471 Score: 62
Period size: 24 Copynumber: 2.3 Consensus size: 24
32262405 GGATAGAAGC
32262415 AAAAAAGAAAAAAGAAAAAT-TACAG
1 AAAAAAG-AAAAAGAAAAATGT-CAG
* *
32262440 AAAAAAGAAAGAGAAGAATGTCAG
1 AAAAAAGAAAAAGAAAAATGTCAG
*
32262464 AAAGAAGA
1 AAAAAAGA
32262472 GGGATTTTTG
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
24 20 0.71
25 8 0.29
ACGTcount: A:0.70, C:0.04, G:0.19, T:0.07
Consensus pattern (24 bp):
AAAAAAGAAAAAGAAAAATGTCAG
Found at i:32275278 original size:171 final size:171
Alignment explanation
Indices: 32274987--32275315 Score: 523
Period size: 171 Copynumber: 1.9 Consensus size: 171
32274977 GCAACAAGAG
* * * * *
32274987 AGCTTTAGACTGTACTAACTAAGGCTCATGTTTTGGTACAGCCTGAACCTGGAAAAGAGTTTATG
1 AGCTTAAGACTGTACTAACTAAGGCTCATGTTTTGGTACAACCTGAACCTGAAAAAGAGTTCACG
* *
32275052 GTTTAAAATGATGCATCACATGTCGGTTTTGGATGTGTGTTGATGCAGGATGGAAAGGTGGTTGC
66 GTTTAAAATGATGCATCACATGTCGGTTTGGGATATGTGTTGATGCAGGATGGAAAGGTGGTTGC
* *
32275117 ATATGTGTCTTGCTAGCTTAAGACACACGAGGGCTTTGAGA
131 ATATGTGTCTCGCCAGCTTAAGACACACGAGGGCTTTGAGA
* * * *
32275158 AGCTTAAGACTGTACTGACTGAGGCTCATGTTTTGGTATAACCTGAACTTGAAAAAGAGTTCACG
1 AGCTTAAGACTGTACTAACTAAGGCTCATGTTTTGGTACAACCTGAACCTGAAAAAGAGTTCACG
* *
32275223 GTTTACAATGATGCATCACATGTCGGTTTGGGATATGTTTTGATGCAGGATGGAAAGGTGGTTGC
66 GTTTAAAATGATGCATCACATGTCGGTTTGGGATATGTGTTGATGCAGGATGGAAAGGTGGTTGC
32275288 ATATGTGTCTCGCCAGCTTAAGACACAC
131 ATATGTGTCTCGCCAGCTTAAGACACAC
32275316 AAGGTGAACT
Statistics
Matches: 143, Mismatches: 15, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
171 143 1.00
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.31
Consensus pattern (171 bp):
AGCTTAAGACTGTACTAACTAAGGCTCATGTTTTGGTACAACCTGAACCTGAAAAAGAGTTCACG
GTTTAAAATGATGCATCACATGTCGGTTTGGGATATGTGTTGATGCAGGATGGAAAGGTGGTTGC
ATATGTGTCTCGCCAGCTTAAGACACACGAGGGCTTTGAGA
Found at i:32277381 original size:24 final size:26
Alignment explanation
Indices: 32277325--32277381 Score: 64
Period size: 27 Copynumber: 2.2 Consensus size: 26
32277315 AGAATGGGCC
*
32277325 TTGAGTGTTACTATGCTGATGGTTAGG
1 TTGAGTGTTAATATGCTGATGGTTA-G
* *
32277352 TGGAGTGTTAATATGCTGGTGG-TA-
1 TTGAGTGTTAATATGCTGATGGTTAG
32277376 TTGAGT
1 TTGAGT
32277382 TCGAATCATT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
24 5 0.19
26 2 0.08
27 19 0.73
ACGTcount: A:0.19, C:0.05, G:0.35, T:0.40
Consensus pattern (26 bp):
TTGAGTGTTAATATGCTGATGGTTAG
Found at i:32287678 original size:43 final size:43
Alignment explanation
Indices: 32287572--32287680 Score: 109
Period size: 43 Copynumber: 2.5 Consensus size: 43
32287562 TTATACAACA
* *
32287572 CCAACGTCCCAGATGTGGTCTTACATGTAATCACAAATCGATG
1 CCAACGTCCCAGATGTGGTCTTACACGTAATCACAAATCGAAG
** *
32287615 CCATTGT-CCAGAACAG-GGTCTTACACGT-AT-ACGAAATTCGAAG
1 CCAACGTCCCAG-A-TGTGGTCTTACACGTAATCAC-AAA-TCGAAG
32287658 CCAACGTCCCAGATGTGGTCTTA
1 CCAACGTCCCAGATGTGGTCTTA
32287681 TACGAAAACA
Statistics
Matches: 52, Mismatches: 8, Indels: 12
0.72 0.11 0.17
Matches are distributed among these distances:
41 2 0.04
42 10 0.19
43 35 0.67
44 5 0.10
ACGTcount: A:0.29, C:0.26, G:0.20, T:0.25
Consensus pattern (43 bp):
CCAACGTCCCAGATGTGGTCTTACACGTAATCACAAATCGAAG
Found at i:32287782 original size:22 final size:22
Alignment explanation
Indices: 32287754--32287798 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
32287744 GTACACTACA
32287754 CCAAAACGGGCTTTTAGTGGTG
1 CCAAAACGGGCTTTTAGTGGTG
32287776 CCAAAACGGGCTTTTAGTGGTG
1 CCAAAACGGGCTTTTAGTGGTG
32287798 C
1 C
32287799 TTTTTTAGGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.22, C:0.20, G:0.31, T:0.27
Consensus pattern (22 bp):
CCAAAACGGGCTTTTAGTGGTG
Found at i:32287960 original size:43 final size:43
Alignment explanation
Indices: 32287911--32288277 Score: 416
Period size: 43 Copynumber: 8.6 Consensus size: 43
32287901 TTCTAAAAAT
* * *
32287911 GCCGCTAAAGATCAAGACCTTTAGTGGCGCTTTTCCCATAAAC
1 GCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCACAAAC
* *
32287954 ACCGCTAAAGACCAAGACCTTTAACGGCGCTTTTCCCACAAAC
1 GCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCACAAAC
* *
32287997 GCCGCTAAAGACCAAGACCTTTAGCGGCACTTTTCCCACAAAT
1 GCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCACAAAC
* * * * * *
32288040 GCCGCTAAAAACCAAAACCTTTAGCGACGCTTATACCGCAAAC
1 GCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCACAAAC
* * * *
32288083 GCCGCTAAAGACCAAGACTTTTAGCGACGCTTATCCCACAAAT
1 GCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCACAAAC
* * * *
32288126 GCCGCTAAAGACCACGACCTTTAACGGCGCTTTTACCAAAAAC
1 GCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCACAAAC
* * **
32288169 GCTGCTAAAGACCAAGACCTTTAGCTGCG-TTTTATCACAAAC
1 GCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCACAAAC
* * * **
32288211 GCCACTATAGACCATGACCTTTAGCGGCGCTTTT-ATAGCAAAC
1 GCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCA-CAAAC
* *
32288254 GCTGCTAAAGAACAA-ACCTTTAGC
1 GCCGCTAAAGACCAAGACCTTTAGC
32288278 AACGGTTCTA
Statistics
Matches: 273, Mismatches: 49, Indels: 5
0.83 0.15 0.02
Matches are distributed among these distances:
42 45 0.16
43 228 0.84
ACGTcount: A:0.32, C:0.30, G:0.16, T:0.22
Consensus pattern (43 bp):
GCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCACAAAC
Found at i:32289083 original size:23 final size:23
Alignment explanation
Indices: 32289033--32289084 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 23
32289023 GTTAGGTGTC
* *
32289033 AGTATAAAGACATGTCAGATATG
1 AGTATGAAGACATGTCAGAGATG
* * *
32289056 GGTATGAAGGCATGTCTGAGATG
1 AGTATGAAGACATGTCAGAGATG
32289079 AGTATG
1 AGTATG
32289085 TTCAATTTTT
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.35, C:0.08, G:0.31, T:0.27
Consensus pattern (23 bp):
AGTATGAAGACATGTCAGAGATG
Found at i:32292697 original size:10 final size:10
Alignment explanation
Indices: 32292651--32292709 Score: 57
Period size: 10 Copynumber: 5.7 Consensus size: 10
32292641 AAAATAAAAG
32292651 TTAAAATCTTT
1 TTAAAATC-TT
*
32292662 TTTAAAT-TT
1 TTAAAATCTT
**
32292671 TTAAAAAATT
1 TTAAAATCTT
32292681 TTAAAATCTT
1 TTAAAATCTT
32292691 TTAAAATTCATT
1 TTAAAA-TC-TT
32292703 TTAAAAT
1 TTAAAAT
32292710 TTTAAATCAC
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
9 7 0.17
10 16 0.40
11 9 0.22
12 8 0.20
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.51
Consensus pattern (10 bp):
TTAAAATCTT
Found at i:32292706 original size:12 final size:12
Alignment explanation
Indices: 32292678--32292710 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
32292668 TTTTTAAAAA
32292678 ATTTTAAAA-TC
1 ATTTTAAAATTC
32292689 -TTTTAAAATTC
1 ATTTTAAAATTC
32292700 ATTTTAAAATT
1 ATTTTAAAATT
32292711 TTAAATCACG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 8 0.40
11 2 0.10
12 10 0.50
ACGTcount: A:0.42, C:0.06, G:0.00, T:0.52
Consensus pattern (12 bp):
ATTTTAAAATTC
Found at i:32293497 original size:21 final size:20
Alignment explanation
Indices: 32293447--32293498 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
32293437 CTAACTCGAC
32293447 CCCAAATCTCTAAACCTTAAA
1 CCCAAA-CTCTAAACCTTAAA
* *
32293468 CCTCTAACTCTAAACCTCTAAT
1 CC-CAAACTCTAAACCT-TAAA
32293490 CCCAAACTC
1 CCCAAACTC
32293499 ATAACCCTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
21 18 0.69
22 8 0.31
ACGTcount: A:0.37, C:0.38, G:0.00, T:0.25
Consensus pattern (20 bp):
CCCAAACTCTAAACCTTAAA
Found at i:32294362 original size:41 final size:41
Alignment explanation
Indices: 32294317--32294579 Score: 400
Period size: 41 Copynumber: 6.4 Consensus size: 41
32294307 TGCTTTCCCA
*
32294317 AAAAACGCCGCTAAAGGTCTACGCATTAGCGGCGCTTCTTG
1 AAAAACGCCGCTAAAGGTCTGCGCATTAGCGGCGCTTCTTG
* * * ** *
32294358 AAAAAACGCAGCTAAAGGTCTGCCCATTAGCCGCTTTTCTTT
1 -AAAAACGCCGCTAAAGGTCTGCGCATTAGCGGCGCTTCTTG
* *
32294400 AAAAACGCCGCTAAAGGTCTGCGCATTAGCGGCGCTTATTT
1 AAAAACGCCGCTAAAGGTCTGCGCATTAGCGGCGCTTCTTG
*
32294441 AAAAACGCCGCTAAAGGTCTGCACATTAGCGGCGCTTCTTG
1 AAAAACGCCGCTAAAGGTCTGCGCATTAGCGGCGCTTCTTG
* *
32294482 AAAAACGCCGCTAAAGGTCTGCGCATTAGCAGTGCTTCTTG
1 AAAAACGCCGCTAAAGGTCTGCGCATTAGCGGCGCTTCTTG
*
32294523 AAAAATGCCGCTAAAGGTCTGCGCATTAGCGGCGCTTCTTG
1 AAAAACGCCGCTAAAGGTCTGCGCATTAGCGGCGCTTCTTG
32294564 AAAAACGCCGCTAAAG
1 AAAAACGCCGCTAAAG
32294580 ACCCACAAGG
Statistics
Matches: 198, Mismatches: 23, Indels: 1
0.89 0.10 0.00
Matches are distributed among these distances:
41 164 0.83
42 34 0.17
ACGTcount: A:0.28, C:0.25, G:0.23, T:0.23
Consensus pattern (41 bp):
AAAAACGCCGCTAAAGGTCTGCGCATTAGCGGCGCTTCTTG
Found at i:32295820 original size:21 final size:21
Alignment explanation
Indices: 32295794--32295833 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
32295784 AATTAGACAC
*
32295794 TTTCATATTTA-ACCATTAATT
1 TTTCAT-TTTACACAATTAATT
32295815 TTTCATTTTACACAATTAA
1 TTTCATTTTACACAATTAA
32295834 GCCATTTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.35, C:0.15, G:0.00, T:0.50
Consensus pattern (21 bp):
TTTCATTTTACACAATTAATT
Found at i:32295841 original size:18 final size:18
Alignment explanation
Indices: 32295818--32295853 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
32295808 ATTAATTTTT
32295818 CATTTTA-CACAATTAAGC
1 CATTTTATCA-AATTAAGC
32295836 CATTTTATCAAATTAAGC
1 CATTTTATCAAATTAAGC
32295854 ACCCAAACAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 15 0.88
19 2 0.12
ACGTcount: A:0.39, C:0.19, G:0.06, T:0.36
Consensus pattern (18 bp):
CATTTTATCAAATTAAGC
Found at i:32302154 original size:20 final size:22
Alignment explanation
Indices: 32302124--32302164 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 22
32302114 AATAATTCAA
32302124 TAAATTTAAAAATTA-GATAAT
1 TAAATTTAAAAATTAGGATAAT
*
32302145 TAAA-TTAAAATTTAGGATAA
1 TAAATTTAAAAATTAGGATAA
32302165 AAATTGGTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.56, C:0.00, G:0.07, T:0.37
Consensus pattern (22 bp):
TAAATTTAAAAATTAGGATAAT
Found at i:32302842 original size:30 final size:30
Alignment explanation
Indices: 32302808--32302869 Score: 90
Period size: 30 Copynumber: 2.1 Consensus size: 30
32302798 GCTTTTTGAA
*
32302808 AATATTTACAAAAAGAGGCATCT-AATTTTT
1 AATATTTACAAAAAGA-GCAACTAAATTTTT
*
32302838 AATATTTAGAAAAAGAGCAACTAAATTTTT
1 AATATTTACAAAAAGAGCAACTAAATTTTT
32302868 AA
1 AA
32302870 AAATAATTCA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 5 0.17
30 24 0.83
ACGTcount: A:0.48, C:0.08, G:0.10, T:0.34
Consensus pattern (30 bp):
AATATTTACAAAAAGAGCAACTAAATTTTT
Found at i:32313554 original size:38 final size:38
Alignment explanation
Indices: 32313512--32313601 Score: 135
Period size: 38 Copynumber: 2.4 Consensus size: 38
32313502 GCTGGGCAAG
* *
32313512 AAGCCCGAATAACACTAGTATTAAGCCTACTAGGCACA
1 AAGCCCGAATAACACTAGCACTAAGCCTACTAGGCACA
* *
32313550 AAGCCTGAATAACACTAGCACTAAGCCTGCTAGGCACA
1 AAGCCCGAATAACACTAGCACTAAGCCTACTAGGCACA
*
32313588 AAGCCCAAATAACA
1 AAGCCCGAATAACA
32313602 ATATAATTCA
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
38 46 1.00
ACGTcount: A:0.41, C:0.28, G:0.16, T:0.16
Consensus pattern (38 bp):
AAGCCCGAATAACACTAGCACTAAGCCTACTAGGCACA
Found at i:32316751 original size:11 final size:11
Alignment explanation
Indices: 32316735--32316759 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
32316725 TGCATTGGAA
32316735 TTTTTATTTAT
1 TTTTTATTTAT
32316746 TTTTTATTTAT
1 TTTTTATTTAT
32316757 TTT
1 TTT
32316760 ATTTAGTTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (11 bp):
TTTTTATTTAT
Found at i:32327402 original size:40 final size:40
Alignment explanation
Indices: 32327358--32327522 Score: 170
Period size: 40 Copynumber: 4.1 Consensus size: 40
32327348 AGTTTGGATA
** *
32327358 AAAAAAGCCGCTATAGATCGAGCACGAGCGGCTCTTTTTG
1 AAAAAAGCCGCTATAGATCGAGCATTAGCGGCGCTTTTTG
** *
32327398 AAAAATA-TTGCTATAGATCGAGCATTAACGGCGCTTTTTG
1 AAAAA-AGCCGCTATAGATCGAGCATTAGCGGCGCTTTTTG
* * * * *
32327438 AGAAACGCCACTATTGATCGAGCATTAGCGGCGCTTCTTG
1 AAAAAAGCCGCTATAGATCGAGCATTAGCGGCGCTTTTTG
* ** * *
32327478 AGAAACTCCGCTATTGATCGAGCATTAGCTGCGCTTTTTG
1 AAAAAAGCCGCTATAGATCGAGCATTAGCGGCGCTTTTTG
32327518 AAAAA
1 AAAAA
32327523 CAGCAAAAAA
Statistics
Matches: 104, Mismatches: 19, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
40 103 0.99
41 1 0.01
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.27
Consensus pattern (40 bp):
AAAAAAGCCGCTATAGATCGAGCATTAGCGGCGCTTTTTG
Found at i:32338780 original size:7 final size:7
Alignment explanation
Indices: 32338684--32338957 Score: 53
Period size: 7 Copynumber: 38.6 Consensus size: 7
32338674 ATTAATTATC
*
32338684 TTTATAG
1 TTTATGG
*
32338691 TTTAGGG
1 TTTATGG
*
32338698 TATATGG
1 TTTATGG
*
32338705 TTTAGGG
1 TTTATGG
*
32338712 TTTAAGG
1 TTTATGG
*
32338719 TTTAAGAG
1 TTTATG-G
32338727 TTACTAT--
1 TT--TATGG
*
32338734 TTTAAGG
1 TTTATGG
32338741 TTTATGG
1 TTTATGG
*
32338748 ATTATGGG
1 TTTAT-GG
32338756 TTTA-GAG
1 TTTATG-G
* *
32338763 ATTATGA
1 TTTATGG
32338770 TTTATGG
1 TTTATGG
32338777 TTTATGG
1 TTTATGG
*
32338784 TTTAAGG
1 TTTATGG
* **
32338791 GTTGGGG
1 TTTATGG
*
32338798 TTTGA-AG
1 TTT-ATGG
*
32338805 TTTAGGAG
1 TTTATG-G
32338813 TTACTAT--
1 TT--TATGG
*
32338820 TTTAAGG
1 TTTATGG
32338827 TTTATGG
1 TTTATGG
*
32338834 ATTATGGG
1 TTTAT-GG
32338842 TTTA-GAG
1 TTTATG-G
* *
32338849 ATTATGA
1 TTTATGG
32338856 TTTATGG
1 TTTATGG
32338863 TTTATGG
1 TTTATGG
*
32338870 TTTAAGG
1 TTTATGG
* **
32338877 GTTGGGG
1 TTTATGG
**
32338884 TTTAAAG
1 TTTATGG
*
32338891 TTTA-GA
1 TTTATGG
32338897 TGTTATGG
1 T-TTATGG
* *
32338905 GTTAAGG
1 TTTATGG
* *
32338912 GTTAGGGG
1 TTTA-TGG
*
32338920 TTTAGGG
1 TTTATGG
32338927 TTTATGG
1 TTTATGG
* *
32338934 TTCATGT
1 TTTATGG
32338941 TTTAT-G
1 TTTATGG
*
32338947 TTTAGGG
1 TTTATGG
32338954 TTTA
1 TTTA
32338958 GGGGATAGAA
Statistics
Matches: 191, Mismatches: 54, Indels: 44
0.66 0.19 0.15
Matches are distributed among these distances:
5 4 0.02
6 8 0.04
7 151 0.79
8 24 0.13
10 4 0.02
ACGTcount: A:0.23, C:0.01, G:0.30, T:0.46
Consensus pattern (7 bp):
TTTATGG
Found at i:32338829 original size:86 final size:85
Alignment explanation
Indices: 32338709--32338895 Score: 338
Period size: 86 Copynumber: 2.2 Consensus size: 85
32338699 ATATGGTTTA
*
32338709 GGGTTTAAGGTTTAAGAGTTACTATTTTAAGGTTTATGGATTATGGGTTTAGAGATTATGATTTA
1 GGGTTTAA-GTTTAGGAGTTACTATTTTAAGGTTTATGGATTATGGGTTTAGAGATTATGATTTA
32338774 TGGTTTATGGTTTAAGGGTTG
65 TGGTTTATGGTTTAAGGGTTG
32338795 GGGTTTGAAGTTTAGGAGTTACTATTTTAAGGTTTATGGATTATGGGTTTAGAGATTATGATTTA
1 GGGTTT-AAGTTTAGGAGTTACTATTTTAAGGTTTATGGATTATGGGTTTAGAGATTATGATTTA
32338860 TGGTTTATGGTTTAAGGGTTG
65 TGGTTTATGGTTTAAGGGTTG
32338881 GGGTTTAAAGTTTAG
1 GGGTTT-AAGTTTAG
32338896 ATGTTATGGG
Statistics
Matches: 98, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
86 96 0.98
87 2 0.02
ACGTcount: A:0.24, C:0.01, G:0.30, T:0.45
Consensus pattern (85 bp):
GGGTTTAAGTTTAGGAGTTACTATTTTAAGGTTTATGGATTATGGGTTTAGAGATTATGATTTAT
GGTTTATGGTTTAAGGGTTG
Found at i:32338935 original size:14 final size:14
Alignment explanation
Indices: 32338684--32338957 Score: 73
Period size: 14 Copynumber: 19.3 Consensus size: 14
32338674 ATTAATTATC
*
32338684 TTTATAGTTTAGGG
1 TTTATGGTTTAGGG
*
32338698 TATATGGTTTAGGG
1 TTTATGGTTTAGGG
* *
32338712 TTTAAGGTTTAAGAG
1 TTTATGGTTT-AGGG
*
32338727 TTACTAT--TTTAAGG
1 TT--TATGGTTTAGGG
*
32338741 TTTATGGATTATGGG
1 TTTATGGTTTA-GGG
* * *
32338756 TTTA-GAGATTATGA
1 TTTATG-GTTTAGGG
*
32338770 TTTATGGTTTATGG
1 TTTATGGTTTAGGG
* * *
32338784 TTTAAGGGTTGGGG
1 TTTATGGTTTAGGG
*
32338798 TTTGA-AGTTTAGGAG
1 TTT-ATGGTTTAGG-G
*
32338813 TTACTAT--TTTAAGG
1 TT--TATGGTTTAGGG
*
32338827 TTTATGGATTATGGG
1 TTTATGGTTTA-GGG
* * *
32338842 TTTA-GAGATTATGA
1 TTTATG-GTTTAGGG
*
32338856 TTTATGGTTTATGG
1 TTTATGGTTTAGGG
* * *
32338870 TTTAAGGGTTGGGG
1 TTTATGGTTTAGGG
** *
32338884 TTTAAAGTTTA-GA
1 TTTATGGTTTAGGG
*
32338897 TGTTATGGGTTAAGGG
1 T-TTAT-GGTTTAGGG
*
32338913 -TTAGGGGTTTAGGG
1 TTTA-TGGTTTAGGG
* * *
32338927 TTTATGGTTCATGT
1 TTTATGGTTTAGGG
32338941 TTTAT-GTTTAGGG
1 TTTATGGTTTAGGG
32338954 TTTA
1 TTTA
32338958 GGGGATAGAA
Statistics
Matches: 188, Mismatches: 49, Indels: 47
0.66 0.17 0.17
Matches are distributed among these distances:
12 6 0.03
13 11 0.06
14 118 0.63
15 48 0.26
16 2 0.01
17 3 0.02
ACGTcount: A:0.23, C:0.01, G:0.30, T:0.46
Consensus pattern (14 bp):
TTTATGGTTTAGGG
Found at i:32341474 original size:43 final size:43
Alignment explanation
Indices: 32341427--32341568 Score: 221
Period size: 43 Copynumber: 3.3 Consensus size: 43
32341417 GTACGGTACT
32341427 TTTAGTGGCGTTTGTGATAAAAACGCCGCTAAAGGTCATGTTC
1 TTTAGTGGCGTTTGTGATAAAAACGCCGCTAAAGGTCATGTTC
* * *
32341470 TTTAGCGGCATTTGTGATAAAAATGCCGCTAAAGGTCATGTTC
1 TTTAGTGGCGTTTGTGATAAAAACGCCGCTAAAGGTCATGTTC
* * * *
32341513 TTTAGTGGCGTTTGTGATAAAAGCGCCACTAATGGTCATGTTT
1 TTTAGTGGCGTTTGTGATAAAAACGCCGCTAAAGGTCATGTTC
32341556 TTTAGTGGCGTTT
1 TTTAGTGGCGTTT
32341569 TTCCACATAA
Statistics
Matches: 89, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 89 1.00
ACGTcount: A:0.24, C:0.15, G:0.25, T:0.36
Consensus pattern (43 bp):
TTTAGTGGCGTTTGTGATAAAAACGCCGCTAAAGGTCATGTTC
Found at i:32343450 original size:25 final size:25
Alignment explanation
Indices: 32343419--32343500 Score: 101
Period size: 25 Copynumber: 3.3 Consensus size: 25
32343409 AGCTCTCTCT
32343419 TGAGCCATATAACGGGAAGCTCATA
1 TGAGCCATATAACGGGAAGCTCATA
* * * *
32343444 TGAGCCATTTAATGGGAAGCTTATC
1 TGAGCCATATAACGGGAAGCTCATA
**
32343469 TGAGCTGTATAACGGGAAGCTCATA
1 TGAGCCATATAACGGGAAGCTCATA
*
32343494 AGAGCCA
1 TGAGCCA
32343501 CAATCAAGAA
Statistics
Matches: 44, Mismatches: 13, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
25 44 1.00
ACGTcount: A:0.33, C:0.18, G:0.26, T:0.23
Consensus pattern (25 bp):
TGAGCCATATAACGGGAAGCTCATA
Found at i:32343563 original size:25 final size:25
Alignment explanation
Indices: 32343534--32343673 Score: 94
Period size: 25 Copynumber: 5.6 Consensus size: 25
32343524 AATAACGGGT
32343534 AGCTCCGAAGAGCCATTAATCAGGA
1 AGCTCCGAAGAGCCATTAATCAGGA
* *
32343559 AGCTCCGGATAGCCA-TATATC-GAGA
1 AGCTCCGAAGAGCCATTA-ATCAG-GA
* *
32343584 AG-TTC-AAGTGAGCCA-T-ATCGGGA
1 AGCTCCGAA--GAGCCATTAATCAGGA
* *
32343607 AGCTCCGGAGATCCATTAATCAGGA
1 AGCTCCGAAGAGCCATTAATCAGGA
** * *
32343632 AGCTCATAATGAGCCTTTAATCGGGA
1 AGCTCCGAA-GAGCCATTAATCAGGA
*
32343658 AGCTTCGAAGAGCCAT
1 AGCTCCGAAGAGCCAT
32343674 ATATCGGAGC
Statistics
Matches: 86, Mismatches: 19, Indels: 20
0.69 0.15 0.16
Matches are distributed among these distances:
23 13 0.15
24 9 0.10
25 45 0.52
26 19 0.22
ACGTcount: A:0.32, C:0.22, G:0.25, T:0.21
Consensus pattern (25 bp):
AGCTCCGAAGAGCCATTAATCAGGA
Found at i:32343679 original size:25 final size:25
Alignment explanation
Indices: 32343520--32343680 Score: 86
Period size: 25 Copynumber: 6.5 Consensus size: 25
32343510 AGCTCATGCA
* *
32343520 AGCCA-ATAACGGGTAGCTCCGAAG
1 AGCCATATATCGGGAAGCTCCGAAG
* * *
32343544 AGCCAT-TAATCAGGAAGCTCCGGAT
1 AGCCATAT-ATCGGGAAGCTCCGAAG
* *
32343569 AGCCATATATCGAGAAG-TTC-AAGTG
1 AGCCATATATCGGGAAGCTCCGAA--G
*
32343594 AGCC--ATATCGGGAAGCTCCGGAG
1 AGCCATATATCGGGAAGCTCCGAAG
* * **
32343617 ATCCAT-TAATCAGGAAGCTCATAATG
1 AGCCATAT-ATCGGGAAGCTCCGAA-G
* *
32343643 AGCC-TTTAATCGGGAAGCTTCGAAG
1 AGCCATAT-ATCGGGAAGCTCCGAAG
32343668 AGCCATATATCGG
1 AGCCATATATCGG
32343681 AGCGCTCATA
Statistics
Matches: 100, Mismatches: 24, Indels: 25
0.67 0.16 0.17
Matches are distributed among these distances:
23 15 0.15
24 11 0.11
25 53 0.53
26 21 0.21
ACGTcount: A:0.32, C:0.22, G:0.25, T:0.20
Consensus pattern (25 bp):
AGCCATATATCGGGAAGCTCCGAAG
Found at i:32344189 original size:5 final size:5
Alignment explanation
Indices: 32344160--32344198 Score: 51
Period size: 5 Copynumber: 7.6 Consensus size: 5
32344150 TAAATTTAGC
* *
32344160 TCAAT TTAAT ACAAT TCATAT TCAAT TCAAT TCAAT TCA
1 TCAAT TCAAT TCAAT TCA-AT TCAAT TCAAT TCAAT TCA
32344199 CATCTTAGAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
5 24 0.83
6 5 0.17
ACGTcount: A:0.41, C:0.18, G:0.00, T:0.41
Consensus pattern (5 bp):
TCAAT
Found at i:32351459 original size:24 final size:23
Alignment explanation
Indices: 32351362--32351451 Score: 72
Period size: 25 Copynumber: 3.7 Consensus size: 23
32351352 CTCGAGCCAT
* *
32351362 ATAATGGGAAGCACATATGAGCC
1 ATAATGGGAAGCTCATAAGAGCC
* ** * *
32351385 ATGTAATGGGAAGCTTATCCGGGCTGT
1 A--TAATGGGAAGCTCATAAGAGC--C
32351412 ATAATGGGAAGCTCATAAGAGCC
1 ATAATGGGAAGCTCATAAGAGCC
32351435 ATAATGAGGAAGCTCAT
1 ATAATG-GGAAGCTCAT
32351452 GTGAGCCAAT
Statistics
Matches: 51, Mismatches: 11, Indels: 9
0.72 0.15 0.13
Matches are distributed among these distances:
23 7 0.14
24 10 0.20
25 33 0.65
27 1 0.02
ACGTcount: A:0.34, C:0.16, G:0.28, T:0.22
Consensus pattern (23 bp):
ATAATGGGAAGCTCATAAGAGCC
Found at i:32351570 original size:25 final size:25
Alignment explanation
Indices: 32351539--32351622 Score: 89
Period size: 25 Copynumber: 3.3 Consensus size: 25
32351529 AGCCATATCG
*
32351539 GGAAGCTCCGGAGAGCCATTAATCA
1 GGAAGCTCCGAAGAGCCATTAATCA
* * *
32351564 GGAAGCTCACAAAGAGCCTTTAATCT
1 GGAAGCTC-CGAAGAGCCATTAATCA
*
32351590 GGAAGCTCCGAAGAGCTA-TATATCA
1 GGAAGCTCCGAAGAGCCATTA-ATCA
*
32351615 GGACGCTC
1 GGAAGCTC
32351623 ATAAGAGTTG
Statistics
Matches: 48, Mismatches: 9, Indels: 4
0.79 0.15 0.07
Matches are distributed among these distances:
24 2 0.04
25 25 0.52
26 21 0.44
ACGTcount: A:0.32, C:0.24, G:0.25, T:0.19
Consensus pattern (25 bp):
GGAAGCTCCGAAGAGCCATTAATCA
Found at i:32351586 original size:26 final size:26
Alignment explanation
Indices: 32351550--32351623 Score: 80
Period size: 26 Copynumber: 2.9 Consensus size: 26
32351540 GAAGCTCCGG
*
32351550 AGAGCCATTAATCAGGAAGCTCACAA
1 AGAGCCTTTAATCAGGAAGCTCACAA
* *
32351576 AGAGCCTTTAATCTGGAAGCTC-CGA
1 AGAGCCTTTAATCAGGAAGCTCACAA
* *
32351601 AGAG-CTATATATCAGGACGCTCA
1 AGAGCCTTTA-ATCAGGAAGCTCA
32351624 TAAGAGTTGT
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
24 4 0.10
25 16 0.40
26 20 0.50
ACGTcount: A:0.35, C:0.23, G:0.22, T:0.20
Consensus pattern (26 bp):
AGAGCCTTTAATCAGGAAGCTCACAA
Found at i:32357660 original size:6 final size:6
Alignment explanation
Indices: 32357649--32357675 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
32357639 TCCTCAAGCA
32357649 AAAAAT AAAAAT AAAAAT AAAAAT AAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAA
32357676 CAATTAAGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAAAAT
Found at i:32364350 original size:4 final size:4
Alignment explanation
Indices: 32364336--32364376 Score: 73
Period size: 4 Copynumber: 10.2 Consensus size: 4
32364326 CTAATAATCT
*
32364336 AACA CACA AACA AACA AACA AACA AACA AACA AACA AACA A
1 AACA AACA AACA AACA AACA AACA AACA AACA AACA AACA A
32364377 GGGTGTGAGT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
4 35 1.00
ACGTcount: A:0.73, C:0.27, G:0.00, T:0.00
Consensus pattern (4 bp):
AACA
Found at i:32370371 original size:27 final size:25
Alignment explanation
Indices: 32370341--32370390 Score: 64
Period size: 27 Copynumber: 1.9 Consensus size: 25
32370331 AATAACTTAA
* *
32370341 TAAGTTGTAGTGATTGAGAAGAAGAAC
1 TAAGTTGCAATGA-TGAGAA-AAGAAC
32370368 TAAGTTGCAATGATGAGAAAAGA
1 TAAGTTGCAATGATGAGAAAAGA
32370391 GAAATTGGAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 4 0.19
26 6 0.29
27 11 0.52
ACGTcount: A:0.44, C:0.04, G:0.28, T:0.24
Consensus pattern (25 bp):
TAAGTTGCAATGATGAGAAAAGAAC
Found at i:32374372 original size:9 final size:9
Alignment explanation
Indices: 32374360--32374471 Score: 74
Period size: 9 Copynumber: 12.6 Consensus size: 9
32374350 TAGAATTTTC
32374360 AAAAATTAT
1 AAAAATTAT
*
32374369 AAAAAATAT
1 AAAAATTAT
32374378 AAAAA-TAT
1 AAAAATTAT
32374386 AAAAA-TATT
1 AAAAATTA-T
32374395 AAAAATTACAT
1 AAAAATT--AT
* *
32374406 TAACATT-T
1 AAAAATTAT
32374414 -AAAATTAT
1 AAAAATTAT
*
32374422 AAAAAATATT
1 AAAAATTA-T
*
32374432 TAAAA-TAT
1 AAAAATTAT
32374440 AAAAA-TAT
1 AAAAATTAT
*
32374448 AAAATATTGT
1 AAAA-ATTAT
*
32374458 AAAAAGTAT
1 AAAAATTAT
32374467 AAAAA
1 AAAAA
32374472 CAGAAAATAA
Statistics
Matches: 84, Mismatches: 10, Indels: 18
0.75 0.09 0.16
Matches are distributed among these distances:
7 5 0.06
8 24 0.29
9 36 0.43
10 12 0.14
11 6 0.07
12 1 0.01
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (9 bp):
AAAAATTAT
Found at i:32374383 original size:18 final size:18
Alignment explanation
Indices: 32374360--32374471 Score: 90
Period size: 18 Copynumber: 6.3 Consensus size: 18
32374350 TAGAATTTTC
32374360 AAAAATTATAAAAAATAT
1 AAAAATTATAAAAAATAT
32374378 AAAAA-TAT-AAAAATATT
1 AAAAATTATAAAAAATA-T
* * *
32374395 AAAAATTACATTAACAT-T
1 AAAAATTATA-AAAAATAT
*
32374413 TAAAATTATAAAAAATATT
1 AAAAATTATAAAAAATA-T
*
32374432 TAAAA-TAT-AAAAATAT
1 AAAAATTATAAAAAATAT
* *
32374448 AAAATATTGTAAAAAGTAT
1 AAAA-ATTATAAAAAATAT
32374467 AAAAA
1 AAAAA
32374472 CAGAAAATAA
Statistics
Matches: 75, Mismatches: 10, Indels: 18
0.73 0.10 0.17
Matches are distributed among these distances:
16 11 0.15
17 21 0.28
18 22 0.29
19 17 0.23
20 4 0.05
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (18 bp):
AAAAATTATAAAAAATAT
Found at i:32374397 original size:26 final size:25
Alignment explanation
Indices: 32374360--32374471 Score: 91
Period size: 26 Copynumber: 4.2 Consensus size: 25
32374350 TAGAATTTTC
32374360 AAAAATTATAAAAAATATAAAAATAT
1 AAAAA-TATAAAAAATATAAAAATAT
* *
32374386 AAAAATATTAAAAAT-TACATTAACATTT
1 AAAAATATAAAAAATATA-A--AA-ATAT
* *
32374414 AAAATTATAAAAAATATTTAAAATAT
1 AAAAATATAAAAAATA-TAAAAATAT
* *
32374440 AAAAATATAAAATATTGTAAAAAGTAT
1 AAAAATATAAAA-AATATAAAAA-TAT
32374467 AAAAA
1 AAAAA
32374472 CAGAAAATAA
Statistics
Matches: 68, Mismatches: 10, Indels: 15
0.73 0.11 0.16
Matches are distributed among these distances:
24 2 0.03
25 10 0.15
26 24 0.35
27 14 0.21
28 16 0.24
29 1 0.01
30 1 0.01
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (25 bp):
AAAAATATAAAAAATATAAAAATAT
Found at i:32374969 original size:21 final size:20
Alignment explanation
Indices: 32374943--32375021 Score: 67
Period size: 20 Copynumber: 4.0 Consensus size: 20
32374933 TTTTCAATAT
32374943 TTTATAGTTTTTAAATATTTC
1 TTTATA-TTTTTAAATATTTC
*
32374964 TTTATAATTTTATAAT-TTTC
1 TTTATATTTTTA-AATATTTC
*
32374984 TATTA-ATTTTT-AATAATT-
1 T-TTATATTTTTAAATATTTC
*
32375002 TTTATGATTTTTAAACATTT
1 TTTAT-ATTTTTAAATATTT
32375022 TAAAAAGATT
Statistics
Matches: 47, Mismatches: 5, Indels: 13
0.72 0.08 0.20
Matches are distributed among these distances:
17 3 0.06
18 4 0.09
19 8 0.17
20 20 0.43
21 12 0.26
ACGTcount: A:0.32, C:0.04, G:0.03, T:0.62
Consensus pattern (20 bp):
TTTATATTTTTAAATATTTC
Found at i:32375002 original size:10 final size:10
Alignment explanation
Indices: 32374917--32375015 Score: 52
Period size: 10 Copynumber: 10.3 Consensus size: 10
32374907 ACTTTTTTAA
*
32374917 TAATATTTTT
1 TAATAATTTT
32374927 TAA-ACATTTT
1 TAATA-ATTTT
*
32374937 CAAT-A-TTT
1 TAATAATTTT
*
32374945 T-ATAGTTTT
1 TAATAATTTT
32374954 TAA-ATATTTCT
1 TAATA-ATTT-T
*
32374965 TTATAA-TTT
1 TAATAATTTT
32374974 T-ATAATTTT
1 TAATAATTTT
*
32374983 CTATTAATTTT
1 -TAATAATTTT
32374994 TAATAATTTT
1 TAATAATTTT
*
32375004 T-ATGATTTT
1 TAATAATTTT
32375013 TAA
1 TAA
32375016 ACATTTTAAA
Statistics
Matches: 68, Mismatches: 9, Indels: 24
0.67 0.09 0.24
Matches are distributed among these distances:
7 2 0.03
8 7 0.10
9 20 0.29
10 27 0.40
11 11 0.16
12 1 0.01
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.61
Consensus pattern (10 bp):
TAATAATTTT
Found at i:32375011 original size:9 final size:9
Alignment explanation
Indices: 32374964--32375014 Score: 59
Period size: 9 Copynumber: 5.4 Consensus size: 9
32374954 TAAATATTTC
32374964 TTTATAA-T
1 TTTATAATT
32374972 TTTATAATT
1 TTTATAATT
32374981 TTCTATTAATT
1 TT-TA-TAATT
32374992 TTTAATAATT
1 TTT-ATAATT
*
32375002 TTTATGATT
1 TTTATAATT
32375011 TTTA
1 TTTA
32375015 AACATTTTAA
Statistics
Matches: 38, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
8 7 0.18
9 12 0.32
10 11 0.29
11 8 0.21
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (9 bp):
TTTATAATT
Found at i:32375021 original size:29 final size:27
Alignment explanation
Indices: 32374900--32375022 Score: 87
Period size: 29 Copynumber: 4.5 Consensus size: 27
32374890 ATTTTAGTTT
* *
32374900 TTTTTATACTTTTTTAATAA---TAT-
1 TTTTTAAACATTTTTAATAATTTTATA
*
32374923 TTTTTAAACATTTTCAAT-ATTTTATA
1 TTTTTAAACATTTTTAATAATTTTATA
* *
32374949 GTTTTTAAATATTTCTTTATAATTTTATAA
1 -TTTTTAAACATTT-TTAATAATTTTAT-A
*
32374979 TTTTCTATTA-ATTTTTAATAATTTTTATGA
1 TTTT-TA-AACATTTTTAATAA-TTTTAT-A
32375009 TTTTTAAACATTTT
1 TTTTTAAACATTTT
32375023 AAAAAGATTG
Statistics
Matches: 78, Mismatches: 10, Indels: 18
0.74 0.09 0.17
Matches are distributed among these distances:
22 1 0.01
23 15 0.19
25 3 0.04
27 12 0.15
28 4 0.05
29 24 0.31
30 18 0.23
31 1 0.01
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.62
Consensus pattern (27 bp):
TTTTTAAACATTTTTAATAATTTTATA
Found at i:32386625 original size:17 final size:19
Alignment explanation
Indices: 32386605--32386639 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
32386595 GGCCCAAGTA
32386605 CTAATT-AGTTT-ATTTTC
1 CTAATTCAGTTTAATTTTC
32386622 CTAATTCAGTTTAATTTT
1 CTAATTCAGTTTAATTTT
32386640 TTAGTACAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
18 5 0.31
19 5 0.31
ACGTcount: A:0.26, C:0.11, G:0.06, T:0.57
Consensus pattern (19 bp):
CTAATTCAGTTTAATTTTC
Found at i:32388359 original size:21 final size:20
Alignment explanation
Indices: 32388333--32388371 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
32388323 AGGGATTTAT
32388333 TTGTGAAATGTGTAAAATACA
1 TTGTGAAAT-TGTAAAATACA
*
32388354 TTGTGAAATTGTGAAATA
1 TTGTGAAATTGTAAAATA
32388372 ATGAATAGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.41, C:0.03, G:0.21, T:0.36
Consensus pattern (20 bp):
TTGTGAAATTGTAAAATACA
Found at i:32396773 original size:29 final size:28
Alignment explanation
Indices: 32396715--32396883 Score: 187
Period size: 29 Copynumber: 5.9 Consensus size: 28
32396705 GTATCGACGC
*
32396715 CCATCGAATATGAAAA-GGATGGTGGTGA
1 CCATCGAATATGAAAAGGGATGGT-GCGA
*
32396743 CCATCGAGTATGAAAAGGGATGGTAGCGA
1 CCATCGAATATGAAAAGGGATGGT-GCGA
**
32396772 CCATCGAATAATGAAAAGGGATGGCTTTGA
1 CCATCGAAT-ATGAAAAGGGATGG-TGCGA
* **
32396802 CCATCGAATATGAAAAGGGTTGGTGAAAA
1 CCATCGAATATGAAAAGGGATGGTG-CGA
*
32396831 CCATCGAATATGAAAAGGGATGGCTTCGA
1 CCATCGAATATGAAAAGGGATGG-TGCGA
* *
32396860 CCATCGAATATAAAAATGGATGGT
1 CCATCGAATATGAAAAGGGATGGT
32396884 TCTGACAATC
Statistics
Matches: 120, Mismatches: 16, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
28 17 0.14
29 76 0.63
30 26 0.22
31 1 0.01
ACGTcount: A:0.37, C:0.13, G:0.28, T:0.21
Consensus pattern (28 bp):
CCATCGAATATGAAAAGGGATGGTGCGA
Found at i:32396863 original size:88 final size:86
Alignment explanation
Indices: 32396715--32396882 Score: 230
Period size: 88 Copynumber: 1.9 Consensus size: 86
32396705 GTATCGACGC
*** *
32396715 CCATCGAATATGAAAAGGATGGTGGTGACCATCGAGTATGAAAAGGGATGGTAGCGACCATCGAA
1 CCATCGAATATGAAAAGGATGGTGAAAACCATCGAATATGAAAAGGGATGGTAGCGACCATCGAA
*
32396780 TAATGAAAAGGGATGGCTTTGA
66 T-ATAAAAAGGGATGGCTTTGA
* *
32396802 CCATCGAATATGAAAAGGGTTGGTGAAAACCATCGAATATGAAAAGGGATGGCT-TCGACCATCG
1 CCATCGAATATGAAAA-GGATGGTGAAAACCATCGAATATGAAAAGGGATGG-TAGCGACCATCG
*
32396866 AATATAAAAATGGATGG
64 AATATAAAAAGGGATGG
32396883 TTCTGACAAT
Statistics
Matches: 71, Mismatches: 8, Indels: 4
0.86 0.10 0.05
Matches are distributed among these distances:
87 28 0.39
88 42 0.59
89 1 0.01
ACGTcount: A:0.38, C:0.13, G:0.29, T:0.21
Consensus pattern (86 bp):
CCATCGAATATGAAAAGGATGGTGAAAACCATCGAATATGAAAAGGGATGGTAGCGACCATCGAA
TATAAAAAGGGATGGCTTTGA
Found at i:32409554 original size:15 final size:15
Alignment explanation
Indices: 32409534--32409564 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
32409524 AAAACAACAT
32409534 AACTCTTGACCTTTC
1 AACTCTTGACCTTTC
32409549 AACTCTTGACCTTTC
1 AACTCTTGACCTTTC
32409564 A
1 A
32409565 CTTACATAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.23, C:0.32, G:0.06, T:0.39
Consensus pattern (15 bp):
AACTCTTGACCTTTC
Found at i:32412926 original size:15 final size:16
Alignment explanation
Indices: 32412908--32412937 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
32412898 TCCCTTCTTG
32412908 ACCACGACC-TTTTCC
1 ACCACGACCATTTTCC
32412923 ACCACGACCATTTTC
1 ACCACGACCATTTTC
32412938 TCGATCTCTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.23, C:0.43, G:0.07, T:0.27
Consensus pattern (16 bp):
ACCACGACCATTTTCC
Found at i:32417842 original size:30 final size:31
Alignment explanation
Indices: 32417792--32417858 Score: 84
Period size: 30 Copynumber: 2.2 Consensus size: 31
32417782 TTATTTAATT
32417792 AATAAAAAATTGAAAGAAAAAAATAAAAAAA
1 AATAAAAAATTGAAAGAAAAAAATAAAAAAA
* * *
32417823 AATAAAAAA-TGAGAA-AAAAACATAAATACA
1 AATAAAAAATTGA-AAGAAAAAAATAAAAAAA
32417853 AATAAA
1 AATAAA
32417859 TATTTCACGA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
30 21 0.66
31 11 0.34
ACGTcount: A:0.78, C:0.03, G:0.06, T:0.13
Consensus pattern (31 bp):
AATAAAAAATTGAAAGAAAAAAATAAAAAAA
Found at i:32437189 original size:15 final size:15
Alignment explanation
Indices: 32437152--32437209 Score: 57
Period size: 15 Copynumber: 3.9 Consensus size: 15
32437142 ATTTCTAAGA
*
32437152 AAATAAAA-ATAAAAC
1 AAATAAAAGA-AAAAG
*
32437167 AACTAAAAGCAAAAAG
1 AAATAAAAG-AAAAAG
32437183 AAA-AAAAGAAAAAG
1 AAATAAAAGAAAAAG
*
32437197 AAATAAAATAAAA
1 AAATAAAAGAAAA
32437210 TCAATGATCT
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
14 9 0.25
15 20 0.56
16 6 0.17
17 1 0.03
ACGTcount: A:0.79, C:0.05, G:0.07, T:0.09
Consensus pattern (15 bp):
AAATAAAAGAAAAAG
Found at i:32438174 original size:23 final size:24
Alignment explanation
Indices: 32438131--32438176 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 24
32438121 ATATCAGATA
*
32438131 AGTAGAAGAAACAGGATAGACAAT
1 AGTAGAAGAAACAGGAGAGACAAT
32438155 AGTA-AAGAAAACA-GAGAGACAA
1 AGTAGAAG-AAACAGGAGAGACAA
32438177 ATCGAAAAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 11 0.55
24 9 0.45
ACGTcount: A:0.59, C:0.09, G:0.24, T:0.09
Consensus pattern (24 bp):
AGTAGAAGAAACAGGAGAGACAAT
Found at i:32438553 original size:5 final size:5
Alignment explanation
Indices: 32438531--32438589 Score: 54
Period size: 5 Copynumber: 12.2 Consensus size: 5
32438521 GAAAATTATT
* *
32438531 AATAA AA-AG AAT-A AATAA AATAA TAA-GA AATATA AATAA AAT-A AATAA
1 AATAA AATAA AATAA AATAA AATAA -AATAA AATA-A AATAA AATAA AATAA
32438579 AATAA AATAA A
1 AATAA AATAA A
32438590 CAAAAGAGGG
Statistics
Matches: 44, Mismatches: 4, Indels: 12
0.73 0.07 0.20
Matches are distributed among these distances:
4 12 0.27
5 25 0.57
6 7 0.16
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.20
Consensus pattern (5 bp):
AATAA
Found at i:32438594 original size:9 final size:9
Alignment explanation
Indices: 32438531--32438589 Score: 57
Period size: 9 Copynumber: 6.1 Consensus size: 9
32438521 GAAAATTATT
32438531 AATAAA-AA
1 AATAAATAA
32438539 GAATAAATAA
1 -AATAAATAA
*
32438549 AATAATAAGAA
1 AAT-A-AATAA
32438560 ATATAAATAA
1 A-ATAAATAA
32438570 AATAAATAA
1 AATAAATAA
32438579 AATAAAATAA
1 AAT-AAATAA
32438589 A
1 A
32438590 CAAAAGAGGG
Statistics
Matches: 43, Mismatches: 2, Indels: 9
0.80 0.04 0.17
Matches are distributed among these distances:
9 20 0.47
10 15 0.35
11 6 0.14
12 2 0.05
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.20
Consensus pattern (9 bp):
AATAAATAA
Found at i:32442296 original size:86 final size:86
Alignment explanation
Indices: 32442137--32442297 Score: 216
Period size: 86 Copynumber: 1.9 Consensus size: 86
32442127 CTTTAACACT
** * * *
32442137 TCAATTTACAGCATTTAAACACTTCAATTTGCAGCACTTTAACATATCAATTAACAACATTTATA
1 TCAATTTACAGCAACTAAACACTTCAATTTGCAGCACTTAAACATATCAATTAACAACACTTAAA
*
32442202 CACGTCAATTACAAAAACATC
66 CACCTCAATTACAAAAACATC
* ** *
32442223 TCAATTTCCAGCAACTAAACACTTCAATTTGCAGCACTTAAACACT-TCAATTTGCAGCACTTAA
1 TCAATTTACAGCAACTAAACACTTCAATTTGCAGCACTTAAACA-TATCAATTAACAACACTTAA
32442287 ACACCTCAATT
65 ACACCTCAATT
32442298 TATAGCATTT
Statistics
Matches: 64, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
86 63 0.98
87 1 0.02
ACGTcount: A:0.39, C:0.25, G:0.06, T:0.30
Consensus pattern (86 bp):
TCAATTTACAGCAACTAAACACTTCAATTTGCAGCACTTAAACATATCAATTAACAACACTTAAA
CACCTCAATTACAAAAACATC
Found at i:32442462 original size:23 final size:23
Alignment explanation
Indices: 32442123--32442461 Score: 238
Period size: 23 Copynumber: 15.0 Consensus size: 23
32442113 AATGGAAAGT
*
32442123 AGCACTTTAACACTTCAATTTAC
1 AGCACTTAAACACTTCAATTTAC
* *
32442146 AGCATTTAAACACTTCAATTTGC
1 AGCACTTAAACACTTCAATTTAC
* *
32442169 AGCACTTTAACA-TATCAATTAAC
1 AGCACTTAAACACT-TCAATTTAC
* * * *
32442192 AACATTTATACACGTCAA-TTAC
1 AGCACTTAAACACTTCAATTTAC
*
32442214 A--A---AAACA-TCTCAATTTCC
1 AGCACTTAAACACT-TCAATTTAC
*
32442232 AGCAAC-TAAACACTTCAATTTGC
1 AGC-ACTTAAACACTTCAATTTAC
*
32442255 AGCACTTAAACACTTCAATTTGC
1 AGCACTTAAACACTTCAATTTAC
* *
32442278 AGCACTTAAACACCTCAATTTAT
1 AGCACTTAAACACTTCAATTTAC
* * *
32442301 AGCATTTAAACACTTAAATTTGC
1 AGCACTTAAACACTTCAATTTAC
* *
32442324 AGCACTTAAACA-TATAAATTAAC
1 AGCACTTAAACACT-TCAATTTAC
* * * *
32442347 AACATTTATACACCTCAA-TTAC
1 AGCACTTAAACACTTCAATTTAC
** *
32442369 AG-AGATAAA-ACATCTCAATTTCC
1 AGCACTTAAACAC-T-TCAATTTAC
* *
32442392 AGCAAC-TAAATACTTCAATTTGC
1 AGC-ACTTAAACACTTCAATTTAC
32442415 AGCACTTAAACACTTCAATTTAC
1 AGCACTTAAACACTTCAATTTAC
* * *
32442438 AACATTTAAACACTTAAATTTAC
1 AGCACTTAAACACTTCAATTTAC
32442461 A
1 A
32442462 AATCCACCAT
Statistics
Matches: 249, Mismatches: 47, Indels: 40
0.74 0.14 0.12
Matches are distributed among these distances:
17 8 0.03
18 4 0.02
20 3 0.01
21 5 0.02
22 18 0.07
23 202 0.81
24 6 0.02
25 3 0.01
ACGTcount: A:0.41, C:0.23, G:0.05, T:0.31
Consensus pattern (23 bp):
AGCACTTAAACACTTCAATTTAC
Found at i:32445111 original size:23 final size:24
Alignment explanation
Indices: 32445078--32445128 Score: 77
Period size: 23 Copynumber: 2.2 Consensus size: 24
32445068 AACCGATTAG
32445078 TGTTCAAATTTTAGGCTTT-TGGT
1 TGTTCAAATTTTAGGCTTTCTGGT
* *
32445101 TGTTCATATTTTAGGTTTTCTGGT
1 TGTTCAAATTTTAGGCTTTCTGGT
32445125 TGTT
1 TGTT
32445129 ACTTTCGACA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
23 17 0.68
24 8 0.32
ACGTcount: A:0.14, C:0.08, G:0.22, T:0.57
Consensus pattern (24 bp):
TGTTCAAATTTTAGGCTTTCTGGT
Found at i:32446815 original size:14 final size:14
Alignment explanation
Indices: 32446796--32446829 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
32446786 AACCCGTAAA
32446796 CCTTAAATCACAAC
1 CCTTAAATCACAAC
* *
32446810 CCTTAAATCAGAAT
1 CCTTAAATCACAAC
32446824 CCTTAA
1 CCTTAA
32446830 TCCATAATCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.41, C:0.29, G:0.03, T:0.26
Consensus pattern (14 bp):
CCTTAAATCACAAC
Found at i:32447306 original size:41 final size:41
Alignment explanation
Indices: 32447261--32447458 Score: 243
Period size: 41 Copynumber: 4.8 Consensus size: 41
32447251 ATGTTTTTGT
*
32447261 GGCGCTTTTTTAAAAACGCCGCTAAAGCCCCGAGCATTAGC
1 GGCGCTTTTTGAAAAACGCCGCTAAAGCCCCGAGCATTAGC
** * * *
32447302 GGCGCTTCCTGGAAAACGTCGCTAAAGCCCCAAGCATTAGC
1 GGCGCTTTTTGAAAAACGCCGCTAAAGCCCCGAGCATTAGC
* *
32447343 GGCGCTTCTTGAAAAACGCCACTAAAGCCCCGAGCATTAGC
1 GGCGCTTTTTGAAAAACGCCGCTAAAGCCCCGAGCATTAGC
* ** * *
32447384 GGCGCTTTTTCAAAAACGCCGCTAAAGATCTGAGCATTAGT
1 GGCGCTTTTTGAAAAACGCCGCTAAAGCCCCGAGCATTAGC
* * *
32447425 GGTGCTTTTTTAAAAAACGCCACTAAAGCCCCGA
1 GGCGC-TTTTTGAAAAACGCCGCTAAAGCCCCGA
32447459 AAGGTAGAAA
Statistics
Matches: 132, Mismatches: 24, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
41 109 0.83
42 23 0.17
ACGTcount: A:0.29, C:0.28, G:0.22, T:0.21
Consensus pattern (41 bp):
GGCGCTTTTTGAAAAACGCCGCTAAAGCCCCGAGCATTAGC
Found at i:32453961 original size:42 final size:42
Alignment explanation
Indices: 32453889--32454064 Score: 153
Period size: 42 Copynumber: 4.2 Consensus size: 42
32453879 GGCAAGTATA
* * * * *
32453889 TGCATCATCGGATAAA-CTGAAATAACTATACTGGTACATAAG
1 TGCATCATCGAATAAATC-GAAACAAATATACTAGCACATAAG
* * *
32453931 TGCACCATCGAATAAATCGAATCAAATATACTAGCACGTAAG
1 TGCATCATCGAATAAATCGAAACAAATATACTAGCACATAAG
* * *
32453973 TGCATCAT-TAGATAAA-CCAAAAAAATATACTAGCACATAAG
1 TGCATCATCGA-ATAAATCGAAACAAATATACTAGCACATAAG
* * * * *
32454014 TGCAT-ATTTGGATAAATCGAAGCAAATATACTGGCACGTAAG
1 TGCATCA-TCGAATAAATCGAAACAAATATACTAGCACATAAG
32454056 TGCATCATC
1 TGCATCATC
32454065 AACTACACCA
Statistics
Matches: 106, Mismatches: 22, Indels: 12
0.76 0.16 0.09
Matches are distributed among these distances:
40 1 0.01
41 33 0.31
42 70 0.66
43 2 0.02
ACGTcount: A:0.42, C:0.18, G:0.15, T:0.24
Consensus pattern (42 bp):
TGCATCATCGAATAAATCGAAACAAATATACTAGCACATAAG
Found at i:32454007 original size:41 final size:42
Alignment explanation
Indices: 32453954--32454063 Score: 143
Period size: 41 Copynumber: 2.6 Consensus size: 42
32453944 AAATCGAATC
32453954 AAATATACTAGCACGTAAGTGCATCATTAGATAAA-CCAAAA
1 AAATATACTAGCACGTAAGTGCATCATTAGATAAATCCAAAA
* * * **
32453995 AAATATACTAGCACATAAGTGCAT-ATTTGGATAAATCGAAGC
1 AAATATACTAGCACGTAAGTGCATCA-TTAGATAAATCCAAAA
*
32454037 AAATATACTGGCACGTAAGTGCATCAT
1 AAATATACTAGCACGTAAGTGCATCAT
32454064 CAACTACACC
Statistics
Matches: 59, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
40 1 0.02
41 31 0.53
42 26 0.44
43 1 0.02
ACGTcount: A:0.44, C:0.16, G:0.15, T:0.25
Consensus pattern (42 bp):
AAATATACTAGCACGTAAGTGCATCATTAGATAAATCCAAAA
Found at i:32462880 original size:49 final size:49
Alignment explanation
Indices: 32462808--32462902 Score: 154
Period size: 49 Copynumber: 1.9 Consensus size: 49
32462798 GTAGTCAATA
* * *
32462808 TGCCAATCTAGTTAGCAACTAACATGCCCTACTAATGGCCAATCATCTC
1 TGCCAACCTAGTTACCAACTAACATGCCCTACCAATGGCCAATCATCTC
*
32462857 TGCCAACCTAGTTACCAACTAACATGCCCTACCAATGGCCCATCAT
1 TGCCAACCTAGTTACCAACTAACATGCCCTACCAATGGCCAATCAT
32462903 ATCGAGTTTG
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
49 42 1.00
ACGTcount: A:0.31, C:0.34, G:0.12, T:0.24
Consensus pattern (49 bp):
TGCCAACCTAGTTACCAACTAACATGCCCTACCAATGGCCAATCATCTC
Found at i:32471404 original size:13 final size:12
Alignment explanation
Indices: 32471346--32471405 Score: 50
Period size: 13 Copynumber: 4.7 Consensus size: 12
32471336 TAGTTAAAAA
32471346 ATATTGAAATTAT
1 ATATT-AAATTAT
32471359 ATATTAAATT-T
1 ATATTAAATTAT
*
32471370 ATATTAATATTTTAA
1 ATATTAA-A--TTAT
*
32471385 ATTTTAAATTTAT
1 ATATTAAA-TTAT
32471398 ATATTAAA
1 ATATTAAA
32471406 CTTTTATTTT
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
11 8 0.21
12 6 0.15
13 16 0.41
14 3 0.08
15 6 0.15
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.52
Consensus pattern (12 bp):
ATATTAAATTAT
Found at i:32472304 original size:23 final size:22
Alignment explanation
Indices: 32472260--32472304 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
32472250 ATTTAAAAAT
32472260 TATTTTATATTAATATTTTATA
1 TATTTTATATTAATATTTTATA
32472282 TATTTTATAATTAA-A-TTTATA
1 TATTTTAT-ATTAATATTTTATA
32472303 TA
1 TA
32472305 AAATTATTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 8 0.36
22 9 0.41
23 5 0.23
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (22 bp):
TATTTTATATTAATATTTTATA
Found at i:32482944 original size:8 final size:8
Alignment explanation
Indices: 32482901--32482943 Score: 70
Period size: 8 Copynumber: 5.5 Consensus size: 8
32482891 ATGAATCGGC
32482901 AAAAGCCG
1 AAAAGCCG
32482909 AAAAGCCG
1 AAAAGCCG
*
32482917 AAAAGCCA
1 AAAAGCCG
32482925 AAAAGCCG
1 AAAAGCCG
32482933 AAAAGCC-
1 AAAAGCCG
32482940 AAAA
1 AAAA
32482944 ATACGGCGAT
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
7 4 0.12
8 29 0.88
ACGTcount: A:0.58, C:0.23, G:0.19, T:0.00
Consensus pattern (8 bp):
AAAAGCCG
Found at i:32482944 original size:16 final size:16
Alignment explanation
Indices: 32482901--32482944 Score: 79
Period size: 16 Copynumber: 2.8 Consensus size: 16
32482891 ATGAATCGGC
*
32482901 AAAAGCCGAAAAGCCG
1 AAAAGCCAAAAAGCCG
32482917 AAAAGCCAAAAAGCCG
1 AAAAGCCAAAAAGCCG
32482933 AAAAGCCAAAAA
1 AAAAGCCAAAAA
32482945 TACGGCGATT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.59, C:0.23, G:0.18, T:0.00
Consensus pattern (16 bp):
AAAAGCCAAAAAGCCG
Found at i:32483212 original size:27 final size:27
Alignment explanation
Indices: 32483180--32483246 Score: 107
Period size: 27 Copynumber: 2.5 Consensus size: 27
32483170 AAAGGTTGTT
*
32483180 AAATGATCGTAATACCCCTATAAGGTA
1 AAATGACCGTAATACCCCTATAAGGTA
**
32483207 AAATGACCAAAATACCCCTATAAGGTA
1 AAATGACCGTAATACCCCTATAAGGTA
32483234 AAATGACCGTAAT
1 AAATGACCGTAAT
32483247 GCTCTTGAAG
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.45, C:0.19, G:0.13, T:0.22
Consensus pattern (27 bp):
AAATGACCGTAATACCCCTATAAGGTA
Found at i:32485074 original size:46 final size:46
Alignment explanation
Indices: 32485007--32485098 Score: 184
Period size: 46 Copynumber: 2.0 Consensus size: 46
32484997 AGGGCCTCCA
32485007 TGATATTTTTACTGGATTTACACAAGTATTAGTAAATTACTTTTTT
1 TGATATTTTTACTGGATTTACACAAGTATTAGTAAATTACTTTTTT
32485053 TGATATTTTTACTGGATTTACACAAGTATTAGTAAATTACTTTTTT
1 TGATATTTTTACTGGATTTACACAAGTATTAGTAAATTACTTTTTT
32485099 ATCATCGACT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.30, C:0.09, G:0.11, T:0.50
Consensus pattern (46 bp):
TGATATTTTTACTGGATTTACACAAGTATTAGTAAATTACTTTTTT
Found at i:32485410 original size:16 final size:17
Alignment explanation
Indices: 32485379--32485411 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
32485369 TAAATTTTAT
*
32485379 TGAAAATATACCAAAAA
1 TGAAAACATACCAAAAA
32485396 TGAAAACAT-CCAAAAA
1 TGAAAACATACCAAAAA
32485412 CTTGATATCT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.64, C:0.15, G:0.06, T:0.15
Consensus pattern (17 bp):
TGAAAACATACCAAAAA
Found at i:32487006 original size:17 final size:17
Alignment explanation
Indices: 32486973--32487011 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
32486963 TATAATGTAT
*
32486973 ATTATTAATTTTGGTTA
1 ATTATTAATTTTAGTTA
32486990 ATTAGTTAA-TTTAGTTA
1 ATTA-TTAATTTTAGTTA
32487007 ATTAT
1 ATTAT
32487012 AATAAGTGCT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
16 1 0.05
17 15 0.75
18 4 0.20
ACGTcount: A:0.33, C:0.00, G:0.10, T:0.56
Consensus pattern (17 bp):
ATTATTAATTTTAGTTA
Found at i:32491547 original size:40 final size:40
Alignment explanation
Indices: 32491501--32491576 Score: 152
Period size: 40 Copynumber: 1.9 Consensus size: 40
32491491 TTATGAAAGA
32491501 AAAATAATAAAAGAAAAGGGTTTATTACAAATAAAATAAT
1 AAAATAATAAAAGAAAAGGGTTTATTACAAATAAAATAAT
32491541 AAAATAATAAAAGAAAAGGGTTTATTACAAATAAAA
1 AAAATAATAAAAGAAAAGGGTTTATTACAAATAAAA
32491577 GGGTTTATTA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.63, C:0.03, G:0.11, T:0.24
Consensus pattern (40 bp):
AAAATAATAAAAGAAAAGGGTTTATTACAAATAAAATAAT
Found at i:32491578 original size:19 final size:19
Alignment explanation
Indices: 32491554--32491591 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
32491544 ATAATAAAAG
32491554 AAAAGGGTTTATTACAAAT
1 AAAAGGGTTTATTACAAAT
32491573 AAAAGGGTTTATTACAAAT
1 AAAAGGGTTTATTACAAAT
32491592 CTAATCGAGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.47, C:0.05, G:0.16, T:0.32
Consensus pattern (19 bp):
AAAAGGGTTTATTACAAAT
Found at i:32496679 original size:23 final size:23
Alignment explanation
Indices: 32496485--32496679 Score: 121
Period size: 23 Copynumber: 8.5 Consensus size: 23
32496475 TTAAGCACCG
* * * *
32496485 AAATTGAAGTGCTTAAATGCTAT
1 AAATTGAGGTGTTTAAGTGCTGT
* * *
32496508 AAATTGAAGTGTTTAACTACTGT
1 AAATTGAGGTGTTTAAGTGCTGT
* *
32496531 AAATTGAAGTGTTT-AGTTGCTGA
1 AAATTGAGGTGTTTAAG-TGCTGT
* *
32496554 AAATTGAGATGTTTTA-TCGCTGT
1 AAATTGAGGTGTTTAAGT-GCTGT
* * *
32496577 -AATTGAGGTGTATAAGTGTTAT
1 AAATTGAGGTGTTTAAGTGCTGT
* *
32496599 TAATTG-GGAT-TTTAAAGTGTTGT
1 AAATTGAGG-TGTTT-AAGTGCTGT
* * * *
32496622 AAGTTGAGGTTTTTAAATGTTGT
1 AAATTGAGGTGTTTAAGTGCTGT
* *
32496645 AAATTGAAGTGTTTAAGTGCTGC
1 AAATTGAGGTGTTTAAGTGCTGT
32496668 AAATTGAGGTGT
1 AAATTGAGGTGT
32496680 ACAAATGAGT
Statistics
Matches: 136, Mismatches: 27, Indels: 18
0.75 0.15 0.10
Matches are distributed among these distances:
22 21 0.15
23 109 0.80
24 6 0.04
ACGTcount: A:0.31, C:0.05, G:0.24, T:0.41
Consensus pattern (23 bp):
AAATTGAGGTGTTTAAGTGCTGT
Found at i:32497983 original size:22 final size:23
Alignment explanation
Indices: 32497957--32498072 Score: 89
Period size: 22 Copynumber: 5.0 Consensus size: 23
32497947 ATTTTCACAC
*
32497957 CAAAATTTGGACAGCATATATA-
1 CAAAATTTGGACAGCATATACAT
* *
32497979 CAAAATTTGGACTGCATTTCTACAT
1 CAAAATTTGGACAGCA--TATACAT
*
32498004 CAAAATTT-GACAGCATATGCAT
1 CAAAATTTGGACAGCATATACAT
* *
32498026 -ATATAA-TTGGACTGCATTTGTACAT
1 CA-A-AATTTGGACAGCA--TATACAT
32498051 CAAAATTT-GACAGCATATACAT
1 CAAAATTTGGACAGCATATACAT
32498073 TCATTTACTC
Statistics
Matches: 73, Mismatches: 11, Indels: 20
0.70 0.11 0.19
Matches are distributed among these distances:
21 1 0.01
22 29 0.40
23 8 0.11
24 18 0.25
25 16 0.22
26 1 0.01
ACGTcount: A:0.39, C:0.16, G:0.13, T:0.32
Consensus pattern (23 bp):
CAAAATTTGGACAGCATATACAT
Found at i:32498012 original size:25 final size:25
Alignment explanation
Indices: 32497979--32498059 Score: 80
Period size: 23 Copynumber: 3.4 Consensus size: 25
32497969 AGCATATATA
32497979 CAAAATTTGGACTGCATTTCTACAT
1 CAAAATTTGGACTGCATTTCTACAT
* * *
32498004 CAAAATTT-GACAGCATATGC-ATAT
1 CAAAATTTGGACTGCAT-TTCTACAT
* *
32498028 -ATAA-TTGGACTGCATTTGTACAT
1 CAAAATTTGGACTGCATTTCTACAT
32498051 CAAAATTTG
1 CAAAATTTG
32498060 ACAGCATATA
Statistics
Matches: 42, Mismatches: 9, Indels: 10
0.69 0.15 0.16
Matches are distributed among these distances:
22 3 0.07
23 13 0.31
24 13 0.31
25 13 0.31
ACGTcount: A:0.36, C:0.16, G:0.14, T:0.35
Consensus pattern (25 bp):
CAAAATTTGGACTGCATTTCTACAT
Found at i:32498017 original size:46 final size:45
Alignment explanation
Indices: 32497949--32498069 Score: 163
Period size: 47 Copynumber: 2.6 Consensus size: 45
32497939 TAGATAGCAT
*
32497949 TTTC-ACACCAAAATTTGGACAGCATATATACAAAATTTGGACTGCA
1 TTTCTACATCAAAATTT-GACAGCATATATACAAAA-TTGGACTGCA
* *
32497995 TTTCTACATCAAAATTTGACAGCATATGCATATATAATTGGACTGCA
1 TTTCTACATCAAAATTTGACAGCATAT--ATACAAAATTGGACTGCA
*
32498042 TTTGTACATCAAAATTTGACAGCATATA
1 TTTCTACATCAAAATTTGACAGCATATA
32498070 CATTCATTTA
Statistics
Matches: 68, Mismatches: 4, Indels: 7
0.86 0.05 0.09
Matches are distributed among these distances:
45 1 0.01
46 14 0.21
47 47 0.69
48 6 0.09
ACGTcount: A:0.38, C:0.17, G:0.12, T:0.32
Consensus pattern (45 bp):
TTTCTACATCAAAATTTGACAGCATATATACAAAATTGGACTGCA
Found at i:32498057 original size:24 final size:24
Alignment explanation
Indices: 32497944--32498066 Score: 83
Period size: 24 Copynumber: 5.2 Consensus size: 24
32497934 CAAACTAGAT
*
32497944 AGCATTT-TCACACCAAAATTTGGAC
1 AGCATTTGT-ACATCAAAA-TTGGAC
* * *
32497969 AGCATATATACA--AAATTTGGAC
1 AGCATTTGTACATCAAAATTGGAC
* * *
32497991 TGCATTTCTACATCAAAATTTGAC
1 AGCATTTGTACATCAAAATTGGAC
* * * *
32498015 AGCATATGCATAT-ATAATTGGAC
1 AGCATTTGTACATCAAAATTGGAC
* *
32498038 TGCATTTGTACATCAAAATTTGAC
1 AGCATTTGTACATCAAAATTGGAC
32498062 AGCAT
1 AGCAT
32498067 ATACATTCAT
Statistics
Matches: 73, Mismatches: 21, Indels: 9
0.71 0.20 0.09
Matches are distributed among these distances:
22 15 0.21
23 20 0.27
24 28 0.38
25 9 0.12
26 1 0.01
ACGTcount: A:0.37, C:0.18, G:0.13, T:0.32
Consensus pattern (24 bp):
AGCATTTGTACATCAAAATTGGAC
Found at i:32498329 original size:14 final size:15
Alignment explanation
Indices: 32498291--32498339 Score: 55
Period size: 15 Copynumber: 3.2 Consensus size: 15
32498281 TCACCATGCA
* *
32498291 CATATATATACATTAC
1 CATATAAATAC-TAAC
32498307 CATATAAATACTAAC
1 CATATAAATACTAAC
32498322 CATA-AAATACTAATC
1 CATATAAATACTAA-C
32498337 CAT
1 CAT
32498340 GATTAAAGTA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
14 9 0.30
15 11 0.37
16 10 0.33
ACGTcount: A:0.49, C:0.20, G:0.00, T:0.31
Consensus pattern (15 bp):
CATATAAATACTAAC
Found at i:32499054 original size:43 final size:43
Alignment explanation
Indices: 32498994--32499116 Score: 144
Period size: 43 Copynumber: 2.9 Consensus size: 43
32498984 TACAATGCCA
* * * * *
32498994 ACGTCCTAGATGTGGTCTTACATGTAATCACATATCGATG-CC
1 ACGTCCCAGACGTGGTCTTACACGAAAACACATATCGATGTCC
*
32499036 ACTGTCCCAGACAG-GGTCTTACACGAAAACACA-AGTCGATGTCG
1 AC-GTCCCAGAC-GTGGTCTTACACGAAAACACATA-TCGATGTCC
32499080 ACGTCCCAGACGTGGTCTTACACGAAAACACATATCG
1 ACGTCCCAGACGTGGTCTTACACGAAAACACATATCG
32499117 GAGTCCTATG
Statistics
Matches: 69, Mismatches: 6, Indels: 11
0.80 0.07 0.13
Matches are distributed among these distances:
42 4 0.06
43 60 0.87
44 5 0.07
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (43 bp):
ACGTCCCAGACGTGGTCTTACACGAAAACACATATCGATGTCC
Found at i:32505650 original size:22 final size:22
Alignment explanation
Indices: 32505622--32505925 Score: 202
Period size: 24 Copynumber: 13.0 Consensus size: 22
32505612 ATTTGCACAC
*
32505622 CAAAATTTAGACAGCATATATA-
1 CAAAATTT-GACAGCATATACAT
*
32505644 CAAAATTTGGACTGCATTTATACAT
1 CAAAATTT-GACAGCA--TATACAT
*
32505669 CAAAATTTGACAGCATATGCAT
1 CAAAATTTGACAGCATATACAT
* *
32505691 -ATATAATTGGACTGCATTTATACAT
1 CA-A-AATTTGACAGCA--TATACAT
32505716 CAAAATTTGACAGCATATACAT
1 CAAAATTTGACAGCATATACAT
* * * *
32505738 AAATAATTGGACTGCATTTGTACAT
1 CAA-AATTTGACAGCA--TATACAT
32505763 CAAAATTTGACAGCATATACAT
1 CAAAATTTGACAGCATATACAT
* * * *
32505785 ACATAATTGGACTGCATTTGTACAT
1 -CAAAATTTGACAGCA--TATACAT
32505810 CAAAATTTGACAGCATATACAT
1 CAAAATTTGACAGCATATACAT
* *
32505832 -ATATAATTGGACTGCATTTATACAT
1 CA-A-AATTTGACAGCA--TATACAT
*
32505857 CAAAATTTGATAGCATATACAT
1 CAAAATTTGACAGCATATACAT
* * *
32505879 -ATATAATTGGACTGCATTTGTACAT
1 CA-A-AATTTGACAGCA--TATACAT
*
32505904 CAAAATTTGACATCATATACAT
1 CAAAATTTGACAGCATATACAT
32505926 TCATTTACTC
Statistics
Matches: 219, Mismatches: 39, Indels: 48
0.72 0.13 0.16
Matches are distributed among these distances:
21 3 0.01
22 57 0.26
23 51 0.23
24 61 0.28
25 44 0.20
26 3 0.01
ACGTcount: A:0.40, C:0.15, G:0.12, T:0.33
Consensus pattern (22 bp):
CAAAATTTGACAGCATATACAT
Found at i:32505922 original size:47 final size:47
Alignment explanation
Indices: 32505610--32505925 Score: 492
Period size: 47 Copynumber: 6.7 Consensus size: 47
32505600 AAACTAGATA
* * * *
32505610 GCATTTGCACACCAAAATTTAGACAGCATAT--ATACAAAATTTGGACT
1 GCATTTGTACATCAAAATTT-GACAGCATATACATATATAA-TTGGACT
* *
32505657 GCATTTATACATCAAAATTTGACAGCATATGCATATATAATTGGACT
1 GCATTTGTACATCAAAATTTGACAGCATATACATATATAATTGGACT
* *
32505704 GCATTTATACATCAAAATTTGACAGCATATACATAAATAATTGGACT
1 GCATTTGTACATCAAAATTTGACAGCATATACATATATAATTGGACT
*
32505751 GCATTTGTACATCAAAATTTGACAGCATATACATACATAATTGGACT
1 GCATTTGTACATCAAAATTTGACAGCATATACATATATAATTGGACT
32505798 GCATTTGTACATCAAAATTTGACAGCATATACATATATAATTGGACT
1 GCATTTGTACATCAAAATTTGACAGCATATACATATATAATTGGACT
* *
32505845 GCATTTATACATCAAAATTTGATAGCATATACATATATAATTGGACT
1 GCATTTGTACATCAAAATTTGACAGCATATACATATATAATTGGACT
*
32505892 GCATTTGTACATCAAAATTTGACATCATATACAT
1 GCATTTGTACATCAAAATTTGACAGCATATACAT
32505926 TCATTTACTC
Statistics
Matches: 252, Mismatches: 15, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
46 10 0.04
47 236 0.94
48 6 0.02
ACGTcount: A:0.40, C:0.16, G:0.12, T:0.33
Consensus pattern (47 bp):
GCATTTGTACATCAAAATTTGACAGCATATACATATATAATTGGACT
Found at i:32506184 original size:14 final size:15
Alignment explanation
Indices: 32506160--32506194 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
32506150 TATATACATT
32506160 ACCATATAAATACTA
1 ACCATATAAATACTA
32506175 ACCATA-AAATACTA
1 ACCATATAAATACTA
32506189 ATCCAT
1 A-CCAT
32506195 GATTAAAGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 9 0.47
15 10 0.53
ACGTcount: A:0.51, C:0.23, G:0.00, T:0.26
Consensus pattern (15 bp):
ACCATATAAATACTA
Found at i:32506908 original size:43 final size:43
Alignment explanation
Indices: 32506848--32506970 Score: 144
Period size: 43 Copynumber: 2.9 Consensus size: 43
32506838 TACAATGCCA
* * * * *
32506848 ACGTCCTAGATGTGGTCTTACATGTAATCACATATCGATG-CC
1 ACGTCCCAGAAGTGGTCTTACACGAAAACACATATCGATGTCC
*
32506890 ACTGTCCCAGACAG-GGTCTTACACGAAAACACA-AGTCGATGTCG
1 AC-GTCCCAGA-AGTGGTCTTACACGAAAACACATA-TCGATGTCC
32506934 ACGTCCCAGAAGTGGTCTTACACGAAAACACATATCG
1 ACGTCCCAGAAGTGGTCTTACACGAAAACACATATCG
32506971 GAGTCCTATG
Statistics
Matches: 69, Mismatches: 6, Indels: 11
0.80 0.07 0.13
Matches are distributed among these distances:
42 5 0.07
43 59 0.86
44 5 0.07
ACGTcount: A:0.31, C:0.26, G:0.20, T:0.23
Consensus pattern (43 bp):
ACGTCCCAGAAGTGGTCTTACACGAAAACACATATCGATGTCC
Found at i:32511755 original size:75 final size:75
Alignment explanation
Indices: 32511666--32511875 Score: 291
Period size: 75 Copynumber: 2.8 Consensus size: 75
32511656 TTGATCTACC
** *
32511666 ATACTTAAATTATAAATTTATTTATTAAATCTAGATTATTAAATTATAAGTTGAGCTTTACGT-A
1 ATACTTAAATTATAAATTTAACTATTAAATCTA-AATATTAAATTATAAGTTGAGCTTTACGTCA
32511730 GACAT-TTTTAA
65 -ACATCTTTTAA
*
32511741 ATACTTAAATTATAAATTTAACTATTAAATATTAAATATTAAATTATAAGTTGAGCTTTACGTCA
1 ATACTTAAATTATAAATTTAACTATTAAAT-CTAAATATTAAATTATAAGTTGAGCTTTACGTCA
*
32511806 ACATCTTTTTA
65 ACATCTTTTAA
* * *
32511817 ATATTTAAATTATAAA-TTAACTATTAAACCTAAAATATTAAATTTTAAGTTGAGCTTTA
1 ATACTTAAATTATAAATTTAACTATTAAATCT-AAATATTAAATTATAAGTTGAGCTTTA
32511876 TATTAATATT
Statistics
Matches: 122, Mismatches: 9, Indels: 8
0.88 0.06 0.06
Matches are distributed among these distances:
74 1 0.01
75 98 0.80
76 23 0.19
ACGTcount: A:0.42, C:0.08, G:0.06, T:0.44
Consensus pattern (75 bp):
ATACTTAAATTATAAATTTAACTATTAAATCTAAATATTAAATTATAAGTTGAGCTTTACGTCAA
CATCTTTTAA
Found at i:32511768 original size:7 final size:7
Alignment explanation
Indices: 32511737--32511784 Score: 55
Period size: 7 Copynumber: 6.9 Consensus size: 7
32511727 GTAGACATTT
32511737 TTAAATA
1 TTAAATA
32511744 CTTAAAT-
1 -TTAAATA
32511751 TATAAAT-
1 T-TAAATA
*
32511758 TTAACTA
1 TTAAATA
32511765 TTAAATA
1 TTAAATA
32511772 TTAAATA
1 TTAAATA
32511779 TTAAAT
1 TTAAAT
32511785 TATAAGTTGA
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
6 5 0.14
7 25 0.69
8 6 0.17
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.44
Consensus pattern (7 bp):
TTAAATA
Found at i:32514368 original size:23 final size:23
Alignment explanation
Indices: 32514342--32514392 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
32514332 ATTGATATTC
*
32514342 TGATCTGTATCGTTCTAGG-TATA
1 TGATCTGTATCATTCT-GGTTATA
* *
32514365 TGATTTGTTTCATTCTGGTTATA
1 TGATCTGTATCATTCTGGTTATA
32514388 TGATC
1 TGATC
32514393 ACTATTAAGT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
22 2 0.09
23 21 0.91
ACGTcount: A:0.20, C:0.12, G:0.20, T:0.49
Consensus pattern (23 bp):
TGATCTGTATCATTCTGGTTATA
Found at i:32519931 original size:20 final size:20
Alignment explanation
Indices: 32519914--32519984 Score: 72
Period size: 20 Copynumber: 3.5 Consensus size: 20
32519904 ACCAAAAATT
32519914 TATTTTAAAAATTTAAAAAA
1 TATTTTAAAAATTTAAAAAA
**
32519934 TATTTTAAAAATATTTTAAAA
1 TATTTTAAAAAT-TTAAAAAA
*** *
32519955 T-TAAAAAAAATTTAAAAAG
1 TATTTTAAAAATTTAAAAAA
32519974 TATTTTAAAAA
1 TATTTTAAAAA
32519985 GTATTTTAAA
Statistics
Matches: 38, Mismatches: 11, Indels: 4
0.72 0.21 0.08
Matches are distributed among these distances:
19 6 0.16
20 25 0.66
21 7 0.18
ACGTcount: A:0.59, C:0.00, G:0.01, T:0.39
Consensus pattern (20 bp):
TATTTTAAAAATTTAAAAAA
Found at i:32519940 original size:12 final size:12
Alignment explanation
Indices: 32519925--32519995 Score: 59
Period size: 12 Copynumber: 6.6 Consensus size: 12
32519915 ATTTTAAAAA
32519925 TTTAAAAAATAT
1 TTTAAAAAATAT
32519937 TTT-AAAAATAT
1 TTTAAAAAATAT
32519948 TTT---AAA-A-
1 TTTAAAAAATAT
*
32519955 -TTAAAAAA-AA
1 TTTAAAAAATAT
*
32519965 TTTAAAAAGTAT
1 TTTAAAAAATAT
*
32519977 TTTAAAAAGTAT
1 TTTAAAAAATAT
32519989 TTTAAAA
1 TTTAAAA
32519996 TTAAAAAATA
Statistics
Matches: 51, Mismatches: 2, Indels: 12
0.78 0.03 0.18
Matches are distributed among these distances:
6 2 0.04
8 1 0.02
9 7 0.14
11 18 0.35
12 23 0.45
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (12 bp):
TTTAAAAAATAT
Found at i:32519943 original size:11 final size:11
Alignment explanation
Indices: 32519914--32520036 Score: 79
Period size: 11 Copynumber: 11.9 Consensus size: 11
32519904 ACCAAAAATT
32519914 TATTTT-AAAA
1 TATTTTAAAAA
*
32519924 -ATTTAAAAAA
1 TATTTTAAAAA
32519934 TATTTTAAAAA
1 TATTTTAAAAA
32519945 TATTTT--AAA
1 TATTTTAAAAA
32519954 -A--TTAAAAA
1 TATTTTAAAAA
* *
32519962 AAATTTAAAAA
1 TATTTTAAAAA
32519973 GTATTTTAAAAA
1 -TATTTTAAAAA
32519985 GTATTTT--AAA
1 -TATTTTAAAAA
*
32519995 -A-TTAAAAAA
1 TATTTTAAAAA
* **
32520004 TAATAAAAAAA
1 TATTTTAAAAA
32520015 GTATTTTAAAAA
1 -TATTTTAAAAA
32520027 TATTTTAAAA
1 TATTTTAAAA
32520037 TTAAAAAAAT
Statistics
Matches: 91, Mismatches: 9, Indels: 25
0.73 0.07 0.20
Matches are distributed among these distances:
6 2 0.02
7 2 0.02
8 5 0.05
9 11 0.12
10 8 0.09
11 39 0.43
12 24 0.26
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.38
Consensus pattern (11 bp):
TATTTTAAAAA
Found at i:32519960 original size:17 final size:17
Alignment explanation
Indices: 32519938--32519971 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
32519928 AAAAAATATT
* *
32519938 TTAAAAATATTTTAAAA
1 TTAAAAAAAATTTAAAA
32519955 TTAAAAAAAATTTAAAA
1 TTAAAAAAAATTTAAAA
32519972 AGTATTTTAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (17 bp):
TTAAAAAAAATTTAAAA
Found at i:32520002 original size:30 final size:31
Alignment explanation
Indices: 32519961--32520025 Score: 87
Period size: 30 Copynumber: 2.1 Consensus size: 31
32519951 AAAATTAAAA
* * **
32519961 AAAATTTAAAAAGTATTTTAAAAAGTATTTT
1 AAAATTTAAAAAATAATAAAAAAAGTATTTT
32519992 AAAA-TTAAAAAATAATAAAAAAAGTATTTT
1 AAAATTTAAAAAATAATAAAAAAAGTATTTT
32520022 AAAA
1 AAAA
32520026 ATATTTTAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
30 26 0.87
31 4 0.13
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.34
Consensus pattern (31 bp):
AAAATTTAAAAAATAATAAAAAAAGTATTTT
Found at i:32520002 original size:41 final size:40
Alignment explanation
Indices: 32519920--32520053 Score: 209
Period size: 41 Copynumber: 3.4 Consensus size: 40
32519910 AATTTATTTT
*
32519920 AAAAATTTAAAAAA-TATTTTAAAAATATTTTAAAATTAA
1 AAAAAATTAAAAAAGTATTTTAAAAATATTTTAAAATTAA
*
32519959 AAAAAATTTAAAAAGTATTTTAAAAAGTATTTTAAAATTAA
1 AAAAAATTAAAAAAGTATTTTAAAAA-TATTTTAAAATTAA
*
32520000 AAAATAATAAAAAAAGTATTTTAAAAATATTTTAAAATT-A
1 AAAA-AATTAAAAAAGTATTTTAAAAATATTTTAAAATTAA
32520040 AAAAAATTAAAAAA
1 AAAAAATTAAAAAA
32520054 TAAATATATT
Statistics
Matches: 87, Mismatches: 5, Indels: 6
0.89 0.05 0.06
Matches are distributed among these distances:
39 21 0.24
40 16 0.18
41 30 0.34
42 20 0.23
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.34
Consensus pattern (40 bp):
AAAAAATTAAAAAAGTATTTTAAAAATATTTTAAAATTAA
Found at i:32521135 original size:23 final size:23
Alignment explanation
Indices: 32521085--32521135 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 23
32521075 GTTGATATTT
*
32521085 TGATATGTTGTGTTCTAGGTATA
1 TGATCTGTTGTGTTCTAGGTATA
*
32521108 TGATCTGTTTTGTTCT-GGTTATA
1 TGATCTGTTGTGTTCTAGG-TATA
32521131 TGATC
1 TGATC
32521136 ACTATTAAGT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 2 0.08
23 23 0.92
ACGTcount: A:0.18, C:0.08, G:0.24, T:0.51
Consensus pattern (23 bp):
TGATCTGTTGTGTTCTAGGTATA
Found at i:32521831 original size:24 final size:24
Alignment explanation
Indices: 32521803--32521854 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
32521793 TTTGTAGGTC
* *
32521803 AAATAAATTATGCTAATAAATGCT
1 AAATAAATTATACTAATAAATACT
* *
32521827 AAATATATTATACTAATACATACT
1 AAATAAATTATACTAATAAATACT
32521851 AAAT
1 AAAT
32521855 CTTGTAGAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.52, C:0.10, G:0.04, T:0.35
Consensus pattern (24 bp):
AAATAAATTATACTAATAAATACT
Found at i:32523751 original size:24 final size:24
Alignment explanation
Indices: 32523718--32523769 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
32523708 TTCGCAGGTC
* *
32523718 AAATAAATTATACTAATAAATGCT
1 AAATAAATTATACTAAAAAATACT
* *
32523742 AAATATATTATATTAAAAAATACT
1 AAATAAATTATACTAAAAAATACT
32523766 AAAT
1 AAAT
32523770 CTTCTAGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.58, C:0.06, G:0.02, T:0.35
Consensus pattern (24 bp):
AAATAAATTATACTAAAAAATACT
Found at i:32530516 original size:26 final size:26
Alignment explanation
Indices: 32530480--32530541 Score: 88
Period size: 26 Copynumber: 2.4 Consensus size: 26
32530470 CTTGTAAGTG
32530480 TTCTGAAACTGATACATGCTATGATA
1 TTCTGAAACTGATACATGCTATGATA
* * *
32530506 TTCTGAAACTGGTATATGTTATGATA
1 TTCTGAAACTGATACATGCTATGATA
*
32530532 TTTTGAAACT
1 TTCTGAAACT
32530542 ACTGTAGATA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.32, C:0.11, G:0.16, T:0.40
Consensus pattern (26 bp):
TTCTGAAACTGATACATGCTATGATA
Found at i:32539632 original size:30 final size:31
Alignment explanation
Indices: 32539547--32539632 Score: 106
Period size: 30 Copynumber: 2.9 Consensus size: 31
32539537 GTGATTGAAT
* *
32539547 TGTGATCGATTACAGGGTATGAA-ATACAAA
1 TGTGAACGATTACAGGGTATGAATATGCAAA
* *
32539577 TGTGACCGATTACAGAGTATG-ATATGCAAA
1 TGTGAACGATTACAGGGTATGAATATGCAAA
*
32539607 TGTGAATGA-TACAGGGTATGAATATG
1 TGTGAACGATTACAGGGTATGAATATG
32539633 TTAAGAAATA
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
29 11 0.23
30 37 0.77
ACGTcount: A:0.37, C:0.09, G:0.26, T:0.28
Consensus pattern (31 bp):
TGTGAACGATTACAGGGTATGAATATGCAAA
Done.