Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr9
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: 91122320
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2661692 characters in sequence are not A, C, G, or T
File 3 of 279
Found at i:608953 original size:27 final size:27
Alignment explanation
Indices: 608923--608999 Score: 84
Period size: 27 Copynumber: 2.9 Consensus size: 27
608913 CCTATAGGGT
*
608923 AAAATGACAATTTTTCCCTTATGTATA
1 AAAATGACAATTTTGCCCTTATGTATA
* * * *
608950 AAAATAACTATTTTGCCCTTATGTGTT
1 AAAATGACAATTTTGCCCTTATGTATA
**
608977 AAAATGACAGGTTTG-CCTTATGT
1 AAAATGACAATTTTGCCCTTATGT
609000 GGCAAAATGA
Statistics
Matches: 41, Mismatches: 9, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
26 8 0.20
27 33 0.80
ACGTcount: A:0.32, C:0.14, G:0.13, T:0.40
Consensus pattern (27 bp):
AAAATGACAATTTTGCCCTTATGTATA
Found at i:609017 original size:26 final size:26
Alignment explanation
Indices: 608960--609019 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 26
608950 AAAATAACTA
**
608960 TTTTGCCCTTATGTGTTAAAATGACAG
1 TTTTG-CCTTATGTGGCAAAATGACAG
* **
608987 GTTTGCCTTATGTGGCAAAATGATTG
1 TTTTGCCTTATGTGGCAAAATGACAG
609013 TTTTGCC
1 TTTTGCC
609020 CCTATGTGAT
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
26 23 0.85
27 4 0.15
ACGTcount: A:0.22, C:0.15, G:0.22, T:0.42
Consensus pattern (26 bp):
TTTTGCCTTATGTGGCAAAATGACAG
Found at i:610173 original size:35 final size:35
Alignment explanation
Indices: 610134--610203 Score: 104
Period size: 35 Copynumber: 2.0 Consensus size: 35
610124 TCTCCGGAGC
* *
610134 TTGGAAAATATGGAAAGTAATCTTTAAAGATATGT
1 TTGGAAAATATGGAAAGGAATCTTCAAAGATATGT
* *
610169 TTGGAAAATATGGAAGGGGATCTTCAAAGATATGT
1 TTGGAAAATATGGAAAGGAATCTTCAAAGATATGT
610204 GATCCTAGAC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.40, C:0.04, G:0.24, T:0.31
Consensus pattern (35 bp):
TTGGAAAATATGGAAAGGAATCTTCAAAGATATGT
Found at i:617515 original size:39 final size:39
Alignment explanation
Indices: 617471--617746 Score: 498
Period size: 39 Copynumber: 7.1 Consensus size: 39
617461 ATGCAAGACA
617471 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
* *
617510 CTGGAAATATATCCGGGCCAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
617549 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
617588 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
*
617627 CTGGAAATGTATCCGGGCCAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
*
617666 CTGGAAATGTATCCGGGCCAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
* *
617705 CTGGAAATGTATCCGGGTTAAAGTCCCGCAGGCTTTGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
617744 CTG
1 CTG
617747 ATAATATAAT
Statistics
Matches: 229, Mismatches: 8, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 229 1.00
ACGTcount: A:0.21, C:0.26, G:0.30, T:0.23
Consensus pattern (39 bp):
CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
Found at i:623396 original size:39 final size:39
Alignment explanation
Indices: 623342--623496 Score: 283
Period size: 39 Copynumber: 4.0 Consensus size: 39
623332 AAGACACTGA
623342 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
623381 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
* *
623420 AAATATATCCGGGCCAAAGTCCCGCAGGCTTCGTGCTGG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
*
623459 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTTGTGCTG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTG
623497 ATAATATAAT
Statistics
Matches: 111, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 111 1.00
ACGTcount: A:0.21, C:0.26, G:0.30, T:0.23
Consensus pattern (39 bp):
AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
Found at i:629149 original size:39 final size:39
Alignment explanation
Indices: 629105--629380 Score: 525
Period size: 39 Copynumber: 7.1 Consensus size: 39
629095 ATGCAAGACA
629105 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
629144 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
629183 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
629222 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
629261 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
*
629300 CTGGAAATGTATCCGGGCCAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
* *
629339 CTGGAAATGTATCCGGGTTAAAGTCCCGCAGGCTTTGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
629378 CTG
1 CTG
629381 ATAATATAAT
Statistics
Matches: 233, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 233 1.00
ACGTcount: A:0.20, C:0.25, G:0.31, T:0.24
Consensus pattern (39 bp):
CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
Found at i:638952 original size:51 final size:51
Alignment explanation
Indices: 638876--639172 Score: 286
Period size: 50 Copynumber: 5.9 Consensus size: 51
638866 TTTTTTCGCA
* *
638876 TGTGTAGTACTAAGTGCAGGCTACTATGCATACCCGATAACTTTGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTATGCATACCAGATAACTTTGGTCACG
** * ** *
638927 TGTGTAGTACTAAGTGCAAACTACTACGTGTATA--AGAT-GGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTA--TGCATACCAGATAACTTTGGTCACG
* *
638977 TGTGTAGTACTAAGTGCAGGCTACTATGCATACCCGATAACTTTGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTATGCATACCAGATAACTTTGGTCACG
** * ** *
639028 TGTGTAGTACTAAGTGCAAACTACTACGTGTATA--AGAT-GGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTA--TGCATACCAGATAACTTTGGTCACG
* ** * * *
639078 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA--TTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTATGCATACCAGATAACTTTGGTCACG
* *
639127 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAGCTTTGG
1 TGTGTAGTACTAAGTGCAGGCTACTATGCATACCAGATAACTTTGG
639173 CTACAACTGT
Statistics
Matches: 197, Mismatches: 37, Indels: 24
0.76 0.14 0.09
Matches are distributed among these distances:
48 9 0.05
49 42 0.21
50 70 0.36
51 66 0.34
53 10 0.05
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (51 bp):
TGTGTAGTACTAAGTGCAGGCTACTATGCATACCAGATAACTTTGGTCACG
Found at i:639000 original size:101 final size:101
Alignment explanation
Indices: 638876--639144 Score: 461
Period size: 101 Copynumber: 2.7 Consensus size: 101
638866 TTTTTTCGCA
638876 TGTGTAGTACTAAGTGCAGGCTACTATGCATACCCGATAACTTTGATCACGTGTGTAGTACTAAG
1 TGTGTAGTACTAAGTGCAGGCTACTATGCATACCCGATAACTTTGATCACGTGTGTAGTACTAAG
638941 TGCAAACTACTACGTGTATAAGATGGTTAGGTCACG
66 TGCAAACTACTACGTGTATAAGATGGTTAGGTCACG
638977 TGTGTAGTACTAAGTGCAGGCTACTATGCATACCCGATAACTTTGATCACGTGTGTAGTACTAAG
1 TGTGTAGTACTAAGTGCAGGCTACTATGCATACCCGATAACTTTGATCACGTGTGTAGTACTAAG
639042 TGCAAACTACTACGTGTATAAGATGGTTAGGTCACG
66 TGCAAACTACTACGTGTATAAGATGGTTAGGTCACG
* ** * * * *
639078 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA--TTGGTCGCATGTGTAGTACTAAG
1 TGTGTAGTACTAAGTGCAGGCTACTATGCATACCCGATAACTTTGATCACGTGTGTAGTACTAAG
639141 TGCA
66 TGCA
639145 GGCTACTATG
Statistics
Matches: 161, Mismatches: 7, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
99 24 0.15
101 137 0.85
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.30
Consensus pattern (101 bp):
TGTGTAGTACTAAGTGCAGGCTACTATGCATACCCGATAACTTTGATCACGTGTGTAGTACTAAG
TGCAAACTACTACGTGTATAAGATGGTTAGGTCACG
Found at i:642751 original size:22 final size:22
Alignment explanation
Indices: 642723--642766 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
642713 AGGCACCGCA
*
642723 AACACAAACTATCAAATATACC
1 AACACAAACAATCAAATATACC
642745 AACACAAACAATCAAATATACC
1 AACACAAACAATCAAATATACC
642767 TAACTATAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.57, C:0.27, G:0.00, T:0.16
Consensus pattern (22 bp):
AACACAAACAATCAAATATACC
Found at i:649405 original size:28 final size:28
Alignment explanation
Indices: 649373--649428 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
649363 AATTTTGGGG
649373 GAAAGAATTTGACTTTGGGGTTGGTATA
1 GAAAGAATTTGACTTTGGGGTTGGTATA
649401 GAAAGAATTTGACTTTGGGGTTGGTATA
1 GAAAGAATTTGACTTTGGGGTTGGTATA
649429 CTGATTCCCT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.29, C:0.04, G:0.32, T:0.36
Consensus pattern (28 bp):
GAAAGAATTTGACTTTGGGGTTGGTATA
Found at i:651313 original size:16 final size:16
Alignment explanation
Indices: 651292--651334 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
651282 GTAGATCGAC
*
651292 AAAAGCCGAATTGCCA
1 AAAAGCCGAAATGCCA
* *
651308 AAAAGCTGAAATGCCG
1 AAAAGCCGAAATGCCA
*
651324 AAAAGCTGAAA
1 AAAAGCCGAAA
651335 GTTTGGCTAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.49, C:0.19, G:0.21, T:0.12
Consensus pattern (16 bp):
AAAAGCCGAAATGCCA
Found at i:651608 original size:29 final size:29
Alignment explanation
Indices: 651527--651659 Score: 139
Period size: 29 Copynumber: 4.7 Consensus size: 29
651517 GTGAGCATGA
* * *
651527 ATAT-AATGTGATTTGGGCCAGATGGGCC
1 ATATGAATGTGAATTGGGCCTGATGGGCT
* * *
651555 ATATGAACGAG-ATTGGGCCTAATGGGCT
1 ATATGAATGTGAATTGGGCCTGATGGGCT
*
651583 ATATGAATGTGAATTGGGCCTGATGGGCA
1 ATATGAATGTGAATTGGGCCTGATGGGCT
*
651612 ATATGAATGTGAATTGGGCCGGATGGG-T
1 ATATGAATGTGAATTGGGCCTGATGGGCT
* *
651640 CATATAAATGAG-ATTGGGCC
1 -ATATGAATGTGAATTGGGCC
651660 AAGTGGGTCA
Statistics
Matches: 88, Mismatches: 14, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
28 34 0.39
29 54 0.61
ACGTcount: A:0.28, C:0.12, G:0.33, T:0.27
Consensus pattern (29 bp):
ATATGAATGTGAATTGGGCCTGATGGGCT
Found at i:651656 original size:57 final size:57
Alignment explanation
Indices: 651539--651660 Score: 140
Period size: 57 Copynumber: 2.1 Consensus size: 57
651529 ATAATGTGAT
* * * *
651539 TTGGGCCAGATGGGCCATATGAACGAGATTGGGCCTAATGGGCTATATGAATGTGAA
1 TTGGGCCAGATGGGCAATATGAACGAGATTGGGCCGAATGGGCTATATAAATGAGAA
* * * *
651596 TTGGGCCTGATGGGCAATATGAATGTGAATTGGGCCGGATGGG-TCATATAAATGAG-A
1 TTGGGCCAGATGGGCAATATGAACGAG-ATTGGGCCGAATGGGCT-ATATAAATGAGAA
651653 TTGGGCCA
1 TTGGGCCA
651661 AGTGGGTCAT
Statistics
Matches: 54, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
57 32 0.59
58 22 0.41
ACGTcount: A:0.27, C:0.13, G:0.34, T:0.25
Consensus pattern (57 bp):
TTGGGCCAGATGGGCAATATGAACGAGATTGGGCCGAATGGGCTATATAAATGAGAA
Found at i:654237 original size:10 final size:10
Alignment explanation
Indices: 654222--654247 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
654212 AAACACCCAG
654222 AGTTTGAATA
1 AGTTTGAATA
654232 AGTTTGAATA
1 AGTTTGAATA
654242 AGTTTG
1 AGTTTG
654248 TTGTTAGCTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.35, C:0.00, G:0.23, T:0.42
Consensus pattern (10 bp):
AGTTTGAATA
Found at i:655810 original size:28 final size:28
Alignment explanation
Indices: 655715--655809 Score: 104
Period size: 28 Copynumber: 3.4 Consensus size: 28
655705 TTATTTACTT
* *
655715 GTAAAATGACCGAAATACCCCCCAG-AAG
1 GTAAAATGACTGAAATA-CCCCCTGTAAG
* * * *
655743 ATAAAATGAATGAAATA-CACCTGTAGG
1 GTAAAATGACTGAAATACCCCCTGTAAG
*
655770 GTAAAATGACTGTAATACCCCCTGTAAG
1 GTAAAATGACTGAAATACCCCCTGTAAG
655798 GTAAAATGACTG
1 GTAAAATGACTG
655810 TTTTGCCCTT
Statistics
Matches: 54, Mismatches: 11, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
26 4 0.07
27 16 0.30
28 34 0.63
ACGTcount: A:0.42, C:0.19, G:0.19, T:0.20
Consensus pattern (28 bp):
GTAAAATGACTGAAATACCCCCTGTAAG
Found at i:655839 original size:27 final size:27
Alignment explanation
Indices: 655797--655986 Score: 197
Period size: 27 Copynumber: 7.0 Consensus size: 27
655787 CCCCCTGTAA
655797 GGTAAAATGACTGTTTTGCCCTTATGT
1 GGTAAAATGACTGTTTTGCCCTTATGT
* * *
655824 GTTAAAATGACAGTTTTGCCCTTATAT
1 GGTAAAATGACTGTTTTGCCCTTATGT
* * *
655851 GGAAAAATAACTTTTTTGCCCTTATGT
1 GGTAAAATGACTGTTTTGCCCTTATGT
* * *
655878 GTTAAAATGA-TGGTTTTTCCATTATGT
1 GGTAAAATGACT-GTTTTGCCCTTATGT
* *
655905 GGTAAAATGAC-GATTTTGCCTTTATGA
1 GGTAAAATGACTG-TTTTGCCCTTATGT
* *
655932 AGTAAAATGACTATTTTGCCCTTATGT
1 GGTAAAATGACTGTTTTGCCCTTATGT
**
655959 GGTAGGATGACTGTTTTGTCCC-TATGT
1 GGTAAAATGACTGTTTTG-CCCTTATGT
655986 G
1 G
655987 ATGTATGTTT
Statistics
Matches: 131, Mismatches: 27, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
26 2 0.02
27 126 0.96
28 3 0.02
ACGTcount: A:0.26, C:0.13, G:0.20, T:0.41
Consensus pattern (27 bp):
GGTAAAATGACTGTTTTGCCCTTATGT
Found at i:662493 original size:27 final size:27
Alignment explanation
Indices: 662463--662625 Score: 134
Period size: 27 Copynumber: 6.0 Consensus size: 27
662453 CCTTGTAAGG
*
662463 TAAAATAACTGTTTTTCCCTTATGTGA
1 TAAAATAACTGTTTTGCCCTTATGTGA
*
662490 TAAAA-AGAC-GATTTTGCCTTTATGTGGA
1 TAAAATA-ACTG-TTTTGCCCTTATGT-GA
* * * *
662518 -AAAATGACTATTTTACCCTTATGTGT
1 TAAAATAACTGTTTTGCCCTTATGTGA
* **
662544 TAAAATAACAGTTTTGCCCTTATGAAA
1 TAAAATAACTGTTTTGCCCTTATGTGA
* * *
662571 TAAAATGACTATTTTGCCCTTATGTGG
1 TAAAATAACTGTTTTGCCCTTATGTGA
** * *
662598 TAGGATGACTGTTTTGCCCCTATGTGA
1 TAAAATAACTGTTTTGCCCTTATGTGA
662625 T
1 T
662626 GTATGTTTAT
Statistics
Matches: 105, Mismatches: 25, Indels: 12
0.74 0.18 0.08
Matches are distributed among these distances:
26 3 0.03
27 100 0.95
28 2 0.02
ACGTcount: A:0.29, C:0.15, G:0.17, T:0.39
Consensus pattern (27 bp):
TAAAATAACTGTTTTGCCCTTATGTGA
Found at i:662538 original size:54 final size:54
Alignment explanation
Indices: 662463--662596 Score: 148
Period size: 54 Copynumber: 2.5 Consensus size: 54
662453 CCTTGTAAGG
* * * * **
662463 TAAAATAACTGTTTTTCCCTTATGTGATAAAA-AGAC-GATTTTGCCTTTATGTGGA
1 TAAAATGACTATTTTACCCTTATGTGATAAAATA-ACAG-TTTTGCCCTTATG-AAA
*
662518 -AAAATGACTATTTTACCCTTATGTGTTAAAATAACAGTTTTGCCCTTATGAAA
1 TAAAATGACTATTTTACCCTTATGTGATAAAATAACAGTTTTGCCCTTATGAAA
*
662571 TAAAATGACTATTTTGCCCTTATGTG
1 TAAAATGACTATTTTACCCTTATGTG
662597 GTAGGATGAC
Statistics
Matches: 68, Mismatches: 8, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
53 1 0.01
54 65 0.96
55 2 0.03
ACGTcount: A:0.32, C:0.14, G:0.14, T:0.40
Consensus pattern (54 bp):
TAAAATGACTATTTTACCCTTATGTGATAAAATAACAGTTTTGCCCTTATGAAA
Found at i:662606 original size:81 final size:81
Alignment explanation
Indices: 662463--662623 Score: 205
Period size: 81 Copynumber: 2.0 Consensus size: 81
662453 CCTTGTAAGG
* * ** *
662463 TAAAATAACTGTTTTTCCCTTATGTGATAAAAAGACGATTTTGCCTTTATGTGGAAAAATGACTA
1 TAAAATAACAGTTTTGCCCTTATGAAATAAAAAGACGATTTTGCCCTTATGTGGAAAAATGACTA
*
662528 TTTTACCCTTATGTGT
66 TTTTACCCCTATGTGT
* * * ** *
662544 TAAAATAACAGTTTTGCCCTTATGAAATAAAATGACTATTTTGCCCTTATGTGGTAGGATGACTG
1 TAAAATAACAGTTTTGCCCTTATGAAATAAAAAGACGATTTTGCCCTTATGTGGAAAAATGACTA
*
662609 TTTTGCCCCTATGTG
66 TTTTACCCCTATGTG
662624 ATGTATGTTT
Statistics
Matches: 67, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
81 67 1.00
ACGTcount: A:0.29, C:0.15, G:0.17, T:0.39
Consensus pattern (81 bp):
TAAAATAACAGTTTTGCCCTTATGAAATAAAAAGACGATTTTGCCCTTATGTGGAAAAATGACTA
TTTTACCCCTATGTGT
Found at i:670425 original size:20 final size:20
Alignment explanation
Indices: 670400--670444 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
670390 ATGGACTAAA
* *
670400 ATGAAAAGTTGTAAAATTTG
1 ATGAAAAATTCTAAAATTTG
*
670420 ATGAAAAATTCTAAAATTTT
1 ATGAAAAATTCTAAAATTTG
670440 ATGAA
1 ATGAA
670445 TACGTGTGCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.49, C:0.02, G:0.13, T:0.36
Consensus pattern (20 bp):
ATGAAAAATTCTAAAATTTG
Found at i:695130 original size:23 final size:22
Alignment explanation
Indices: 695087--695144 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
695077 ACAGGGTATC
* *
695087 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
695108 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
695131 TGCATATCATATCT
1 TACAAATCATATCT
695145 AAGATTGCAC
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:695706 original size:132 final size:129
Alignment explanation
Indices: 695483--696278 Score: 1053
Period size: 132 Copynumber: 6.2 Consensus size: 129
695473 TAGGACCTAC
* ** * * *
695483 AATCTTCAACCTATTCCACTACTGACCAGGGAGATATGATTACTAGCTTCAATGTACTCCACTGT
1 AATCTTCAATCTATTCCACTGTTGTCCAGGGAG-TA-GATTAC-GGCTTCAATGTACTCCACTAT
* * *
695548 AACCACAGTGAGGTAAAATCCGCCATCTTCGATCTACTCCACTACTGCTTAGAGAGATAAGATCT
63 AACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCT
695613 GA
128 GA
*
695615 AATCTTCAATCTATTCCACTGTTGCCCAGGGAAGTAGAATTACGAGCTTCAATGTACTCCACTAT
1 AATCTTCAATCTATTCCACTGTTGTCCAGGG-AGTAG-ATTACG-GCTTCAATGTACTCCACTAT
695680 AACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCT
63 AACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCT
695745 GA
128 GA
* * * * * *
695747 AGTCTTCCATCTATTCCACTATTGTCCAGAGAAGTAGAATTACTGGCTTCAATGTACTCCGCTGT
1 AATCTTCAATCTATTCCACTGTTGTCCAG-GGAGTAG-ATTAC-GGCTTCAATGTACTCCACTAT
* ** *
695812 AACCAGAGGGAGGTAAAATCTACCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGACCT
63 AACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCT
695877 GA
128 GA
*
695879 AATCTTCAATCTATTCCACTGTTGTCCA--G-G--GACT--GGCTTCAATGTACTCCACTATAAC
1 AATCTTCAATCTATTCCACTGTTGTCCAGGGAGTAGATTACGGCTTCAATGTACTCCACTATAAC
*
695937 CACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGACCTGA
66 CACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGA
*
696001 AATCTTCAATCTATTCCACTGTTGTCCA--G-G--GACT--GGCTTCAATGTACTCCACTATAAC
1 AATCTTCAATCTATTCCACTGTTGTCCAGGGAGTAGATTACGGCTTCAATGTACTCCACTATAAC
* * * * *
696059 CACAGGGAGTTAAAATCTGTCATCTTTGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGA
66 CACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGA
* * * * *
696123 AATATTTAATCTATTCCACTGTTGTTCAGGGAAGTAGAATTATTGGCTTCAATGTACTCCACTGT
1 AATCTTCAATCTATTCCACTGTTGTCCAGGG-AGTAG-ATTA-CGGCTTCAATGTACTCCACTAT
* * * *
696188 AACCACAGAGAGGTAAAATCTGCCATCTTCGATCTGCTCCATTACTGCTTAGGGAGATATGATCT
63 AACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCT
696253 GA
128 GA
696255 AATCTTCAATCTATTCCACTGTTG
1 AATCTTCAATCTATTCCACTGTTG
696279 ATGTGATCCC
Statistics
Matches: 599, Mismatches: 50, Indels: 30
0.88 0.07 0.04
Matches are distributed among these distances:
122 224 0.37
124 1 0.00
125 2 0.00
126 2 0.00
128 2 0.00
129 2 0.00
131 1 0.00
132 361 0.60
133 4 0.01
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.29
Consensus pattern (129 bp):
AATCTTCAATCTATTCCACTGTTGTCCAGGGAGTAGATTACGGCTTCAATGTACTCCACTATAAC
CACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGA
Found at i:696172 original size:254 final size:257
Alignment explanation
Indices: 695528--696278 Score: 1087
Period size: 254 Copynumber: 2.9 Consensus size: 257
695518 ATGATTACTA
* * *
695528 GCTTCAATGTACTCCACTGTAACCACAGTGAGGTAAAATCCGCCATCTTCGATCTACTCCACTAC
1 GCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCTTCGATCTGCTCCACTAC
* * *
695593 TGCTTAGAGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGCCCAGGGAAGTAGAATTAC
66 TGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTAT
695658 GAGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACT
131 G-GCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACT
* * *
695723 ACTGCTTAGGGAGATAAGATCTGAAGTCTTCCATCTATTCCACTATTGTCCAGAGAAGTAGAATT
195 ACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCCA-AG-AG-AG-A--
695788 ACTG
254 ACTG
* * *
695792 GCTTCAATGTACTCCGCTGTAACCAGAGGGAGGTAAAATCTACCATCTTCGATCTGCTCCACTAC
1 GCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCTTCGATCTGCTCCACTAC
* *
695857 TGCTTAGGGAGATAAGACCTGAAATCTTCAATCTATTCCACTGTTGTCCA--G--G--G-A--CT
66 TGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTAT
695913 GGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTA
131 GGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTA
*
695978 CTGCTTAGGGAGATAAGACCTGAAATCTTCAATCTATTCCACTGTTGTCC-AG-G-G-ACTG
196 CTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCCAAGAGAGAACTG
* * * *
696036 GCTTCAATGTACTCCACTATAACCACAGGGAGTTAAAATCTGTCATCTTTGATCTGCTCCACTAC
1 GCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCTTCGATCTGCTCCACTAC
* * * *
696101 TGCTTAGGGAGACAAGATCTGAAATATTTAATCTATTCCACTGTTGTTCAGGGAAGTAGAATTAT
66 TGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTA-
* * * *
696166 TGGCTTCAATGTACTCCACTGTAACCACAGAGAGGTAAAATCTGCCATCTTCGATCTGCTCCATT
130 TGGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACT
*
696231 ACTGCTTAGGGAGATATGATCTGAAATCTTCAATCTATTCCACTGTTG
195 ACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTG
696279 ATGTGATCCC
Statistics
Matches: 443, Mismatches: 34, Indels: 30
0.87 0.07 0.06
Matches are distributed among these distances:
244 107 0.24
246 1 0.00
248 2 0.00
250 2 0.00
251 1 0.00
252 2 0.00
254 217 0.49
255 1 0.00
257 1 0.00
258 1 0.00
260 1 0.00
262 1 0.00
264 106 0.24
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.29
Consensus pattern (257 bp):
GCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCTTCGATCTGCTCCACTAC
TGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTAT
GGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTA
CTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCCAAGAGAGAACTG
Found at i:697691 original size:147 final size:147
Alignment explanation
Indices: 697424--697716 Score: 559
Period size: 147 Copynumber: 2.0 Consensus size: 147
697414 TAGAAAATAT
*
697424 ACTTTTGAACCTTATATGAAATCTGATTACTTTGTGAGTTTGTTTTCAACTCTCATTGTTCTCCA
1 ACTTTTGAACCTTATATGAAATCTGATTACTTTGTGAGTTTGCTTTCAACTCTCATTGTTCTCCA
697489 AAGACTCGTCTGACTTATCAAGTAACCCTTGTGGCGTCAACCCGTCTTTCTTTCTGAACTTATCA
66 AAGACTCGTCTGACTTATCAAGTAACCCTTGTGGCGTCAACCCGTCTTTCTTTCTGAACTTATCA
697554 CTTTGTACCCAAAGTGC
131 CTTTGTACCCAAAGTGC
* *
697571 ACTTTTGAATCTTATATGATATCTGATTACTTTGTGAGTTTGCTTTCAACTCTCATTGTTCTCCA
1 ACTTTTGAACCTTATATGAAATCTGATTACTTTGTGAGTTTGCTTTCAACTCTCATTGTTCTCCA
697636 AAGACTCGTCTGACTTATCAAGTAACCCTTGTGGCGTCAACCCGTCTTTCTTTCTGAACTTATCA
66 AAGACTCGTCTGACTTATCAAGTAACCCTTGTGGCGTCAACCCGTCTTTCTTTCTGAACTTATCA
697701 CTTTGTACCCAAAGTG
131 CTTTGTACCCAAAGTG
697717 TGGCGTTCAA
Statistics
Matches: 143, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
147 143 1.00
ACGTcount: A:0.23, C:0.24, G:0.14, T:0.39
Consensus pattern (147 bp):
ACTTTTGAACCTTATATGAAATCTGATTACTTTGTGAGTTTGCTTTCAACTCTCATTGTTCTCCA
AAGACTCGTCTGACTTATCAAGTAACCCTTGTGGCGTCAACCCGTCTTTCTTTCTGAACTTATCA
CTTTGTACCCAAAGTGC
Found at i:698113 original size:11 final size:11
Alignment explanation
Indices: 698097--698137 Score: 66
Period size: 11 Copynumber: 3.8 Consensus size: 11
698087 TGAGATTGTA
698097 AAAAAAATTCG
1 AAAAAAATTCG
*
698108 AAAAAAAATCG
1 AAAAAAATTCG
698119 AAAAAAATT-G
1 AAAAAAATTCG
698129 AAAAAAATT
1 AAAAAAATT
698138 AATTATTATT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
10 10 0.36
11 18 0.64
ACGTcount: A:0.71, C:0.05, G:0.07, T:0.17
Consensus pattern (11 bp):
AAAAAAATTCG
Found at i:698122 original size:9 final size:10
Alignment explanation
Indices: 698097--698136 Score: 53
Period size: 10 Copynumber: 3.8 Consensus size: 10
698087 TGAGATTGTA
698097 AAAAAAATTCG
1 AAAAAAA-TCG
698108 AAAAAAAATCG
1 -AAAAAAATCG
*
698119 AAAAAAATTG
1 AAAAAAATCG
698129 AAAAAAAT
1 AAAAAAAT
698137 TAATTATTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
10 17 0.63
11 3 0.11
12 7 0.26
ACGTcount: A:0.72, C:0.05, G:0.07, T:0.15
Consensus pattern (10 bp):
AAAAAAATCG
Found at i:699163 original size:51 final size:51
Alignment explanation
Indices: 699103--699200 Score: 128
Period size: 51 Copynumber: 1.9 Consensus size: 51
699093 AGCATGTGAA
699103 AAAGAAAAAGAAAAAGAGTGCGAGCA-AGAAAATGAAAA-AGAAAATGAAATG
1 AAAGAAAAAGAAAAAGAGTGCGAG-ATAGAAAA-GAAAATAGAAAATGAAATG
* * * *
699154 AAAGAAAAAGAAGATGAGTGTGAGATAGAAAAGAAAATTGAAAATGA
1 AAAGAAAAAGAAAAAGAGTGCGAGATAGAAAAGAAAATAGAAAATGA
699201 GATTGGGAAT
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
50 6 0.15
51 35 0.85
ACGTcount: A:0.62, C:0.02, G:0.24, T:0.11
Consensus pattern (51 bp):
AAAGAAAAAGAAAAAGAGTGCGAGATAGAAAAGAAAATAGAAAATGAAATG
Found at i:700223 original size:21 final size:21
Alignment explanation
Indices: 700184--700223 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
700174 TGTGGTTCGA
* *
700184 TTTTGATTCTATCTATTAACT
1 TTTTGATTCAATATATTAACT
*
700205 TTTTGATTCAATATGTTAA
1 TTTTGATTCAATATATTAA
700224 GGTACGGTCG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.28, C:0.10, G:0.07, T:0.55
Consensus pattern (21 bp):
TTTTGATTCAATATATTAACT
Found at i:702393 original size:131 final size:132
Alignment explanation
Indices: 702158--702628 Score: 784
Period size: 131 Copynumber: 3.6 Consensus size: 132
702148 AACTATTGTT
* * * * * *
702158 CAGGGAAGTAGAATTATTGGCTTCAATGTACTCTATTGTAACTACAGAGAGGTAAAATCCGCCAT
1 CAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCAT
* * * *
702223 CTTCGATCTACTCCACTACTGCTTGGGGAGATAAGATCTGAAATCTTCAATCCATTCCACTGTTG
66 CTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCTATCTATTCCACTGTTG
702288 CC
131 CC
* *
702290 CAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTATAACCACAGGGAGGT-GAATCCTCCAT
1 CAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCAT
702354 CTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCTATCTATTCCACTGTTG
66 CTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCTATCTATTCCACTGTTG
702419 CC
131 CC
* *
702421 CAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTATAACCACAGGGAGGT-GAATCCTCCAT
1 CAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCAT
702485 CTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCTATCTATTCCACTGTTG
66 CTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCTATCTATTCCACTGTTG
702550 CC
131 CC
* *
702552 CAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATTCGCCAT
1 CAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCAT
702617 CTTCGATCTGCT
66 CTTCGATCTGCT
702629 TCGCTGTCAA
Statistics
Matches: 322, Mismatches: 16, Indels: 2
0.95 0.05 0.01
Matches are distributed among these distances:
131 255 0.79
132 67 0.21
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.29
Consensus pattern (132 bp):
CAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCAT
CTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCTATCTATTCCACTGTTG
CC
Found at i:704200 original size:79 final size:78
Alignment explanation
Indices: 704098--704320 Score: 272
Period size: 79 Copynumber: 2.8 Consensus size: 78
704088 GCTCCTCGTT
* *
704098 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGG-CTTAGCCCGG-TATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
*
704163 ATTTAGTAACTCGCA
64 AATTAGTAACTCGCA
* *
704178 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGG-CTTAGCCCGGA
1 CAAATGCCTTCGGGCTTAGCCCGGTA-TAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGA
*
704242 ATTAGTATCTCGCA
65 ATTAGTAACTCGCA
* * * * *
704256 CAAATGCCTTCGGATCTTAGTCCGGATATTGTCACTTAGCAC-AA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGG-GCTTAGCCCGG-TATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGCCCG
704319 GA
63 GA
704321 CATCATTCAA
Statistics
Matches: 125, Mismatches: 13, Indels: 11
0.84 0.09 0.07
Matches are distributed among these distances:
78 45 0.36
79 60 0.48
80 20 0.16
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (78 bp):
CAAATGCCTTCGGGCTTAGCCCGGTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAA
TTAGTAACTCGCA
Found at i:704215 original size:39 final size:40
Alignment explanation
Indices: 704098--704320 Score: 280
Period size: 39 Copynumber: 5.7 Consensus size: 40
704088 GCTCCTCGTT
* *
704098 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCA
* *
704138 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
*
704178 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
*
704217 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
* * *
704256 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGTAAC-TCGCA
704297 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
704321 CATCATTCAA
Statistics
Matches: 167, Mismatches: 10, Indels: 13
0.88 0.05 0.07
Matches are distributed among these distances:
38 2 0.01
39 88 0.53
40 67 0.40
41 10 0.06
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
Found at i:711973 original size:11 final size:11
Alignment explanation
Indices: 711957--711989 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
711947 CCCTGGTAGA
711957 TTTTGTTTTTT
1 TTTTGTTTTTT
711968 TTTTGTTTTTT
1 TTTTGTTTTTT
711979 TGTTT-TTTTTT
1 T-TTTGTTTTTT
711990 GTCATCCCCT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 18 0.86
12 3 0.14
ACGTcount: A:0.00, C:0.00, G:0.09, T:0.91
Consensus pattern (11 bp):
TTTTGTTTTTT
Found at i:716830 original size:22 final size:21
Alignment explanation
Indices: 716795--716859 Score: 62
Period size: 22 Copynumber: 3.1 Consensus size: 21
716785 AAAGGGTATC
* *
716795 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
716816 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
* *
716839 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
716858 TA
1 TA
716860 TATATTATAT
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
19 9 0.24
21 3 0.08
22 15 0.41
23 10 0.27
ACGTcount: A:0.43, C:0.15, G:0.06, T:0.35
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:716838 original size:23 final size:22
Alignment explanation
Indices: 716795--716852 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
716785 AAAGGGTATC
* *
716795 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
716816 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
716839 TGCATATCATATCT
1 TACAAATCATATCT
716853 AAGATTATAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:716855 original size:19 final size:19
Alignment explanation
Indices: 716831--716903 Score: 110
Period size: 19 Copynumber: 3.8 Consensus size: 19
716821 AATCATATCT
716831 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
** *
716850 TCTAAGATTATATATTATA
1 TCTAAGATTGCATATCATA
*
716869 TCTAAGATTGCATACCATA
1 TCTAAGATTGCATATCATA
716888 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
716904 CCTGAAGATT
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 46 1.00
ACGTcount: A:0.37, C:0.15, G:0.10, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:719987 original size:41 final size:40
Alignment explanation
Indices: 719930--720076 Score: 168
Period size: 41 Copynumber: 3.6 Consensus size: 40
719920 GGGTTTAAAT
719930 CCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAATGTCATAA
1 CCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAATGTCATAA
* *
719970 GCCGAGCTTGGTCTCGAAGGGCTTTTAAGCCAGTGTCATAA
1 -CCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAATGTCATAA
* * * * * * * *
720011 CTGAACCTAGTTTCGAAGGGCCTTCGGGCCAATGTCATAA
1 CCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAATGTCATAA
* *
720051 TTCGAGCTTGGTCTCGAAGGGTTTTT
1 -CCGAGCTTGGTCTCGAAGGGCTTTT
720077 TGAGTCAGTG
Statistics
Matches: 84, Mismatches: 21, Indels: 2
0.79 0.20 0.02
Matches are distributed among these distances:
40 30 0.36
41 54 0.64
ACGTcount: A:0.21, C:0.22, G:0.28, T:0.29
Consensus pattern (40 bp):
CCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAATGTCATAA
Found at i:721854 original size:51 final size:51
Alignment explanation
Indices: 721776--721873 Score: 160
Period size: 51 Copynumber: 1.9 Consensus size: 51
721766 ATGGATACAC
*
721776 AGTGGCCTTCACATAGTACCACCCTTGTAGCCAAAGCTATTTTATTCACAA
1 AGTGGCCTTCACATAGTACCACACTTGTAGCCAAAGCTATTTTATTCACAA
* **
721827 AGTGGCCTTCACATAGTATCACACTTGTTTCCAAAGCTATTTTATTC
1 AGTGGCCTTCACATAGTACCACACTTGTAGCCAAAGCTATTTTATTC
721874 CTAAGGTTCA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
51 43 1.00
ACGTcount: A:0.28, C:0.26, G:0.13, T:0.34
Consensus pattern (51 bp):
AGTGGCCTTCACATAGTACCACACTTGTAGCCAAAGCTATTTTATTCACAA
Found at i:721943 original size:28 final size:28
Alignment explanation
Indices: 721912--722016 Score: 146
Period size: 28 Copynumber: 3.9 Consensus size: 28
721902 GAGCGCAATA
721912 CCATGGACTTATTTCACTTAGCACATTG
1 CCATGGACTTATTTCACTTAGCACATTG
*
721940 CCATAGACTTATTTCACTTAGCACATTG
1 CCATGGACTTATTTCACTTAGCACATTG
721968 CCATGGACTTATTTCACTTAG---A-TG
1 CCATGGACTTATTTCACTTAGCACATTG
* * *
721992 TCATGGTCTTATTCCACTTAGCACA
1 CCATGGACTTATTTCACTTAGCACA
722017 ATGTCATATC
Statistics
Matches: 69, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
24 20 0.29
25 1 0.01
27 1 0.01
28 47 0.68
ACGTcount: A:0.26, C:0.25, G:0.13, T:0.36
Consensus pattern (28 bp):
CCATGGACTTATTTCACTTAGCACATTG
Found at i:735542 original size:30 final size:31
Alignment explanation
Indices: 735491--735563 Score: 107
Period size: 30 Copynumber: 2.4 Consensus size: 31
735481 TAAAAACTTC
735491 AAAATATA-TA-AAAATTATTATAAAAAGAT
1 AAAATATATTATAAAATTATTATAAAAAGAT
*
735520 AAAATATATTATAAAATT-TTATAAAAATAT
1 AAAATATATTATAAAATTATTATAAAAAGAT
735550 AAAATATATATATA
1 AAAATATAT-TATA
735564 GTTACATAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
29 8 0.20
30 22 0.55
31 10 0.25
ACGTcount: A:0.63, C:0.00, G:0.01, T:0.36
Consensus pattern (31 bp):
AAAATATATTATAAAATTATTATAAAAAGAT
Found at i:736363 original size:16 final size:17
Alignment explanation
Indices: 736336--736369 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
736326 TTCGATTGAT
*
736336 TATTTTTGAATATTTTA
1 TATTTTTGAATACTTTA
736353 TATTTTT-AATACTTTA
1 TATTTTTGAATACTTTA
736369 T
1 T
736370 TTATAAATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.65
Consensus pattern (17 bp):
TATTTTTGAATACTTTA
Found at i:738295 original size:8 final size:8
Alignment explanation
Indices: 738282--738328 Score: 51
Period size: 8 Copynumber: 5.6 Consensus size: 8
738272 AAATTTTATA
738282 AAAAAATT
1 AAAAAATT
738290 AAAAAATT
1 AAAAAATT
738298 AAAATTAAATT
1 -AAA--AAATT
*
738309 -CAAAATT
1 AAAAAATT
738316 AAAAAATT
1 AAAAAATT
738324 AAAAA
1 AAAAA
738329 TAAAAATTTC
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
7 5 0.15
8 19 0.58
9 4 0.12
11 5 0.15
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.26
Consensus pattern (8 bp):
AAAAAATT
Found at i:738297 original size:27 final size:26
Alignment explanation
Indices: 738267--738332 Score: 78
Period size: 26 Copynumber: 2.5 Consensus size: 26
738257 GTCAACAAAT
**
738267 AATTAAAATTTTATAAAAAAATTAAAA
1 AATTAAAATTAAAT-AAAAAATTAAAA
**
738294 AATTAAAATTAAATTCAAAATTAAAA
1 AATTAAAATTAAATAAAAAATTAAAA
*
738320 AATTAAAAATAAA
1 AATTAAAATTAAA
738333 AATTTCATAA
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 22 0.65
27 12 0.35
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (26 bp):
AATTAAAATTAAATAAAAAATTAAAA
Found at i:739383 original size:29 final size:30
Alignment explanation
Indices: 739324--739381 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
739314 TCCGAGCCTT
*
739324 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
739354 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
739382 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:739611 original size:13 final size:13
Alignment explanation
Indices: 739593--739624 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
739583 TTTCCAGCAA
739593 TTATGAATTTATT
1 TTATGAATTTATT
739606 TTATGAATTTATT
1 TTATGAATTTATT
*
739619 TGATGA
1 TTATGA
739625 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:739832 original size:50 final size:50
Alignment explanation
Indices: 739719--740160 Score: 607
Period size: 50 Copynumber: 8.7 Consensus size: 50
739709 ATTTGGGTAA
* * *
739719 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--GAGA-C--G
*
739775 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
739825 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* *
739875 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
739925 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* *
739975 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
740025 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
740075 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
**
740125 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
740161 TTTGGCATGT
Statistics
Matches: 346, Mismatches: 38, Indels: 9
0.88 0.10 0.02
Matches are distributed among these distances:
49 1 0.00
50 271 0.78
51 29 0.08
52 1 0.00
53 3 0.01
55 2 0.01
56 39 0.11
ACGTcount: A:0.26, C:0.24, G:0.31, T:0.19
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:739908 original size:100 final size:100
Alignment explanation
Indices: 739719--740167 Score: 747
Period size: 100 Copynumber: 4.4 Consensus size: 100
739709 ATTTGGGTAA
* * *
739719 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCCC
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC----GA-GATGAGAGGTCCC
*
739784 CTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
60 CTATAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
739825 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCCTATAA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCCTATAA
739890 GACCATGTCTGGGACATGGCATGGGCACCGAGACG
66 GACCATGTCTGGGACATGGCATGGGCACCGAGACG
739925 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCCTATAA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCCTATAA
739990 GACCATGTCTGGGACATGGCATGGGCACCGAGACG
66 GACCATGTCTGGGACATGGCATGGGCACCGAGACG
740025 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCCTATAA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCCTATAA
*
740090 GACCATGTCTGGGACATGGCATGGGCACC-ATCACG
66 GACCATGTCTGGGACATGGCATGGGCACCGA-GACG
** *
740125 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA
740168 TGTTATTATC
Statistics
Matches: 333, Mismatches: 8, Indels: 9
0.95 0.02 0.03
Matches are distributed among these distances:
99 1 0.00
100 251 0.75
101 39 0.12
105 2 0.01
106 40 0.12
ACGTcount: A:0.26, C:0.24, G:0.31, T:0.19
Consensus pattern (100 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCCTATAA
GACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:741496 original size:12 final size:12
Alignment explanation
Indices: 741479--741503 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
741469 CTTGGCTATT
741479 TTAAGTAAAAGG
1 TTAAGTAAAAGG
741491 TTAAGTAAAAGG
1 TTAAGTAAAAGG
741503 T
1 T
741504 GATAAAAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.00, G:0.24, T:0.28
Consensus pattern (12 bp):
TTAAGTAAAAGG
Found at i:743667 original size:20 final size:20
Alignment explanation
Indices: 743612--743687 Score: 59
Period size: 20 Copynumber: 3.9 Consensus size: 20
743602 TGTTATTTAA
* *
743612 TAAAAGTTATAAAAAAATTAT
1 TAAAAATTAGAAAAAAA-TAT
** **
743633 TAAATTTTACTAAAAAATAT
1 TAAAAATTAGAAAAAAATAT
743653 TAAAAATTAGAAAAAAA-A-
1 TAAAAATTAGAAAAAAATAT
743671 TAAAAATT-GTAAAAAAA
1 TAAAAATTAG-AAAAAAA
743688 AATATATTTT
Statistics
Matches: 46, Mismatches: 8, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
17 1 0.02
18 15 0.33
19 1 0.02
20 16 0.35
21 13 0.28
ACGTcount: A:0.66, C:0.01, G:0.04, T:0.29
Consensus pattern (20 bp):
TAAAAATTAGAAAAAAATAT
Found at i:743674 original size:18 final size:18
Alignment explanation
Indices: 743643--743688 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 18
743633 TAAATTTTAC
*
743643 TAAAAAATATTAAAAATTAG
1 TAAAAAA-AATAAAAATT-G
743663 -AAAAAAAATAAAAATTG
1 TAAAAAAAATAAAAATTG
743680 TAAAAAAAA
1 TAAAAAAAA
743689 ATATATTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
17 1 0.04
18 17 0.71
19 6 0.25
ACGTcount: A:0.74, C:0.00, G:0.04, T:0.22
Consensus pattern (18 bp):
TAAAAAAAATAAAAATTG
Found at i:743734 original size:29 final size:28
Alignment explanation
Indices: 743702--743794 Score: 71
Period size: 29 Copynumber: 3.2 Consensus size: 28
743692 TATTTTTTTT
743702 TAAAATTTACAAAAATCGTAAAAAAATTA
1 TAAAATTTA-AAAAATCGTAAAAAAATTA
* * *
743731 TAAAATATGTAGAGATATAG-AAAAAAATTA
1 TAAAAT-T-TA-AAAAATCGTAAAAAAATTA
** * *
743761 TAAAATTTTATTAAGTCGTAAGAAAATTA
1 TAAAA-TTTAAAAAATCGTAAAAAAATTA
743790 TAAAA
1 TAAAA
743795 ATATAAAGAA
Statistics
Matches: 50, Mismatches: 10, Indels: 8
0.74 0.15 0.12
Matches are distributed among these distances:
28 3 0.06
29 22 0.44
30 17 0.34
31 8 0.16
ACGTcount: A:0.58, C:0.03, G:0.09, T:0.30
Consensus pattern (28 bp):
TAAAATTTAAAAAATCGTAAAAAAATTA
Found at i:743805 original size:20 final size:21
Alignment explanation
Indices: 743780--743834 Score: 64
Period size: 19 Copynumber: 2.8 Consensus size: 21
743770 ATTAAGTCGT
743780 AAGAAAATTATAAAAAT-ATA
1 AAGAAAATTATAAAAATCATA
* *
743800 AAG-AAA-TATAAGATTCATA
1 AAGAAAATTATAAAAATCATA
743819 AA-AAAATTATAAAAAT
1 AAGAAAATTATAAAAAT
743835 TATTATACCA
Statistics
Matches: 28, Mismatches: 4, Indels: 6
0.74 0.11 0.16
Matches are distributed among these distances:
18 7 0.25
19 11 0.39
20 10 0.36
ACGTcount: A:0.67, C:0.02, G:0.05, T:0.25
Consensus pattern (21 bp):
AAGAAAATTATAAAAATCATA
Found at i:744138 original size:28 final size:28
Alignment explanation
Indices: 744082--744140 Score: 68
Period size: 28 Copynumber: 2.1 Consensus size: 28
744072 TTGTTTTTAA
* *
744082 TAAAATTTAAATATTATTTATATTTTAT
1 TAAAATTTAAATAATATTTATATTCTAT
744110 TAAAATTT-AATAAT-TTTATAACTTCTAT
1 TAAAATTTAAATAATATTTAT-A-TTCTAT
744138 TAA
1 TAA
744141 TTTTTATTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
26 5 0.19
27 6 0.22
28 16 0.59
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (28 bp):
TAAAATTTAAATAATATTTATATTCTAT
Found at i:744419 original size:3 final size:3
Alignment explanation
Indices: 744413--744442 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
744403 TAATGGCTTA
744413 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
744443 TTAAAGTTCT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:771107 original size:27 final size:26
Alignment explanation
Indices: 771024--771107 Score: 69
Period size: 27 Copynumber: 3.1 Consensus size: 26
771014 AAAAAATTGA
771024 TATTTAAGTTCTTTTTATCCTATTTAAG
1 TATTTAAGTT-TTTTT-TCCTATTTAAG
* *** * *
771052 TATTTTAGTTTAACTTCAATATTTTAG
1 TATTTAAGTTTTTTTTC-CTATTTAAG
*
771079 TATTTAAGTTTTTTTGTCCTAATTAAG
1 TATTTAAGTTTTTTT-TCCTATTTAAG
771106 TA
1 TA
771108 CTTATATTTT
Statistics
Matches: 41, Mismatches: 13, Indels: 5
0.69 0.22 0.08
Matches are distributed among these distances:
26 2 0.05
27 28 0.68
28 11 0.27
ACGTcount: A:0.27, C:0.08, G:0.08, T:0.56
Consensus pattern (26 bp):
TATTTAAGTTTTTTTTCCTATTTAAG
Found at i:782571 original size:12 final size:12
Alignment explanation
Indices: 782554--782580 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
782544 TGCAGGAGGG
782554 ATCGCACGAGAC
1 ATCGCACGAGAC
782566 ATCGCACGAGAC
1 ATCGCACGAGAC
782578 ATC
1 ATC
782581 ATCGGGGAGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.33, C:0.33, G:0.22, T:0.11
Consensus pattern (12 bp):
ATCGCACGAGAC
Found at i:786132 original size:34 final size:33
Alignment explanation
Indices: 786094--786206 Score: 113
Period size: 34 Copynumber: 3.4 Consensus size: 33
786084 AACACAAAAA
786094 TTATTTTAAAAAACTAAACCCTAATTTTATTTAT
1 TTATTTTAAAAAACTAAACCCTAA-TTTATTTAT
**
786128 TTATTTT-AAACCCATAAACCCTAATTTAGTTTAT
1 TTATTTTAAAAAAC-TAAACCCTAATTTA-TTTAT
**** * *
786162 TTATTTTAAACCTTTAAAACCTAATTTAATTAT
1 TTATTTTAAAAAACTAAACCCTAATTTATTTAT
786195 TT-TTTTAAAAAA
1 TTATTTTAAAAAA
786207 ACTCTAAACC
Statistics
Matches: 66, Mismatches: 10, Indels: 8
0.79 0.12 0.10
Matches are distributed among these distances:
32 7 0.11
33 14 0.21
34 42 0.64
35 3 0.05
ACGTcount: A:0.40, C:0.12, G:0.01, T:0.47
Consensus pattern (33 bp):
TTATTTTAAAAAACTAAACCCTAATTTATTTAT
Found at i:799311 original size:39 final size:39
Alignment explanation
Indices: 799268--799407 Score: 133
Period size: 40 Copynumber: 3.5 Consensus size: 39
799258 CTCGTTCAAG
* *
799268 TGCCTTCGGGACATAGCCCGGTTATAGTAACTCATACAA
1 TGCCTTCGGGACTTAGCCCGGTTATAGTAACTCACACAA
* *
799307 TGCCTTCGGGACTTAACCCGGAATTA-A-TAACTCGCACAAA
1 TGCCTTCGGGACTTAGCCCGG--TTATAGTAACTCACAC-AA
* * * *
799347 TGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCACAA
1 TGCCTTCGGGA-CTTAGCCCGGTTATAGTAACTCA-CACAA
*
799387 AGCCTTCGGGACTTAGCCCGG
1 TGCCTTCGGGACTTAGCCCGG
799408 ACAGCATTCA
Statistics
Matches: 81, Mismatches: 12, Indels: 15
0.75 0.11 0.14
Matches are distributed among these distances:
38 2 0.02
39 31 0.38
40 39 0.48
41 9 0.11
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (39 bp):
TGCCTTCGGGACTTAGCCCGGTTATAGTAACTCACACAA
Found at i:814833 original size:25 final size:25
Alignment explanation
Indices: 814805--814853 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
814795 CTGTTTTAGA
*
814805 TAGTATATCCTGAAACTACTATAGG
1 TAGTATATACTGAAACTACTATAGG
* *
814830 TAGTATATATTGAGACTACTATAG
1 TAGTATATACTGAAACTACTATAG
814854 ATAGACCATA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.37, C:0.12, G:0.16, T:0.35
Consensus pattern (25 bp):
TAGTATATACTGAAACTACTATAGG
Found at i:817382 original size:40 final size:39
Alignment explanation
Indices: 817322--817414 Score: 98
Period size: 40 Copynumber: 2.3 Consensus size: 39
817312 ATCGGTATCG
** *
817322 CACACTTAGTGCCTCATATAGCCGAAGTTATTCCAATTCA
1 CACACTTAGTG-CTCATATAGCCGAAACTATTCCAAATCA
* * *
817362 CACACTTAGTGCT-ATTTATAGCTGAAACTATTTCAAATCG
1 CACACTTAGTGCTCA--TATAGCCGAAACTATTCCAAATCA
817402 CACACTTAGTGCT
1 CACACTTAGTGCT
817415 GAACATAGTC
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
38 1 0.02
39 2 0.04
40 42 0.93
ACGTcount: A:0.30, C:0.25, G:0.13, T:0.32
Consensus pattern (39 bp):
CACACTTAGTGCTCATATAGCCGAAACTATTCCAAATCA
Found at i:823508 original size:22 final size:22
Alignment explanation
Indices: 823475--823533 Score: 75
Period size: 22 Copynumber: 2.6 Consensus size: 22
823465 TATTATTTTA
823475 TATTTTTAATTTTTATTA-AAAT
1 TATTTTT-ATTTTTATTAGAAAT
**
823497 TACTTTTTATTTTTATTAGATTT
1 TA-TTTTTATTTTTATTAGAAAT
823520 TATTTTTATTTTTA
1 TATTTTTATTTTTA
823534 ATTATCAATT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
22 24 0.73
23 9 0.27
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.69
Consensus pattern (22 bp):
TATTTTTATTTTTATTAGAAAT
Found at i:823514 original size:16 final size:16
Alignment explanation
Indices: 823495--823529 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
823485 TTTTATTAAA
*
823495 ATTACTTTTTATTTTT
1 ATTACATTTTATTTTT
*
823511 ATTAGATTTTATTTTT
1 ATTACATTTTATTTTT
823527 ATT
1 ATT
823530 TTTAATTATC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.23, C:0.03, G:0.03, T:0.71
Consensus pattern (16 bp):
ATTACATTTTATTTTT
Found at i:831729 original size:39 final size:40
Alignment explanation
Indices: 831634--831823 Score: 173
Period size: 40 Copynumber: 4.8 Consensus size: 40
831624 TTGAATGATG
831634 TCCGGGCTAAGTCCCGAAGGC-TTGTGCTA--AG-TGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATT-TG-TACGAGAT-ACTAAT
*
831672 ATCCGGACTAAGAT-CCGAAGGCATTTGTACGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTACGAGATACTAAT
* * *
831713 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTACGAGATACTAAT
* *
831752 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTACGAGA-TACTAAT
* * *
831791 AACCGGGCTATGTCCCGAAGGCATTTGAACGAG
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTACGAG
831824 GAGCTATATC
Statistics
Matches: 127, Mismatches: 13, Indels: 20
0.79 0.08 0.12
Matches are distributed among these distances:
38 2 0.02
39 55 0.43
40 66 0.52
41 4 0.03
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTACGAGATACTAAT
Found at i:831769 original size:79 final size:81
Alignment explanation
Indices: 831634--831817 Score: 213
Period size: 79 Copynumber: 2.3 Consensus size: 81
831624 TTGAATGATG
831634 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGACAATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACAATATCCGGACTAAGATCCGAAGGCATT
831697 TGTACGAGA-TACTA-A
66 TGTACGA-ATTACTATA
* * **
831712 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAA-ATCCGGGTTAAG-TCCCGAAGGC
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGAC-AATATCCGGACTAAGAT-CCGAAGGC
*
831773 ATTTGTGCGAATTACTATA
63 ATTTGTACGAATTACTATA
* *
831792 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
831818 AACGAGGAGC
Statistics
Matches: 91, Mismatches: 7, Indels: 13
0.82 0.06 0.12
Matches are distributed among these distances:
78 11 0.12
79 57 0.63
80 23 0.25
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACAATATCCGGACTAAGATCCGAAGGCATT
TGTACGAATTACTATA
Found at i:831839 original size:79 final size:79
Alignment explanation
Indices: 831686--831850 Score: 185
Period size: 79 Copynumber: 2.1 Consensus size: 79
831676 GGACTAAGAT
* ** *
831686 CCGAAGGCATTTGTACGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTACGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAA
*
831751 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
831765 CCGAAGGCATTTGTGCGA-ATTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAG
1 CCGAAGGCATTTGTACGAGA-TACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTGA-
* *
831827 CTATATCC-GGTTAAATT
62 CTAAATCCGGGTTAAATC
831844 CCGAAGG
1 CCGAAGG
831851 TACGTGATTT
Statistics
Matches: 73, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
78 3 0.04
79 45 0.62
80 25 0.34
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTACGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAA
ATCCGGGTTAAATC
Found at i:843981 original size:33 final size:34
Alignment explanation
Indices: 843909--843981 Score: 94
Period size: 34 Copynumber: 2.2 Consensus size: 34
843899 TCAGTCGCAA
*
843909 TATCAGTGTGGGCCTTAGCCCAATACAGTAACAG
1 TATCAGTGTGGGACTTAGCCCAATACAGTAACAG
* * * *
843943 TATCAGTGTTGGACTTAGTCCATTTCAGT-ACAG
1 TATCAGTGTGGGACTTAGCCCAATACAGTAACAG
843976 TATCAG
1 TATCAG
843982 AAATGCATAT
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
33 10 0.29
34 24 0.71
ACGTcount: A:0.27, C:0.21, G:0.22, T:0.30
Consensus pattern (34 bp):
TATCAGTGTGGGACTTAGCCCAATACAGTAACAG
Found at i:848423 original size:46 final size:48
Alignment explanation
Indices: 848374--848647 Score: 271
Period size: 51 Copynumber: 5.7 Consensus size: 48
848364 TGAGCATCCG
* * *
848374 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-TG-TCTG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACCGAGCTC
* * * * * *
848420 AACTTGTTGAGTTGAGTTCGAGTTC-GTGA--GATG-TAA-CTAGGCATCCC
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACCGA-GC-T--C
848467 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTC
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA---CCGAGCTC
848518 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTC
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA---CCGAGCTC
*
848569 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-C--GCCC
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACCGAGCTC
* *
848614 GAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 -AACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
848648 GCGGGTTACA
Statistics
Matches: 196, Mismatches: 18, Indels: 28
0.81 0.07 0.12
Matches are distributed among these distances:
42 2 0.01
43 4 0.02
44 1 0.01
45 6 0.03
46 54 0.28
47 24 0.12
48 2 0.01
50 4 0.02
51 94 0.48
53 1 0.01
54 2 0.01
55 2 0.01
ACGTcount: A:0.21, C:0.22, G:0.28, T:0.29
Consensus pattern (48 bp):
AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACCGAGCTC
Found at i:848527 original size:93 final size:99
Alignment explanation
Indices: 848367--848619 Score: 254
Period size: 93 Copynumber: 2.6 Consensus size: 99
848357 GGATGGTTGA
* * * * * ***
848367 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCTGAACT-TGTTGAG
1 GCATCCCAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCAACTGAG
* *
848431 TTGAG-T-T-CGAGTTC-GTGA-GATG-TAACTAG-
66 TTGAGTTGTCCGAGTTCACTGAGGATGCGAAC--GC
*
848460 GCATCCCAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCAACT-CG
1 GCATCCCAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCAACTGAG
*
848524 TTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
66 TTGAGTT--GTCCGAGTTCACTGA-GGATGCGAACGC
* * *
848561 CCGAGCTCAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTC
1 GC-ATCCCAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTC
848620 GTTGAGTTGA
Statistics
Matches: 133, Mismatches: 15, Indels: 15
0.82 0.09 0.09
Matches are distributed among these distances:
93 58 0.44
94 2 0.02
97 1 0.01
98 7 0.05
99 2 0.02
100 1 0.01
101 5 0.04
102 57 0.43
ACGTcount: A:0.22, C:0.23, G:0.28, T:0.28
Consensus pattern (99 bp):
GCATCCCAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCAACTGAG
TTGAGTTGTCCGAGTTCACTGAGGATGCGAACGC
Found at i:848530 original size:51 final size:51
Alignment explanation
Indices: 848466--848647 Score: 320
Period size: 51 Copynumber: 3.7 Consensus size: 51
848456 CTAGGCATCC
848466 CAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCT
1 CAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCT
848517 CAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCT
1 CAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCT
848568 CAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAG--
1 CAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCT
*
848617 ---CTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 CAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
848648 GCGGGTTACA
Statistics
Matches: 130, Mismatches: 1, Indels: 5
0.96 0.01 0.04
Matches are distributed among these distances:
46 30 0.23
51 100 0.77
ACGTcount: A:0.20, C:0.24, G:0.29, T:0.27
Consensus pattern (51 bp):
CAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCT
Found at i:848539 original size:25 final size:25
Alignment explanation
Indices: 848510--848590 Score: 67
Period size: 25 Copynumber: 3.2 Consensus size: 25
848500 ATGCGAACGC
848510 CCGAGCTCAACTCGTTGAGTTGAGT
1 CCGAGCTCAACTCGTTGAGTTGAGT
* ** * * *
848535 CCGAGTTC-ACTTATGGA-TGCGAACGC
1 CCGAGCTCAACTCGTTGAGT-TG-A-GT
848561 CCGAGCTCAACTCGTTGAGTTGAGT
1 CCGAGCTCAACTCGTTGAGTTGAGT
848586 CCGAG
1 CCGAG
848591 TTCACTTATG
Statistics
Matches: 39, Mismatches: 12, Indels: 10
0.64 0.20 0.16
Matches are distributed among these distances:
23 1 0.03
24 7 0.18
25 14 0.36
26 9 0.23
27 7 0.18
28 1 0.03
ACGTcount: A:0.21, C:0.26, G:0.28, T:0.25
Consensus pattern (25 bp):
CCGAGCTCAACTCGTTGAGTTGAGT
Found at i:848586 original size:102 final size:97
Alignment explanation
Indices: 848374--848647 Score: 326
Period size: 102 Copynumber: 2.8 Consensus size: 97
848364 TGAGCATCCG
* * * * * *
848374 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCTGAACTTGTTGAGTTGAGTTC
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGTTGAGTCC
* * * * * *
848439 GAGTTC-GTGA--GATG-TAACTAG-GC-ATCCC
66 GAGTTCACTTATGGATGCGAAC--GCCCGAGCTC
848467 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCAACTCGTTGAGTTG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAG-----CTCGTTGAGTTG
848532 AGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTC
61 AGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTC
848569 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGTTGAGTCC
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGTTGAGTCC
*
848634 GAGTTCGCTTATGG
66 GAGTTCACTTATGG
848648 GCGGGTTACA
Statistics
Matches: 157, Mismatches: 13, Indels: 18
0.84 0.07 0.10
Matches are distributed among these distances:
93 44 0.28
97 30 0.19
98 21 0.13
99 2 0.01
100 1 0.01
101 5 0.03
102 54 0.34
ACGTcount: A:0.21, C:0.22, G:0.28, T:0.29
Consensus pattern (97 bp):
AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGTTGAGTCC
GAGTTCACTTATGGATGCGAACGCCCGAGCTC
Found at i:851250 original size:44 final size:44
Alignment explanation
Indices: 851185--851360 Score: 138
Period size: 49 Copynumber: 3.8 Consensus size: 44
851175 TATCCAAGCT
* * * *
851185 AGTGTAAGACCTGTCTAGGACATGGCATCGACTTGACACG-TGTC
1 AGTGTAAGACCTATTTGGGACATGGCATCGACTTGA-AAGATGTC
* * *
851229 AGTGTAAGACCTATTTGGGACATGGCATCGACACTGATAGATGAAAGCC
1 AGTGTAAGACCTATTTGGGACATGGCATCGAC-TTGA-A-A-G-ATGTC
* * * * *
851278 AATGTAAGACCTATTTGGGACATGACATCAGCCTCGATAAATGAAAGTC
1 AGTGTAAGACCTATTTGGGACATGGCATC-GACTTG--AAA-G-ATGTC
851327 AGTGTAAGACCTATTTGGGACATGGCATCGACTT
1 AGTGTAAGACCTATTTGGGACATGGCATCGACTT
851361 AGATGTCTGA
Statistics
Matches: 106, Mismatches: 18, Indels: 12
0.78 0.13 0.09
Matches are distributed among these distances:
44 29 0.27
45 4 0.04
47 1 0.01
48 3 0.03
49 65 0.61
50 3 0.03
51 1 0.01
ACGTcount: A:0.31, C:0.19, G:0.25, T:0.25
Consensus pattern (44 bp):
AGTGTAAGACCTATTTGGGACATGGCATCGACTTGAAAGATGTC
Found at i:851294 original size:49 final size:49
Alignment explanation
Indices: 851231--851358 Score: 188
Period size: 49 Copynumber: 2.6 Consensus size: 49
851221 CACGTGTCAG
*
851231 TGTAAGACCTATTTGGGACATGGCATCGACACT-GATAGATGAAAGCCAA
1 TGTAAGACCTATTTGGGACATGGCATCGAC-CTCGATAAATGAAAGCCAA
* * *
851280 TGTAAGACCTATTTGGGACATGACATC-AGCCTCGATAAATGAAAGTCAG
1 TGTAAGACCTATTTGGGACATGGCATCGA-CCTCGATAAATGAAAGCCAA
851329 TGTAAGACCTATTTGGGACATGGCATCGAC
1 TGTAAGACCTATTTGGGACATGGCATCGAC
851359 TTAGATGTCT
Statistics
Matches: 71, Mismatches: 5, Indels: 6
0.87 0.06 0.07
Matches are distributed among these distances:
48 3 0.04
49 67 0.94
50 1 0.01
ACGTcount: A:0.33, C:0.19, G:0.24, T:0.24
Consensus pattern (49 bp):
TGTAAGACCTATTTGGGACATGGCATCGACCTCGATAAATGAAAGCCAA
Found at i:853418 original size:43 final size:42
Alignment explanation
Indices: 853367--853536 Score: 177
Period size: 43 Copynumber: 4.0 Consensus size: 42
853357 CATAGGATTT
*
853367 TCGATATGTG-TTCTTGAGTAAGACCATGTTTAGGACATTGGCA
1 TCGATATGTGATTC--GAGTAAGACCATGTCTAGGACATTGGCA
* *
853410 TTGATATGTGATTACGTGTAAGACCATGTCTAGGACATTGGCA
1 TCGATATGTGATT-CGAGTAAGACCATGTCTAGGACATTGGCA
* * * * *
853453 TCG-TATTTGATTCGTGTAAGACC-TATCTGGGACAGTGGCA
1 TCGATATGTGATTCGAGTAAGACCATGTCTAGGACATTGGCA
* *
853493 TCGATATGTGATTTC-ATGTAAGACCACGTCTGGGACATTGGCA
1 TCGATATGTGA-TTCGA-GTAAGACCATGTCTAGGACATTGGCA
853536 T
1 T
853537 TGTATGATAN
Statistics
Matches: 108, Mismatches: 13, Indels: 12
0.81 0.10 0.09
Matches are distributed among these distances:
40 17 0.16
41 17 0.16
42 19 0.18
43 52 0.48
44 2 0.02
45 1 0.01
ACGTcount: A:0.25, C:0.16, G:0.26, T:0.33
Consensus pattern (42 bp):
TCGATATGTGATTCGAGTAAGACCATGTCTAGGACATTGGCA
Found at i:859933 original size:46 final size:46
Alignment explanation
Indices: 859883--860058 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
859873 TGGTTGAGCA
859883 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
859929 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
859974 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
860022 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
860059 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:860039 original size:93 final size:93
Alignment explanation
Indices: 859880--860051 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
859870 GGATGGTTGA
* *
859880 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
859945 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
859973 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
860038 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
860052 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:862703 original size:48 final size:48
Alignment explanation
Indices: 862543--862717 Score: 171
Period size: 48 Copynumber: 3.7 Consensus size: 48
862533 ATGGATGTGT
* *
862543 GCTAGTGTAAGACATGTCTGGGACAT-GCATCGGCCACATTAT-GAGA
1 GCTAGTGTAAGACATGTCTGGGACATGGCATCGGCCTCAATATCGAGA
* * * * * *
862589 GCTAGTGTAAAACCATGTTTGGGACATGGCATCAGCATTAAGA-CGAGA
1 GCTAGTGTAAGA-CATGTCTGGGACATGGCATCGGCCTCAATATCGAGA
* * *
862637 GCAATTGTAAGACATGTCTGGGACAT-GCATCGGCCTCGAGATATCCA-A
1 GCTAGTGTAAGACATGTCTGGGACATGGCATCGGCCTC-A-ATATCGAGA
* *
862685 GCTAGTGTAAGACCTGTCTAGGACATGGCATCG
1 GCTAGTGTAAGACATGTCTGGGACATGGCATCG
862718 ACTTGACACG
Statistics
Matches: 101, Mismatches: 21, Indels: 11
0.76 0.16 0.08
Matches are distributed among these distances:
46 19 0.19
47 27 0.27
48 47 0.47
49 8 0.08
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.23
Consensus pattern (48 bp):
GCTAGTGTAAGACATGTCTGGGACATGGCATCGGCCTCAATATCGAGA
Found at i:862797 original size:49 final size:49
Alignment explanation
Indices: 862734--862861 Score: 188
Period size: 49 Copynumber: 2.6 Consensus size: 49
862724 CACGTGTCAG
*
862734 TGTAAGACCTATTTGGGACATGGCATCGACAC-CGATAGATGAAAGCCAA
1 TGTAAGACCTATTTGGGACATGGCATCGAC-CTCGATAAATGAAAGCCAA
* * *
862783 TGTAAGACCTATTTGGGACATGACATC-AGCCTCGATAAATGAAAGTCAG
1 TGTAAGACCTATTTGGGACATGGCATCGA-CCTCGATAAATGAAAGCCAA
862832 TGTAAGACCTATTTGGGACATGGCATCGAC
1 TGTAAGACCTATTTGGGACATGGCATCGAC
862862 TTAGATGTCT
Statistics
Matches: 71, Mismatches: 5, Indels: 6
0.87 0.06 0.07
Matches are distributed among these distances:
48 2 0.03
49 68 0.96
50 1 0.01
ACGTcount: A:0.33, C:0.20, G:0.24, T:0.23
Consensus pattern (49 bp):
TGTAAGACCTATTTGGGACATGGCATCGACCTCGATAAATGAAAGCCAA
Found at i:864921 original size:43 final size:42
Alignment explanation
Indices: 864870--865039 Score: 177
Period size: 43 Copynumber: 4.0 Consensus size: 42
864860 CATAGGATTT
*
864870 TCGATATGTG-TTCTTGAGTAAGACCATGTTTAGGACATTGGCA
1 TCGATATGTGATTC--GAGTAAGACCATGTCTAGGACATTGGCA
* *
864913 TTGATATGTGATTACGTGTAAGACCATGTCTAGGACATTGGCA
1 TCGATATGTGATT-CGAGTAAGACCATGTCTAGGACATTGGCA
* * * * *
864956 TCG-TATTTGATTCGTGTAAGACC-TATCTGGGACAGTGGCA
1 TCGATATGTGATTCGAGTAAGACCATGTCTAGGACATTGGCA
* *
864996 TCGATATGTGATTTC-ATGTAAGACCACGTCTGGGACATTGGCA
1 TCGATATGTGA-TTCGA-GTAAGACCATGTCTAGGACATTGGCA
865039 T
1 T
865040 TGTATGATAT
Statistics
Matches: 108, Mismatches: 13, Indels: 12
0.81 0.10 0.09
Matches are distributed among these distances:
40 17 0.16
41 17 0.16
42 19 0.18
43 52 0.48
44 2 0.02
45 1 0.01
ACGTcount: A:0.25, C:0.16, G:0.26, T:0.33
Consensus pattern (42 bp):
TCGATATGTGATTCGAGTAAGACCATGTCTAGGACATTGGCA
Found at i:886473 original size:28 final size:28
Alignment explanation
Indices: 886430--886568 Score: 163
Period size: 28 Copynumber: 5.0 Consensus size: 28
886420 CATAACTATA
*
886430 AATGTGATTGGGCCTAAT-GGCCGTATG
1 AATGTGATTGGGCCTAATGGGCCATATG
** *
886457 AATGTGATTTGGGCCTAATGGGCCACGTA
1 AATGTGA-TTGGGCCTAATGGGCCATATG
886486 AATGTGATTGGGCCTAATGGGCCATATG
1 AATGTGATTGGGCCTAATGGGCCATATG
* * *
886514 AAAGAGATTGAGCCTAATGGGCCATATG
1 AATGTGATTGGGCCTAATGGGCCATATG
*** *
886542 AAAAAGATTGGGCCTAATGGGCTATAT
1 AATGTGATTGGGCCTAATGGGCCATAT
886569 ACAGGTATGT
Statistics
Matches: 97, Mismatches: 13, Indels: 3
0.86 0.12 0.03
Matches are distributed among these distances:
27 7 0.07
28 78 0.80
29 12 0.12
ACGTcount: A:0.29, C:0.14, G:0.30, T:0.27
Consensus pattern (28 bp):
AATGTGATTGGGCCTAATGGGCCATATG
Found at i:889857 original size:28 final size:28
Alignment explanation
Indices: 889817--889890 Score: 85
Period size: 28 Copynumber: 2.6 Consensus size: 28
889807 CATATACCTC
* * * **
889817 GCACGCTAAGTGCTATTTTGGATGTTTT
1 GCACACTAAGTGCCATTTTCGATACTTT
**
889845 GCACACTAAGTGCCATCCTCGATACTTT
1 GCACACTAAGTGCCATTTTCGATACTTT
889873 GCACACTAAGTGCCATTT
1 GCACACTAAGTGCCATTT
889891 ATATATATAT
Statistics
Matches: 37, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
28 37 1.00
ACGTcount: A:0.23, C:0.24, G:0.19, T:0.34
Consensus pattern (28 bp):
GCACACTAAGTGCCATTTTCGATACTTT
Found at i:889967 original size:40 final size:39
Alignment explanation
Indices: 889902--889987 Score: 109
Period size: 40 Copynumber: 2.2 Consensus size: 39
889892 TATATATATA
**
889902 TAGCCGAAGCTATCTCAAATTGCACACCAAGTGCCACTTT
1 TAGCCGAAGCTATCTCAAACCGCACACCAAGTGCCA-TTT
* * * *
889942 TAGCCGAAGCTATTTCGAACCGCACACTAAGTGTCATTT
1 TAGCCGAAGCTATCTCAAACCGCACACCAAGTGCCATTT
889981 TAGCCGA
1 TAGCCGA
889988 TAAGTCATTA
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
39 10 0.25
40 30 0.75
ACGTcount: A:0.29, C:0.28, G:0.17, T:0.26
Consensus pattern (39 bp):
TAGCCGAAGCTATCTCAAACCGCACACCAAGTGCCATTT
Found at i:892505 original size:20 final size:20
Alignment explanation
Indices: 892480--892520 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
892470 AAGTAATTAC
892480 TTAACTTGTAATTTGGTTCT
1 TTAACTTGTAATTTGGTTCT
892500 TTAACTTGTAATTTGGTTCT
1 TTAACTTGTAATTTGGTTCT
892520 T
1 T
892521 ACTCATAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.20, C:0.10, G:0.15, T:0.56
Consensus pattern (20 bp):
TTAACTTGTAATTTGGTTCT
Found at i:896801 original size:46 final size:46
Alignment explanation
Indices: 896751--897065 Score: 378
Period size: 46 Copynumber: 6.8 Consensus size: 46
896741 TGATTGAGCA
896751 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
896797 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
896842 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
896890 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
896935 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
*
896983 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
897029 -CCTGAGCGCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
897066 GCGGGTTACA
Statistics
Matches: 234, Mismatches: 16, Indels: 38
0.81 0.06 0.13
Matches are distributed among these distances:
42 4 0.02
43 10 0.04
45 8 0.03
46 134 0.57
47 58 0.25
48 6 0.03
50 10 0.04
51 4 0.02
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:896907 original size:93 final size:93
Alignment explanation
Indices: 896748--897011 Score: 528
Period size: 93 Copynumber: 2.8 Consensus size: 93
896738 GGATGATTGA
896748 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
896813 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
896841 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
896906 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
896934 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
896999 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
897012 ACTTATGGAT
Statistics
Matches: 171, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
93 171 1.00
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:899323 original size:49 final size:49
Alignment explanation
Indices: 899254--899547 Score: 461
Period size: 49 Copynumber: 6.1 Consensus size: 49
899244 GAAATGATAG
* *
899254 TAAGGCCTAATGGCTGATGTGATGAAGGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
899303 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
899352 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
*
899401 TAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
*
899448 TAAGGCCTAATGGCCGATGTGATGAATGTGGAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
* * * * * * *
899497 CAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATA-A-ATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
899544 TAAG
1 TAAG
899548 TCCCGAAGGG
Statistics
Matches: 228, Mismatches: 15, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
47 53 0.23
48 1 0.00
49 174 0.76
ACGTcount: A:0.32, C:0.09, G:0.31, T:0.29
Consensus pattern (49 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
Found at i:899466 original size:96 final size:96
Alignment explanation
Indices: 899254--899547 Score: 471
Period size: 96 Copynumber: 3.0 Consensus size: 96
899244 GAAATGATAG
* * *
899254 TAAGGCCTAATGGCTGATGTGATGAAGGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCG
899319 ATGTGATGAATGTGAAAGTGTATATATATGTGA
66 ATGTGATGAATGTGAAAGTG--TATATATGTGA
899352 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCG
899417 ATGTGATGAATGTGAAAGTGTATATATGTGA
66 ATGTGATGAATGTGAAAGTGTATATATGTGA
* * * * *
899448 TAAGGCCTAATGGCCGATGTGATGAATGTGGAAGTGTATATATATGTGACAGGGCCGAGTGGCCA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCG
* * *
899513 ACGTGATGGATGTGAAAGTGTATAAATGTGA
66 ATGTGATGAATGTGAAAGTGTATATATGTGA
899544 TAAG
1 TAAG
899548 TCCCGAAGGG
Statistics
Matches: 185, Mismatches: 11, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
96 103 0.56
98 82 0.44
ACGTcount: A:0.32, C:0.09, G:0.31, T:0.29
Consensus pattern (96 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCG
ATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:901621 original size:43 final size:43
Alignment explanation
Indices: 901573--901761 Score: 351
Period size: 43 Copynumber: 4.4 Consensus size: 43
901563 TTGGTTTTCA
*
901573 GCACTAAGTGTCCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
*
901616 GCACTAAGTGTCCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
*
901659 ACACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
901702 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
901745 GCACTAAGTGTGCGGGC
1 GCACTAAGTGTGCGGGC
901762 TTGAAATGCA
Statistics
Matches: 143, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 143 1.00
ACGTcount: A:0.23, C:0.16, G:0.34, T:0.27
Consensus pattern (43 bp):
GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
Found at i:901778 original size:29 final size:29
Alignment explanation
Indices: 901743--901816 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
901733 GTTGTGAGAT
* *
901743 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
901772 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
901801 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
901817 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:902403 original size:40 final size:40
Alignment explanation
Indices: 902129--902389 Score: 296
Period size: 40 Copynumber: 6.5 Consensus size: 40
902119 TCGAATGATG
* *
902129 TCCGGGCTAAGTCCCGAAG-GC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCT-AGTGA-TATA
* * * * *
902169 TCCGGACTAAGAT-CCGAAG-GCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGAGCATTCGTGCTAGTGA-TATA
*
902209 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
* *
902249 TCCGGGCTAAGTCCCGAGGAGCATTCGTGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
*
902289 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
* ** * * *
902329 TCCGTGCTAAACCCCAAAGAGCATTCGTGCTGGTGTTATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
*
902369 TCCGGGCTAGGTCCCGAAGAG
1 TCCGGGCTAAGTCCCGAAGAG
902390 TAATCATGAT
Statistics
Matches: 187, Mismatches: 30, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
39 1 0.01
40 167 0.89
41 19 0.10
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
Found at i:906122 original size:37 final size:37
Alignment explanation
Indices: 906066--906144 Score: 104
Period size: 37 Copynumber: 2.1 Consensus size: 37
906056 CCGAGCTCTA
* ** *
906066 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGAAGATTATGTCCGGGT
* *
906103 AAGACCCGATAACTTCGTGTGAAGATTATGTCCGTGT
1 AAGACCCGATAACTACGTGTGAAGATTATGTCCGGGT
906140 AAGAC
1 AAGAC
906145 TTCCTAATAA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.25, C:0.19, G:0.29, T:0.27
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGAAGATTATGTCCGGGT
Found at i:908087 original size:29 final size:29
Alignment explanation
Indices: 908052--908125 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
908042 GTTGTGAGAT
* *
908052 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
908081 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
908110 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
908126 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:908712 original size:40 final size:40
Alignment explanation
Indices: 908438--908698 Score: 287
Period size: 40 Copynumber: 6.5 Consensus size: 40
908428 TCGAATGATG
* *
908438 TCCGGGCTAAGTCCCGAAG-GC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCT-AGTGA-TATA
* * * * *
908478 TCCGGACTAAGAT-CCGAAG-GCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGAGCATTCGTGCTAGTGA-TATA
* * *
908518 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGCGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
*
908558 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
*
908598 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
* ** * * *
908638 TCCGTGCTAAACCCCAAAGAGCATTCGTGCTGGTGTTATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
*
908678 TCCGGGCTAGGTCCCGAAGAG
1 TCCGGGCTAAGTCCCGAAGAG
908699 TAATCATGCT
Statistics
Matches: 187, Mismatches: 30, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
39 1 0.01
40 168 0.90
41 18 0.10
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
Found at i:913399 original size:63 final size:63
Alignment explanation
Indices: 913295--913414 Score: 186
Period size: 63 Copynumber: 1.9 Consensus size: 63
913285 AGTTTCTATA
* *
913295 GAAATAAACGGCATCAGCATTGAAGCCCTGTACAGGGAGATATCCAAATTGTAATGCATGAAG
1 GAAACAAACGGCATCAGCATTGAAGCCCTGTACAGGGAGATATCCAAATCGTAATGCATGAAG
* * * *
913358 GAAACAAACGGCATCAGTATTGAAGCTCTGTGCAGGGAGATATCCAAGTCGTAATGC
1 GAAACAAACGGCATCAGCATTGAAGCCCTGTACAGGGAGATATCCAAATCGTAATGC
913415 GCAAAGGTCA
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
63 51 1.00
ACGTcount: A:0.36, C:0.18, G:0.25, T:0.21
Consensus pattern (63 bp):
GAAACAAACGGCATCAGCATTGAAGCCCTGTACAGGGAGATATCCAAATCGTAATGCATGAAG
Found at i:921886 original size:27 final size:27
Alignment explanation
Indices: 921594--921872 Score: 314
Period size: 27 Copynumber: 10.4 Consensus size: 27
921584 AAGACCTTTG
*
921594 TTTGTAAAATTACCGAAATACCCTC-A
1 TTTGTAAAATTACCGAAATACCCCCGA
* * *
921620 GTTTATAAAATTATCGAAATACCCCCGG
1 -TTTGTAAAATTACCGAAATACCCCCGA
* * *
921648 TTTGTAAGATTACCAAAATACCCTCGA
1 TTTGTAAAATTACCGAAATACCCCCGA
*
921675 TTTGTAAACTTACCGAAATACCCCCGA
1 TTTGTAAAATTACCGAAATACCCCCGA
* *
921702 TTTGTAAAATTACTGAAATA-CCCCAA
1 TTTGTAAAATTACCGAAATACCCCCGA
* *
921728 TTTGTAAAATTACCGAAATA-CCTCTA
1 TTTGTAAAATTACCGAAATACCCCCGA
* *
921754 GTTTGTAAGATTACCGAAATA-CCCCTA
1 -TTTGTAAAATTACCGAAATACCCCCGA
* *
921781 GTTTGTAAAATTATCGAAATACCCCCGG
1 -TTTGTAAAATTACCGAAATACCCCCGA
* * *
921809 TTTGTAAGACTACCGAAATACCCCCGG
1 TTTGTAAAATTACCGAAATACCCCCGA
* *
921836 TTTGTAAGACTACCGAAATACCCCCGA
1 TTTGTAAAATTACCGAAATACCCCCGA
921863 TTTGTAAAAT
1 TTTGTAAAAT
921873 GATCATAATA
Statistics
Matches: 217, Mismatches: 32, Indels: 6
0.85 0.13 0.02
Matches are distributed among these distances:
26 28 0.13
27 185 0.85
28 4 0.02
ACGTcount: A:0.35, C:0.23, G:0.13, T:0.29
Consensus pattern (27 bp):
TTTGTAAAATTACCGAAATACCCCCGA
Found at i:921923 original size:27 final size:27
Alignment explanation
Indices: 921866--921934 Score: 66
Period size: 27 Copynumber: 2.6 Consensus size: 27
921856 CCCCCGATTT
* * * * *
921866 GTAAAATGATCATAATACCCCTATAGT
1 GTAAAATGACCGTAAAACCACTATAGG
*
921893 GTAAAATGACCGTAAAACCACTGTAGG
1 GTAAAATGACCGTAAAACCACTATAGG
* *
921920 GTAAAGTGACTGTAA
1 GTAAAATGACCGTAA
921935 TACTCTTGTA
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.41, C:0.16, G:0.19, T:0.25
Consensus pattern (27 bp):
GTAAAATGACCGTAAAACCACTATAGG
Found at i:925583 original size:16 final size:16
Alignment explanation
Indices: 925541--925590 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
925531 ACGTAGCATT
925541 ATAACCAAA-T-AAAC
1 ATAACCAAATTCAAAC
* *
925555 TTAAACCATATTCAAAC
1 AT-AACCAAATTCAAAC
*
925572 ATAACCAAATTCAAGC
1 ATAACCAAATTCAAAC
925588 ATA
1 ATA
925591 GAAGTTAAGC
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
14 1 0.04
15 6 0.21
16 16 0.57
17 5 0.18
ACGTcount: A:0.54, C:0.22, G:0.02, T:0.22
Consensus pattern (16 bp):
ATAACCAAATTCAAAC
Found at i:926472 original size:45 final size:45
Alignment explanation
Indices: 926423--926516 Score: 127
Period size: 45 Copynumber: 2.1 Consensus size: 45
926413 ATGTAACCAA
* * *
926423 ATATATCGATGCCAATGTCTCAAATG-TGGTCTTACACGAAAACAC
1 ATATATCGATGCCAACGTCCCAAA-GATGGTCTTACACAAAAACAC
* *
926468 ATATATTGATGCCAACGTCCCAGAGATGGTCTTACACAAAAACAC
1 ATATATCGATGCCAACGTCCCAAAGATGGTCTTACACAAAAACAC
926513 ATAT
1 ATAT
926517 TGGAATCCTA
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
44 1 0.02
45 42 0.98
ACGTcount: A:0.37, C:0.22, G:0.15, T:0.26
Consensus pattern (45 bp):
ATATATCGATGCCAACGTCCCAAAGATGGTCTTACACAAAAACAC
Found at i:927152 original size:24 final size:25
Alignment explanation
Indices: 927119--927165 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
927109 AACAAACAAC
*
927119 ACATAGCTC-AAATATTCATCAATG
1 ACATAACTCAAAATATTCATCAATG
927143 ACATAACTCAAAATATTCATCAA
1 ACATAACTCAAAATATTCATCAA
927166 AATCAAAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 8 0.38
25 13 0.62
ACGTcount: A:0.47, C:0.21, G:0.04, T:0.28
Consensus pattern (25 bp):
ACATAACTCAAAATATTCATCAATG
Found at i:931057 original size:26 final size:26
Alignment explanation
Indices: 931022--931129 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
931012 TGAAATGCCC
*
931022 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
*
931048 ATCATAGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
931074 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
931100 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
931126 ATCA
1 ATCA
931130 ATTTGTACCA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.37, C:0.24, G:0.06, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:938160 original size:26 final size:26
Alignment explanation
Indices: 938125--938232 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 26
938115 TGAAATGCCC
*
938125 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
*
938151 ATCATAGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* **
938177 ATCATGGAATATTTACCTAATTCATT
1 ATCATGGAACATTTACCTAACCCATT
938203 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
938229 ATCA
1 ATCA
938233 ATTTGTACCA
Statistics
Matches: 73, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 73 1.00
ACGTcount: A:0.37, C:0.23, G:0.06, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:945319 original size:24 final size:25
Alignment explanation
Indices: 945286--945332 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
945276 AACTAACATC
*
945286 ACATAGCTC-AAATATTCATCAATG
1 ACATAACTCAAAATATTCATCAATG
945310 ACATAACTCAAAATATTCATCAA
1 ACATAACTCAAAATATTCATCAA
945333 AATCAAAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 8 0.38
25 13 0.62
ACGTcount: A:0.47, C:0.21, G:0.04, T:0.28
Consensus pattern (25 bp):
ACATAACTCAAAATATTCATCAATG
Found at i:951671 original size:42 final size:41
Alignment explanation
Indices: 951608--951719 Score: 127
Period size: 43 Copynumber: 2.7 Consensus size: 41
951598 TTACTGAGGC
*
951608 TACATGTAAGACCATATCTGGGATATGTCATCAATATGAGACT
1 TACATGTAAGACCATATCTGGGATATGT-ATCAATACGAGA-T
** * * *
951651 T-TGTGTAAGACCATAGCTGGGTTATTGGTATCGATACGAGAT
1 TACATGTAAGACCATATCTGGGATA-T-GTATCAATACGAGAT
951693 TACATGTAAGACCATATCTGGGATATG
1 TACATGTAAGACCATATCTGGGATATG
951720 GCATTGGTAA
Statistics
Matches: 56, Mismatches: 10, Indels: 8
0.76 0.14 0.11
Matches are distributed among these distances:
41 1 0.02
42 22 0.39
43 31 0.55
44 2 0.04
ACGTcount: A:0.31, C:0.14, G:0.23, T:0.31
Consensus pattern (41 bp):
TACATGTAAGACCATATCTGGGATATGTATCAATACGAGAT
Found at i:958797 original size:42 final size:42
Alignment explanation
Indices: 958738--959108 Score: 742
Period size: 42 Copynumber: 8.8 Consensus size: 42
958728 ACAAAGTTTT
958738 TATTAATGACCAGCAACTCATTTATTAAACTAAGATGAGTTG
1 TATTAATGACCAGCAACTCATTTATTAAACTAAGATGAGTTG
958780 TATTAATGACCAGCAACTCATTTATTAAACTAAGATGAGTTG
1 TATTAATGACCAGCAACTCATTTATTAAACTAAGATGAGTTG
958822 TATTAATGACCAGCAACTCATTTATTAAACTAAGATGAGTTG
1 TATTAATGACCAGCAACTCATTTATTAAACTAAGATGAGTTG
958864 TATTAATGACCAGCAACTCATTTATTAAACTAAGATGAGTTG
1 TATTAATGACCAGCAACTCATTTATTAAACTAAGATGAGTTG
958906 TATTAATGACCAGCAACTCATTTATTAAACTAAGATGAGTTG
1 TATTAATGACCAGCAACTCATTTATTAAACTAAGATGAGTTG
958948 TATTAATGACCAGCAACTCATTTATTAAACTAAGATGAGTTG
1 TATTAATGACCAGCAACTCATTTATTAAACTAAGATGAGTTG
958990 TATTAATGACCAGCAACTCATTTATTAAACTAAGATGAGTTG
1 TATTAATGACCAGCAACTCATTTATTAAACTAAGATGAGTTG
959032 TATTAATGACCAGCAACTCATTTATTAAACTAAGATGAGTTG
1 TATTAATGACCAGCAACTCATTTATTAAACTAAGATGAGTTG
959074 TATTAATGACCAGCAACTCATTTATTAAACTAAGA
1 TATTAATGACCAGCAACTCATTTATTAAACTAAGA
959109 GGCTTAAATG
Statistics
Matches: 329, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 329 1.00
ACGTcount: A:0.39, C:0.15, G:0.14, T:0.33
Consensus pattern (42 bp):
TATTAATGACCAGCAACTCATTTATTAAACTAAGATGAGTTG
Found at i:962934 original size:13 final size:13
Alignment explanation
Indices: 962916--962940 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
962906 TGGTCATCAT
962916 GGTGTGAACACAA
1 GGTGTGAACACAA
962929 GGTGTGAACACA
1 GGTGTGAACACA
962941 TGATCAATAC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.32, T:0.16
Consensus pattern (13 bp):
GGTGTGAACACAA
Found at i:966852 original size:14 final size:14
Alignment explanation
Indices: 966833--966877 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
966823 AACTCATCTT
*
966833 AGTTTAATTAAATG
1 AGTTTAATTTAATG
*
966847 AGTTT-ATTTGATG
1 AGTTTAATTTAATG
*
966860 AATTTAATTTAATG
1 AGTTTAATTTAATG
966874 AGTT
1 AGTT
966878 GCTTCTTTAA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
13 10 0.40
14 15 0.60
ACGTcount: A:0.36, C:0.00, G:0.16, T:0.49
Consensus pattern (14 bp):
AGTTTAATTTAATG
Found at i:968302 original size:14 final size:14
Alignment explanation
Indices: 968280--968324 Score: 65
Period size: 14 Copynumber: 3.3 Consensus size: 14
968270 TTAAAGAAGC
968280 AACTCATTAAATTA
1 AACTCATTAAATTA
*
968294 AATTCATTAAA-TA
1 AACTCATTAAATTA
*
968307 AACTCATTTAATTA
1 AACTCATTAAATTA
968321 AACT
1 AACT
968325 AAGATGAGTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
13 11 0.41
14 16 0.59
ACGTcount: A:0.49, C:0.13, G:0.00, T:0.38
Consensus pattern (14 bp):
AACTCATTAAATTA
Found at i:968368 original size:42 final size:42
Alignment explanation
Indices: 968307--968412 Score: 194
Period size: 42 Copynumber: 2.5 Consensus size: 42
968297 TCATTAAATA
968307 AACTCATTTAATTAAACTAAGATGAGTTGTATTAATGACCAGC
1 AACTCATTT-ATTAAACTAAGATGAGTTGTATTAATGACCAGC
*
968350 AACTCATTTATTAAACTAAGATGAGTTGTATTAATGACCAGT
1 AACTCATTTATTAAACTAAGATGAGTTGTATTAATGACCAGC
968392 AACTCATTTATTAAACTAAGA
1 AACTCATTTATTAAACTAAGA
968413 GGCTTAAATG
Statistics
Matches: 62, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
42 53 0.85
43 9 0.15
ACGTcount: A:0.41, C:0.13, G:0.12, T:0.34
Consensus pattern (42 bp):
AACTCATTTATTAAACTAAGATGAGTTGTATTAATGACCAGC
Found at i:969741 original size:10 final size:11
Alignment explanation
Indices: 969716--969748 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
969706 AATGAGTGCA
969716 TGTTTAATAAG
1 TGTTTAATAAG
*
969727 TGTTTAA-ATG
1 TGTTTAATAAG
969737 TGTTTAATAAG
1 TGTTTAATAAG
969748 T
1 T
969749 TCAATTTAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
10 9 0.47
11 10 0.53
ACGTcount: A:0.33, C:0.00, G:0.18, T:0.48
Consensus pattern (11 bp):
TGTTTAATAAG
Found at i:972192 original size:10 final size:10
Alignment explanation
Indices: 972177--972214 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
972167 GCTCGTTTCC
*
972177 AGCTCACTCG
1 AGCTCAATCG
972187 AGCTCAAGTC-
1 AGCTCAA-TCG
972197 AGCTCAATCG
1 AGCTCAATCG
972207 AGCTCAAT
1 AGCTCAAT
972215 TTAGCTACAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
9 2 0.08
10 21 0.84
11 2 0.08
ACGTcount: A:0.29, C:0.32, G:0.18, T:0.21
Consensus pattern (10 bp):
AGCTCAATCG
Found at i:972201 original size:20 final size:20
Alignment explanation
Indices: 972176--972213 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
972166 AGCTCGTTTC
*
972176 CAGCTCACTCGAGCTCAAGT
1 CAGCTCAATCGAGCTCAAGT
972196 CAGCTCAATCGAGCTCAA
1 CAGCTCAATCGAGCTCAA
972214 TTTAGCTACA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.29, C:0.34, G:0.18, T:0.18
Consensus pattern (20 bp):
CAGCTCAATCGAGCTCAAGT
Found at i:972220 original size:20 final size:20
Alignment explanation
Indices: 972177--972237 Score: 63
Period size: 20 Copynumber: 3.0 Consensus size: 20
972167 GCTCGTTTCC
* * *
972177 AGCTCACTCGAGCTCAAGTC
1 AGCTCAATCGAGCTCAATTT
972197 AGCTCAATCGAGCTCAATTT
1 AGCTCAATCGAGCTCAATTT
972217 AGCTACAATTC-AGCTC-ATTT
1 AGCT-CAA-TCGAGCTCAATTT
972237 A
1 A
972238 TTTTATTGGT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
20 26 0.72
21 8 0.22
22 2 0.06
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.28
Consensus pattern (20 bp):
AGCTCAATCGAGCTCAATTT
Found at i:972231 original size:11 final size:10
Alignment explanation
Indices: 972187--972233 Score: 51
Period size: 10 Copynumber: 4.6 Consensus size: 10
972177 AGCTCACTCG
*
972187 AGCTCAAGTC
1 AGCTCAATTC
972197 AGCTCAA-TC
1 AGCTCAATTC
*
972206 GAGCTCAATTT
1 -AGCTCAATTC
972217 AGCTACAATTC
1 AGCT-CAATTC
972228 AGCTCA
1 AGCTCA
972234 TTTATTTTAT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
9 2 0.06
10 20 0.62
11 10 0.31
ACGTcount: A:0.32, C:0.28, G:0.15, T:0.26
Consensus pattern (10 bp):
AGCTCAATTC
Found at i:984919 original size:23 final size:20
Alignment explanation
Indices: 984878--984938 Score: 52
Period size: 20 Copynumber: 3.0 Consensus size: 20
984868 ACCATTTAAT
*
984878 ATCAAAAAATTCATGAATTC
1 ATCAAAAAATTCATAAATTC
984898 ATCAACAAAATCTCATAAAATT-
1 ATCAA-AAAAT-TCAT-AAATTC
* * *
984920 ATTAAAAATTTCATGAATT
1 ATCAAAAAATTCATAAATT
984939 TAGGCATGGG
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
19 4 0.12
20 9 0.26
21 9 0.26
22 8 0.24
23 4 0.12
ACGTcount: A:0.51, C:0.13, G:0.03, T:0.33
Consensus pattern (20 bp):
ATCAAAAAATTCATAAATTC
Found at i:987247 original size:29 final size:29
Alignment explanation
Indices: 987163--987309 Score: 133
Period size: 29 Copynumber: 5.2 Consensus size: 29
987153 GTAAACATGG
* * *
987163 ATAT-AATGTGACTTGGGCCGGATAGGCC
1 ATATGAATGTGAATTGGGCCTGATGGGCC
* * * *
987191 ATATAAATGAG-ATTGGGCCTAACGGGCC
1 ATATGAATGTGAATTGGGCCTGATGGGCC
*
987219 ATATGAATGTGAATTGGGCCTGATTGGCC
1 ATATGAATGTGAATTGGGCCTGATGGGCC
* *
987248 ATATGAACGTGAATTGGG-TTGGATGGGCC
1 ATATGAATGTGAATTGGGCCT-GATGGGCC
* *
987277 ATATAAATGAG-ATTGGGCCT-AGTGGGCC
1 ATATGAATGTGAATTGGGCCTGA-TGGGCC
987305 ATATG
1 ATATG
987310 CATGCATGTA
Statistics
Matches: 95, Mismatches: 19, Indels: 10
0.77 0.15 0.08
Matches are distributed among these distances:
27 1 0.01
28 42 0.44
29 52 0.55
ACGTcount: A:0.27, C:0.14, G:0.32, T:0.27
Consensus pattern (29 bp):
ATATGAATGTGAATTGGGCCTGATGGGCC
Found at i:991654 original size:18 final size:19
Alignment explanation
Indices: 991619--991655 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
991609 TGAATAGGTC
991619 AAATGGGCCAGAATGGGCT
1 AAATGGGCCAGAATGGGCT
*
991638 AAATGGGCCCG-ATGGGCT
1 AAATGGGCCAGAATGGGCT
991656 GTTGGGCCCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.27, C:0.19, G:0.38, T:0.16
Consensus pattern (19 bp):
AAATGGGCCAGAATGGGCT
Found at i:991755 original size:28 final size:29
Alignment explanation
Indices: 991724--991846 Score: 117
Period size: 29 Copynumber: 4.3 Consensus size: 29
991714 GTGAGCATGG
*
991724 ATAT-AATGTGATTTGGGCCGGATGGGCC
1 ATATGAATGTGAATTGGGCCGGATGGGCC
* * * *
991752 ATATAAATGAG-ATTGGG-CGTAACGGGCC
1 ATATGAATGTGAATTGGGCCG-GATGGGCC
* * *
991780 ATATGAATGTAAATTAGGCCTGATGGGCC
1 ATATGAATGTGAATTGGGCCGGATGGGCC
* *
991809 ATATGAAAGTGAATTGGGCTGGATGGGCC
1 ATATGAATGTGAATTGGGCCGGATGGGCC
*
991838 ATATAAATG
1 ATATGAATG
991847 AGATTAGGCC
Statistics
Matches: 73, Mismatches: 18, Indels: 7
0.74 0.18 0.07
Matches are distributed among these distances:
27 2 0.03
28 23 0.32
29 47 0.64
30 1 0.01
ACGTcount: A:0.30, C:0.12, G:0.32, T:0.26
Consensus pattern (29 bp):
ATATGAATGTGAATTGGGCCGGATGGGCC
Found at i:991811 original size:29 final size:29
Alignment explanation
Indices: 991739--991876 Score: 104
Period size: 29 Copynumber: 4.8 Consensus size: 29
991729 ATGTGATTTG
* * * *
991739 GGCCGGATGGGCCATATAAATG-AGATTG
1 GGCCTGATGGGCCATATGAATGTAAATTA
* * *
991767 GGCGTAACGGGCCATATGAATGTAAATTA
1 GGCCTGATGGGCCATATGAATGTAAATTA
* *
991796 GGCCTGATGGGCCATATGAAAGTGAATT-
1 GGCCTGATGGGCCATATGAATGTAAATTA
* * *
991824 GGGCTGGATGGGCCATATAAATG-AGATTA
1 GGCCT-GATGGGCCATATGAATGTAAATTA
* *
991853 GGCCT-AGTGGGCCATGTGCATGTA
1 GGCCTGA-TGGGCCATATGAATGTA
991877 TGTAGGGGTT
Statistics
Matches: 84, Mismatches: 21, Indels: 9
0.74 0.18 0.08
Matches are distributed among these distances:
27 1 0.01
28 36 0.43
29 47 0.56
ACGTcount: A:0.28, C:0.14, G:0.33, T:0.24
Consensus pattern (29 bp):
GGCCTGATGGGCCATATGAATGTAAATTA
Found at i:991853 original size:57 final size:57
Alignment explanation
Indices: 991739--991867 Score: 149
Period size: 57 Copynumber: 2.3 Consensus size: 57
991729 ATGTGATTTG
* *
991739 GGCCGGATGGGCCATATAAATGAGATTGGGCGTAACGGGCCATATGAATGTAAATTA
1 GGCCTGATGGGCCATATAAATGAGATTGGGCGTAACGGGCCATATAAATGTAAATTA
* * *
991796 GGCCTGATGGGCCATATGAAAGTGA-ATTGGGC-TGGATGGGCCATATAAATG-AGATTA
1 GGCCTGATGGGCCATAT-AAA-TGAGATTGGGCGT-AACGGGCCATATAAATGTAAATTA
991853 GGCCT-AGTGGGCCAT
1 GGCCTGA-TGGGCCAT
991868 GTGCATGTAT
Statistics
Matches: 63, Mismatches: 5, Indels: 8
0.83 0.07 0.11
Matches are distributed among these distances:
56 1 0.02
57 35 0.56
58 24 0.38
59 3 0.05
ACGTcount: A:0.29, C:0.15, G:0.33, T:0.23
Consensus pattern (57 bp):
GGCCTGATGGGCCATATAAATGAGATTGGGCGTAACGGGCCATATAAATGTAAATTA
Found at i:999725 original size:28 final size:30
Alignment explanation
Indices: 999674--999731 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 30
999664 TATTTCACAT
*
999674 TTTAATTCCTCAATATATACTTTT-CTCAA
1 TTTAATTCCTCAATATACACTTTTACTCAA
*
999703 TTTAATTCCT-AATATACATTTTTACTCAA
1 TTTAATTCCTCAATATACACTTTTACTCAA
999732 AATCACTTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
28 11 0.42
29 15 0.58
ACGTcount: A:0.33, C:0.19, G:0.00, T:0.48
Consensus pattern (30 bp):
TTTAATTCCTCAATATACACTTTTACTCAA
Found at i:1002268 original size:51 final size:51
Alignment explanation
Indices: 1002209--1002350 Score: 207
Period size: 51 Copynumber: 2.8 Consensus size: 51
1002199 ATGCGTACCT
* *
1002209 GATAGCTTTGATCACATGTGTGGTACTACGTGCAGGCCACTTTGTGTAA-AA
1 GATAGCTTTGATCACAAGTGTGGTACTATGTGCAGGCCACTTTGTG-AAGAA
*
1002260 GATAGCTTTGATCACAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAA
1 GATAGCTTTGATCACAAGTGTGGTACTATGTGCAGGCCACTTTGTGAAGAA
* *
1002311 GGTAGCTTTGA-CTACAAGTGTGGTACTGTGTGCAGGCCAC
1 GATAGCTTTGATC-ACAAGTGTGGTACTATGTGCAGGCCAC
1002351 CGGGCATCCG
Statistics
Matches: 83, Mismatches: 6, Indels: 4
0.89 0.06 0.04
Matches are distributed among these distances:
50 3 0.04
51 80 0.96
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.30
Consensus pattern (51 bp):
GATAGCTTTGATCACAAGTGTGGTACTATGTGCAGGCCACTTTGTGAAGAA
Done.