Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A09
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: 77927517
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1491452 characters in sequence are not A, C, G, or T
File 101 of 250
Found at i:32819790 original size:52 final size:52
Alignment explanation
Indices: 32819727--32819833 Score: 160
Period size: 52 Copynumber: 2.1 Consensus size: 52
32819717 CGTGATATGT
* * *
32819727 ATGCGGTATCCGAGCACGTTGAGTTGGTTCGAGTTCATGATGTATGCGATAC
1 ATGCGGCATCCGAGCACGTTGAGTTGGTTCGAGTTCATAATGGATGCGATAC
* * *
32819779 ATGCGGCATCCGAGCTCGTTGAGTTTGTTTGAGTTCATAATGGATGCGATAC
1 ATGCGGCATCCGAGCACGTTGAGTTGGTTCGAGTTCATAATGGATGCGATAC
32819831 ATG
1 ATG
32819834 TAATTGGTTT
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
52 49 1.00
ACGTcount: A:0.21, C:0.17, G:0.30, T:0.32
Consensus pattern (52 bp):
ATGCGGCATCCGAGCACGTTGAGTTGGTTCGAGTTCATAATGGATGCGATAC
Found at i:32824059 original size:11 final size:11
Alignment explanation
Indices: 32824043--32824068 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
32824033 TTAGGGAAGA
32824043 TTTCCCAAACC
1 TTTCCCAAACC
32824054 TTTCCCAAACC
1 TTTCCCAAACC
32824065 TTTC
1 TTTC
32824069 TAAAATTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.23, C:0.42, G:0.00, T:0.35
Consensus pattern (11 bp):
TTTCCCAAACC
Found at i:32830302 original size:52 final size:52
Alignment explanation
Indices: 32830219--32830322 Score: 147
Period size: 52 Copynumber: 2.0 Consensus size: 52
32830209 ATATGTATAC
* *
32830219 GGCACCCGAGCTCGTTGTGTTGGTTCAAGTTCATGATAGATGCGATACATGT
1 GGCACCCGAGCTCGTTGAGTTGGTTCAAGTTCATAATAGATGCGATACATGT
* * *
32830271 GGCATCCGAGCTCGTTGAGTTGG-TCTGAGTTCATAATGGATGCGATACATGT
1 GGCACCCGAGCTCGTTGAGTTGGTTC-AAGTTCATAATAGATGCGATACATGT
32830323 AATTGGGTTC
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
51 2 0.04
52 44 0.96
ACGTcount: A:0.21, C:0.18, G:0.30, T:0.31
Consensus pattern (52 bp):
GGCACCCGAGCTCGTTGAGTTGGTTCAAGTTCATAATAGATGCGATACATGT
Found at i:32833530 original size:27 final size:27
Alignment explanation
Indices: 32833500--32833582 Score: 114
Period size: 27 Copynumber: 3.1 Consensus size: 27
32833490 ATTTCATATC
* *
32833500 TGTAGGCTAGTATTACTGAAATGCCCT
1 TGTAGGGTAGAATTACTGAAATGCCCT
32833527 TGTAGGGTAGAATTACTGAAATGTCCC-
1 TGTAGGGTAGAATTACTGAAATG-CCCT
* *
32833554 TATAGGGTAGAATTACTGAAATACCCT
1 TGTAGGGTAGAATTACTGAAATGCCCT
32833581 TG
1 TG
32833583 GTTTACAAAA
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
26 3 0.06
27 43 0.88
28 3 0.06
ACGTcount: A:0.30, C:0.16, G:0.23, T:0.31
Consensus pattern (27 bp):
TGTAGGGTAGAATTACTGAAATGCCCT
Found at i:32833594 original size:27 final size:27
Alignment explanation
Indices: 32833564--32833908 Score: 180
Period size: 27 Copynumber: 12.8 Consensus size: 27
32833554 TATAGGGTAG
32833564 AATTACTGAAATACCCTTGGTTTACAA
1 AATTACTGAAATACCCTTGGTTTACAA
*
32833591 AATTACT-AAATACTCTTGGTTTACAA
1 AATTACTGAAATACCCTTGGTTTACAA
** * * *
32833617 AATTACCAAAATA-CCTTCGATTAGGAA
1 AATTACTGAAATACCCTTGGTTTA-CAA
** * * **
32833644 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACTGAAATACCCTTGGTTTACAA
** *
32833671 AATTACCCAAATACCCTTGGTTTATAA
1 AATTACTGAAATACCCTTGGTTTACAA
* * * ** ***
32833698 AATTACTAAAAGACCCCTAATTTGGGA
1 AATTACTGAAATACCCTTGGTTTACAA
* *
32833725 AATTACTGAAATACCCTCGATTT-CTAA
1 AATTACTGAAATACCCTTGGTTTAC-AA
* * ** **
32833752 AATTAC-CAACATACCCCTAATTTGGAA
1 AATTACTGAA-ATACCCTTGGTTTACAA
** **
32833779 AATTACTGAAATACCCTTAATTTGGAA
1 AATTACTGAAATACCCTTGGTTTACAA
* **
32833806 AATTACAGAAATA-CCTTAAATTTACAA
1 AATTACTGAAATACCCTT-GGTTTACAA
* * * *
32833833 AATTACAGAATTACCATTGACTTT-CAAA
1 AATTACTGAAATACCCTTG-GTTTAC-AA
* * *
32833861 AATTACAGAAATACCATTGGTTTGCAA
1 AATTACTGAAATACCCTTGGTTTACAA
*
32833888 AATTACTGAAATACTCTTGGT
1 AATTACTGAAATACCCTTGGT
32833909 CTGTAGATTT
Statistics
Matches: 256, Mismatches: 50, Indels: 24
0.78 0.15 0.07
Matches are distributed among these distances:
26 37 0.14
27 184 0.72
28 35 0.14
ACGTcount: A:0.41, C:0.19, G:0.10, T:0.31
Consensus pattern (27 bp):
AATTACTGAAATACCCTTGGTTTACAA
Found at i:32833677 original size:54 final size:55
Alignment explanation
Indices: 32833615--32833820 Score: 206
Period size: 54 Copynumber: 3.8 Consensus size: 55
32833605 CTTGGTTTAC
* * *
32833615 AAAATTACCAAAATA-CCTTCGATTAGGAAAATTACCAAAATACCCCTAGTTTGT
1 AAAATTACCGAAATACCCTTCGATTAGGAAAATTACCAAAATACCCCTAATTTGG
* * * * * *
32833669 AAAATTACCCAAATACCCTTGGTTTA-TAAAATTACTAAAAGACCCCTAATTTGG
1 AAAATTACCGAAATACCCTTCGATTAGGAAAATTACCAAAATACCCCTAATTTGG
* * *** *
32833723 GAAATTACTGAAATACCC-TCGATTTCTAAAATTACCAACATACCCCTAATTTGG
1 AAAATTACCGAAATACCCTTCGATTAGGAAAATTACCAAAATACCCCTAATTTGG
* * *
32833777 AAAATTACTGAAATACCCTT-AATTTGGAAAATTA-CAGAAATACC
1 AAAATTACCGAAATACCCTTCGATTAGGAAAATTACCA-AAATACC
32833821 TTAAATTTAC
Statistics
Matches: 126, Mismatches: 22, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
53 6 0.05
54 111 0.88
55 9 0.07
ACGTcount: A:0.42, C:0.20, G:0.09, T:0.29
Consensus pattern (55 bp):
AAAATTACCGAAATACCCTTCGATTAGGAAAATTACCAAAATACCCCTAATTTGG
Found at i:32833728 original size:81 final size:81
Alignment explanation
Indices: 32833589--32833820 Score: 229
Period size: 81 Copynumber: 2.9 Consensus size: 81
32833579 CTTGGTTTAC
* * * * *
32833589 AAAATTACTAAATACTCTTGGTTTACAAAATTACCAAAATA-CCTTCGATTAGGAAAATTACCAA
1 AAAATTACCAAATACCCTTGGTTTACAAAATTACTAAAATACCCTT-AATTTGGAAAATTACCAA
*
32833653 AATACCCCTAG-TTTGT
65 AATACCCCTAGATTTCT
* * * * **
32833669 AAAATTACCCAAATACCCTTGGTTTATAAAATTACTAAAAGACCCCTAATTTGGGAAATTACTGA
1 AAAATTA-CCAAATACCCTTGGTTTACAAAATTACTAAAATACCCTTAATTTGGAAAATTACCAA
*
32833734 AATA-CCCTCGATTTCT
65 AATACCCCTAGATTTCT
* ** ** *
32833750 AAAATTACCAACATACCCCTAATTTGGAAAATTACTGAAATACCCTTAATTTGGAAAATTA-CAG
1 AAAATTACCAA-ATACCCTTGGTTTACAAAATTACTAAAATACCCTTAATTTGGAAAATTACCA-
32833814 AAATACC
64 AAATACC
32833821 TTAAATTTAC
Statistics
Matches: 122, Mismatches: 24, Indels: 10
0.78 0.15 0.06
Matches are distributed among these distances:
80 16 0.13
81 102 0.84
82 4 0.03
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.30
Consensus pattern (81 bp):
AAAATTACCAAATACCCTTGGTTTACAAAATTACTAAAATACCCTTAATTTGGAAAATTACCAAA
ATACCCCTAGATTTCT
Found at i:32834216 original size:41 final size:41
Alignment explanation
Indices: 32834170--32834290 Score: 179
Period size: 41 Copynumber: 3.0 Consensus size: 41
32834160 CAGAGGAAGA
32834170 AATTGAGGATCGCATGGTTTCTTGACGACCGTGGATCCAAC
1 AATTGAGGATCGCATGGTTTCTTGACGACCGTGGATCCAAC
* * * * *
32834211 GATTGAGGATCGCATGGTTGCTTAATGACCGTGGATCCACC
1 AATTGAGGATCGCATGGTTTCTTGACGACCGTGGATCCAAC
* *
32834252 AATTAAGGATCGCATGGTTTCTTGACGATCGTGGATCCA
1 AATTGAGGATCGCATGGTTTCTTGACGACCGTGGATCCA
32834291 TCGGTGGCTT
Statistics
Matches: 69, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 69 1.00
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (41 bp):
AATTGAGGATCGCATGGTTTCTTGACGACCGTGGATCCAAC
Found at i:32834472 original size:25 final size:25
Alignment explanation
Indices: 32834438--32834583 Score: 184
Period size: 25 Copynumber: 5.8 Consensus size: 25
32834428 AATTATTCTA
*
32834438 TTATCAATGGCTTTGTGCCGATCTG
1 TTATCGATGGCTTTGTGCCGATCTG
* *
32834463 TTATCGATGGCTTTGTACCGATATG
1 TTATCGATGGCTTTGTGCCGATCTG
* * **
32834488 ATATTGATGGCAATGTGCCGATCTG
1 TTATCGATGGCTTTGTGCCGATCTG
* *
32834513 TTATCGATGGCATTGTGCCGATATG
1 TTATCGATGGCTTTGTGCCGATCTG
* * *
32834538 ATATTGATGGCTATGTGCCGATCTG
1 TTATCGATGGCTTTGTGCCGATCTG
32834563 TTATCGATGGCTTTGTGCCGA
1 TTATCGATGGCTTTGTGCCGA
32834584 GTGTATTATC
Statistics
Matches: 100, Mismatches: 21, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 100 1.00
ACGTcount: A:0.19, C:0.17, G:0.27, T:0.37
Consensus pattern (25 bp):
TTATCGATGGCTTTGTGCCGATCTG
Found at i:32834519 original size:50 final size:50
Alignment explanation
Indices: 32834451--32834583 Score: 239
Period size: 50 Copynumber: 2.7 Consensus size: 50
32834441 TCAATGGCTT
*
32834451 TGTGCCGATCTGTTATCGATGGCTTTGTACCGATATGATATTGATGGCAA
1 TGTGCCGATCTGTTATCGATGGCTTTGTGCCGATATGATATTGATGGCAA
* *
32834501 TGTGCCGATCTGTTATCGATGGCATTGTGCCGATATGATATTGATGGCTA
1 TGTGCCGATCTGTTATCGATGGCTTTGTGCCGATATGATATTGATGGCAA
32834551 TGTGCCGATCTGTTATCGATGGCTTTGTGCCGA
1 TGTGCCGATCTGTTATCGATGGCTTTGTGCCGA
32834584 GTGTATTATC
Statistics
Matches: 79, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
50 79 1.00
ACGTcount: A:0.19, C:0.17, G:0.28, T:0.36
Consensus pattern (50 bp):
TGTGCCGATCTGTTATCGATGGCTTTGTGCCGATATGATATTGATGGCAA
Found at i:32838558 original size:40 final size:40
Alignment explanation
Indices: 32838503--32838691 Score: 272
Period size: 40 Copynumber: 4.7 Consensus size: 40
32838493 ATGATAACCC
*
32838503 GGCTAAATCCCGAAGGCATTTGTGCGAGTTACCAAATCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAATCCG
* * *
32838543 GGCTAAGTCCCGAAGGCATTTGTGCGAATTACTAATTCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAATCCG
*
32838583 GGCTAAGTCCCGAAGGAATTTGTGCGAGTTACCAAATCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAATCCG
* * *
32838623 GGCTATGTCCCGAAGGCATTGGTGCGAGTTACTATAA-CCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCA-AATCCG
* *
32838663 GGCTATGTCCCGAAGGCATTTGAGCGAGT
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGT
32838692 AGCTATATCC
Statistics
Matches: 134, Mismatches: 14, Indels: 2
0.89 0.09 0.01
Matches are distributed among these distances:
40 132 0.99
41 2 0.01
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAATCCG
Found at i:32840692 original size:26 final size:27
Alignment explanation
Indices: 32840651--32840725 Score: 98
Period size: 26 Copynumber: 2.8 Consensus size: 27
32840641 CCCTATAGGG
32840651 TAGAATTACTGAAATACCCTTGGTTTA
1 TAGAATTACTGAAATACCCTTGGTTTA
*
32840678 TAGAATTACTG-AATACTCTTGGTTTA
1 TAGAATTACTGAAATACCCTTGGTTTA
* * **
32840704 CAAAATTACCAAAATACCCTTG
1 TAGAATTACTGAAATACCCTTG
32840726 ATTAGGAAAA
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
26 21 0.51
27 20 0.49
ACGTcount: A:0.36, C:0.17, G:0.12, T:0.35
Consensus pattern (27 bp):
TAGAATTACTGAAATACCCTTGGTTTA
Found at i:32841023 original size:27 final size:27
Alignment explanation
Indices: 32840654--32841021 Score: 235
Period size: 27 Copynumber: 13.7 Consensus size: 27
32840644 TATAGGGTAG
* * * *
32840654 AATTACTGAAATACCCTTGGTTTATAG
1 AATTACCGAAATACCCTTGATTTGTAA
* * * **
32840681 AATTACTG-AATACTCTTGGTTTACAA
1 AATTACCGAAATACCCTTGATTTGTAA
* * *
32840707 AATTACCAAAATACCCTTGATTAGGAA
1 AATTACCGAAATACCCTTGATTTGTAA
* * **
32840734 AATTAGCAAAATACCC-CCAGTTTGTAA
1 AATTACCGAAATACCCTTGA-TTTGTAA
* * * *
32840761 AATTACCCAAATACCCCTGGTTTATAA
1 AATTACCGAAATACCCTTGATTTGTAA
* * *
32840788 AATTACCAAAATACCC-TAATTTGTGA
1 AATTACCGAAATACCCTTGATTTGTAA
* * *
32840814 AATTACTGAAATACCC-TAATTTGTGA
1 AATTACCGAAATACCCTTGATTTGTAA
* *
32840840 AATTACTGAAATACCCTCGATTTGTAA
1 AATTACCGAAATACCCTTGATTTGTAA
* *
32840867 AATTACC-AACATA-CCTCTAATTTGGAA
1 AATTACCGAA-ATACCCT-TGATTTGTAA
* *
32840894 AATTACCGAAATACCCTTTATTTGGAA
1 AATTACCGAAATACCCTTGATTTGTAA
* * **
32840921 AATTACAGAAATACCCTTCATTTACAA
1 AATTACCGAAATACCCTTGATTTGTAA
* * * **
32840948 AATTACAGAAATATCATTGACTTTCAAA
1 AATTACCGAAATACCCTTGA-TTTGTAA
** * * *
32840976 AATTACAAAAATACCATTGGTTTGCAA
1 AATTACCGAAATACCCTTGATTTGTAA
*
32841003 AATTACCGAAATACTCTTG
1 AATTACCGAAATACCCTTG
32841022 GTCTGTAGAT
Statistics
Matches: 278, Mismatches: 54, Indels: 18
0.79 0.15 0.05
Matches are distributed among these distances:
26 73 0.26
27 178 0.64
28 27 0.10
ACGTcount: A:0.40, C:0.19, G:0.10, T:0.32
Consensus pattern (27 bp):
AATTACCGAAATACCCTTGATTTGTAA
Found at i:32841343 original size:41 final size:41
Alignment explanation
Indices: 32841286--32841405 Score: 152
Period size: 41 Copynumber: 2.9 Consensus size: 41
32841276 GTATAAAGAA
* *
32841286 ATTGAGGATCGCATGGTTGCTTGACGACCGTGGATCCAACG
1 ATTGAGGATCTCATGGTTGCTTGACGACCGTGGATCCAACC
* * *
32841327 ATTGAGGATCTCATGGTTGTTTGATGACTGTGGATCC-ACC
1 ATTGAGGATCTCATGGTTGCTTGACGACCGTGGATCCAACC
* * *
32841367 AGTTAAAGATCTCATGGTTGCTTAACGACCGTGGATCCA
1 A-TTGAGGATCTCATGGTTGCTTGACGACCGTGGATCCA
32841406 TCGGTGGCTT
Statistics
Matches: 66, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
40 3 0.05
41 63 0.95
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.29
Consensus pattern (41 bp):
ATTGAGGATCTCATGGTTGCTTGACGACCGTGGATCCAACC
Found at i:32841587 original size:25 final size:25
Alignment explanation
Indices: 32841553--32841696 Score: 162
Period size: 25 Copynumber: 5.8 Consensus size: 25
32841543 TATTATTCTA
*
32841553 TTATCAATGGCTTTGTGCCGATCTG
1 TTATCGATGGCTTTGTGCCGATCTG
* *
32841578 TTATCGATGGCTTTGTACCGATATG
1 TTATCGATGGCTTTGTGCCGATCTG
* * **
32841603 ATATTGATGGCAATGTGCCGATCTG
1 TTATCGATGGCTTTGTGCCGATCTG
* *
32841628 TTATCGATGGCATTGTGCCGATATG
1 TTATCGATGGCTTTGTGCCGATCTG
* * * *
32841653 ATATTGATGGCTATGTGCTGATCTG
1 TTATCGATGGCTTTGTGCCGATCTG
*
32841678 TTATCGAAGGCTTTGTGCC
1 TTATCGATGGCTTTGTGCC
32841697 AAGTGTATTA
Statistics
Matches: 95, Mismatches: 24, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
25 95 1.00
ACGTcount: A:0.19, C:0.17, G:0.26, T:0.38
Consensus pattern (25 bp):
TTATCGATGGCTTTGTGCCGATCTG
Found at i:32841694 original size:50 final size:50
Alignment explanation
Indices: 32841559--32841696 Score: 222
Period size: 50 Copynumber: 2.8 Consensus size: 50
32841549 TCTATTATCA
* *
32841559 ATGGCTTTGTGCCGATCTGTTATCGATGGCTTTGTACCGATATGATATTG
1 ATGGCTATGTGCCGATCTGTTATCGATGGCTTTGTGCCGATATGATATTG
* *
32841609 ATGGCAATGTGCCGATCTGTTATCGATGGCATTGTGCCGATATGATATTG
1 ATGGCTATGTGCCGATCTGTTATCGATGGCTTTGTGCCGATATGATATTG
* *
32841659 ATGGCTATGTGCTGATCTGTTATCGAAGGCTTTGTGCC
1 ATGGCTATGTGCCGATCTGTTATCGATGGCTTTGTGCC
32841697 AAGTGTATTA
Statistics
Matches: 80, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
50 80 1.00
ACGTcount: A:0.19, C:0.17, G:0.28, T:0.37
Consensus pattern (50 bp):
ATGGCTATGTGCCGATCTGTTATCGATGGCTTTGTGCCGATATGATATTG
Found at i:32844571 original size:26 final size:27
Alignment explanation
Indices: 32844531--32844604 Score: 105
Period size: 26 Copynumber: 2.8 Consensus size: 27
32844521 CCTATAGGGT
32844531 AGAATTACTGAAATACCCTTGGTTTAC
1 AGAATTACTGAAATACCCTTGGTTTAC
*
32844558 AGAATTACTG-AATACTCTTGGTTTAC
1 AGAATTACTGAAATACCCTTGGTTTAC
* **
32844584 AAAATTACCAAAATACCCTTG
1 AGAATTACTGAAATACCCTTG
32844605 ATTTGGAAAA
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
26 22 0.54
27 19 0.46
ACGTcount: A:0.36, C:0.19, G:0.12, T:0.32
Consensus pattern (27 bp):
AGAATTACTGAAATACCCTTGGTTTAC
Found at i:32844614 original size:27 final size:27
Alignment explanation
Indices: 32844584--32844875 Score: 209
Period size: 27 Copynumber: 10.8 Consensus size: 27
32844574 CTTGGTTTAC
32844584 AAAATTACCAAAATACCCTTGATTTGG
1 AAAATTACCAAAATACCCTTGATTTGG
* ** *
32844611 AAAATTAGCAAAATACCC-CCAGTTTGT
1 AAAATTACCAAAATACCCTTGA-TTTGG
* * **
32844638 AAAATTACCCAAATACCCCT-AGTTTAT
1 AAAATTACCAAAATACCCTTGA-TTTGG
*
32844665 AAAATTACCAAAATACCCCTGATTTGTG
1 AAAATTACCAAAATACCCTTGATTTG-G
* *
32844693 -AAATTA-CAGAAATACCCTCGATTTGT
1 AAAATTACCA-AAATACCCTTGATTTGG
* * *
32844719 AAAATTACCAACATACCCCTAATTTGG
1 AAAATTACCAAAATACCCTTGATTTGG
* *
32844746 AAAATTATCGAAATACCCTTGATTTGG
1 AAAATTACCAAAATACCCTTGATTTGG
* **
32844773 AAAATTA-TAGAAATACCCTTGATTTAC
1 AAAATTACCA-AAATACCCTTGATTTGG
* **
32844800 AAAATTA-CAGAAATACCATTGACTTTCA
1 AAAATTACCA-AAATACCCTTGA-TTTGG
* ** * *
32844828 AAAATTACAAAAATACAATTGGTTTGC
1 AAAATTACCAAAATACCCTTGATTTGG
* * *
32844855 AAAATTATCGAAATACTCTTG
1 AAAATTACCAAAATACCCTTG
32844876 GTCTGTAGAT
Statistics
Matches: 213, Mismatches: 42, Indels: 20
0.77 0.15 0.07
Matches are distributed among these distances:
26 3 0.01
27 186 0.87
28 23 0.11
29 1 0.00
ACGTcount: A:0.42, C:0.19, G:0.10, T:0.30
Consensus pattern (27 bp):
AAAATTACCAAAATACCCTTGATTTGG
Found at i:32844789 original size:54 final size:53
Alignment explanation
Indices: 32844583--32844875 Score: 232
Period size: 54 Copynumber: 5.4 Consensus size: 53
32844573 TCTTGGTTTA
* * *
32844583 CAAAATTACCAAAATACCCTTGATTTGGAAAATTAGCAAAATACCCC-CAGTTTG
1 CAAAATTA-CGAAATACCCTTGATTTGGAAAATTACCAAAATACCCCTGA-TTTG
* * * **
32844637 TAAAATTACCCAAATACCCCT-AGTTTATAAAATTACCAAAATACCCCTGATTTG
1 CAAAATTA-CGAAATACCCTTGA-TTTGGAAAATTACCAAAATACCCCTGATTTG
** * * * *
32844691 TGAAATTACAGAAATACCCTCGATTTGTAAAATTACCAACATACCCCTAATTTG
1 CAAAATTAC-GAAATACCCTTGATTTGGAAAATTACCAAAATACCCCTGATTTG
* * * *
32844745 GAAAATTATCGAAATACCCTTGATTTGGAAAATTA-TAGAAATACCCTTGATTTA
1 CAAAATTA-CGAAATACCCTTGATTTGGAAAATTACCA-AAATACCCCTGATTTG
* ** * *** *
32844799 CAAAATTACAGAAATACCATTGACTTTCAAAAATTACAAAAATACAATTGGTTTG
1 CAAAATTAC-GAAATACCCTTGA-TTTGGAAAATTACCAAAATACCCCTGATTTG
*
32844854 CAAAATTATCGAAATACTCTTG
1 CAAAATTA-CGAAATACCCTTG
32844876 GTCTGTAGAT
Statistics
Matches: 195, Mismatches: 34, Indels: 19
0.79 0.14 0.08
Matches are distributed among these distances:
53 4 0.02
54 146 0.75
55 43 0.22
56 2 0.01
ACGTcount: A:0.42, C:0.19, G:0.10, T:0.30
Consensus pattern (53 bp):
CAAAATTACGAAATACCCTTGATTTGGAAAATTACCAAAATACCCCTGATTTG
Found at i:32844791 original size:81 final size:80
Alignment explanation
Indices: 32844579--32844816 Score: 284
Period size: 81 Copynumber: 2.9 Consensus size: 80
32844569 ATACTCTTGG
* *
32844579 TTTACAAAATTACCAAAATACCCTTGATTTGGAAAATTAGCA-AAATACCC-CCAGTTTGTAAAA
1 TTTAGAAAATTACCAAAATACCCTTGATTTGGAAAATTA-CAGAAATACCCTCGA-TTTGTAAAA
*
32844642 TTACCCAAATACCCCTAG
64 TTA-CCAAATACCCCTAA
* *
32844660 TTTATAAAATTACCAAAATACCCCTGATTTGTG-AAATTACAGAAATACCCTCGATTTGTAAAAT
1 TTTAGAAAATTACCAAAATACCCTTGATTTG-GAAAATTACAGAAATACCCTCGATTTGTAAAAT
32844724 TACCAACATACCCCTAA
65 TACCAA-ATACCCCTAA
* * * * * **
32844741 TTTGGAAAATTATCGAAATACCCTTGATTTGGAAAATTATAGAAATACCCTTGATTTACAAAATT
1 TTTAGAAAATTACCAAAATACCCTTGATTTGGAAAATTACAGAAATACCCTCGATTTGTAAAATT
*
32844806 ACAGAAATACC
66 AC-CAAATACC
32844817 ATTGACTTTC
Statistics
Matches: 137, Mismatches: 14, Indels: 12
0.84 0.09 0.07
Matches are distributed among these distances:
80 7 0.05
81 125 0.91
82 5 0.04
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.29
Consensus pattern (80 bp):
TTTAGAAAATTACCAAAATACCCTTGATTTGGAAAATTACAGAAATACCCTCGATTTGTAAAATT
ACCAAATACCCCTAA
Found at i:32844858 original size:55 final size:54
Alignment explanation
Indices: 32844740--32844870 Score: 147
Period size: 55 Copynumber: 2.4 Consensus size: 54
32844730 CATACCCCTA
* * ** * * **
32844740 ATTTGGAAAATTATCGAAATACCCTTGATTTGGAAAATTATAGAAATACCCTTG
1 ATTTGCAAAATTATCGAAATACCATTGATTTCAAAAATTACAAAAATACAATTG
*
32844794 ATTTACAAAATTA-CAGAAATACCATTGACTTTCAAAAATTACAAAAATACAATTG
1 ATTTGCAAAATTATC-GAAATACCATTGA-TTTCAAAAATTACAAAAATACAATTG
*
32844849 GTTTGCAAAATTATCGAAATAC
1 ATTTGCAAAATTATCGAAATAC
32844871 TCTTGGTCTG
Statistics
Matches: 63, Mismatches: 11, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
53 1 0.02
54 23 0.37
55 38 0.60
56 1 0.02
ACGTcount: A:0.44, C:0.14, G:0.11, T:0.31
Consensus pattern (54 bp):
ATTTGCAAAATTATCGAAATACCATTGATTTCAAAAATTACAAAAATACAATTG
Found at i:32844877 original size:27 final size:27
Alignment explanation
Indices: 32844540--32844875 Score: 177
Period size: 27 Copynumber: 12.4 Consensus size: 27
32844530 TAGAATTACT
* * *
32844540 GAAATACCCTTGGTTTACAGAATTA-C
1 GAAATACCCTTGATTTGCAAAATTATC
* * * *
32844566 TG-AATACTCTTGGTTTACAAAATTACC
1 -GAAATACCCTTGATTTGCAAAATTATC
* * *
32844593 AAAATACCCTTGATTTGGAAAATTAGC
1 GAAATACCCTTGATTTGCAAAATTATC
* ** * *
32844620 AAAATACCC-CCAGTTTGTAAAATTACC
1 GAAATACCCTTGA-TTTGCAAAATTATC
* * ** *
32844647 CAAATACCCCT-AGTTTATAAAATTACC
1 GAAATACCCTTGA-TTTGCAAAATTATC
* * **
32844674 AAAATACCCCTGATTTGTGAAATTA-C
1 GAAATACCCTTGATTTGCAAAATTATC
* *
32844700 AGAAATACCCTCGATTTGTAAAATTA-C
1 -GAAATACCCTTGATTTGCAAAATTATC
* * * *
32844727 CAACATACCCCTAATTTGGAAAATTATC
1 GAA-ATACCCTTGATTTGCAAAATTATC
* *
32844755 GAAATACCCTTGATTTGGAAAATTATA
1 GAAATACCCTTGATTTGCAAAATTATC
*
32844782 GAAATACCCTTGATTTACAAAATTA-C
1 GAAATACCCTTGATTTGCAAAATTATC
*
32844808 AGAAATACCATTGACTTT-CAAAAATTA-C
1 -GAAATACCCTTGA-TTTGC-AAAATTATC
* ** *
32844836 AAAAATACAATTGGTTTGCAAAATTATC
1 -GAAATACCCTTGATTTGCAAAATTATC
*
32844864 GAAATACTCTTG
1 GAAATACCCTTG
32844876 GTCTGTAGAT
Statistics
Matches: 255, Mismatches: 41, Indels: 26
0.79 0.13 0.08
Matches are distributed among these distances:
26 25 0.10
27 202 0.79
28 28 0.11
ACGTcount: A:0.40, C:0.19, G:0.10, T:0.31
Consensus pattern (27 bp):
GAAATACCCTTGATTTGCAAAATTATC
Found at i:32845185 original size:41 final size:41
Alignment explanation
Indices: 32845140--32845259 Score: 161
Period size: 41 Copynumber: 2.9 Consensus size: 41
32845130 GGATGAAGAA
*
32845140 ATTGAGGATCGCATGGTTGCTTGACGATCGTGGATCCAACG
1 ATTGAGGATCGCATGGTTGCTTGACGATCGTGGATCCAACC
* *
32845181 ATTGAGGATCGCATGGTTGTTTGATGATCGTGGATCC-ACC
1 ATTGAGGATCGCATGGTTGCTTGACGATCGTGGATCCAACC
* * * *
32845221 AGTTAAAGATCGCATGGTTACTTGACGACCGTGGATCCA
1 A-TTGAGGATCGCATGGTTGCTTGACGATCGTGGATCCA
32845260 TCAGTGGCTT
Statistics
Matches: 68, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
40 3 0.04
41 65 0.96
ACGTcount: A:0.23, C:0.19, G:0.29, T:0.28
Consensus pattern (41 bp):
ATTGAGGATCGCATGGTTGCTTGACGATCGTGGATCCAACC
Found at i:32845441 original size:25 final size:25
Alignment explanation
Indices: 32845407--32845552 Score: 148
Period size: 25 Copynumber: 5.8 Consensus size: 25
32845397 AATTATTCTA
*
32845407 TTATCAATGGCTTTGTGCCGATCTG
1 TTATCGATGGCTTTGTGCCGATCTG
* *
32845432 TTATCGATGGCTTTGTACCGATATG
1 TTATCGATGGCTTTGTGCCGATCTG
* * ** *
32845457 ATATTGATGGCAATGTGTCGATCTG
1 TTATCGATGGCTTTGTGCCGATCTG
* * *
32845482 TTATCGATGCCATTGTGCCGATATG
1 TTATCGATGGCTTTGTGCCGATCTG
* * *
32845507 ATATTGATGGCTATGTGCCGATCTG
1 TTATCGATGGCTTTGTGCCGATCTG
* *
32845532 TTATCGATGCCTTTGTACCGA
1 TTATCGATGGCTTTGTGCCGA
32845553 GCGTATTATC
Statistics
Matches: 94, Mismatches: 27, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
25 94 1.00
ACGTcount: A:0.20, C:0.18, G:0.25, T:0.38
Consensus pattern (25 bp):
TTATCGATGGCTTTGTGCCGATCTG
Found at i:32845479 original size:50 final size:50
Alignment explanation
Indices: 32845420--32845552 Score: 221
Period size: 50 Copynumber: 2.7 Consensus size: 50
32845410 TCAATGGCTT
*
32845420 TGTGCCGATCTGTTATCGATGGCTTTGTACCGATATGATATTGATGGCAA
1 TGTGCCGATCTGTTATCGATGCCTTTGTACCGATATGATATTGATGGCAA
* * * *
32845470 TGTGTCGATCTGTTATCGATGCCATTGTGCCGATATGATATTGATGGCTA
1 TGTGCCGATCTGTTATCGATGCCTTTGTACCGATATGATATTGATGGCAA
32845520 TGTGCCGATCTGTTATCGATGCCTTTGTACCGA
1 TGTGCCGATCTGTTATCGATGCCTTTGTACCGA
32845553 GCGTATTATC
Statistics
Matches: 75, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
50 75 1.00
ACGTcount: A:0.20, C:0.18, G:0.26, T:0.37
Consensus pattern (50 bp):
TGTGCCGATCTGTTATCGATGCCTTTGTACCGATATGATATTGATGGCAA
Found at i:32847555 original size:40 final size:39
Alignment explanation
Indices: 32847466--32847687 Score: 207
Period size: 40 Copynumber: 5.6 Consensus size: 39
32847456 TCCTCGTTCA
* * * *
32847466 AATGCCTTCGGGACATAGCCCGGTTTTAGTAAC-CACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
32847504 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
32847543 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * * *
32847583 AAAGGCCTTCGGGGCTTAACCCGGAACTT-GTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCAC
** * * * *
32847623 AAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCAC
* *
32847664 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
32847688 CGCATTCAAT
Statistics
Matches: 154, Mismatches: 23, Indels: 12
0.81 0.12 0.06
Matches are distributed among these distances:
38 29 0.19
39 8 0.05
40 106 0.69
41 11 0.07
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:32847647 original size:80 final size:79
Alignment explanation
Indices: 32847464--32847687 Score: 231
Period size: 80 Copynumber: 2.8 Consensus size: 79
32847454 GCTCCTCGTT
* * * *
32847464 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAAC-CACACAATGCCTTCGGGACTTAACCCGG-
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGT-ACTCGCACAAAGCCTTCGGGACTTAACCCGGA
*
32847527 ATTTAATAACTCGCA
65 ACTTAATAACTCGCA
* * *
32847542 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTA-CTCGCACAAA-GCCTTCGGGACTTAACCCGG
* *
32847607 AACTT-GTATCTCGCA
64 AACTTAATAACTCGCA
* * * * *
32847622 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGT-AC-TCGCACAAAGCCTTCGGGACTTAACCCG
32847686 GA
63 GA
32847688 CGCATTCAAT
Statistics
Matches: 121, Mismatches: 18, Indels: 12
0.80 0.12 0.08
Matches are distributed among these distances:
77 1 0.01
78 29 0.24
79 9 0.07
80 70 0.58
81 12 0.10
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.25
Consensus pattern (79 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTACTCGCACAAAGCCTTCGGGACTTAACCCGGAA
CTTAATAACTCGCA
Found at i:32847695 original size:40 final size:41
Alignment explanation
Indices: 32847619--32847695 Score: 95
Period size: 40 Copynumber: 1.9 Consensus size: 41
32847609 CTTGTATCTC
* * *
32847619 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
*
32847660 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACACATTCA
32847696 ATTAATCATG
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
40 21 0.68
41 10 0.32
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.25
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:32851533 original size:27 final size:27
Alignment explanation
Indices: 32851491--32851597 Score: 110
Period size: 27 Copynumber: 4.0 Consensus size: 27
32851481 AATCTCATAT
* * *
32851491 CTGTAGGCTAGTATTACTAAAATATCC
1 CTGTAGGATAGAATTACTAAAATACCC
*
32851518 CTGTAAGG-TAGAATTACTGAAATACCC
1 CTGT-AGGATAGAATTACTAAAATACCC
*
32851545 CTGTAGGATAGAATTACTAAAATGCCC
1 CTGTAGGATAGAATTACTAAAATACCC
* * * *
32851572 CTATAGGGTAAAATTACT-GAATACCC
1 CTGTAGGATAGAATTACTAAAATACCC
32851598 ATAGTTTACA
Statistics
Matches: 68, Mismatches: 10, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
26 9 0.13
27 56 0.82
28 3 0.04
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.28
Consensus pattern (27 bp):
CTGTAGGATAGAATTACTAAAATACCC
Found at i:32851561 original size:54 final size:53
Alignment explanation
Indices: 32851491--32851597 Score: 142
Period size: 54 Copynumber: 2.0 Consensus size: 53
32851481 AATCTCATAT
* * * * *
32851491 CTGTAGGCTAGTATTACTAAAATATCCCTGTAAGGTAGAATTACTGAAATACCC
1 CTGTAGGATAGAATTACTAAAATACCCCTATAAGGTAAAATTACTG-AATACCC
* *
32851545 CTGTAGGATAGAATTACTAAAATGCCCCTATAGGGTAAAATTACTGAATACCC
1 CTGTAGGATAGAATTACTAAAATACCCCTATAAGGTAAAATTACTGAATACCC
32851598 ATAGTTTACA
Statistics
Matches: 46, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
53 7 0.15
54 39 0.85
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.28
Consensus pattern (53 bp):
CTGTAGGATAGAATTACTAAAATACCCCTATAAGGTAAAATTACTGAATACCC
Found at i:32851665 original size:27 final size:27
Alignment explanation
Indices: 32851607--32851870 Score: 196
Period size: 27 Copynumber: 9.8 Consensus size: 27
32851597 CATAGTTTAC
* *
32851607 AAAATTACCAAAATAATCC-TGGTTTGT
1 AAAATTACCAAAAT-ACCCTTGATTTGT
* *
32851634 AAAATTACCTAAATACCCTTGATTTTT
1 AAAATTACCAAAATACCCTTGATTTGT
* ** *
32851661 GAAATTACCAAAAT-GTCTCGATTTGT
1 AAAATTACCAAAATACCCTTGATTTGT
* *
32851687 AAAATTACCAAAATACCCCTGATTTGG
1 AAAATTACCAAAATACCCTTGATTTGT
* * *
32851714 AAAATTACCGAAATACCTTTGATTTGA
1 AAAATTACCAAAATACCCTTGATTTGT
* **
32851741 AAAATTA-CAGAAATACCCTTAATTTAC
1 AAAATTACCA-AAATACCCTTGATTTGT
* **
32851768 AAAATTA-TAGAAATACCCTTGACTTTCA
1 AAAATTACCA-AAATACCCTTGA-TTTGT
* * *
32851796 AAAATTA-CAGAAATACCTTTGGTTTGC
1 AAAATTACCA-AAATACCCTTGATTTGT
* * *
32851823 AAAATTACCGAAATACCTTTGGTTTGT
1 AAAATTACCAAAATACCCTTGATTTGT
* * *
32851850 AGATTTACCAAAACACCCTTG
1 AAAATTACCAAAATACCCTTG
32851871 TAGGGTAAAG
Statistics
Matches: 191, Mismatches: 41, Indels: 10
0.79 0.17 0.04
Matches are distributed among these distances:
26 25 0.13
27 143 0.75
28 23 0.12
ACGTcount: A:0.39, C:0.18, G:0.10, T:0.33
Consensus pattern (27 bp):
AAAATTACCAAAATACCCTTGATTTGT
Found at i:32851666 original size:80 final size:78
Alignment explanation
Indices: 32851581--32851839 Score: 180
Period size: 80 Copynumber: 3.2 Consensus size: 78
32851571 CCTATAGGGT
* * * *
32851581 AAAATTACTGAATACCCATAGTTTACAAAATTACCAAAATAATCCTGGTTTGTAAAATTACCTAA
1 AAAATTAC-GAATACCC-TAGTTTACAAAATTACCAAAATAACCCTGATTTGGAAAATTACCGAA
**
32851646 ATACCCTTGATTTTT
64 ATACCCTTGATTTGA
* * * ** * ** *
32851661 GAAATTACCAAAATGTCTCGATTTGTAAAATTACCAAAATACCCCTGATTTGGAAAATTACCGAA
1 AAAATTACGAATA-CCCTAG-TTTACAAAATTACCAAAATAACCCTGATTTGGAAAATTACCGAA
*
32851726 ATACCTTTGATTTGA
64 ATACCCTTGATTTGA
* * **
32851741 AAAATTACAGAAATACCCTTAATTTACAAAATTA-TAGAAAT-ACCCTTGACTTTCAAAAATTAC
1 AAAATTAC-G-AATACCC-TAGTTTACAAAATTACCA-AAATAACCC-TGA-TTTGGAAAATTAC
* * * *
32851804 AGAAATACCTTTGGTTTGC
60 CGAAATACCCTTGATTTGA
32851823 AAAATTACCGAAATACC
1 AAAATTA-CG-AATACC
32851840 TTTGGTTTGT
Statistics
Matches: 138, Mismatches: 32, Indels: 16
0.74 0.17 0.09
Matches are distributed among these distances:
79 5 0.04
80 68 0.49
81 18 0.13
82 46 0.33
83 1 0.01
ACGTcount: A:0.41, C:0.18, G:0.09, T:0.32
Consensus pattern (78 bp):
AAAATTACGAATACCCTAGTTTACAAAATTACCAAAATAACCCTGATTTGGAAAATTACCGAAAT
ACCCTTGATTTGA
Found at i:32851868 original size:82 final size:81
Alignment explanation
Indices: 32851681--32851870 Score: 211
Period size: 82 Copynumber: 2.3 Consensus size: 81
32851671 AAATGTCTCG
* ** *
32851681 ATTTGTAAAATTACCAAAATACCCCTGATTTGGAAAATTACCGAAATACCTTTGATTTGAAAAAT
1 ATTTGTAAAATTACCAAAATACCCTTGATTTCAAAAATTACAGAAATACCTTTGATTTGAAAAAT
32851746 TACAGAAATACCCTTA
66 TACAGAAATACCCTTA
** * * *
32851762 ATTTACAAAATTA-TAGAAATACCCTTGACTTTCAAAAATTACAGAAATACCTTTGGTTTGCAAA
1 ATTTGTAAAATTACCA-AAATACCCTTGA-TTTCAAAAATTACAGAAATACCTTTGATTTGAAAA
* * *
32851826 ATTACCGAAATACCTTTG
64 ATTACAGAAATACCCTTA
* * * *
32851844 GTTTGTAGATTTACCAAAACACCCTTG
1 ATTTGTAAAATTACCAAAATACCCTTG
32851871 TAGGGTAAAG
Statistics
Matches: 87, Mismatches: 19, Indels: 5
0.78 0.17 0.05
Matches are distributed among these distances:
80 1 0.01
81 22 0.25
82 63 0.72
83 1 0.01
ACGTcount: A:0.39, C:0.18, G:0.11, T:0.32
Consensus pattern (81 bp):
ATTTGTAAAATTACCAAAATACCCTTGATTTCAAAAATTACAGAAATACCTTTGATTTGAAAAAT
TACAGAAATACCCTTA
Found at i:32852352 original size:50 final size:50
Alignment explanation
Indices: 32852288--32852513 Score: 407
Period size: 50 Copynumber: 4.5 Consensus size: 50
32852278 AGCAAATTAT
*
32852288 TCTGTTATCAATGGCTTTGTGCCGATATGATATTGATGGCTATGTGCCGA
1 TCTGTTATCGATGGCTTTGTGCCGATATGATATTGATGGCTATGTGCCGA
*
32852338 TCTGTTATCGATGGCTTTGTGCCAATATGATATTGATGGCTATGTGCCGA
1 TCTGTTATCGATGGCTTTGTGCCGATATGATATTGATGGCTATGTGCCGA
* *
32852388 TCTGTTATCGATGGCTTTATGCCGATATGATATTGATGGCTATGTGTCGA
1 TCTGTTATCGATGGCTTTGTGCCGATATGATATTGATGGCTATGTGCCGA
*
32852438 TCTGTTATCGATGGCTTTGTGCCGATATGATATTGATGGCTATGTACCGA
1 TCTGTTATCGATGGCTTTGTGCCGATATGATATTGATGGCTATGTGCCGA
32852488 TCTGTTATCGATGGCTTTGTGCCGAT
1 TCTGTTATCGATGGCTTTGTGCCGAT
32852514 CGTATTATCG
Statistics
Matches: 168, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
50 168 1.00
ACGTcount: A:0.19, C:0.16, G:0.26, T:0.39
Consensus pattern (50 bp):
TCTGTTATCGATGGCTTTGTGCCGATATGATATTGATGGCTATGTGCCGA
Found at i:32852514 original size:25 final size:25
Alignment explanation
Indices: 32852288--32852523 Score: 265
Period size: 25 Copynumber: 9.4 Consensus size: 25
32852278 AGCAAATTAT
*
32852288 TCTGTTATCAATGGCTTTGTGCCGA
1 TCTGTTATCGATGGCTTTGTGCCGA
* * * *
32852313 TATGATATTGATGGCTATGTGCCGA
1 TCTGTTATCGATGGCTTTGTGCCGA
*
32852338 TCTGTTATCGATGGCTTTGTGCCAA
1 TCTGTTATCGATGGCTTTGTGCCGA
* * * *
32852363 TATGATATTGATGGCTATGTGCCGA
1 TCTGTTATCGATGGCTTTGTGCCGA
*
32852388 TCTGTTATCGATGGCTTTATGCCGA
1 TCTGTTATCGATGGCTTTGTGCCGA
* * * * *
32852413 TATGATATTGATGGCTATGTGTCGA
1 TCTGTTATCGATGGCTTTGTGCCGA
32852438 TCTGTTATCGATGGCTTTGTGCCGA
1 TCTGTTATCGATGGCTTTGTGCCGA
* * * * *
32852463 TATGATATTGATGGCTATGTACCGA
1 TCTGTTATCGATGGCTTTGTGCCGA
32852488 TCTGTTATCGATGGCTTTGTGCCGA
1 TCTGTTATCGATGGCTTTGTGCCGA
*
32852513 TCGTATTATCG
1 TC-TGTTATCG
32852524 TAATAATGTC
Statistics
Matches: 168, Mismatches: 42, Indels: 1
0.80 0.20 0.00
Matches are distributed among these distances:
25 161 0.96
26 7 0.04
ACGTcount: A:0.19, C:0.16, G:0.26, T:0.39
Consensus pattern (25 bp):
TCTGTTATCGATGGCTTTGTGCCGA
Found at i:32858375 original size:42 final size:42
Alignment explanation
Indices: 32858314--32858423 Score: 141
Period size: 43 Copynumber: 2.6 Consensus size: 42
32858304 GTTGAAATTA
* *
32858314 CGTGTAAGACCATATCTGGGATATGGCATCGATATGAGA-CTT
1 CGTGTAAGACCATATCTGGGATATGGCATCAATATGAGATC-C
* *
32858356 CGTGTAAGACCATAGCTGGGCTATTGGCATCAATATGAGATCC
1 CGTGTAAGACCATATCTGGGATA-TGGCATCAATATGAGATCC
* *
32858399 CATGTAAGACCTTATCTGGGATATG
1 CGTGTAAGACCATATCTGGGATATG
32858424 ACATTGGCAT
Statistics
Matches: 58, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
42 23 0.40
43 34 0.59
44 1 0.02
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.28
Consensus pattern (42 bp):
CGTGTAAGACCATATCTGGGATATGGCATCAATATGAGATCC
Found at i:32858538 original size:20 final size:20
Alignment explanation
Indices: 32858510--32858556 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
32858500 CAGCAAAGTT
32858510 TAAGTTGTGAAAGACTATGG
1 TAAGTTGTGAAAGACTATGG
* *
32858530 TATGTTGTGAAAGATTATGG
1 TAAGTTGTGAAAGACTATGG
32858550 TAAGTTG
1 TAAGTTG
32858557 CAAGTTTGGT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.32, C:0.02, G:0.30, T:0.36
Consensus pattern (20 bp):
TAAGTTGTGAAAGACTATGG
Found at i:32863678 original size:27 final size:27
Alignment explanation
Indices: 32863648--32863821 Score: 188
Period size: 27 Copynumber: 6.4 Consensus size: 27
32863638 TGAGTCCGCT
* * * *
32863648 CACTCAGTGCTATATAATCAACTCGCA
1 CACTTAGTGCTACATAGTCAAATCGCA
* *
32863675 CACTTAGTGCTACGTAATCAAATCGCA
1 CACTTAGTGCTACATAGTCAAATCGCA
*
32863702 CACTTAGTGCTACGTAGTCAAACTCGCA
1 CACTTAGTGCTACATAGTCAAA-TCGCA
** * *
32863730 CACTTAGTGCCGCATGGTCAATTCGCA
1 CACTTAGTGCTACATAGTCAAATCGCA
* **
32863757 CACTTAGTGC-ATCATATTCATTTCGCA
1 CACTTAGTGCTA-CATAGTCAAATCGCA
*
32863784 CACTTAGTGCAACATAGTCAAATCGCA
1 CACTTAGTGCTACATAGTCAAATCGCA
32863811 CACTTAGTGCT
1 CACTTAGTGCT
32863822 GTACAATTAC
Statistics
Matches: 126, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 103 0.82
28 23 0.18
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.28
Consensus pattern (27 bp):
CACTTAGTGCTACATAGTCAAATCGCA
Found at i:32863790 original size:82 final size:81
Alignment explanation
Indices: 32863665--32863820 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
32863655 TGCTATATAA
* * *
32863665 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACGTAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
32863730 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
32863747 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
32863811 CACTTAGTGC
65 CACTTAGTGC
32863821 TGTACAATTA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 16 0.24
82 50 0.76
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:32869907 original size:20 final size:20
Alignment explanation
Indices: 32869879--32869925 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
32869869 CAGCAAAGTT
32869879 TAAGTTGTGAAAGACTATGG
1 TAAGTTGTGAAAGACTATGG
* *
32869899 TATGTTGTGAAAGATTATGG
1 TAAGTTGTGAAAGACTATGG
32869919 TAAGTTG
1 TAAGTTG
32869926 CAAGTTTGGT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.32, C:0.02, G:0.30, T:0.36
Consensus pattern (20 bp):
TAAGTTGTGAAAGACTATGG
Found at i:32877454 original size:20 final size:20
Alignment explanation
Indices: 32877426--32877469 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
32877416 TACCAAATTG
*
32877426 CAACTTACCATAATCTTTCA
1 CAACATACCATAATCTTTCA
*
32877446 CAACATACCATAGTCTTTCA
1 CAACATACCATAATCTTTCA
32877466 CAAC
1 CAAC
32877470 TTAAACTTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.36, C:0.32, G:0.02, T:0.30
Consensus pattern (20 bp):
CAACATACCATAATCTTTCA
Found at i:32877664 original size:42 final size:42
Alignment explanation
Indices: 32877557--32877666 Score: 141
Period size: 43 Copynumber: 2.6 Consensus size: 42
32877547 CATGCCATGT
* * * *
32877557 CATATCCCAGATAAGGTCTTACATGGGATCTCATATTGATGC
1 CATATCCCAGATATGGTCTTACACGAGATCTCATATCGATGC
* *
32877599 CAATAGCCCAGCTATGGTCTTACACGA-AGTCTCATATCGATGC
1 C-ATATCCCAGATATGGTCTTACACGAGA-TCTCATATCGATGC
32877642 CATATCCCAGATATGGTCTTACACG
1 CATATCCCAGATATGGTCTTACACG
32877667 TAATTTCAAC
Statistics
Matches: 58, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
42 24 0.41
43 34 0.59
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.28
Consensus pattern (42 bp):
CATATCCCAGATATGGTCTTACACGAGATCTCATATCGATGC
Found at i:32883456 original size:25 final size:25
Alignment explanation
Indices: 32883428--32883661 Score: 231
Period size: 25 Copynumber: 9.4 Consensus size: 25
32883418 GACATTATTA
*
32883428 CGATAATACGATCGGCA-AAAGCCAT
1 CGATAACA-GATCGGCACAAAGCCAT
* *
32883453 CGATAACAGATCGGTACATAGCCAT
1 CGATAACAGATCGGCACAAAGCCAT
* * *
32883478 CAATATCATATCGGCACAAAGCCAT
1 CGATAACAGATCGGCACAAAGCCAT
* *
32883503 CGATAACAGATCGACACATAGCCAT
1 CGATAACAGATCGGCACAAAGCCAT
* * * *
32883528 CAATATCATAATCGGCATAAAGCCAT
1 CGATAACA-GATCGGCACAAAGCCAT
*
32883554 CGATAACAGATCGG-ACATAGCCAT
1 CGATAACAGATCGGCACAAAGCCAT
* * * *
32883578 CAATATCATATTGGCACAAAGCCAT
1 CGATAACAGATCGGCACAAAGCCAT
*
32883603 CGATAACAGATCGGCACATAGCCAT
1 CGATAACAGATCGGCACAAAGCCAT
* * *
32883628 CAATATCATATCGGCACAAAG-CAT
1 CGATAACAGATCGGCACAAAGCCAT
*
32883652 TGATAACAGA
1 CGATAACAGA
32883662 ATAATTTGCT
Statistics
Matches: 164, Mismatches: 42, Indels: 7
0.77 0.20 0.03
Matches are distributed among these distances:
24 34 0.21
25 111 0.68
26 19 0.12
ACGTcount: A:0.40, C:0.25, G:0.16, T:0.19
Consensus pattern (25 bp):
CGATAACAGATCGGCACAAAGCCAT
Found at i:32883512 original size:50 final size:50
Alignment explanation
Indices: 32883438--32883661 Score: 373
Period size: 50 Copynumber: 4.5 Consensus size: 50
32883428 CGATAATACG
*
32883438 ATCGGCA-AAAGCCATCGATAACAGATCGGTACATAGCCATCAATATCAT
1 ATCGGCACAAAGCCATCGATAACAGATCGGCACATAGCCATCAATATCAT
*
32883487 ATCGGCACAAAGCCATCGATAACAGATCGACACATAGCCATCAATATCAT
1 ATCGGCACAAAGCCATCGATAACAGATCGGCACATAGCCATCAATATCAT
*
32883537 AATCGGCATAAAGCCATCGATAACAGATCGG-ACATAGCCATCAATATCAT
1 -ATCGGCACAAAGCCATCGATAACAGATCGGCACATAGCCATCAATATCAT
*
32883587 ATTGGCACAAAGCCATCGATAACAGATCGGCACATAGCCATCAATATCAT
1 ATCGGCACAAAGCCATCGATAACAGATCGGCACATAGCCATCAATATCAT
*
32883637 ATCGGCACAAAG-CATTGATAACAGA
1 ATCGGCACAAAGCCATCGATAACAGA
32883662 ATAATTTGCT
Statistics
Matches: 164, Mismatches: 8, Indels: 6
0.92 0.04 0.03
Matches are distributed among these distances:
49 47 0.29
50 89 0.54
51 28 0.17
ACGTcount: A:0.40, C:0.25, G:0.16, T:0.19
Consensus pattern (50 bp):
ATCGGCACAAAGCCATCGATAACAGATCGGCACATAGCCATCAATATCAT
Found at i:32884133 original size:27 final size:26
Alignment explanation
Indices: 32884093--32884160 Score: 73
Period size: 27 Copynumber: 2.6 Consensus size: 26
32884083 TTTACACTAC
* *
32884093 AAGGTGTTTTGGTAAATCTACAACCA
1 AAGGTATTTCGGTAAATCTACAACCA
* * *
32884119 AAGAGTATTTCGGTAATTTTGCAACCA
1 AAG-GTATTTCGGTAAATCTACAACCA
*
32884146 AAGGTATTTCTGTAA
1 AAGGTATTTCGGTAA
32884161 TTTTGAAAGT
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
26 14 0.40
27 21 0.60
ACGTcount: A:0.34, C:0.13, G:0.19, T:0.34
Consensus pattern (26 bp):
AAGGTATTTCGGTAAATCTACAACCA
Found at i:32884160 original size:26 final size:26
Alignment explanation
Indices: 32884117--32884243 Score: 110
Period size: 27 Copynumber: 4.7 Consensus size: 26
32884107 AATCTACAAC
* *
32884117 CAAAGAGTATTTCGGTAATTTTGCAAC
1 CAAAG-GTATTTCTGTAATTTTGCAAT
*
32884144 CAAAGGTATTTCTGTAATTTTGAAAGT
1 CAAAGGTATTTCTGTAATTTTGCAA-T
* * * *
32884171 CAAGGGTATTTCTATAAGTTTGTAAT
1 CAAAGGTATTTCTGTAATTTTGCAAT
* *
32884197 TAAGAGGTATTTCCTGTAATTTTTCAAAT
1 CAA-AGGTATTT-CTGTAATTTTGC-AAT
*
32884226 CAAAGGTAGTTTCGGTAA
1 CAAAGGTA-TTTCTGTAA
32884244 GTTCTCAAAT
Statistics
Matches: 80, Mismatches: 15, Indels: 9
0.77 0.14 0.09
Matches are distributed among these distances:
26 21 0.26
27 33 0.41
28 18 0.22
29 8 0.10
ACGTcount: A:0.32, C:0.10, G:0.19, T:0.39
Consensus pattern (26 bp):
CAAAGGTATTTCTGTAATTTTGCAAT
Found at i:32884243 original size:28 final size:29
Alignment explanation
Indices: 32884212--32884284 Score: 85
Period size: 28 Copynumber: 2.5 Consensus size: 29
32884202 GGTATTTCCT
32884212 GTAATTTTTCAAATCAAAG-GTAGTTTCG
1 GTAATTTTTCAAATCAAAGAGTAGTTTCG
* * ** *
32884240 GTAAGTTCTCAAATCAGGGAGTATTTTCG
1 GTAATTTTTCAAATCAAAGAGTAGTTTCG
32884269 GTAATTTTTACAAATC
1 GTAATTTTT-CAAATC
32884285 GAGACATGGT
Statistics
Matches: 36, Mismatches: 7, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
28 15 0.42
29 15 0.42
30 6 0.17
ACGTcount: A:0.32, C:0.12, G:0.18, T:0.38
Consensus pattern (29 bp):
GTAATTTTTCAAATCAAAGAGTAGTTTCG
Found at i:32884440 original size:27 final size:25
Alignment explanation
Indices: 32884405--32884478 Score: 87
Period size: 27 Copynumber: 2.8 Consensus size: 25
32884395 TAGGGGCATT
32884405 TTTAGTAATTCTATCCTACAGGG-TA
1 TTTAGTAATTCTA-CCTACAGGGATA
32884430 TTTCAGTTAATTCTACCTTACAGGGATA
1 TTT-AG-TAATTCTACC-TACAGGGATA
*
32884458 TTTAGTAATACTAGCCTACAG
1 TTTAGTAATTCTA-CCTACAG
32884479 ATATGAGATT
Statistics
Matches: 43, Mismatches: 1, Indels: 9
0.81 0.02 0.17
Matches are distributed among these distances:
25 3 0.07
26 16 0.37
27 19 0.44
28 5 0.12
ACGTcount: A:0.30, C:0.18, G:0.15, T:0.38
Consensus pattern (25 bp):
TTTAGTAATTCTACCTACAGGGATA
Found at i:32887408 original size:27 final size:25
Alignment explanation
Indices: 32887377--32887519 Score: 139
Period size: 25 Copynumber: 5.6 Consensus size: 25
32887367 TAAATTGTAC
*
32887377 AGCACTAAGTGTGCGATTTGACTATG
1 AGCACTAAGTGTGCGA-TTGAATATG
* *
32887403 TTGCACTAAGTGTGCGAAATGAATATG
1 -AGCACTAAGTGTGCG-ATTGAATATG
* *
32887430 TGCACTAAGTGTGCGAATGAATATG
1 AGCACTAAGTGTGCGATTGAATATG
* *
32887455 AGCACTAAGTGTGCGATTGATTACG
1 AGCACTAAGTGTGCGATTGAATATG
32887480 -GCA-TAAGTGTGCGAGTTGATTATAT-
1 AGCACTAAGTGTGCGA-TTGA--ATATG
*
32887505 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
32887520 GACTCAATAT
Statistics
Matches: 100, Mismatches: 10, Indels: 12
0.82 0.08 0.10
Matches are distributed among these distances:
23 11 0.11
24 7 0.07
25 31 0.31
26 20 0.20
27 30 0.30
28 1 0.01
ACGTcount: A:0.29, C:0.13, G:0.29, T:0.29
Consensus pattern (25 bp):
AGCACTAAGTGTGCGATTGAATATG
Found at i:32895560 original size:27 final size:27
Alignment explanation
Indices: 32895526--32895703 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
32895516 TAAATTGTAC
32895526 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
32895553 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
32895579 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
32895607 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
32895635 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
32895662 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
32895689 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
32895704 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:32895640 original size:82 final size:81
Alignment explanation
Indices: 32895527--32895682 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
32895517 AAATTGTACA
* *
32895527 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
32895591 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
32895608 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
32895673 TGCGAGTTGA
65 TGCGAATTGA
32895683 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:32895694 original size:82 final size:81
Alignment explanation
Indices: 32895523--32895703 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
32895513 GAGTAAATTG
* *
32895523 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
32895588 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
32895604 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
32895668 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
32895686 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
32895704 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:32899282 original size:43 final size:42
Alignment explanation
Indices: 32899221--32899301 Score: 119
Period size: 43 Copynumber: 1.9 Consensus size: 42
32899211 AATGGCAACA
* *
32899221 TCCCAGACGTAGTCTTACATGTAATCAAATATCGATGCCTCTG
1 TCCCAGACGTAGTCTTACACGAAATCAAATAT-GATGCCTCTG
32899264 TCCCAGACAG-AGTCTTACACGAAATCAAATATGATGCC
1 TCCCAGAC-GTAGTCTTACACGAAATCAAATATGATGCC
32899302 AACATCCCAA
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
42 6 0.17
43 28 0.80
44 1 0.03
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.26
Consensus pattern (42 bp):
TCCCAGACGTAGTCTTACACGAAATCAAATATGATGCCTCTG
Found at i:32904799 original size:49 final size:49
Alignment explanation
Indices: 32904743--32904930 Score: 252
Period size: 49 Copynumber: 3.8 Consensus size: 49
32904733 TAGACAAGGC
*
32904743 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACCAAT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCAAT
* * * *
32904792 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACAGACGTGATCGAAGT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGA-CCAA-T
* * *
32904843 TATC-GAGTACGCATAGTAGCTTGCACTTAGTACTACACATGCGACCAAT
1 TATCTG-GTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCAAT
* *
32904892 TATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACA
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACA
32904931 CCTGACCTCA
Statistics
Matches: 120, Mismatches: 15, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
49 75 0.62
50 8 0.07
51 37 0.31
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.27
Consensus pattern (49 bp):
TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCAAT
Found at i:32904922 original size:100 final size:100
Alignment explanation
Indices: 32904749--32904928 Score: 333
Period size: 100 Copynumber: 1.8 Consensus size: 100
32904739 AGGCTATCTG
* *
32904749 GTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCTGGTACACGTAGTAGCCT
1 GTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCCT
32904814 GCACTTAGTACTACAGACGTGATCGAAGTTATCGA
66 GCACTTAGTACTACAGACGTGATCGAAGTTATCGA
*
32904849 GTACGCATAGTAGCTTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCCT
1 GTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCCT
32904914 GCACTTAGTACTACA
66 GCACTTAGTACTACA
32904929 CACCTGACCT
Statistics
Matches: 77, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
100 77 1.00
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.27
Consensus pattern (100 bp):
GTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCCT
GCACTTAGTACTACAGACGTGATCGAAGTTATCGA
Found at i:32905200 original size:27 final size:27
Alignment explanation
Indices: 32905160--32905213 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
32905150 AGGTACAACC
* *
32905160 CATGTAATAGTAATTTAACATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
**
32905187 CATGTAACAATAATTTGCCATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
32905214 TCACATGACA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.39, C:0.15, G:0.07, T:0.39
Consensus pattern (27 bp):
CATGTAACAATAATTTAACATTCAATT
Found at i:32908325 original size:40 final size:40
Alignment explanation
Indices: 32908252--32908422 Score: 206
Period size: 40 Copynumber: 4.3 Consensus size: 40
32908242 ATAACCGGAT
* * * *
32908252 TAAGATCCGAAGGCATTCGTGCGAGTTGCTATATCCGGGC
1 TAAGACCCGAAGGCATTTGTGCTAGTTGTTATATCCGGGC
* * *
32908292 TATGTCCCGAAGGCATTTATGCTAG-TGATTATATCCGGGC
1 TAAGACCCGAAGGCATTTGTGCTAGTTG-TTATATCCGGGC
* *
32908332 TAAGACCCGAAGGCATTTGTGCAAGTTGCTATATCCGGGC
1 TAAGACCCGAAGGCATTTGTGCTAGTTGTTATATCCGGGC
32908372 TAAGACCCGAAGGCATTTGTG-TGAGTTGTTATATCC-GGC
1 TAAGACCCGAAGGCATTTGTGCT-AGTTGTTATATCCGGGC
32908411 TAA-ATCCCGAAG
1 TAAGA-CCCGAAG
32908423 ATACTTGGGT
Statistics
Matches: 113, Mismatches: 14, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
38 1 0.01
39 15 0.13
40 95 0.84
41 2 0.02
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (40 bp):
TAAGACCCGAAGGCATTTGTGCTAGTTGTTATATCCGGGC
Found at i:32908385 original size:80 final size:79
Alignment explanation
Indices: 32908252--32908422 Score: 231
Period size: 80 Copynumber: 2.2 Consensus size: 79
32908242 ATAACCGGAT
* * * *
32908252 TAAGATCCGAAGGCATTCGTGCGAGTTGCTATATCCGGGCTATGTCCCGAAGGCATTTATGCT-A
1 TAAGACCCGAAGGCATTCGTGCAAGTTGCTATATCCGGGCTAAGACCCGAAGGCATTTATG-TGA
32908316 G-TGATTATATCCGGGC
65 GTTG-TTATATCC-GGC
* *
32908332 TAAGACCCGAAGGCATTTGTGCAAGTTGCTATATCCGGGCTAAGACCCGAAGGCATTTGTGTGAG
1 TAAGACCCGAAGGCATTCGTGCAAGTTGCTATATCCGGGCTAAGACCCGAAGGCATTTATGTGAG
32908397 TTGTTATATCCGGC
66 TTGTTATATCCGGC
32908411 TAA-ATCCCGAAG
1 TAAGA-CCCGAAG
32908423 ATACTTGGGT
Statistics
Matches: 82, Mismatches: 6, Indels: 7
0.86 0.06 0.07
Matches are distributed among these distances:
78 1 0.01
79 14 0.17
80 65 0.79
81 2 0.02
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (79 bp):
TAAGACCCGAAGGCATTCGTGCAAGTTGCTATATCCGGGCTAAGACCCGAAGGCATTTATGTGAG
TTGTTATATCCGGC
Found at i:32936272 original size:46 final size:46
Alignment explanation
Indices: 32936205--32936378 Score: 187
Period size: 46 Copynumber: 3.8 Consensus size: 46
32936195 GTAACCCGTC
32936205 CATAAGCGAACTCGGACTCAACTCAACGAGCTT-GGGCGTTCGCATT
1 CATAAGCGAACTCGGACTCAACTCAACGAG-TTCGGGCGTTCGCATT
* *
32936251 CATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACA-T
1 CATAAGCGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCATT
* * * * *
32936300 C-TCA-CGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATC
1 CATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATT
*
32936344 CATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CATAAGCGAACTCGGACTCAACTCAACGAGTTCGG
32936379 ATGCTCAACC
Statistics
Matches: 106, Mismatches: 12, Indels: 20
0.77 0.09 0.14
Matches are distributed among these distances:
42 2 0.02
43 2 0.02
44 2 0.02
45 4 0.04
46 58 0.55
47 27 0.25
48 3 0.03
49 3 0.03
50 2 0.02
51 3 0.03
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
CATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATT
Found at i:32936324 original size:93 final size:93
Alignment explanation
Indices: 32936211--32936382 Score: 292
Period size: 93 Copynumber: 1.8 Consensus size: 93
32936201 CGTCCATAAG
* * * *
32936211 CGAACTCGGACTCAACTCAACGAGCTT-GGGCGTTCGCATTCATAAGTGAACTCGGACTCAACTC
1 CGAACTCGGACTCAACTCAACGAG-TTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTC
32936275 AACGAGTTCGGATGCCTAGTTACATCTCA
65 AACGAGTTCGGATGCCTAGTTACATCTCA
32936304 CGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
32936369 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
32936383 TCAACCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 2
0.93 0.05 0.03
Matches are distributed among these distances:
92 2 0.03
93 72 0.97
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:32936398 original size:46 final size:44
Alignment explanation
Indices: 32936255--32936398 Score: 132
Period size: 46 Copynumber: 3.1 Consensus size: 44
32936245 CGCATTCATA
32936255 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTA-CATCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCC-A---ACCATCT
* * * * *
32936302 CA-CGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCAT-A
1 -AGTGAACTCGGACTCAACTCAACGAGTTC-G-GATGC-CAACCATCT
32936348 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CAACCAT-CT
32936394 AGTGA
1 AGTGA
32936399 CATGTCACTT
Statistics
Matches: 78, Mismatches: 11, Indels: 16
0.74 0.10 0.15
Matches are distributed among these distances:
44 9 0.12
45 2 0.03
46 31 0.40
47 29 0.37
48 2 0.03
49 4 0.05
50 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.22
Consensus pattern (44 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCAACCATCT
Found at i:32941909 original size:93 final size:93
Alignment explanation
Indices: 32941780--32941951 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
32941770 CGCCCATAAG
* * *
32941780 CGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCATCCATAAGTGAACTCAGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
32941845 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
* *
32941873 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
32941938 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
32941952 TCAACCATCC
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:32941948 original size:46 final size:46
Alignment explanation
Indices: 32941773--32941948 Score: 198
Period size: 46 Copynumber: 3.8 Consensus size: 46
32941763 TGTAACCCGC
* * * *
32941773 CCATAAGCGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* * *
32941819 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
32941869 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
32941912 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
32941949 TGCTCAACCA
Statistics
Matches: 108, Mismatches: 13, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 61 0.56
47 28 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:32941967 original size:46 final size:46
Alignment explanation
Indices: 32941822--32941960 Score: 135
Period size: 47 Copynumber: 3.0 Consensus size: 46
32941812 TTCGCATCCA
*
32941822 TAAGTGAACTCAGACTCAACTCAACGAGTTCGGATGC-CTAGTTA-CATC
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACCATC
* * * * *
32941870 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA--
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGCTCAACCATC
32941915 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATC
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATC
32941961 CTAGTGACAT
Statistics
Matches: 74, Mismatches: 10, Indels: 16
0.74 0.10 0.16
Matches are distributed among these distances:
44 8 0.11
45 2 0.03
46 28 0.38
47 29 0.39
48 2 0.03
49 4 0.05
50 1 0.01
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATC
Found at i:32951161 original size:19 final size:19
Alignment explanation
Indices: 32951137--32951173 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
32951127 CACATCCAAA
*
32951137 TACAAAATTTTAAAAACTT
1 TACAAAATATTAAAAACTT
*
32951156 TACAAAATATTGAAAACT
1 TACAAAATATTAAAAACT
32951174 GCGAGTAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.54, C:0.11, G:0.03, T:0.32
Consensus pattern (19 bp):
TACAAAATATTAAAAACTT
Found at i:32953954 original size:14 final size:15
Alignment explanation
Indices: 32953937--32953965 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
32953927 TCATGAAAAT
32953937 TTCACACAT-ATAAA
1 TTCACACATAATAAA
32953951 TTCACACATAATAAA
1 TTCACACATAATAAA
32953966 CAAAGAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.28
Consensus pattern (15 bp):
TTCACACATAATAAA
Found at i:32966167 original size:26 final size:26
Alignment explanation
Indices: 32966133--32966190 Score: 89
Period size: 26 Copynumber: 2.2 Consensus size: 26
32966123 CGGATGTAAC
* *
32966133 AACCAGCACGAATGCCTTCGGGACTT
1 AACCCGCACAAATGCCTTCGGGACTT
*
32966159 AACCCGCACAAATGCCTTTGGGACTT
1 AACCCGCACAAATGCCTTCGGGACTT
32966185 AACCCG
1 AACCCG
32966191 GTTATAATAA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.28, C:0.33, G:0.21, T:0.19
Consensus pattern (26 bp):
AACCCGCACAAATGCCTTCGGGACTT
Found at i:32966213 original size:40 final size:40
Alignment explanation
Indices: 32966158--32966253 Score: 156
Period size: 40 Copynumber: 2.4 Consensus size: 40
32966148 CTTCGGGACT
* * * *
32966158 TAACCCGCACAAATGCCTTTGGGACTTAACCCGGTTATAA
1 TAACCCGCACGAATGCCTTCGAGACTTAACCCGATTATAA
32966198 TAACCCGCACGAATGCCTTCGAGACTTAACCCGATTATAA
1 TAACCCGCACGAATGCCTTCGAGACTTAACCCGATTATAA
32966238 TAACCCGCACGAATGC
1 TAACCCGCACGAATGC
32966254 TATGCACATA
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 52 1.00
ACGTcount: A:0.31, C:0.30, G:0.17, T:0.22
Consensus pattern (40 bp):
TAACCCGCACGAATGCCTTCGAGACTTAACCCGATTATAA
Found at i:32969022 original size:20 final size:20
Alignment explanation
Indices: 32968976--32969022 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
32968966 CGGTAAAGCT
*
32968976 TAAGTTGTGAAAGACTATGG
1 TAAGTTGTGAAAGACTATAG
* *
32968996 TATGTTGTGAAAGATTATAG
1 TAAGTTGTGAAAGACTATAG
32969016 TAAGTTG
1 TAAGTTG
32969023 CAAGTTTGGT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.34, C:0.02, G:0.28, T:0.36
Consensus pattern (20 bp):
TAAGTTGTGAAAGACTATAG
Found at i:32971480 original size:20 final size:18
Alignment explanation
Indices: 32971437--32971471 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
32971427 ATTCTTGTAA
**
32971437 AAAATAATTAATTTTTAT
1 AAAATAATTAAAGTTTAT
32971455 AAAATAATTAAAGTTTA
1 AAAATAATTAAAGTTTA
32971472 CTTAAAATAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (18 bp):
AAAATAATTAAAGTTTAT
Found at i:32972622 original size:39 final size:39
Alignment explanation
Indices: 32972567--32972644 Score: 138
Period size: 39 Copynumber: 2.0 Consensus size: 39
32972557 TAAAATTGTA
*
32972567 ATTAATGGACATAGTACTTAATCAGTACATGTTTATTCT
1 ATTAATGGACACAGTACTTAATCAGTACATGTTTATTCT
*
32972606 ATTAATGGACACAGTACTTAATCAGTGCATGTTTATTCT
1 ATTAATGGACACAGTACTTAATCAGTACATGTTTATTCT
32972645 TCTAGGGTAG
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.32, C:0.14, G:0.14, T:0.40
Consensus pattern (39 bp):
ATTAATGGACACAGTACTTAATCAGTACATGTTTATTCT
Found at i:32975846 original size:27 final size:26
Alignment explanation
Indices: 32975790--32975866 Score: 73
Period size: 27 Copynumber: 2.9 Consensus size: 26
32975780 GACCCCCTTC
* * *
32975790 ATGGTAAAACGACTATATTGGCCCTGT
1 ATGGTAAAATGACTAT-TTTGCCCTAT
*
32975817 ATGGTAAAATGACCATTTTGCCCTTAT
1 ATGGTAAAATGACTATTTTGCCC-TAT
* * *
32975844 ATGCTAAGATGGCTATTTTGCCC
1 ATGGTAAAATGACTATTTTGCCC
32975867 CTATGTGATG
Statistics
Matches: 41, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
26 6 0.15
27 35 0.85
ACGTcount: A:0.27, C:0.19, G:0.19, T:0.34
Consensus pattern (26 bp):
ATGGTAAAATGACTATTTTGCCCTAT
Found at i:32976234 original size:18 final size:18
Alignment explanation
Indices: 32976211--32976245 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
32976201 ACTTGCATAT
*
32976211 TGTTTATTGTTACTATAC
1 TGTTTACTGTTACTATAC
32976229 TGTTTACTGTTACTATA
1 TGTTTACTGTTACTATA
32976246 AAGGACCAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.23, C:0.11, G:0.11, T:0.54
Consensus pattern (18 bp):
TGTTTACTGTTACTATAC
Found at i:32982419 original size:16 final size:16
Alignment explanation
Indices: 32982379--32982436 Score: 82
Period size: 16 Copynumber: 3.6 Consensus size: 16
32982369 AATTTATAAT
32982379 TATTAATATATAAT-TA
1 TATTAAT-TATAATATA
**
32982395 TATCCATTATAATATA
1 TATTAATTATAATATA
32982411 TATTAATTATAATATA
1 TATTAATTATAATATA
32982427 TATTAATTAT
1 TATTAATTAT
32982437 TATCAACTCT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
15 6 0.16
16 31 0.84
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (16 bp):
TATTAATTATAATATA
Found at i:32982425 original size:14 final size:14
Alignment explanation
Indices: 32982372--32982427 Score: 51
Period size: 16 Copynumber: 3.8 Consensus size: 14
32982362 ATAAAAAAAT
32982372 TTATAAT-TATTAA
1 TTATAATATATTAA
**
32982385 TATATAATTATATCCA
1 T-TATAA-TATATTAA
32982401 TTATAATATATATTAA
1 TTAT-A-ATATATTAA
32982417 TTATAATATAT
1 TTATAATATAT
32982428 ATTAATTATT
Statistics
Matches: 34, Mismatches: 4, Indels: 9
0.72 0.09 0.19
Matches are distributed among these distances:
13 1 0.03
14 11 0.32
15 5 0.15
16 16 0.47
17 1 0.03
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50
Consensus pattern (14 bp):
TTATAATATATTAA
Found at i:32996986 original size:122 final size:122
Alignment explanation
Indices: 32996848--32997086 Score: 478
Period size: 122 Copynumber: 2.0 Consensus size: 122
32996838 ATGACAAAAT
32996848 TGGTATGTTTGAATGTGACTTTGGCATGCGGTCATTGTGGTAAGATTAGTATTAAATTTGGTTAG
1 TGGTATGTTTGAATGTGACTTTGGCATGCGGTCATTGTGGTAAGATTAGTATTAAATTTGGTTAG
32996913 AAATGTATGGTTGATGAATGGCTAAATTATGCATATGTTTAAGTATATTTGAATGTA
66 AAATGTATGGTTGATGAATGGCTAAATTATGCATATGTTTAAGTATATTTGAATGTA
32996970 TGGTATGTTTGAATGTGACTTTGGCATGCGGTCATTGTGGTAAGATTAGTATTAAATTTGGTTAG
1 TGGTATGTTTGAATGTGACTTTGGCATGCGGTCATTGTGGTAAGATTAGTATTAAATTTGGTTAG
32997035 AAATGTATGGTTGATGAATGGCTAAATTATGCATATGTTTAAGTATATTTGA
66 AAATGTATGGTTGATGAATGGCTAAATTATGCATATGTTTAAGTATATTTGA
32997087 TCGTTGTGAT
Statistics
Matches: 117, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
122 117 1.00
ACGTcount: A:0.28, C:0.05, G:0.26, T:0.41
Consensus pattern (122 bp):
TGGTATGTTTGAATGTGACTTTGGCATGCGGTCATTGTGGTAAGATTAGTATTAAATTTGGTTAG
AAATGTATGGTTGATGAATGGCTAAATTATGCATATGTTTAAGTATATTTGAATGTA
Found at i:33001508 original size:29 final size:29
Alignment explanation
Indices: 33001426--33001515 Score: 87
Period size: 29 Copynumber: 3.2 Consensus size: 29
33001416 TACATACATA
* *
33001426 CATATGGCCCACTAGGCCC-AATCTTATT
1 CATATGGCCCATTAGGCCCAAATCATATT
* * **
33001454 CAAATGGCCCATCT-GGCCGAGTTCATATT
1 CATATGGCCCAT-TAGGCCCAAATCATATT
*
33001483 CTTATGGCCCATTAGGCCCAAATCATATT
1 CATATGGCCCATTAGGCCCAAATCATATT
33001512 -ATAT
1 CATAT
33001516 TCATGCTCAC
Statistics
Matches: 47, Mismatches: 12, Indels: 6
0.72 0.18 0.09
Matches are distributed among these distances:
28 18 0.38
29 29 0.62
ACGTcount: A:0.27, C:0.28, G:0.16, T:0.30
Consensus pattern (29 bp):
CATATGGCCCATTAGGCCCAAATCATATT
Found at i:33001617 original size:10 final size:9
Alignment explanation
Indices: 33001587--33001625 Score: 51
Period size: 9 Copynumber: 4.2 Consensus size: 9
33001577 GGCCCAACAA
*
33001587 CCCATTAGG
1 CCCATTTGG
*
33001596 CCCATTTAG
1 CCCATTTGG
33001605 CCCATTTCGG
1 CCCATTT-GG
33001615 CCCATTTGG
1 CCCATTTGG
33001624 CC
1 CC
33001626 AATTCTCAAC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
9 18 0.69
10 8 0.31
ACGTcount: A:0.15, C:0.38, G:0.18, T:0.28
Consensus pattern (9 bp):
CCCATTTGG
Found at i:33001755 original size:8 final size:8
Alignment explanation
Indices: 33001734--33001778 Score: 63
Period size: 8 Copynumber: 5.6 Consensus size: 8
33001724 CAACTTTCGA
33001734 CTTTTTGG
1 CTTTTTGG
* *
33001742 CATTTTAG
1 CTTTTTGG
33001750 CTTTTTGG
1 CTTTTTGG
33001758 CTTTTTGG
1 CTTTTTGG
*
33001766 CATTTTGG
1 CTTTTTGG
33001774 CTTTT
1 CTTTT
33001779 GCTGATTCAT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
8 31 1.00
ACGTcount: A:0.07, C:0.13, G:0.20, T:0.60
Consensus pattern (8 bp):
CTTTTTGG
Found at i:33005211 original size:28 final size:29
Alignment explanation
Indices: 33005125--33005220 Score: 140
Period size: 29 Copynumber: 3.3 Consensus size: 29
33005115 GAAAGCATGA
*
33005125 ATATGAATGTGATTTGGGCCTAATGGGTC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
33005154 ATATGAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
* * *
33005183 ATATGAATGAGA-TTGTGCCTAGTGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
*
33005211 ATATGCATGT
1 ATATGAATGT
33005221 ATGTAGACTT
Statistics
Matches: 61, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
28 22 0.36
29 39 0.64
ACGTcount: A:0.25, C:0.12, G:0.30, T:0.32
Consensus pattern (29 bp):
ATATGAATGTGATTTGGGCCTAATGGGCC
Found at i:33011129 original size:21 final size:21
Alignment explanation
Indices: 33011104--33011162 Score: 73
Period size: 21 Copynumber: 2.8 Consensus size: 21
33011094 ACTATCTCGA
*
33011104 TGTCATGACACAAAACCGTTG
1 TGTCATGACACAAAACCATTG
*
33011125 TGTCATGATACAAAACCATTG
1 TGTCATGACACAAAACCATTG
** *
33011146 CATCATGTCACAAAACC
1 TGTCATGACACAAAACC
33011163 TCGATGTTGT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.37, C:0.25, G:0.14, T:0.24
Consensus pattern (21 bp):
TGTCATGACACAAAACCATTG
Found at i:33017308 original size:21 final size:21
Alignment explanation
Indices: 33017284--33017325 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
33017274 TCCACTCATA
33017284 GTCAAACATTATTTCAAATTC
1 GTCAAACATTATTTCAAATTC
33017305 GTCAAACATTATTTCAAATTC
1 GTCAAACATTATTTCAAATTC
33017326 CCTTTCTTAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.38, C:0.19, G:0.05, T:0.38
Consensus pattern (21 bp):
GTCAAACATTATTTCAAATTC
Found at i:33018815 original size:43 final size:43
Alignment explanation
Indices: 33018695--33018857 Score: 147
Period size: 43 Copynumber: 3.8 Consensus size: 43
33018685 AGCTTGTACA
** * * *
33018695 ATGCCAACATCCCAAACGTGGTCTTACATGT-AATCAAATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAAATCAAATAT-G
* * * *
33018738 ATG-CAACTATCCCAGATAGGGTCTTACAC-AAAATCAAATATG
1 ATGCCAA-TGTCCCAGACATGGTCTTACACGTAAATCAAATATG
* *
33018780 ATGCCGATGTCCCAGACATGCTCTTACACGTAAATCTCAAAT-TG
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAAA--TCAAATATG
*
33018824 ATGCCAATGTCCCAGACGTGGTCTTACACG-AAAT
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAAAT
33018858 AACATATTGG
Statistics
Matches: 98, Mismatches: 16, Indels: 14
0.77 0.12 0.11
Matches are distributed among these distances:
41 1 0.01
42 25 0.26
43 37 0.38
44 29 0.30
45 6 0.06
ACGTcount: A:0.34, C:0.25, G:0.16, T:0.25
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTACACGTAAATCAAATATG
Found at i:33018837 original size:44 final size:44
Alignment explanation
Indices: 33018728--33018857 Score: 133
Period size: 44 Copynumber: 3.0 Consensus size: 44
33018718 TTACATGTAA
* * * * *
33018728 TCAAATATCGATG-CAACTATCCCAGATAGGGTCTTACAC-AAA-A
1 TCAAATAT-GATGCCAA-TGTCCCAGACATGCTCTTACACGAAATC
*
33018771 TCAAATATGATGCCGATGTCCCAGACATGCTCTTACACGTAAATC
1 TCAAATATGATGCCAATGTCCCAGACATGCTCTTACACG-AAATC
* *
33018816 TCAAAT-TGATGCCAATGTCCCAGACGTGGTCTTACACGAAAT
1 TCAAATATGATGCCAATGTCCCAGACATGCTCTTACACGAAAT
33018858 AACATATTGG
Statistics
Matches: 74, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
42 22 0.30
43 14 0.19
44 32 0.43
45 6 0.08
ACGTcount: A:0.34, C:0.25, G:0.16, T:0.25
Consensus pattern (44 bp):
TCAAATATGATGCCAATGTCCCAGACATGCTCTTACACGAAATC
Found at i:33021053 original size:28 final size:28
Alignment explanation
Indices: 33020997--33021055 Score: 68
Period size: 28 Copynumber: 2.1 Consensus size: 28
33020987 CGTTTAACTA
* *
33020997 AATTTTGTATATTAATATGTTTGAGTTG
1 AATTTTGTATATTAATATGTGTGAATTG
33021025 AATTTTGTATATGTGAAT-TGTGT-AATTG
1 AATTTTGTATAT-T-AATATGTGTGAATTG
33021053 AAT
1 AAT
33021056 GGTATAAATG
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
28 19 0.70
29 5 0.19
30 3 0.11
ACGTcount: A:0.31, C:0.00, G:0.19, T:0.51
Consensus pattern (28 bp):
AATTTTGTATATTAATATGTGTGAATTG
Found at i:33030185 original size:20 final size:19
Alignment explanation
Indices: 33030086--33030186 Score: 60
Period size: 20 Copynumber: 5.1 Consensus size: 19
33030076 TGTACAGGAT
33030086 TTGCACTTCGGTGCCCCTG
1 TTGCACTTCGGTGCCCCTG
* * * *
33030105 TATACACTTCGGTGTCTCTA
1 T-TGCACTTCGGTGCCCCTG
* * *
33030125 TTCGCACTACGGTACCCTTG
1 TT-GCACTTCGGTGCCCCTG
* * *
33030145 TTTGTACATT-TGTGCCTCTG
1 -TTGCAC-TTCGGTGCCCCTG
33030165 TCTGCACTTCGGTGCCCCTG
1 T-TGCACTTCGGTGCCCCTG
33030185 TT
1 TT
33030187 ATACATCTAT
Statistics
Matches: 56, Mismatches: 20, Indels: 12
0.64 0.23 0.14
Matches are distributed among these distances:
19 6 0.11
20 47 0.84
21 3 0.05
ACGTcount: A:0.11, C:0.31, G:0.21, T:0.38
Consensus pattern (19 bp):
TTGCACTTCGGTGCCCCTG
Found at i:33043543 original size:40 final size:40
Alignment explanation
Indices: 33043459--33043543 Score: 91
Period size: 40 Copynumber: 2.1 Consensus size: 40
33043449 ACACAGGCGT
* * * **
33043459 GTGTGGCCATTTTTAGGGCACACGGATTGGCACACGGTGT
1 GTGTGGCCATTTTTAGGGCACACGGATAGCCACAAGGTAC
* *
33043499 GTGTGGCCATTTTTAGGGCACATGGGCTAGCCACAAGG-AC
1 GTGTGGCCATTTTTAGGGCACA-CGGATAGCCACAAGGTAC
33043539 GTGTG
1 GTGTG
33043544 TGTTGGTTGT
Statistics
Matches: 37, Mismatches: 7, Indels: 2
0.80 0.15 0.04
Matches are distributed among these distances:
40 27 0.73
41 10 0.27
ACGTcount: A:0.19, C:0.20, G:0.35, T:0.26
Consensus pattern (40 bp):
GTGTGGCCATTTTTAGGGCACACGGATAGCCACAAGGTAC
Found at i:33048409 original size:26 final size:26
Alignment explanation
Indices: 33048379--33048432 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
33048369 CATGAATCAA
33048379 ATAAATATTATTTAATCAAATAAATC
1 ATAAATATTATTTAATCAAATAAATC
33048405 ATAAATATTATTTAATCAAATAAATC
1 ATAAATATTATTTAATCAAATAAATC
33048431 AT
1 AT
33048433 CCTAGCTTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.54, C:0.07, G:0.00, T:0.39
Consensus pattern (26 bp):
ATAAATATTATTTAATCAAATAAATC
Found at i:33062444 original size:27 final size:27
Alignment explanation
Indices: 33062414--33062591 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
33062404 ATATTAAGTC
* * *
33062414 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
* *
33062441 CGCACACTTAGTGCCACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
33062469 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
** * *
33062496 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACT
* **
33062523 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAACT
* *
33062550 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAACT
33062577 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
33062592 GTACAATTTA
Statistics
Matches: 131, Mismatches: 17, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
27 105 0.80
28 26 0.20
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAACT
Found at i:33062498 original size:55 final size:54
Alignment explanation
Indices: 33062414--33062591 Score: 232
Period size: 54 Copynumber: 3.3 Consensus size: 54
33062404 ATATTAAGTC
* * *
33062414 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCCACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCCACATAGTCAAA-T
* * * *
33062469 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCCACATAGTCAAAT
* ** *
33062523 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTA-CATAATCAACTCGCACACTTAGTGCCACATAGTCAAAT
33062577 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
33062592 GTACAATTTA
Statistics
Matches: 107, Mismatches: 14, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
53 1 0.01
54 60 0.56
55 46 0.43
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.26
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCCACATAGTCAAAT
Found at i:33062580 original size:81 final size:82
Alignment explanation
Indices: 33062435--33062590 Score: 235
Period size: 81 Copynumber: 1.9 Consensus size: 82
33062425 TGCTATATAA
* *
33062435 TCAACTCGCACACTTAGTGCCACATAATCAAACTCGCACACTTAGTGCTACATAGTCAACTCGCA
1 TCAACTCGCACACTTAGTGCCACATAATCAAACTCGCACACTTAGTGCAACATAGTCAAATCGCA
33062500 CACTTAGTGCCGCATGG
66 CACTTAGTGCCGCATGG
* * **
33062517 TCAATTCGCACACTTAGTG-CATCATATTC-ATTTCGCACACTTAGTGCAACATAGTCAAATCGC
1 TCAACTCGCACACTTAGTGCCA-CATAATCAAACTCGCACACTTAGTGCAACATAGTCAAATCGC
33062580 ACACTTAGTGC
65 ACACTTAGTGC
33062591 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 43 0.64
82 24 0.36
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.26
Consensus pattern (82 bp):
TCAACTCGCACACTTAGTGCCACATAATCAAACTCGCACACTTAGTGCAACATAGTCAAATCGCA
CACTTAGTGCCGCATGG
Found at i:33070343 original size:27 final size:27
Alignment explanation
Indices: 33070313--33070490 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
33070303 ATATTGAGTC
* * *
33070313 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
* *
33070340 CGCACACTTAGTGCTACGTAATCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
33070368 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
** * *
33070395 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACT
* **
33070422 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAACT
* *
33070449 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAACT
33070476 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
33070491 GTACAATTTA
Statistics
Matches: 131, Mismatches: 17, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
27 105 0.80
28 26 0.20
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAACT
Found at i:33076359 original size:18 final size:18
Alignment explanation
Indices: 33076338--33076376 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
33076328 TGTTTATATT
33076338 TTTAACACAT-TTTAATTA
1 TTTAACA-ATATTTAATTA
*
33076356 TTTAATAATATTTAATTA
1 TTTAACAATATTTAATTA
33076374 TTT
1 TTT
33076377 TTCGACAAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 2 0.11
18 17 0.89
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.56
Consensus pattern (18 bp):
TTTAACAATATTTAATTA
Found at i:33079092 original size:68 final size:67
Alignment explanation
Indices: 33079020--33079191 Score: 183
Period size: 67 Copynumber: 2.6 Consensus size: 67
33079010 GATCATGTGT
* * *
33079020 ACAAGAGAGCTACGAGATACTATGTGGTAGCTAGGTCACATGTGT-GATAC-GG-GATGTA-TAC
1 ACAAGAGAGCTACGAGATA--A-AT-GTAGCTAGGTCACATGTGTGGATACAGGTGAAGGACT-C
33079081 CATGTAG
61 CATGTAG
* * * *
33079088 ACAAGAGAGCTACGGGATAAATGTAGCTAGGTCGCATGTGTGGTTCCAGGTGAAGGACTCCATGT
1 ACAAGAGAGCTACGAGATAAATGTAGCTAGGTCACATGTGTGGATACAGGTGAAGGACTCCATGT
33079153 AG
66 AG
* *
33079155 ACAAGAGAGCTACGAGATAAA-GTGGCTAGGTCCCATG
1 ACAAGAGAGCTACGAGATAAATGTAGCTAGGTCACATG
33079192 GGTTGTACTA
Statistics
Matches: 90, Mismatches: 10, Indels: 10
0.82 0.09 0.09
Matches are distributed among these distances:
64 18 0.20
65 4 0.04
66 17 0.19
67 32 0.36
68 19 0.21
ACGTcount: A:0.31, C:0.16, G:0.31, T:0.22
Consensus pattern (67 bp):
ACAAGAGAGCTACGAGATAAATGTAGCTAGGTCACATGTGTGGATACAGGTGAAGGACTCCATGT
AG
Found at i:33083645 original size:28 final size:28
Alignment explanation
Indices: 33083605--33083678 Score: 114
Period size: 28 Copynumber: 2.6 Consensus size: 28
33083595 GTTCAAATTG
* *
33083605 TATAGCACTAAGTGTGCGAGTTTGATTA
1 TATAGCACTAAGTGTGCGAGTTCGACTA
33083633 TATAGCACTAAGTGTGCGAGTTCGACTA
1 TATAGCACTAAGTGTGCGAGTTCGACTA
33083661 T-TAAGCACTAAGTGTGCG
1 TAT-AGCACTAAGTGTGCG
33083679 GGCTTATTAT
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
27 1 0.02
28 42 0.98
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.31
Consensus pattern (28 bp):
TATAGCACTAAGTGTGCGAGTTCGACTA
Found at i:33087641 original size:18 final size:18
Alignment explanation
Indices: 33087620--33087654 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
33087610 AAACATTATC
33087620 AGAACTAGAATCAAAATG
1 AGAACTAGAATCAAAATG
*
33087638 AGAATTAGAATCAAAAT
1 AGAACTAGAATCAAAAT
33087655 CAGGTGACAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.57, C:0.09, G:0.14, T:0.20
Consensus pattern (18 bp):
AGAACTAGAATCAAAATG
Found at i:33087671 original size:6 final size:6
Alignment explanation
Indices: 33087617--33087701 Score: 50
Period size: 6 Copynumber: 13.8 Consensus size: 6
33087607 AAGAAACATT
* * * * *
33087617 ATCAGA A-CTAGA ATCAAA ATGAGA ATTAGA ATCAAA ATCAG- GTGACAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA
*
33087666 ATCAGA ATCAGA ATCAG- GTGACAGA ATCAGA ATCAG
1 ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA ATCAG
33087702 TATCCGGTAA
Statistics
Matches: 60, Mismatches: 11, Indels: 16
0.69 0.13 0.18
Matches are distributed among these distances:
5 3 0.05
6 48 0.80
7 7 0.12
8 2 0.03
ACGTcount: A:0.48, C:0.14, G:0.20, T:0.18
Consensus pattern (6 bp):
ATCAGA
Found at i:33087701 original size:25 final size:25
Alignment explanation
Indices: 33087638--33087729 Score: 121
Period size: 25 Copynumber: 3.7 Consensus size: 25
33087628 AATCAAAATG
* *
33087638 AGAATTAGAATCAAAATCAGGTGAC
1 AGAATCAGAATCAGAATCAGGTGAC
33087663 AGAATCAGAATCAGAATCAGGTGAC
1 AGAATCAGAATCAGAATCAGGTGAC
* * *
33087688 AGAATCAGAATCAGTATCCGGTAAC
1 AGAATCAGAATCAGAATCAGGTGAC
* *
33087713 ATAATCAAAATCAGAAT
1 AGAATCAGAATCAGAAT
33087730 GTGAATGCAA
Statistics
Matches: 59, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 59 1.00
ACGTcount: A:0.47, C:0.15, G:0.18, T:0.20
Consensus pattern (25 bp):
AGAATCAGAATCAGAATCAGGTGAC
Found at i:33099650 original size:30 final size:30
Alignment explanation
Indices: 33099595--33099902 Score: 207
Period size: 30 Copynumber: 10.3 Consensus size: 30
33099585 TTGTTACCAG
* * * * *
33099595 CCCTTTTCATAGTTCGGTAGTCGAAGCTAT
1 CCCTTTTCATAATTTGATAGCCGAAGCCAT
* * *
33099625 CCCTTTCCATATTTTGATAGCCGAAGACAT
1 CCCTTTTCATAATTTGATAGCCGAAGCCAT
* * * *
33099655 CCCTTTTCATTA-TTGATGGTC-ATCA-CCAC
1 CCCTTTTCATAATTTGATAGCCGA--AGCCAT
* *
33099684 CCCTTTTCATAATTTGATAGTCGAAGCTAT
1 CCCTTTTCATAATTTGATAGCCGAAGCCAT
* **
33099714 CCCTTTTCATAAATCAATAGCCGAAGCCAT
1 CCCTTTTCATAATTTGATAGCCGAAGCCAT
*
33099744 CCCTTTTCATAATTTGATAGCCAAAGCCAT
1 CCCTTTTCATAATTTGATAGCCGAAGCCAT
* * * *
33099774 CCCTTTTCATAATTCGATGGTCGTCA-CCAT
1 CCCTTTTCATAATTTGATAGCCG-AAGCCAT
* *
33099804 CCCTTTTCAT--TGTTGATAGTCGTCA-CCAT
1 CCCTTTTCATAAT-TTGATAGCCG-AAGCCAT
** * *
33099833 CCCTTTTCATAATTCAATAGCTGAAGCTAT
1 CCCTTTTCATAATTTGATAGCCGAAGCCAT
* * * * **
33099863 CTCTTTCCATATTTTGATAGCCAAAGTAAT
1 CCCTTTTCATAATTTGATAGCCGAAGCCAT
*
33099893 CCATTTTCAT
1 CCCTTTTCAT
33099903 TAGCCGATGA
Statistics
Matches: 216, Mismatches: 52, Indels: 20
0.75 0.18 0.07
Matches are distributed among these distances:
28 2 0.01
29 47 0.22
30 164 0.76
31 3 0.01
ACGTcount: A:0.25, C:0.26, G:0.12, T:0.37
Consensus pattern (30 bp):
CCCTTTTCATAATTTGATAGCCGAAGCCAT
Found at i:33099734 original size:89 final size:89
Alignment explanation
Indices: 33099590--33099796 Score: 245
Period size: 89 Copynumber: 2.3 Consensus size: 89
33099580 GATGGTTGTT
* * * ** **
33099590 ACCAGCCCTTTTCATAGTTCGGTAGTCGAAGCTATCCCTTTCCATATTTTGATAGCCGAAGACAT
1 ACCACCCCTTTTCATAATTCGATAGTCGAAGCTATCCCTTTCCATAAATCAATAGCCGAAGACAT
33099655 CCCTTTTCATTATTGATGGTCATC
66 CCCTTTTCATTATTGATGGTCATC
* * *
33099679 ACCACCCCTTTTCATAATTTGATAGTCGAAGCTATCCCTTTTCATAAATCAATAGCCGAAGCCAT
1 ACCACCCCTTTTCATAATTCGATAGTCGAAGCTATCCCTTTCCATAAATCAATAGCCGAAGACAT
* * * *
33099744 CCCTTTTCATAATTTGATAGCCA-A
66 CCCTTTTCATTA-TTGATGGTCATC
* *
33099768 AGCCATCCCTTTTCATAATTCGATGGTCG
1 A-CCACCCCTTTTCATAATTCGATAGTCG
33099797 TCACCATCCC
Statistics
Matches: 99, Mismatches: 17, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
89 67 0.68
90 32 0.32
ACGTcount: A:0.26, C:0.27, G:0.14, T:0.34
Consensus pattern (89 bp):
ACCACCCCTTTTCATAATTCGATAGTCGAAGCTATCCCTTTCCATAAATCAATAGCCGAAGACAT
CCCTTTTCATTATTGATGGTCATC
Found at i:33099762 original size:60 final size:60
Alignment explanation
Indices: 33099595--33099882 Score: 230
Period size: 60 Copynumber: 4.8 Consensus size: 60
33099585 TTGTTACCAG
* ** * * * * * *
33099595 CCCTTTTCATAGTTCGGTAGTCGAAGCTATCCCTTTCCATATTTTGATAGCCGAAGACAT
1 CCCTTTTCATAATTCAATAGCCGAAGCCATCCCTTTTCATAATTTGATAGTCGAAGCCAT
* * * * * *
33099655 CCCTTTTCATTATT-GATGGTC-ATCA-CCACCCCTTTTCATAATTTGATAGTCGAAGCTAT
1 CCCTTTTCATAATTCAATAGCCGA--AGCCATCCCTTTTCATAATTTGATAGTCGAAGCCAT
* * *
33099714 CCCTTTTCATAAATCAATAGCCGAAGCCATCCCTTTTCATAATTTGATAGCCAAAGCCAT
1 CCCTTTTCATAATTCAATAGCCGAAGCCATCCCTTTTCATAATTTGATAGTCGAAGCCAT
* * * * *
33099774 CCCTTTTCATAATTCGATGGTCGTCA-CCATCCCTTTTCAT--TGTTGATAGTCGTCA-CCAT
1 CCCTTTTCATAATTCAATAGCCG-AAGCCATCCCTTTTCATAAT-TTGATAGTCG-AAGCCAT
* * * * *
33099833 CCCTTTTCATAATTCAATAGCTGAAGCTATCTCTTTCCATATTTTGATAG
1 CCCTTTTCATAATTCAATAGCCGAAGCCATCCCTTTTCATAATTTGATAG
33099883 CCAAAGTAAT
Statistics
Matches: 181, Mismatches: 36, Indels: 22
0.76 0.15 0.09
Matches are distributed among these distances:
58 3 0.02
59 87 0.48
60 88 0.49
61 3 0.02
ACGTcount: A:0.25, C:0.26, G:0.12, T:0.37
Consensus pattern (60 bp):
CCCTTTTCATAATTCAATAGCCGAAGCCATCCCTTTTCATAATTTGATAGTCGAAGCCAT
Found at i:33099820 original size:119 final size:118
Alignment explanation
Indices: 33099616--33099902 Score: 382
Period size: 119 Copynumber: 2.4 Consensus size: 118
33099606 GTTCGGTAGT
* *
33099616 CGAAGCTATCCCTTTCCATATTTTGATAGCCGAAGACATCCCTTTTCATTATTGATGGTCATCAC
1 CGAAGCTATCCCTTTCCATATTTTGATAGCCAAAGACATCCCTTTTCATAATTGATGGTCATCAC
*
33099681 CACCCCTTTTCATAATTTGATAGTCG-AAGCTATCCCTTTTCATAAATCAATAGC
66 CACCCCTTTTCAT-ATTTGATAGTCGTAA-CCATCCCTTTTCATAAATCAATAGC
* * * * *
33099735 CGAAGCCATCCCTTTTCATAATTTGATAGCCAAAGCCATCCCTTTTCATAATTCGATGGTCGTCA
1 CGAAGCTATCCCTTTCCATATTTTGATAGCCAAAGACATCCCTTTTCATAATT-GATGGTCATCA
* * *
33099800 CCATCCCTTTTCAT-TGTTGATAGTCGTCACCATCCCTTTTCATAATTCAATAGC
65 CCACCCCTTTTCATAT-TTGATAGTCGTAACCATCCCTTTTCATAAATCAATAGC
* * *
33099854 TGAAGCTATCTCTTTCCATATTTTGATAGCCAAAGTA-ATCCATTTTCAT
1 CGAAGCTATCCCTTTCCATATTTTGATAGCCAAAG-ACATCCCTTTTCAT
33099903 TAGCCGATGA
Statistics
Matches: 146, Mismatches: 18, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
118 1 0.01
119 121 0.83
120 24 0.16
ACGTcount: A:0.26, C:0.26, G:0.11, T:0.36
Consensus pattern (118 bp):
CGAAGCTATCCCTTTCCATATTTTGATAGCCAAAGACATCCCTTTTCATAATTGATGGTCATCAC
CACCCCTTTTCATATTTGATAGTCGTAACCATCCCTTTTCATAAATCAATAGC
Found at i:33100000 original size:12 final size:12
Alignment explanation
Indices: 33099985--33100023 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
33099975 TTATAACATA
33099985 ATTTAAAATGCT
1 ATTTAAAATGCT
33099997 ATTT-AAA--C-
1 ATTTAAAATGCT
33100005 ATTTAAAATGCT
1 ATTTAAAATGCT
33100017 ATTTAAA
1 ATTTAAA
33100024 CATAGGAACT
Statistics
Matches: 23, Mismatches: 0, Indels: 8
0.74 0.00 0.26
Matches are distributed among these distances:
8 4 0.17
9 4 0.17
11 4 0.17
12 11 0.48
ACGTcount: A:0.46, C:0.08, G:0.05, T:0.41
Consensus pattern (12 bp):
ATTTAAAATGCT
Found at i:33100010 original size:20 final size:20
Alignment explanation
Indices: 33099985--33100026 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
33099975 TTATAACATA
33099985 ATTTAAAATGCTATTTAAAC
1 ATTTAAAATGCTATTTAAAC
33100005 ATTTAAAATGCTATTTAAAC
1 ATTTAAAATGCTATTTAAAC
33100025 AT
1 AT
33100027 AGGAACTTAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.45, C:0.10, G:0.05, T:0.40
Consensus pattern (20 bp):
ATTTAAAATGCTATTTAAAC
Found at i:33109897 original size:55 final size:55
Alignment explanation
Indices: 33109837--33109945 Score: 209
Period size: 55 Copynumber: 2.0 Consensus size: 55
33109827 AGTTTCGAAT
33109837 ACGAACCTGTACCACTCACAACATGATTATATCATTCCATATCATTGTCATAAGA
1 ACGAACCTGTACCACTCACAACATGATTATATCATTCCATATCATTGTCATAAGA
*
33109892 ACGAACCTGTACCACTCACAACATGATTATATCATTCTATATCATTGTCATAAG
1 ACGAACCTGTACCACTCACAACATGATTATATCATTCCATATCATTGTCATAAG
33109946 CTTTTAAAAT
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 53 1.00
ACGTcount: A:0.36, C:0.25, G:0.09, T:0.30
Consensus pattern (55 bp):
ACGAACCTGTACCACTCACAACATGATTATATCATTCCATATCATTGTCATAAGA
Found at i:33110173 original size:96 final size:95
Alignment explanation
Indices: 33110004--33110327 Score: 314
Period size: 96 Copynumber: 3.4 Consensus size: 95
33109994 AAAAGGGTGA
* * * * *
33110004 ATTGCCAATGCCATGTTCCAAACATGGTCTTACACTGGCTCACAT--GTTGAGGCGGATGCCATG
1 ATTGCCAATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAGAT-A-GCCGATGCCATG
* *
33110067 TCCCAGACATGGTTTTACACTAGCTCTCGTCTC
64 TCCTAGACATGGTCTTACACTAGCTCTC-TCTC
* *
33110100 ATTGTCAATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAGGTAGCCGATGCCATGTC
1 ATTGCCAATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAGATAGCCGATGCCATGTC
* * *
33110165 CTAGACATGGTCTTACGCTAGCACAAC-CATC
66 CTAGACATGGTCTTACACTAGCTC-TCTC-TC
* * * * * * * * *
33110196 AATACCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCACAATATCGTCGATACTATGT-
1 ATTGCCAATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAGATAGCCGATGCCATGTC
* * * *
33110260 TTGAAACATGGTCTTACACTGGCTCTCATATC
66 CT-AGACATGGTCTTACACTAGCTCTC-TCTC
* *
33110292 ATGGCCGATGCCATGTCCCAGACATGGTCTTACACT
1 ATTGCCAATGCCATGTCCCAGACATGGTCTTACACT
33110328 AACGTACATA
Statistics
Matches: 189, Mismatches: 32, Indels: 14
0.80 0.14 0.06
Matches are distributed among these distances:
95 3 0.02
96 182 0.96
97 2 0.01
98 2 0.01
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.28
Consensus pattern (95 bp):
ATTGCCAATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAGATAGCCGATGCCATGTC
CTAGACATGGTCTTACACTAGCTCTCTCTC
Found at i:33110388 original size:48 final size:48
Alignment explanation
Indices: 33110011--33110378 Score: 281
Period size: 48 Copynumber: 7.7 Consensus size: 48
33110001 TGAATTGCCA
* * * ** *
33110011 ATGCCATGTTCCAAACATGGTCTTACACTGGCTCAC-AT-GTTGAGGCGG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCTATCAAT-A-GCCG
* * * * * *
33110059 ATGCCATGTCCCAGACATGGTTTTACACTAGCTCTCGTCTC-ATTGTCA
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTC-TATCAATAGCCG
33110107 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTC-AT-AAGGTAGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCTATCAA--TAGCCG
* * * * * *
33110155 ATGCCATGTCCTAGACATGGTCTTACGCTAGCACAACCATCAATA-CCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTC-TCTATCAATAGCCG
*
33110203 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTC-A-CAATATCGTCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCTATCAATA--GCCG
* * *** * *
33110251 ATACTATGTTTGAAACATGGTCTTACACTGGCTCTCATATC-ATGGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTC-TATCAATAGCCG
** * *
33110299 ATGCCATGTCCCAGACATGGTCTTACACTAACGTAC-ATATCAAT-GTCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGC-T-CTCTATCAATAGCCG
*
33110347 ATGTCATGTCCCAGACATGGTCTTACACTGGC
1 ATGCCATGTCCCAGACATGGTCTTACACTGGC
33110379 ACACGTATCA
Statistics
Matches: 253, Mismatches: 49, Indels: 36
0.75 0.14 0.11
Matches are distributed among these distances:
45 5 0.02
46 3 0.01
47 1 0.00
48 227 0.90
49 6 0.02
50 8 0.03
51 3 0.01
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (48 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCTATCAATAGCCG
Found at i:33113711 original size:39 final size:40
Alignment explanation
Indices: 33113603--33113785 Score: 194
Period size: 40 Copynumber: 4.6 Consensus size: 40
33113593 TACTCGTTCA
* * *
33113603 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCACC
*
33113643 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTGGCACC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
*
33113683 AATGCCTTCGGG-CTTAACCCGGAATTAGTAACTCGCACC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
** * * * *
33113722 AATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA-C
1 AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCACC
* *
33113762 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
33113786 CATCATTTGA
Statistics
Matches: 123, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
38 2 0.02
39 34 0.28
40 78 0.63
41 9 0.07
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
Found at i:33113769 original size:79 final size:80
Alignment explanation
Indices: 33113601--33113785 Score: 198
Period size: 79 Copynumber: 2.3 Consensus size: 80
33113591 GCTACTCGTT
* * *
33113601 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
1 CAAA-GCCTTCGGGACTTAACCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
* *
33113665 GATTTAGTAACTGGCAC
64 GATATAGTAACTAGCAC
* * **
33113682 CAATGCCTTCGGG-CTTAACCCGGAATTAGTAACTCGCACCAATGCCTTC-GGATCTTAGTCCGG
1 CAAAGCCTTCGGGACTTAACCCGGAATTAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
* *
33113745 ATATGGTCACTTAGCA-
65 ATATAGTAAC-TAGCAC
*
33113761 CAAAGCCTTCGGGACTTAGCCCGGA
1 CAAAGCCTTCGGGACTTAACCCGGA
33113786 CATCATTTGA
Statistics
Matches: 87, Mismatches: 13, Indels: 9
0.80 0.12 0.08
Matches are distributed among these distances:
78 3 0.03
79 57 0.66
80 24 0.28
81 3 0.03
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (80 bp):
CAAAGCCTTCGGGACTTAACCCGGAATTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGA
TATAGTAACTAGCAC
Found at i:33121861 original size:286 final size:286
Alignment explanation
Indices: 33121327--33121894 Score: 762
Period size: 286 Copynumber: 2.0 Consensus size: 286
33121317 CAGGAGAGTT
** * * *
33121327 ATCCAGGTTACCGCCGATCAGAGATGTTGAGTTTGCTATTAAATTAATGCCGGTAACATCTCTAA
1 ATCCAGGTTACCAACGATCAGAGAGGTTGAGTTTGCTATTAAACTAATGCCGGGAACATCTCTAA
* * *
33121392 TATCGATATCTCCTTATAGAATGGAACCTACAGAGTTGAAATAATTGAAAGCACAGTTGCAAGAG
66 TATCGATAGCTCCTTACAGAATGGAACCTACAGAGTTGAAAGAATTGAAAGCACAGTTGCAAGAG
* * * *
33121457 TTGACAGCTAGGGGTTTGCTTGACCCAGTTTTTCTCTTTTAGGTGCTCCGGTGTTATTTGTTAAG
131 TCGACAGATAGGGGTTTGCTTGACCCAGTTTTTCTCTTTGAGGTGCTCCAGTGTTATTTGTTAAG
** * ** * * *
33121522 AAAAAAGATGGGTCTATGTAATTATGTATTGACTATCGACGGCTCAACAAAGTCATGATCAAGAA
196 AAAAAAGACAGGTCCATACAATTATGTATTAACTATCGACAGCTCAACAAAGTCACGATCAAGAA
* **
33121587 TAAGTATACTTTGCCACGTATTAACG
261 TAAGCATACTTCACCACGTATTAACG
* * *
33121613 ATCCAGGTTACCAACGATCAGAGAGGTTGAGTTTGCTATTGAACTAATGCTGGGAACATCT-TCG
1 ATCCAGGTTACCAACGATCAGAGAGGTTGAGTTTGCTATTAAACTAATGCCGGGAACATCTCT-A
* *
33121677 ATATCGATAGCTCCTTACAGAATGGCACCTACAGAGTTGAAAGAGTTGAAAGCA-AGTTGCAAGA
65 ATATCGATAGCTCCTTACAGAATGGAACCTACAGAGTTGAAAGAATTGAAAGCACAGTTGCAAGA
* * *
33121741 GTCGACATATAGAGGTTTTGCTTGACCCAGTTTTTCTCTTTGGGGTGCTCCAGTGTTATTTGTTA
130 GTCGACAGATAG-GGGTTTGCTTGACCCAGTTTTTCTCTTTGAGGTGCTCCAGTGTTATTTGTTA
** * * * *
33121806 AGAAAAATTACAGGTCCATACGATTATGTATTAACTATTGATAGCTCAGCAAAGTCACGATCAAG
194 AGAAAAAAGACAGGTCCATACAATTATGTATTAACTATCGACAGCTCAACAAAGTCACGATCAAG
*
33121871 AATAAGCATCCTTCACCACGTATT
259 AATAAGCATACTTCACCACGTATT
33121895 GACTATCTAT
Statistics
Matches: 242, Mismatches: 38, Indels: 4
0.85 0.13 0.01
Matches are distributed among these distances:
285 20 0.08
286 222 0.92
ACGTcount: A:0.30, C:0.18, G:0.21, T:0.31
Consensus pattern (286 bp):
ATCCAGGTTACCAACGATCAGAGAGGTTGAGTTTGCTATTAAACTAATGCCGGGAACATCTCTAA
TATCGATAGCTCCTTACAGAATGGAACCTACAGAGTTGAAAGAATTGAAAGCACAGTTGCAAGAG
TCGACAGATAGGGGTTTGCTTGACCCAGTTTTTCTCTTTGAGGTGCTCCAGTGTTATTTGTTAAG
AAAAAAGACAGGTCCATACAATTATGTATTAACTATCGACAGCTCAACAAAGTCACGATCAAGAA
TAAGCATACTTCACCACGTATTAACG
Found at i:33126263 original size:43 final size:42
Alignment explanation
Indices: 33126187--33126298 Score: 145
Period size: 43 Copynumber: 2.6 Consensus size: 42
33126177 TGAGTTTACT
* * *
33126187 TGTAAGACCATATCAGGGATATGGCATCTATATGAGACTT-CG
1 TGTAAGACCATATCTGGGATATGGCATCGATATGAGA-TTGCA
* *
33126229 TGTAAGACCATAGCTGGGCTATTGGCATCGATATGAGATTGCA
1 TGTAAGACCATATCTGGGATA-TGGCATCGATATGAGATTGCA
*
33126272 TGTAAGACCATATCTGGGATATCGCAT
1 TGTAAGACCATATCTGGGATATGGCAT
33126299 TGGTACAATA
Statistics
Matches: 60, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
42 25 0.42
43 35 0.58
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.29
Consensus pattern (42 bp):
TGTAAGACCATATCTGGGATATGGCATCGATATGAGATTGCA
Found at i:33130649 original size:13 final size:12
Alignment explanation
Indices: 33130627--33130660 Score: 52
Period size: 11 Copynumber: 2.8 Consensus size: 12
33130617 GGCCTGGCCG
33130627 TATTAATTTTTTA
1 TATT-ATTTTTTA
33130640 TATTA-TTTTTA
1 TATTATTTTTTA
33130651 TATTATTTTT
1 TATTATTTTT
33130661 AAATATATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
11 11 0.55
12 5 0.25
13 4 0.20
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (12 bp):
TATTATTTTTTA
Found at i:33130666 original size:13 final size:11
Alignment explanation
Indices: 33130634--33130661 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
33130624 CCGTATTAAT
33130634 TTTTTATATTA
1 TTTTTATATTA
33130645 TTTTTATATTA
1 TTTTTATATTA
33130656 TTTTTA
1 TTTTTA
33130662 AATATATATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (11 bp):
TTTTTATATTA
Found at i:33130818 original size:30 final size:30
Alignment explanation
Indices: 33130784--33130845 Score: 106
Period size: 30 Copynumber: 2.1 Consensus size: 30
33130774 CTTAACAAGT
33130784 AAATGCCTCTAAAATAATAAAAAAATTAAC
1 AAATGCCTCTAAAATAATAAAAAAATTAAC
* *
33130814 AAATGCCTTTAAAATAATAACAAAATTAAC
1 AAATGCCTCTAAAATAATAAAAAAATTAAC
33130844 AA
1 AA
33130846 GAAAATAAGT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.60, C:0.13, G:0.03, T:0.24
Consensus pattern (30 bp):
AAATGCCTCTAAAATAATAAAAAAATTAAC
Found at i:33145592 original size:28 final size:28
Alignment explanation
Indices: 33145528--33145584 Score: 87
Period size: 28 Copynumber: 2.0 Consensus size: 28
33145518 TTTCTTTCAC
* *
33145528 AAAATGCAAATAAATAAATAAAGTTTAG
1 AAAATGCAAATAAATAAATAAAATTAAG
33145556 AAAATGCAAATAAATAAATAAAATGTAAG
1 AAAATGCAAATAAATAAATAAAAT-TAAG
33145585 GCATGCAACA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
28 23 0.88
29 3 0.12
ACGTcount: A:0.63, C:0.04, G:0.11, T:0.23
Consensus pattern (28 bp):
AAAATGCAAATAAATAAATAAAATTAAG
Found at i:33146887 original size:286 final size:284
Alignment explanation
Indices: 33145330--33147303 Score: 1384
Period size: 282 Copynumber: 6.8 Consensus size: 284
33145320 TTCCCAAAAA
* * * ** * * * *
33145330 GTCACCCATCCTAGTAT-TACTCTCACCCAAGCACGCTTAATTGTAGAGTTC-AATTGAAATCCA
1 GTCACCCATCCTAGT-TCTACTCTTACCCAAGCATGCTTAACTACAGAGTTCTGATGGATA-CGA
* * * * * *
33145393 TTGCATTAATGCTAGTATGATCGCACCC-TACAAATCTTGCACAATC-AGTTTATATAAAGGCTA
64 -TGCATTAGTGCTGGTATGATCACACCCGT-CAATTCTTGCGCAATCTA-TTTACATAAAGGCTA
* * * *
33145456 TCCCTTATTGCACTTGCGCCTCAAATTTGAATGCAAATTTGACCAAATAATGTTTCAAAAGATTT
126 CCCCTTATCGCACTTGCGCCTCGAATTTGAATGCAAATTTGACCAAATAACGTTTCAAAAGATTT
* ** * * ***
33145521 CTTTCACAAAATGC----AAATAAATAAATAAAGTTTAGAAAATGCAAATAAATAAATAAAATGT
191 ATTTCACAAAACACAAATAAATAAATAAATAAAGTTTTGACAACAAAAATAAA-AAATAAAATGT
**
33145582 AAGGCATGCAACACGAGGACTT-CTCAGGAG
255 AAGGGGTGCAACACGAGGACTTCCT-AGGAG
* * * *
33145612 GTCATCCATCCTAGTTCTACTC-TAACCAAACAATGCTTAACTGCAGAGTTCTGATAGGATACGA
1 GTCACCCATCCTAGTTCTACTCTTACCCAAGC-ATGCTTAACTACAGAGTTCTGAT-GGATACGA
* * * * *
33145676 TGCTTTAGTGTTGGTATAATCGCACCTGTCAATTCTTGCGCAAT-TGATTTACATAAAGGCTACC
64 TGCATTAGTGCTGGTATGATCACACCCGTCAATTCTTGCGCAATCT-ATTTACATAAAGGCTACC
* * * * *
33145740 CCTTAACGCACTTGTGCCTCGAATTTTAATGCAAATTTGACCAAATAACCTTTCAAAATATTTAT
128 CCTTATCGCACTTGCGCCTCGAATTTGAATGCAAATTTGACCAAATAACGTTTCAAAAGATTTAT
* * * *
33145805 TTCAAAAAACAAAAATAAATAAATAAATAATGTTTAGAAAGGTTTATTCCACAAAACAGAAATAA
193 TTCACAAAACACAAATAAATAAAT--A-AA----T--AAA-G-TT-TT-GAC--AACA-AAA-AT
* * * * * *
33145870 AAAAAAAACAAACGTGAGGGGTGCAACATG-GGACTTCCAAAGAG
241 AAAAAATA-AAATGTAAGGGGTGCAACACGAGGACTTCCTAGGAG
* * * * * * * *
33145914 GTCACCCATCCTAGTACTAATCTTGCCCAAGCACGCTTAACTATAGTGTTTTGATGGAATCCAGT
1 GTCACCCATCCTAGTTCTACTCTTACCCAAGCATGCTTAACTACAGAGTTCTGATGG-ATAC-G-
* * * * *
33145979 AT--ATTAGTGCTAGTATGATCACATCCATCAGTTCTTGCGCAATCTATTTACATAAAGGCTGCC
63 ATGCATTAGTGCTGGTATGATCACACCCGTCAATTCTTGCGCAATCTATTTACATAAAGGCTACC
** * * ** * **
33146042 CCTTATCGCACTTGCAACTCAAATTTGAATGAAAATTCAACCAAATAA-TTTTCAAATTATTTAT
128 CCTTATCGCACTTGCGCCTCGAATTTGAATGCAAATTTGACCAAATAACGTTTCAAAAGATTTAT
* * *
33146106 TTCACAAAACACAAATAATTAATTAAATTAATGCTGTTTAGAAAACGTAACTAAAAAAATTATAT
193 TTCACAAAACACAAATAAATAAATAAA-TAAAG-T-TTT-G---AC--AAC---AAAAA-TA-A-
** * * *
33146171 AAAATAAAATGGGAGGGTTGCAACATGAGGACTTCCCAGGAG
243 AAAATAAAATGTAAGGGGTGCAACACGAGGACTTCCTAGGAG
* * * * * * * * * * *
33146213 GTCACTCGTCCTAGTACTATTCTCACCCAAGCACGCTTAATTGCGGAGTTCTGATGAGATTCGTT
1 GTCACCCATCCTAGTTCTACTCTTACCCAAGCATGCTTAACTACAGAGTTCTGATG-GATACGAT
** * * ** * *
33146278 GCATTAGTGCTGGTATGATTTCACCCATCAAATCTTGCATAAT-TATTTTACATAAAAGCTACTC
65 GCATTAGTGCTGGTATGATCACACCCGTCAATTCTTGCGCAATCTA-TTTACATAAAGGCTACCC
* *
33146342 CTTA-CTGCACTTGCACCTCGTATTTGAATGCAAATTT------ATAACGTTTCAAAAGATTTAT
129 CTTATC-GCACTTGCGCCTCGAATTTGAATGCAAATTTGACCAAATAACGTTTCAAAAGATTTAT
** * * * * * *
33146400 TTTGCAAAACGCAAATAAATAAATAATTAAATAATGTTTAGAAAATGCAAAAA-AGAAAA-GAAA
193 TTCACAAAACACAAATAAAT--A-AA-TAAATAAAGTTTTGACAA--CAAAAATAAAAAATAAAA
*
33146463 -GTAAGGGGTGCAACACGATGACTTCCTAGGAG
252 TGTAAGGGGTGCAACACGAGGACTTCCTAGGAG
* * * * * * * * *
33146495 GTCACCTATACTAGTTCTACTCTCACCCAAGCATGCCTAATTGC-CAGTTCTGATACGAT-CTGG
1 GTCACCCATCCTAGTTCTACTCTTACCCAAGCATGCTTAACTACAGAGTTCTGAT-GGATAC-GA
* *
33146558 TGCATTAGTGCTGGTATGATCGCACCCGTTAATTCTTGCGCAATCTATTTACATAAAGGCTACCC
64 TGCATTAGTGCTGGTATGATCACACCCGTCAATTCTTGCGCAATCTATTTACATAAAGGCTACCC
* * * *
33146623 CTTATTGCACTTGCGCCTTGAATTTGAATGCAAATTTGACCAAATAACGTTTGAAAAGATTTCTT
129 CTTATCGCACTTGCGCCTCGAATTTGAATGCAAATTTGACCAAATAACGTTTCAAAAGATTTATT
* * *
33146688 TCGCAAAACGCAAATAAATAAACAAATAAAGTTTTGACAACAAAAATAAAACAATAAAATGTAAG
194 TCACAAAACACAAATAAATAAATAAATAAAGTTTTGACAACAAAAATAAAA-AATAAAATGTAAG
** *
33146753 ATGTGCAACACGAGGACTTTCTAGGAG
258 GGGTGCAACACGAGGACTTCCTAGGAG
* * * * *
33146780 GTCACCCATCGTAGTTCTACCCTTGCCCAACCATGCTTAACTACGGAGTTCTGATAGGATACGAT
1 GTCACCCATCCTAGTTCTACTCTTACCCAAGCATGCTTAACTACAGAGTTCTGAT-GGATACGAT
* * * * *
33146845 GCGTTAGTTCTGGTATGAGCACACCCGTCAGTTCTTGCGCAATCTATTTATATAAAGGC-AGCCC
65 GCATTAGTGCTGGTATGATCACACCCGTCAATTCTTGCGCAATCTATTTACATAAAGGCTA-CCC
* * * ** *
33146909 CTTATCGCACTTACGCCTCGAATTTTAATCCAAATTTGAAAAAATAACATTTCAAAAGATTTATT
129 CTTATCGCACTTGCGCCTCGAATTTGAATGCAAATTTGACCAAATAACGTTTCAAAAGATTTATT
* * * *
33146974 TAAGAAAACACAAATAAATATTTAAATAAATGATGTTTTGAAAATGCAACTAAAAAATTTATATA
194 TCACAAAACACAAAT-AA-A--TAAATAAATAAAGTTTTG---A--CAAC--AAAAA--TA-A-A
* * * *
33147039 AAATAAAATGTGAGGGGTGCAATACGAGGACATCATAGGAG
244 AAATAAAATGTAAGGGGTGCAACACGAGGACTTCCTAGGAG
* * * * * * *
33147080 GTCACCCATCCTAGTCCTACT-TTCGCCCAAGCGTGCTTAACTA-TGAGGTTCTGATGAAATTCA
1 GTCACCCATCCTAGTTCTACTCTT-ACCCAAGCATGCTTAACTACAGA-GTTCTGATG-GATACG
* * ** * * *
33147143 ACGCGTTAGTGCTCATATGATCTCACCCGTCAATTCTTGCGCAATCTATTTACAGAAAGCCT-CC
63 ATGCATTAGTGCTGGTATGATCACACCCGTCAATTCTTGCGCAATCTATTTACATAAAGGCTACC
* * * * * *
33147207 TCCTCATCGCACTTGTGTCTCAAATTTTAATGCAAATTTGACCAAATAATGTTTCAAAAGATTTA
128 -CCTTATCGCACTTGCGCCTCGAATTTGAATGCAAATTTGACCAAATAACGTTTCAAAAGATTTA
* **
33147272 TTTCACAAAACACAAGTAAATATTTAAATAAA
192 TTTCACAAAACACAAATAAATAAATAAATAAA
33147304 TGATGTTTAG
Statistics
Matches: 1334, Mismatches: 263, Indels: 176
0.75 0.15 0.10
Matches are distributed among these distances:
280 1 0.00
281 111 0.08
282 215 0.16
283 25 0.02
284 12 0.01
285 64 0.05
286 145 0.11
287 41 0.03
288 7 0.01
289 4 0.00
290 15 0.01
291 2 0.00
292 4 0.00
293 9 0.01
294 30 0.02
295 16 0.01
296 12 0.01
297 18 0.01
298 32 0.02
299 156 0.12
300 200 0.15
301 40 0.03
302 144 0.11
303 29 0.02
304 2 0.00
ACGTcount: A:0.36, C:0.20, G:0.15, T:0.30
Consensus pattern (284 bp):
GTCACCCATCCTAGTTCTACTCTTACCCAAGCATGCTTAACTACAGAGTTCTGATGGATACGATG
CATTAGTGCTGGTATGATCACACCCGTCAATTCTTGCGCAATCTATTTACATAAAGGCTACCCCT
TATCGCACTTGCGCCTCGAATTTGAATGCAAATTTGACCAAATAACGTTTCAAAAGATTTATTTC
ACAAAACACAAATAAATAAATAAATAAAGTTTTGACAACAAAAATAAAAAATAAAATGTAAGGGG
TGCAACACGAGGACTTCCTAGGAG
Found at i:33147154 original size:867 final size:880
Alignment explanation
Indices: 33145269--33147182 Score: 1991
Period size: 883 Copynumber: 2.2 Consensus size: 880
33145259 TAAATTAAAA
* * * ** * ** *
33145269 CAACTAAAAAAATTATATAAAATAAAATGGGAGCGGTGCAAACATGACGATTTCCCAAAAAGTCA
1 CAACTAAAAAAATTATATAAAATAAAATGGGAGGGGTGC-AACACGAGGACATCACAGGAGGTCA
* * * * * **
33145334 CCCATCCTAGTATTACTCTCACCCAAGCACGCTTAATTGTAGAGTTC-AATTGAAATCCATTGCA
65 CCCATCCTAGTACTATTCTCACCCAAGCACGCTTAATTGCAGAGTTCTGA-TGAAATTCAACGCA
* * * * * * *
33145398 TTAATGCT-AGTATGATCGCACCC-TACAAATCTTGCACAATCAGTTTATATAAAGGCTA-TCCC
129 TTAGTGCTCA-TATGATCTCACCCAT-CAAATCTTGCATAATTATTTTACATAAAAGCTACT-CC
* * ** * *
33145460 TTATTGCACTTGCGCCTCAAATTTGAATGCAAATTTGACCAAATAATGTTTCAAAAGATTT-CTT
191 TTACTGCACTTGCACCTCGTATTTGAATGCAAATTT------ATAACGTTTCAAAAGATTTATTT
*** *
33145524 T-C---A--CAAA-ATGCAAATAAATAAATAAAGTTTAGAAAATGCAAATAAATAAATAAAATGT
250 TGCAAAACGCAAATAAATAAATAAATAAATAAAGTTTAGAAAATGCAAATAAAGAAATAAAATGT
*
33145582 AAGGCATGCAACACGAGGACTTCTCAGGAGGTCATCCATCCTAGTTCTACTCTAACCAAACAATG
315 AAGGCATGCAACACGAGGACTTCTCAGGAGGTCATCCATACTAGTTCTACTCTAACCAAACAATG
* * * * * *
33145647 CTTAACTGCAGAGTTCTGATAGGATACGATGCTTTAGTGTTGGTATAATCGCACCTGTCAATTCT
380 CCTAACTGCACAGTTCTGATACGATACGATGCATTAGTGCTGGTATAATCGCACCCGTCAATTCT
* *
33145712 TGCGCAATTGATTTACATAAAGGCTACCCCTTAACGCACTTGTGCCTCGAATTTTAATGCAAATT
445 TGCGCAATTGATTTACATAAAGGCTACCCCTTAACGCACTTGCGCCTCGAATTTGAATGCAAATT
*
33145777 TGACCAAATAACCTTTCAAAATATTTATTTCAAAAAACAAAAATAAATAAATAAATAATGTTTAG
510 TGACCAAATAACCTTTCAAAAGATTTATTTCAAAAAACAAAAATAAATAAATAAATAA---TTA-
* * * *
33145842 AAAGGTTTATTCCACAAAACAGAAATAAAAAAAAAACAAACGTGAGGGGTGCAACATGGGACTTC
571 AAAGGTTTATTCCAC-AAACAAAAATAAAAAAAAAACAAACGTAAGAGGTGCAACACGGGACTTC
* * * * *
33145907 CAAAGAGGTCACCCATCCTAGTACTAATCTTGCCCAAGCACGCTTAACTATAGTGTTTTGATGGA
635 CAAAGAGGTCACCCATCCTAGTACTAACCTTGCCCAACCACGCTTAACTACAGAGTTCTGATGGA
* * *
33145972 ATCCAGTATATTAGTGCTAGTATGATCACATCCATCAGTTCTTGCGCAATCTATTTACATAAAGG
700 ATACAGTATATTAGTGCTAGTATGAGCACACCCATCAGTTCTTGCGCAATCTATTTACATAAAGG
* * * * * **
33146037 CTGCCCCTTATCGCACTTGCAACTCAAATTTGAATGAAAATTCAACCAAATAATTTTCAAATTAT
765 CAGCCCCTTATCGCACTTACAACTCAAATTTGAATCAAAATTCAACAAAATAAATTTCAAAAGAT
* * * *
33146102 TTATTTCACAAAACACAAATAATTAATTAAATTAATGCTGTTTAGAAAACG
830 TTATTTAACAAAACACAAATAAATAATTAAATAAATGATGTTTAGAAAACG
* * * * *
33146153 TAACTAAAAAAATTATATAAAATAAAATGGGAGGGTTGCAACATGAGGACTTCCCAGGAGGTCAC
1 CAACTAAAAAAATTATATAAAATAAAATGGGAGGGGTGCAACACGAGGACATCACAGGAGGTCAC
* * * * ***
33146218 TCGTCCTAGTACTATTCTCACCCAAGCACGCTTAATTGCGGAGTTCTGATGAGATTCGTTGCATT
66 CCATCCTAGTACTATTCTCACCCAAGCACGCTTAATTGCAGAGTTCTGATGAAATTCAACGCATT
** *
33146283 AGTGCTGGTATGATTTCACCCATCAAATCTTGCATAATTATTTTACATAAAAGCTACTCCTTACT
131 AGTGCTCATATGATCTCACCCATCAAATCTTGCATAATTATTTTACATAAAAGCTACTCCTTACT
33146348 GCACTTGCACCTCGTATTTGAATGCAAATTTATAACGTTTCAAAAGATTTATTTTGCAAAACGCA
196 GCACTTGCACCTCGTATTTGAATGCAAATTTATAACGTTTCAAAAGATTTATTTTGCAAAACGCA
* * **
33146413 AATAAATAAATAATTAAATAATGTTTAGAAAATGCAAA-AAAGAAA-AGAAA-GTAAGGGGTGCA
261 AATAAATAAATAAATAAATAAAGTTTAGAAAATGCAAATAAAGAAATA-AAATGTAAGGCATGCA
* * * *
33146475 ACACGATGACTTC-CTAGGAGGTCA-CCTATACTAGTTCTACTCTCACCCAAGC-ATGCCTAATT
325 ACACGAGGACTTCTC-AGGAGGTCATCC-ATACTAGTTCTACTCT-AACCAAACAATGCCTAACT
* * *
33146537 GC-CAGTTCTGATACGAT-CTGGTGCATTAGTGCTGGTATGATCGCACCCGTTAATTCTTGCGCA
387 GCACAGTTCTGATACGATAC-GATGCATTAGTGCTGGTATAATCGCACCCGTCAATTCTTGCGCA
** *
33146600 ATCT-ATTTACATAAAGGCTACCCCTTATTGCACTTGCGCCTTGAATTTGAATGCAAATTTGACC
451 AT-TGATTTACATAAAGGCTACCCCTTAACGCACTTGCGCCTCGAATTTGAATGCAAATTTGACC
* * * ** ** *
33146664 AAATAACGTTTGAAAAGATTTCTTTCGCAAAACGCAAATAAAT-AA-ACA-AA-T-AAA-G-TT-
515 AAATAACCTTTCAAAAGATTTATTTCAAAAAACAAAAATAAATAAATAAATAATTAAAAGGTTTA
* * * * * * * *
33146721 TT-GAC-AACAAAAAT-AAAACAATA-AAATGTAAGATGTGCAACACGAGGACTTTCTAGGAGGT
580 TTCCACAAACAAAAATAAAAAAAAAACAAACGTAAGAGGTGCAACACG-GGACTTCCAAAGAGGT
* * * * *
33146782 CACCCATCGTAGTTCTACCCTTGCCCAACCATGCTTAACTACGGAGTTCTGATAGG-ATAC-G-A
644 CACCCATCCTAGTACTAACCTTGCCCAACCACGCTTAACTACAGAGTTCTGAT-GGAATACAGTA
* * * * *
33146844 TGCGTTAGTTCTGGTATGAGCACACCCGTCAGTTCTTGCGCAATCTATTTATATAAAGGCAGCCC
708 T--ATTAGTGCTAGTATGAGCACACCCATCAGTTCTTGCGCAATCTATTTACATAAAGGCAGCCC
** * * * *
33146909 CTTATCGCACTTACGCCTCGAATTTTAATCCAAATTTGAA-AAAATAACATTTCAAAAGATTTAT
771 CTTATCGCACTTACAACTCAAATTTGAAT-CAAAATTCAACAAAATAA-ATTTCAAAAGATTTAT
* * * *
33146973 TTAAGAAAACACAAATAAATATTTAAATAAATGATGTTTTGAAAATG
834 TTAACAAAACACAAATAAATAATTAAATAAATGATGTTTAGAAAACG
* * * *
33147020 CAACTAAAAAATTTATATAAAATAAAATGTGAGGGGTGCAATACGAGGACATCATAGGAGGTCAC
1 CAACTAAAAAAATTATATAAAATAAAATGGGAGGGGTGCAACACGAGGACATCACAGGAGGTCAC
* * **
33147085 CCATCCTAGTCCTACTT-TCGCCCAAGCGTGCTTAACTATG-AG-GTTCTGATGAAATTCAACGC
66 CCATCCTAGTACTA-TTCTCACCCAAGCACGCTTAA-T-TGCAGAGTTCTGATGAAATTCAACGC
* * *
33147147 GTTAGTGCTCATATGATCTCACCCGTCAATTCTTGC
128 ATTAGTGCTCATATGATCTCACCCATCAAATCTTGC
33147183 GCAATCTATT
Statistics
Matches: 857, Mismatches: 146, Indels: 71
0.80 0.14 0.07
Matches are distributed among these distances:
864 2 0.00
865 17 0.02
866 150 0.18
867 197 0.23
868 4 0.00
869 4 0.00
870 2 0.00
871 2 0.00
872 1 0.00
873 3 0.00
875 1 0.00
877 18 0.02
878 3 0.00
879 3 0.00
880 2 0.00
881 3 0.00
882 147 0.17
883 210 0.25
884 58 0.07
885 30 0.04
ACGTcount: A:0.36, C:0.19, G:0.15, T:0.29
Consensus pattern (880 bp):
CAACTAAAAAAATTATATAAAATAAAATGGGAGGGGTGCAACACGAGGACATCACAGGAGGTCAC
CCATCCTAGTACTATTCTCACCCAAGCACGCTTAATTGCAGAGTTCTGATGAAATTCAACGCATT
AGTGCTCATATGATCTCACCCATCAAATCTTGCATAATTATTTTACATAAAAGCTACTCCTTACT
GCACTTGCACCTCGTATTTGAATGCAAATTTATAACGTTTCAAAAGATTTATTTTGCAAAACGCA
AATAAATAAATAAATAAATAAAGTTTAGAAAATGCAAATAAAGAAATAAAATGTAAGGCATGCAA
CACGAGGACTTCTCAGGAGGTCATCCATACTAGTTCTACTCTAACCAAACAATGCCTAACTGCAC
AGTTCTGATACGATACGATGCATTAGTGCTGGTATAATCGCACCCGTCAATTCTTGCGCAATTGA
TTTACATAAAGGCTACCCCTTAACGCACTTGCGCCTCGAATTTGAATGCAAATTTGACCAAATAA
CCTTTCAAAAGATTTATTTCAAAAAACAAAAATAAATAAATAAATAATTAAAAGGTTTATTCCAC
AAACAAAAATAAAAAAAAAACAAACGTAAGAGGTGCAACACGGGACTTCCAAAGAGGTCACCCAT
CCTAGTACTAACCTTGCCCAACCACGCTTAACTACAGAGTTCTGATGGAATACAGTATATTAGTG
CTAGTATGAGCACACCCATCAGTTCTTGCGCAATCTATTTACATAAAGGCAGCCCCTTATCGCAC
TTACAACTCAAATTTGAATCAAAATTCAACAAAATAAATTTCAAAAGATTTATTTAACAAAACAC
AAATAAATAATTAAATAAATGATGTTTAGAAAACG
Found at i:33147221 original size:867 final size:881
Alignment explanation
Indices: 33145269--33147316 Score: 2033
Period size: 867 Copynumber: 2.3 Consensus size: 881
33145259 TAAATTAAAA
* * * ** * ** *
33145269 CAACTAAAAAAATTATATAAAATAAAATGGGAGCGGTGCAAACATGACGATTTCCCAAAAAGTCA
1 CAACTAAAAAAATTATATAAAATAAAATGGGAGGGGTGC-AACACGAGGACATCACAGGAGGTCA
* * * * * **
33145334 CCCATCCTAGTATTACTCTCACCCAAGCACGCTTAATTGTAGAGTTC-AATTGAAATCCATTGCA
65 CCCATCCTAGTACTATTCTCACCCAAGCACGCTTAATTGCAGAGTTCTGA-TGAAATTCAACGCA
* * * * * *
33145398 TTAATGCT-AGTATGATCGCACCC-TACAAATCTTGCACAATCAGTTTATATAAAGGCTA-TCCC
129 TTAGTGCTCA-TATGATCTCACCCAT-CAAATCTTGCACAATTATTTTACATAAAAGCTACT-CC
* * * * *
33145460 TTATTGCACTTGCGCCTCAAATTTGAATGCAAATTTGACCAAATAATGTTTCAAAAGATTTCTTT
191 TCACTGCACTTGCACCTCAAATTTGAATGCAAATTT-----AATAACGTTTCAAAAGATTTATTT
** *
33145525 CACAAAATGC----AAATAAATAAAT--A-AA-GTTTAGAAAATGCAAATAAATAAATAAAATGT
251 CACAAAACACAAATAAATAAATAAATAAATAATGTTTAGAAAATGCAAATAAAGAAATAAAATGT
*
33145582 AAGGCATGCAACACGAGGACTTCTCAGGAGGTCATCCATCCTAGTTCTACTCTAACCAAACAATG
316 AAGGCATGCAACACGAGGACTTCTCAGGAGGTCATCCATACTAGTTCTACTCTAACCAAACAATG
* * * * * *
33145647 CTTAACTGCAGAGTTCTGATAGGATACGATGCTTTAGTGTTGGTATAATCGCACCTGTCAATTCT
381 CCTAACTGCACAGTTCTGATACGATACGATGCATTAGTGCTGGTATAATCGCACCCGTCAATTCT
* *
33145712 TGCGCAATTGATTTACATAAAGGCTACCCCTTAACGCACTTGTGCCTCGAATTTTAATGCAAATT
446 TGCGCAATTGATTTACATAAAGGCTACCCCTTAACGCACTTGCGCCTCGAATTTGAATGCAAATT
*
33145777 TGACCAAATAACCTTTCAAAATATTTATTTCAAAAAACAAAAATAAATAAATAAATAATGTTTAG
511 TGACCAAATAACCTTTCAAAAGATTTATTTCAAAAAACAAAAATAAATAAATAAATAA---TTA-
* * * *
33145842 AAAGGTTTATTCCACAAAACAGAAATAAAAAAAAAACAAACGTGAGGGGTGCAACATGGGACTTC
572 AAAGGTTTATTCCAC-AAACAAAAATAAAAAAAAAACAAACGTAAGAGGTGCAACACGGGACTTC
* * * * *
33145907 CAAAGAGGTCACCCATCCTAGTACTAATCTTGCCCAAGCACGCTTAACTATAGTGTTTTGATGGA
636 CAAAGAGGTCACCCATCCTAGTACTAACCTTGCCCAACCACGCTTAACTACAGAGTTCTGATGGA
* * *
33145972 ATCCAGTATATTAGTGCTAGTATGATCACATCCATCAGTTCTTGCGCAATCTATTTACATAAAGG
701 ATACAGTATATTAGTGCTAGTATGAGCACACCCATCAGTTCTTGCGCAATCTATTTACATAAAGG
* * * * * **
33146037 CTGCCCCTTATCGCACTTGCAACTCAAATTTGAATGAAAATTCAACCAAATAATTTTCAAATTAT
766 CAGCCCCTTATCGCACTTACAACTCAAATTTGAATCAAAATTCAACAAAATAAATTTCAAAAGAT
* * * *
33146102 TTATTTCACAAAACACAAATAATTAATTAAATTAATGCTGTTTAGAAAACG
831 TTATTTAACAAAACACAAATAAATAATTAAATAAATGATGTTTAGAAAACG
* * * * *
33146153 TAACTAAAAAAATTATATAAAATAAAATGGGAGGGTTGCAACATGAGGACTTCCCAGGAGGTCAC
1 CAACTAAAAAAATTATATAAAATAAAATGGGAGGGGTGCAACACGAGGACATCACAGGAGGTCAC
* * * * ***
33146218 TCGTCCTAGTACTATTCTCACCCAAGCACGCTTAATTGCGGAGTTCTGATGAGATTCGTTGCATT
66 CCATCCTAGTACTATTCTCACCCAAGCACGCTTAATTGCAGAGTTCTGATGAAATTCAACGCATT
** * * *
33146283 AGTGCTGGTATGATTTCACCCATCAAATCTTGCATAATTATTTTACATAAAAGCTACTCCTTACT
131 AGTGCTCATATGATCTCACCCATCAAATCTTGCACAATTATTTTACATAAAAGCTACTCCTCACT
** ** *
33146348 GCACTTGCACCTCGTATTTGAATGCAAATTT-ATAACGTTTCAAAAGATTTATTTTGCAAAACGC
196 GCACTTGCACCTCAAATTTGAATGCAAATTTAATAACGTTTCAAAAGATTTATTTCACAAAACAC
* **
33146412 AAATAAATAAATAATTAAATAATGTTTAGAAAATGCAAA-AAAGAAA-AGAAA-GTAAGGGGTGC
261 AAATAAATAAATAAATAAATAATGTTTAGAAAATGCAAATAAAGAAATA-AAATGTAAGGCATGC
* * * *
33146474 AACACGATGACTTC-CTAGGAGGTCA-CCTATACTAGTTCTACTCTCACCCAAGC-ATGCCTAAT
325 AACACGAGGACTTCTC-AGGAGGTCATCC-ATACTAGTTCTACTCT-AACCAAACAATGCCTAAC
* * *
33146536 TGC-CAGTTCTGATACGAT-CTGGTGCATTAGTGCTGGTATGATCGCACCCGTTAATTCTTGCGC
387 TGCACAGTTCTGATACGATAC-GATGCATTAGTGCTGGTATAATCGCACCCGTCAATTCTTGCGC
** *
33146599 AATCT-ATTTACATAAAGGCTACCCCTTATTGCACTTGCGCCTTGAATTTGAATGCAAATTTGAC
451 AAT-TGATTTACATAAAGGCTACCCCTTAACGCACTTGCGCCTCGAATTTGAATGCAAATTTGAC
* * * ** ** *
33146663 CAAATAACGTTTGAAAAGATTTCTTTCGCAAAACGCAAATAAAT-AA-ACA-AA-T-AAA-G-TT
515 CAAATAACCTTTCAAAAGATTTATTTCAAAAAACAAAAATAAATAAATAAATAATTAAAAGGTTT
* * * * * * * *
33146721 -TT-GAC-AACAAAAAT-AAAACAATA-AAATGTAAGATGTGCAACACGAGGACTTTCTAGGAGG
580 ATTCCACAAACAAAAATAAAAAAAAAACAAACGTAAGAGGTGCAACACG-GGACTTCCAAAGAGG
* * * * *
33146781 TCACCCATCGTAGTTCTACCCTTGCCCAACCATGCTTAACTACGGAGTTCTGATAGG-ATAC-G-
644 TCACCCATCCTAGTACTAACCTTGCCCAACCACGCTTAACTACAGAGTTCTGAT-GGAATACAGT
* * * * *
33146843 ATGCGTTAGTTCTGGTATGAGCACACCCGTCAGTTCTTGCGCAATCTATTTATATAAAGGCAGCC
708 AT--ATTAGTGCTAGTATGAGCACACCCATCAGTTCTTGCGCAATCTATTTACATAAAGGCAGCC
** * * * *
33146908 CCTTATCGCACTTACGCCTCGAATTTTAATCCAAATTTGAA-AAAATAACATTTCAAAAGATTTA
771 CCTTATCGCACTTACAACTCAAATTTGAAT-CAAAATTCAACAAAATAA-ATTTCAAAAGATTTA
* * * *
33146972 TTTAAGAAAACACAAATAAATATTTAAATAAATGATGTTTTGAAAATG
834 TTTAACAAAACACAAATAAATAATTAAATAAATGATGTTTAGAAAACG
* * * *
33147020 CAACTAAAAAATTTATATAAAATAAAATGTGAGGGGTGCAATACGAGGACATCATAGGAGGTCAC
1 CAACTAAAAAAATTATATAAAATAAAATGGGAGGGGTGCAACACGAGGACATCACAGGAGGTCAC
* * **
33147085 CCATCCTAGTCCTACTT-TCGCCCAAGCGTGCTTAACTATG-AG-GTTCTGATGAAATTCAACGC
66 CCATCCTAGTACTA-TTCTCACCCAAGCACGCTTAA-T-TGCAGAGTTCTGATGAAATTCAACGC
* * * * * *
33147147 GTTAGTGCTCATATGATCTCACCCGTCAATTCTTGCGCAATCTA-TTTACA-GAAAGCCTCCTCC
128 ATTAGTGCTCATATGATCTCACCCATCAAATCTTGCACAAT-TATTTTACATAAAAG-CTACTCC
*** * *
33147210 TCA-TCGCACTTGTGTCTCAAATTTTAATGCAAATTTGACCAAATAATGTTTCAAAAGATTTATT
191 TCACT-GCACTTGCACCTCAAATTTGAATGCAAATTT-----AATAACGTTTCAAAAGATTTATT
* ** *
33147274 TCACAAAACACAAGTAAATATTTAAATAAATGATGTTTAGAAA
250 TCACAAAACACAAATAAATAAATAAATAAATAATGTTTAGAAA
33147317 TGGAAACTAA
Statistics
Matches: 963, Mismatches: 165, Indels: 83
0.80 0.14 0.07
Matches are distributed among these distances:
864 2 0.00
865 17 0.02
866 155 0.16
867 239 0.25
868 6 0.01
869 4 0.00
870 2 0.00
871 2 0.00
872 1 0.00
873 59 0.06
875 1 0.00
877 28 0.03
879 2 0.00
880 2 0.00
881 14 0.01
882 146 0.15
883 211 0.22
884 56 0.06
885 16 0.02
ACGTcount: A:0.36, C:0.19, G:0.15, T:0.29
Consensus pattern (881 bp):
CAACTAAAAAAATTATATAAAATAAAATGGGAGGGGTGCAACACGAGGACATCACAGGAGGTCAC
CCATCCTAGTACTATTCTCACCCAAGCACGCTTAATTGCAGAGTTCTGATGAAATTCAACGCATT
AGTGCTCATATGATCTCACCCATCAAATCTTGCACAATTATTTTACATAAAAGCTACTCCTCACT
GCACTTGCACCTCAAATTTGAATGCAAATTTAATAACGTTTCAAAAGATTTATTTCACAAAACAC
AAATAAATAAATAAATAAATAATGTTTAGAAAATGCAAATAAAGAAATAAAATGTAAGGCATGCA
ACACGAGGACTTCTCAGGAGGTCATCCATACTAGTTCTACTCTAACCAAACAATGCCTAACTGCA
CAGTTCTGATACGATACGATGCATTAGTGCTGGTATAATCGCACCCGTCAATTCTTGCGCAATTG
ATTTACATAAAGGCTACCCCTTAACGCACTTGCGCCTCGAATTTGAATGCAAATTTGACCAAATA
ACCTTTCAAAAGATTTATTTCAAAAAACAAAAATAAATAAATAAATAATTAAAAGGTTTATTCCA
CAAACAAAAATAAAAAAAAAACAAACGTAAGAGGTGCAACACGGGACTTCCAAAGAGGTCACCCA
TCCTAGTACTAACCTTGCCCAACCACGCTTAACTACAGAGTTCTGATGGAATACAGTATATTAGT
GCTAGTATGAGCACACCCATCAGTTCTTGCGCAATCTATTTACATAAAGGCAGCCCCTTATCGCA
CTTACAACTCAAATTTGAATCAAAATTCAACAAAATAAATTTCAAAAGATTTATTTAACAAAACA
CAAATAAATAATTAAATAAATGATGTTTAGAAAACG
Found at i:33147284 original size:300 final size:297
Alignment explanation
Indices: 33145330--33147316 Score: 1464
Period size: 300 Copynumber: 6.8 Consensus size: 297
33145320 TTCCCAAAAA
* * * * * *
33145330 GTCACCCATCCTAGTATTACTCTCACCCAAGCACGCTTAA-T-TGTAGAGTTC-AATTGA-AATC
1 GTCACCCATCCTAGTACTACTTTCGCCCAAGCATGCTTAACTATG-AGAGTTCTGA-TGAGATTC
* * * * * * *
33145391 CATTGCATTAATGCTAGTATGATCGCACCC-TACAAATCTTGCACAATC-AGTTTATATAAAGGC
64 GA-TGCATTAGTGCTGGTATGATCACACCCGT-CAATTCTTGCGCAATCTA-TTTACATAAAGGC
* * * *
33145454 TATCCCTTATTGCACTTGCGCCTCAAATTTGAATGCAAATTTGACCAAATAATGTTTCAAAAGAT
126 TACCCCTTATCGCACTTGCGCCTCGAATTTGAATGCAAATTTGACCAAATAACGTTTCAAAAGAT
* ** *
33145519 TTCTTTCACAAAATGCAAAT--A-AA-TAAAT--A-AA-GTTTAGAAAATG---C-AAATA-AAT
191 TTATTTCACAAAACACAAATAAATAATTAAATAAATAATGTTTAGAAAATGCAACAAAAAATAAT
* **
33145571 -AAATAAAATGTAAGGCATGCAACACGAGGACTTC-TCAGGAG
256 AAAATAAAATGTGAGGGGTGCAACACGAGGACTTCAT-AGGAG
* * * ** * *
33145612 GTCATCCATCCTAGTTCTACTCT-AACCAAACAATGCTTAAC--TGCAGAGTTCTGAT-AGGATA
1 GTCACCCATCCTAGTACTACTTTCGCCCAAGC-ATGCTTAACTATG-AGAGTTCTGATGA-GATT
* * * * *
33145673 CGATGCTTTAGTGTTGGTATAATCGCACCTGTCAATTCTTGCGCAAT-TGATTTACATAAAGGCT
63 CGATGCATTAGTGCTGGTATGATCACACCCGTCAATTCTTGCGCAATCT-ATTTACATAAAGGCT
* * * * *
33145737 ACCCCTTAACGCACTTGTGCCTCGAATTTTAATGCAAATTTGACCAAATAACCTTTCAAAATATT
127 ACCCCTTATCGCACTTGCGCCTCGAATTTGAATGCAAATTTGACCAAATAACGTTTCAAAAGATT
* * *
33145802 TATTTCA-AAAA-AC-AA-AAATAAATAAATAAATAATGTTTAGAAAGGTTTATTCCACAAAACA
192 TATTTCACAAAACACAAATAAATAATTAAATAAATAATGTTTAGAAA-----A-TGCA-ACAA-A
* * * * *
33145863 GAAATAAAAAAAAAACAAACGTGAGGGGTGCAACATG-GGACTTCCA-AAGAG
249 -AAAT-AATAAAATA-AAATGTGAGGGGTGCAACACGAGGACTT-CATAGGAG
* * * * * *
33145914 GTCACCCATCCTAGTACTAATCTT-GCCCAAGCACGCTTAACTAT-AGTGTTTTGATG-GAATCC
1 GTCACCCATCCTAGTACTACT-TTCGCCCAAGCATGCTTAACTATGAGAGTTCTGATGAGATTCG
** * * * * *
33145976 AGTATATTAGTGCTAGTATGATCACATCCATCAGTTCTTGCGCAATCTATTTACATAAAGGCTGC
65 A-TGCATTAGTGCTGGTATGATCACACCCGTCAATTCTTGCGCAATCTATTTACATAAAGGCTAC
** * * ** * **
33146041 CCCTTATCGCACTTGCAACTCAAATTTGAATGAAAATTCAACCAAATAA-TTTTCAAATTATTTA
129 CCCTTATCGCACTTGCGCCTCGAATTTGAATGCAAATTTGACCAAATAACGTTTCAAAAGATTTA
* * ** * *
33146105 TTTCACAAAACACAAATAATTAATTAAATTAATGCTGTTTAGAAAACGTAACTAAAAAAATTATA
194 TTTCACAAAACACAAATAAATAATTAAATAAATAATGTTTAGAAAATGCAAC--AAAAAA-TA-A
* * * **
33146170 TAAAATAAAATGGGAGGGTTGCAACATGAGGACTTCCCAGGAG
255 TAAAATAAAATGTGAGGGGTGCAACACGAGGACTTCATAGGAG
* * * * *
33146213 GTCACTCGTCCTAGTACTA-TTCTCACCCAAGCACGCTTAA-T-TGCGGAGTTCTGATGAGATTC
1 GTCACCCATCCTAGTACTACTT-TCGCCCAAGCATGCTTAACTATG-AGAGTTCTGATGAGATTC
* ** * * ** *
33146275 GTTGCATTAGTGCTGGTATGATTTCACCCATCAAATCTTGCATAAT-TATTTTACATAAAAGCTA
64 GATGCATTAGTGCTGGTATGATCACACCCGTCAATTCTTGCGCAATCTA-TTTACATAAAGGCTA
* * *
33146339 CTCCTTA-CTGCACTTGCACCTCGTATTTGAATGCAAATTT------ATAACGTTTCAAAAGATT
128 CCCCTTATC-GCACTTGCGCCTCGAATTTGAATGCAAATTTGACCAAATAACGTTTCAAAAGATT
** * * * *
33146397 TATTTTGCAAAACGCAAATAAATAAATAATTAAATAATGTTTAGAAAATG---C--AAAA-AAGA
192 TATTTCACAAAACACAAATAAATAATTAAATAAATAATGTTTAGAAAATGCAACAAAAAATAATA
* * * *
33146456 AAA-GAAA-GTAAGGGGTGCAACACGATGACTTCCTAGGAG
257 AAATAAAATGTGAGGGGTGCAACACGAGGACTTCATAGGAG
* * * * * * **
33146495 GTCACCTATACTAGTTCTACTCTCACCCAAGCATGCCTAA-T-TGCCAGTTCTGAT-ACGA-TCT
1 GTCACCCATCCTAGTACTACTTTCGCCCAAGCATGCTTAACTATGAGAGTTCTGATGA-GATTC-
* * *
33146556 GGTGCATTAGTGCTGGTATGATCGCACCCGTTAATTCTTGCGCAATCTATTTACATAAAGGCTAC
64 GATGCATTAGTGCTGGTATGATCACACCCGTCAATTCTTGCGCAATCTATTTACATAAAGGCTAC
* * * *
33146621 CCCTTATTGCACTTGCGCCTTGAATTTGAATGCAAATTTGACCAAATAACGTTTGAAAAGATTTC
129 CCCTTATCGCACTTGCGCCTCGAATTTGAATGCAAATTTGACCAAATAACGTTTCAAAAGATTTA
* * * * *
33146686 TTTCGCAAAACGCAAAT--A-AA-TAAACAAATAAAGTTTTG---A--CAAC-AAAAATAA-AAC
194 TTTCACAAAACACAAATAAATAATTAAATAAATAATGTTTAGAAAATGCAACAAAAAATAATAA-
* **
33146740 AATAAAATGTAAGATGTGCAACACGAGGACTTTC-TAGGAG
258 AATAAAATGTGAGGGGTGCAACACGAGGAC-TTCATAGGAG
* * * * * *
33146780 GTCACCCATCGTAGTTCTACCCTT-GCCCAACCATGCTTAACTACG-GAGTTCTGAT-AGGATAC
1 GTCACCCATCCTAGTACTA-CTTTCGCCCAAGCATGCTTAACTATGAGAGTTCTGATGA-GATTC
* * * * *
33146842 GATGCGTTAGTTCTGGTATGAGCACACCCGTCAGTTCTTGCGCAATCTATTTATATAAAGGC-AG
64 GATGCATTAGTGCTGGTATGATCACACCCGTCAATTCTTGCGCAATCTATTTACATAAAGGCTA-
* * * ** *
33146906 CCCCTTATCGCACTTACGCCTCGAATTTTAATCCAAATTTGAAAAAATAACATTTCAAAAGATTT
128 CCCCTTATCGCACTTGCGCCTCGAATTTGAATGCAAATTTGACCAAATAACGTTTCAAAAGATTT
* * * * *
33146971 ATTTAAGAAAACACAAATAAATATTTAAATAAATGATGTTTTGAAAATGCAACTAAAAAATTTAT
193 ATTTCACAAAACACAAATAAATAATTAAATAAATAATGTTTAGAAAATGCAAC-AAAAAA--TA-
* *
33147036 ATAAAATAAAATGTGAGGGGTGCAATACGAGGACATCATAGGAG
254 ATAAAATAAAATGTGAGGGGTGCAACACGAGGACTTCATAGGAG
* * * *
33147080 GTCACCCATCCTAGTCCTACTTTCGCCCAAGCGTGCTTAACTATGAG-GTTCTGATGAAATTCAA
1 GTCACCCATCCTAGTACTACTTTCGCCCAAGCATGCTTAACTATGAGAGTTCTGATGAGATTCGA
* * ** * * *
33147144 CGCGTTAGTGCTCATATGATCTCACCCGTCAATTCTTGCGCAATCTATTTACAGAAAGCCT-CCT
66 TGCATTAGTGCTGGTATGATCACACCCGTCAATTCTTGCGCAATCTATTTACATAAAGGCTACC-
* * * * * *
33147208 CCTCATCGCACTTGTGTCTCAAATTTTAATGCAAATTTGACCAAATAATGTTTCAAAAGATTTAT
130 CCTTATCGCACTTGCGCCTCGAATTTGAATGCAAATTTGACCAAATAACGTTTCAAAAGATTTAT
* * *
33147273 TTCACAAAACACAAGTAAATATTTAAATAAATGATGTTTAGAAA
195 TTCACAAAACACAAATAAATAATTAAATAAATAATGTTTAGAAA
33147317 TGGAAACTAA
Statistics
Matches: 1347, Mismatches: 253, Indels: 192
0.75 0.14 0.11
Matches are distributed among these distances:
279 2 0.00
280 6 0.00
281 111 0.08
282 218 0.16
283 28 0.02
284 11 0.01
285 59 0.04
286 150 0.11
287 40 0.03
288 1 0.00
289 1 0.00
290 15 0.01
291 2 0.00
292 1 0.00
293 5 0.00
294 50 0.04
295 4 0.00
297 8 0.01
298 31 0.02
299 150 0.11
300 232 0.17
301 28 0.02
302 142 0.11
303 26 0.02
304 3 0.00
305 23 0.02
ACGTcount: A:0.36, C:0.19, G:0.15, T:0.30
Consensus pattern (297 bp):
GTCACCCATCCTAGTACTACTTTCGCCCAAGCATGCTTAACTATGAGAGTTCTGATGAGATTCGA
TGCATTAGTGCTGGTATGATCACACCCGTCAATTCTTGCGCAATCTATTTACATAAAGGCTACCC
CTTATCGCACTTGCGCCTCGAATTTGAATGCAAATTTGACCAAATAACGTTTCAAAAGATTTATT
TCACAAAACACAAATAAATAATTAAATAAATAATGTTTAGAAAATGCAACAAAAAATAATAAAAT
AAAATGTGAGGGGTGCAACACGAGGACTTCATAGGAG
Found at i:33150912 original size:56 final size:56
Alignment explanation
Indices: 33150826--33150937 Score: 224
Period size: 56 Copynumber: 2.0 Consensus size: 56
33150816 CCATGGTTCA
33150826 AGTATAAAGTCTGGAAATTCATGCACAAAAATAAACGGGTTATGAAATATATATAT
1 AGTATAAAGTCTGGAAATTCATGCACAAAAATAAACGGGTTATGAAATATATATAT
33150882 AGTATAAAGTCTGGAAATTCATGCACAAAAATAAACGGGTTATGAAATATATATAT
1 AGTATAAAGTCTGGAAATTCATGCACAAAAATAAACGGGTTATGAAATATATATAT
33150938 TTAAATGCAT
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 56 1.00
ACGTcount: A:0.46, C:0.09, G:0.16, T:0.29
Consensus pattern (56 bp):
AGTATAAAGTCTGGAAATTCATGCACAAAAATAAACGGGTTATGAAATATATATAT
Done.