Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D03
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: 50986338
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 218898 characters in sequence are not A, C, G, or T
File 5 of 170
Found at i:1421672 original size:22 final size:21
Alignment explanation
Indices: 1421624--1421672 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 21
1421614 AATTTTAAAA
*
1421624 TATTTTTAAAATAAATTTTTT
1 TATTTTTAAAATAAATTTTTG
1421645 TAATTTTTAAAATAAATTTTTGG
1 T-ATTTTTAAAATAAATTTTT-G
1421668 TATTT
1 TATTT
1421673 ATTTAAAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
21 1 0.04
22 23 0.92
23 1 0.04
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (21 bp):
TATTTTTAAAATAAATTTTTG
Found at i:1422748 original size:20 final size:20
Alignment explanation
Indices: 1422723--1422772 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
1422713 TGGCTTAAAA
1422723 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
1422743 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
1422760 GTGGTAGTGGATT
1 TTGGTAGTGGATT
1422773 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:1427387 original size:20 final size:20
Alignment explanation
Indices: 1427362--1427411 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
1427352 TGGCTTAAAA
1427362 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
1427382 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
1427399 GTGGTAGTGGATT
1 TTGGTAGTGGATT
1427412 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:1446427 original size:48 final size:48
Alignment explanation
Indices: 1446375--1446470 Score: 183
Period size: 48 Copynumber: 2.0 Consensus size: 48
1446365 TTGCAAAATT
*
1446375 TGATTAAGGGAATTTTAGAATTTTATTTTGTTATATCAAAACATTTAA
1 TGATTAAGGGAATTTTAAAATTTTATTTTGTTATATCAAAACATTTAA
1446423 TGATTAAGGGAATTTTAAAATTTTATTTTGTTATATCAAAACATTTAA
1 TGATTAAGGGAATTTTAAAATTTTATTTTGTTATATCAAAACATTTAA
1446471 AAATCAAAGT
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 47 1.00
ACGTcount: A:0.39, C:0.04, G:0.11, T:0.46
Consensus pattern (48 bp):
TGATTAAGGGAATTTTAAAATTTTATTTTGTTATATCAAAACATTTAA
Found at i:1447524 original size:34 final size:34
Alignment explanation
Indices: 1447421--1447511 Score: 164
Period size: 34 Copynumber: 2.7 Consensus size: 34
1447411 TTTTTTTTTA
*
1447421 AAATTAATTAAATTAGGCTTTAAGGGTTTTAAAT
1 AAATTAATTAAATTAGGGTTTAAGGGTTTTAAAT
*
1447455 AAATTAATTAAATTAGGGTTTAGGGGTTTTAAAT
1 AAATTAATTAAATTAGGGTTTAAGGGTTTTAAAT
1447489 AAATTAATTAAATTAGGGTTTAA
1 AAATTAATTAAATTAGGGTTTAA
1447512 TTTTTTTAAA
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
34 54 1.00
ACGTcount: A:0.42, C:0.01, G:0.16, T:0.41
Consensus pattern (34 bp):
AAATTAATTAAATTAGGGTTTAAGGGTTTTAAAT
Found at i:1447809 original size:49 final size:49
Alignment explanation
Indices: 1447755--1447862 Score: 180
Period size: 49 Copynumber: 2.2 Consensus size: 49
1447745 CGAAATGATA
*
1447755 TATTTTTTTAATCGCGCCTATCTGACAAGCGCGAATCAATTTTTTATAT
1 TATTTTTTTAATCGAGCCTATCTGACAAGCGCGAATCAATTTTTTATAT
* *
1447804 TATTTTTTTAATCGAGCCTATCTGATAGGCGCGAATCAATTTTTTATAT
1 TATTTTTTTAATCGAGCCTATCTGACAAGCGCGAATCAATTTTTTATAT
1447853 TAATTTTTTT
1 T-ATTTTTTT
1447863 TCGTTTAATA
Statistics
Matches: 55, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
49 47 0.85
50 8 0.15
ACGTcount: A:0.26, C:0.15, G:0.12, T:0.47
Consensus pattern (49 bp):
TATTTTTTTAATCGAGCCTATCTGACAAGCGCGAATCAATTTTTTATAT
Found at i:1447951 original size:27 final size:27
Alignment explanation
Indices: 1447913--1447993 Score: 101
Period size: 27 Copynumber: 3.0 Consensus size: 27
1447903 GTATAGATAC
1447913 GAGGCACGACTAGTTGAGCCTATCTCA
1 GAGGCACGACTAGTTGAGCCTATCTCA
* * *
1447940 GAGGCGCGACTATTTGAGCCTATCT-G
1 GAGGCACGACTAGTTGAGCCTATCTCA
* *
1447966 GCAGGCACGACTAGTTGTGCCTAACTCA
1 G-AGGCACGACTAGTTGAGCCTATCTCA
1447994 AAAGCGCGAA
Statistics
Matches: 44, Mismatches: 8, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
26 1 0.02
27 43 0.98
ACGTcount: A:0.23, C:0.26, G:0.27, T:0.23
Consensus pattern (27 bp):
GAGGCACGACTAGTTGAGCCTATCTCA
Found at i:1452733 original size:13 final size:13
Alignment explanation
Indices: 1452709--1452750 Score: 77
Period size: 13 Copynumber: 3.3 Consensus size: 13
1452699 TAATACATTA
1452709 TCTTTT-TTTCTC
1 TCTTTTCTTTCTC
1452721 TCTTTTCTTTCTC
1 TCTTTTCTTTCTC
1452734 TCTTTTCTTTCTC
1 TCTTTTCTTTCTC
1452747 TCTT
1 TCTT
1452751 CCGGTGGATA
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
12 6 0.21
13 23 0.79
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (13 bp):
TCTTTTCTTTCTC
Found at i:1452842 original size:20 final size:20
Alignment explanation
Indices: 1452817--1452857 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
1452807 TTTTCCCATT
*
1452817 GAAGGGACAACAGCCTGGTG
1 GAAGGGACAACAGCATGGTG
*
1452837 GAAGGGACAGCAGCATGGTG
1 GAAGGGACAACAGCATGGTG
1452857 G
1 G
1452858 TGCAACAACA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.29, C:0.17, G:0.44, T:0.10
Consensus pattern (20 bp):
GAAGGGACAACAGCATGGTG
Found at i:1453313 original size:124 final size:126
Alignment explanation
Indices: 1453184--1453517 Score: 485
Period size: 124 Copynumber: 2.7 Consensus size: 126
1453174 AAAAACCCCA
* * * *
1453184 TCAAAAACGCTTCAAGTAGGATGTACTGTCAGCAAAATTACTAAAAAAAGCTCCCACATGAACGC
1 TCAAAAACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTAAAAAAAGCTCCCACGTGGACGC
*
1453249 TCTTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAG-A-ACGGTTCTGAAAAAATAGTG
66 TCTTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCTAAAAAAATAGTG
* * * *
1453308 TCAAAAACGCTTCAAGCAGGATGCACTATCAGCAAAATTACTGAAAAAAGCTCTCACGTGGACAC
1 TCAAAAACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTAAAAAAAGCTCCCACGTGGACGC
* * *
1453373 TTTTTTTCTATAGTAGTTCTTGAAAAAATAATTTTGAGAAGACGGTTCTAAAAAAATAGTG
66 TCTTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCTAAAAAAATAGTG
* * * *
1453434 TCAAAAATGCTTTAAGCAGGATGCACTGTCAGTAAAATTACTGAAAAAAA-CTCCCACGTGGATG
1 TCAAAAACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACT-AAAAAAAGCTCCCACGTGGACG
*
1453498 CTCTTTTTCTACATTAGTTC
65 CTCTTTTTCTACAGTAGTTC
1453518 TTGCATGGCC
Statistics
Matches: 184, Mismatches: 23, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
124 92 0.50
125 1 0.01
126 85 0.46
127 6 0.03
ACGTcount: A:0.37, C:0.18, G:0.16, T:0.29
Consensus pattern (126 bp):
TCAAAAACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTAAAAAAAGCTCCCACGTGGACGC
TCTTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCTAAAAAAATAGTG
Found at i:1453473 original size:126 final size:124
Alignment explanation
Indices: 1453184--1453520 Score: 494
Period size: 126 Copynumber: 2.7 Consensus size: 124
1453174 AAAAACCCCA
* * * * *
1453184 TCAAAAACGCTTCAAGTAGGATGTACTGTCAGCAAAATTACTAAAAAAAGCTCCCACATGAACGC
1 TCAAAAACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGC
* *
1453249 TCTTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAACGGTTCTGAAAAAATAGTG
66 TCTTTTTCTACAGTAGTTCTTGAAAAAATAATTTTGAGAACGGTTCTAAAAAAATAGTG
* * *
1453308 TCAAAAACGCTTCAAGCAGGATGCACTATCAGCAAAATTACTGAAAAAAGCTCTCACGTGGACAC
1 TCAAAAACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGC
* *
1453373 TTTTTTTCTATAGTAGTTCTTGAAAAAATAATTTTGAGAAGACGGTTCTAAAAAAATAGTG
66 TCTTTTTCTACAGTAGTTCTTGAAAAAATAATTTTGAG-A-ACGGTTCTAAAAAAATAGTG
* * * * *
1453434 TCAAAAATGCTTTAAGCAGGATGCACTGTCAGTAAAATTACTGAAAAAAACTCCCACGTGGATGC
1 TCAAAAACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGC
*
1453499 TCTTTTTCTACATTAGTTCTTG
66 TCTTTTTCTACAGTAGTTCTTG
1453521 CATGGCCTTA
Statistics
Matches: 188, Mismatches: 23, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
124 92 0.49
125 1 0.01
126 95 0.51
ACGTcount: A:0.37, C:0.18, G:0.16, T:0.29
Consensus pattern (124 bp):
TCAAAAACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGC
TCTTTTTCTACAGTAGTTCTTGAAAAAATAATTTTGAGAACGGTTCTAAAAAAATAGTG
Found at i:1456782 original size:21 final size:21
Alignment explanation
Indices: 1456758--1456809 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
1456748 TGGTTTAGCT
*
1456758 TCCGACGAGGGTTGTAGTTGC
1 TCCGACGAGGGTTGTAGTTAC
* *
1456779 TCCGACGAGGATTGTGGTTAC
1 TCCGACGAGGGTTGTAGTTAC
1456800 TCCGAC-AGGG
1 TCCGACGAGGG
1456810 GTTATGGTTG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
20 3 0.11
21 24 0.89
ACGTcount: A:0.17, C:0.21, G:0.37, T:0.25
Consensus pattern (21 bp):
TCCGACGAGGGTTGTAGTTAC
Found at i:1457095 original size:18 final size:18
Alignment explanation
Indices: 1457069--1457111 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
1457059 AACTGGGAAA
* **
1457069 AGGAAACATATAAGGGTT
1 AGGATACATATAAGGACT
1457087 AGGATACATATAAGGACT
1 AGGATACATATAAGGACT
1457105 AGGATAC
1 AGGATAC
1457112 GCACCTGACA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.44, C:0.09, G:0.26, T:0.21
Consensus pattern (18 bp):
AGGATACATATAAGGACT
Found at i:1458665 original size:16 final size:16
Alignment explanation
Indices: 1458628--1458675 Score: 59
Period size: 14 Copynumber: 3.2 Consensus size: 16
1458618 ACAGGCTGTT
1458628 ATAAAAAATTATA-AA
1 ATAAAAAATTATATAA
*
1458643 AT-TAAAATTATATAA
1 ATAAAAAATTATATAA
1458658 ATAAAAAA-TAT-TAA
1 ATAAAAAATTATATAA
1458672 ATAA
1 ATAA
1458676 TATTCAAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
14 16 0.55
15 9 0.31
16 4 0.14
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (16 bp):
ATAAAAAATTATATAA
Found at i:1496036 original size:23 final size:23
Alignment explanation
Indices: 1496002--1496046 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
1495992 TTTATAAATT
* *
1496002 ATAAATTATGTAGTTTGATTTTA
1 ATAAATTATGTAATTTAATTTTA
*
1496025 ATAAATTGTGTAATTTAATTTT
1 ATAAATTATGTAATTTAATTTT
1496047 CTTTTTAATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.36, C:0.00, G:0.11, T:0.53
Consensus pattern (23 bp):
ATAAATTATGTAATTTAATTTTA
Found at i:1496058 original size:6 final size:6
Alignment explanation
Indices: 1496038--1496072 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
1496028 AATTGTGTAA
**
1496038 TTTAAT TTTCTT TTTAAT TTTAAT TTTAAT TTTAA
1 TTTAAT TTTAAT TTTAAT TTTAAT TTTAAT TTTAA
1496073 AATCAAGAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.69
Consensus pattern (6 bp):
TTTAAT
Found at i:1498066 original size:17 final size:17
Alignment explanation
Indices: 1498044--1498076 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
1498034 ATATATTTAA
1498044 TATATTTGATTAAAAAG
1 TATATTTGATTAAAAAG
1498061 TATATTTGATTAAAAA
1 TATATTTGATTAAAAA
1498077 TAAAATATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.48, C:0.00, G:0.09, T:0.42
Consensus pattern (17 bp):
TATATTTGATTAAAAAG
Found at i:1498858 original size:27 final size:27
Alignment explanation
Indices: 1498842--1498911 Score: 77
Period size: 27 Copynumber: 2.5 Consensus size: 27
1498832 ATCTCAAACC
*
1498842 CAAACCCTAAACCTTAAACCTTAAATCT
1 CAAACCC-AAACCCTAAACCTTAAATCT
* * *
1498870 CAAACTCGAACCCTAAATCTTAAATCT
1 CAAACCCAAACCCTAAACCTTAAATCT
*
1498897 CGAACCCCAAACCCT
1 C-AAACCCAAACCCT
1498912 GAGCAAGTTT
Statistics
Matches: 34, Mismatches: 7, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
27 18 0.53
28 16 0.47
ACGTcount: A:0.40, C:0.36, G:0.03, T:0.21
Consensus pattern (27 bp):
CAAACCCAAACCCTAAACCTTAAATCT
Found at i:1498866 original size:34 final size:34
Alignment explanation
Indices: 1498828--1498893 Score: 105
Period size: 34 Copynumber: 1.9 Consensus size: 34
1498818 ACTCTAATAT
1498828 TTAAATCTCAAACCCAAACCCTAAACCTTAAACC
1 TTAAATCTCAAACCCAAACCCTAAACCTTAAACC
* * *
1498862 TTAAATCTCAAACTCGAACCCTAAATCTTAAA
1 TTAAATCTCAAACCCAAACCCTAAACCTTAAA
1498894 TCTCGAACCC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 29 1.00
ACGTcount: A:0.44, C:0.30, G:0.02, T:0.24
Consensus pattern (34 bp):
TTAAATCTCAAACCCAAACCCTAAACCTTAAACC
Found at i:1498886 original size:20 final size:21
Alignment explanation
Indices: 1498858--1498903 Score: 67
Period size: 20 Copynumber: 2.2 Consensus size: 21
1498848 CTAAACCTTA
*
1498858 AACCTTAAATCTCAAA-CTCG
1 AACCCTAAATCTCAAATCTCG
*
1498878 AACCCTAAATCTTAAATCTCG
1 AACCCTAAATCTCAAATCTCG
1498899 AACCC
1 AACCC
1498904 CAAACCCTGA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 14 0.61
21 9 0.39
ACGTcount: A:0.39, C:0.33, G:0.04, T:0.24
Consensus pattern (21 bp):
AACCCTAAATCTCAAATCTCG
Found at i:1502855 original size:27 final size:28
Alignment explanation
Indices: 1502774--1502857 Score: 89
Period size: 33 Copynumber: 2.8 Consensus size: 28
1502764 GATTGAATCA
*
1502774 AAATTAAAGTTTCATGTATACATTTAAACC
1 AAATAAAAGTTTCATGTATA-A-TTAAACC
*
1502804 ACAATATCAAAGTTTCACTGTATAATTACACC
1 A-AATA--AAAGTTTCA-TGTATAATTAAACC
1502836 AAATAAAAGTTT-ATGTATAATT
1 AAATAAAAGTTTCATGTATAATT
1502858 TTGAGATTTT
Statistics
Matches: 48, Mismatches: 2, Indels: 11
0.79 0.03 0.18
Matches are distributed among these distances:
27 9 0.19
28 1 0.02
29 7 0.15
30 1 0.02
31 7 0.15
32 7 0.15
33 10 0.21
34 6 0.12
ACGTcount: A:0.44, C:0.13, G:0.07, T:0.36
Consensus pattern (28 bp):
AAATAAAAGTTTCATGTATAATTAAACC
Found at i:1503556 original size:17 final size:17
Alignment explanation
Indices: 1503534--1503568 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
1503524 CCTTCCACAT
1503534 GTGTAATATTTTGATCA
1 GTGTAATATTTTGATCA
1503551 GTGTAATATTTTGATCA
1 GTGTAATATTTTGATCA
1503568 G
1 G
1503569 ATGTTGTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.29, C:0.06, G:0.20, T:0.46
Consensus pattern (17 bp):
GTGTAATATTTTGATCA
Found at i:1505172 original size:59 final size:59
Alignment explanation
Indices: 1505090--1505224 Score: 209
Period size: 59 Copynumber: 2.3 Consensus size: 59
1505080 AGGACTGAAC
* * *
1505090 TTTTTTTGTCTAAGTTAGTCCCTAAATTTGGCAATTGTTCCCACATT-AAGGCCTAAACT
1 TTTTTTTGTCTAAGTTAATCCCTAAACTTGGCAATTGTTCCCACATTCAA-ACCTAAACT
* *
1505149 TTTTTTTGTCCAAGTTAATCCCTAAACTTGGCAATTGTTCCCACTTTCAAACCTAAACT
1 TTTTTTTGTCTAAGTTAATCCCTAAACTTGGCAATTGTTCCCACATTCAAACCTAAACT
1505208 TTTTTTTGTCTAAGTTA
1 TTTTTTTGTCTAAGTTA
1505225 GTTCCTGATA
Statistics
Matches: 69, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
59 67 0.97
60 2 0.03
ACGTcount: A:0.25, C:0.21, G:0.11, T:0.43
Consensus pattern (59 bp):
TTTTTTTGTCTAAGTTAATCCCTAAACTTGGCAATTGTTCCCACATTCAAACCTAAACT
Found at i:1505335 original size:59 final size:60
Alignment explanation
Indices: 1505254--1505388 Score: 141
Period size: 59 Copynumber: 2.3 Consensus size: 60
1505244 AAACTTTAGA
* * * * * * *
1505254 GTTCTAGCCCCGATACGAGAACAATTGCAAAGTTCATA-GATTAACTTGGACAAA-AATAA-
1 GTTCAAGCCCCAATATGGGAACAATTACAAAGTTCA-AGGACTAACTTGAACAAAGAA-AAT
* * *
1505313 GTTCAAGTCCCAATATGGGAACAATTACCAAGTTCAAGGGCTAACTTGAACAAAGAAAAT
1 GTTCAAGCCCCAATATGGGAACAATTACAAAGTTCAAGGACTAACTTGAACAAAGAAAAT
1505373 GTTCAAGCCCCAATAT
1 GTTCAAGCCCCAATAT
1505389 AAGAATTGTT
Statistics
Matches: 62, Mismatches: 11, Indels: 5
0.79 0.14 0.06
Matches are distributed among these distances:
58 1 0.02
59 44 0.71
60 17 0.27
ACGTcount: A:0.40, C:0.20, G:0.17, T:0.23
Consensus pattern (60 bp):
GTTCAAGCCCCAATATGGGAACAATTACAAAGTTCAAGGACTAACTTGAACAAAGAAAAT
Found at i:1507007 original size:18 final size:19
Alignment explanation
Indices: 1506986--1507021 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
1506976 TTTTTAAAAT
1506986 TTATAAAT-TTTAGAATTC
1 TTATAAATATTTAGAATTC
*
1507004 TTATAAATATTTTGAATT
1 TTATAAATATTTAGAATT
1507022 TTTGAAAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.39, C:0.03, G:0.06, T:0.53
Consensus pattern (19 bp):
TTATAAATATTTAGAATTC
Found at i:1507010 original size:27 final size:27
Alignment explanation
Indices: 1506967--1507028 Score: 65
Period size: 27 Copynumber: 2.3 Consensus size: 27
1506957 TTATATATTC
*
1506967 TTTAGAAATTTTTTAAA-ATTTATAAAT
1 TTTAGAAATTTTATAAATATTT-TAAAT
*
1506994 TTTAG-AATTCTTATAAATATTTTGAAT
1 TTTAGAAATT-TTATAAATATTTTAAAT
*
1507021 TTTTGAAA
1 TTTAGAAA
1507029 ATTATTTTGT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
26 4 0.14
27 19 0.66
28 6 0.21
ACGTcount: A:0.40, C:0.02, G:0.06, T:0.52
Consensus pattern (27 bp):
TTTAGAAATTTTATAAATATTTTAAAT
Found at i:1507826 original size:24 final size:23
Alignment explanation
Indices: 1507777--1507827 Score: 57
Period size: 24 Copynumber: 2.2 Consensus size: 23
1507767 AATCAAAGTC
* *
1507777 AAATATATATGCTAATAAATGCT
1 AAATATATATACTAATAAATACT
* *
1507800 AAATATATTATACTCATAAATATT
1 AAATATA-TATACTAATAAATACT
1507824 AAAT
1 AAAT
1507828 CTTCTAGAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
23 7 0.30
24 16 0.70
ACGTcount: A:0.51, C:0.08, G:0.04, T:0.37
Consensus pattern (23 bp):
AAATATATATACTAATAAATACT
Found at i:1510108 original size:31 final size:31
Alignment explanation
Indices: 1510033--1510108 Score: 75
Period size: 31 Copynumber: 2.5 Consensus size: 31
1510023 TATACATCGC
1510033 AAATTAAAATTTTTAAAAATATTAAGAGATT
1 AAATTAAAATTTTTAAAAATATTAAGAGATT
** * * *
1510064 AAATGGAATTTTTTATAAATTTTGAAG-GATGT
1 AAATTAAAATTTTTAAAAATATT-AAGAGAT-T
1510096 -AATTAAAATTTTT
1 AAATTAAAATTTTT
1510109 GGAATTTTTA
Statistics
Matches: 35, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
31 31 0.89
32 4 0.11
ACGTcount: A:0.46, C:0.00, G:0.11, T:0.43
Consensus pattern (31 bp):
AAATTAAAATTTTTAAAAATATTAAGAGATT
Found at i:1517433 original size:2 final size:2
Alignment explanation
Indices: 1517426--1517464 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
1517416 GAAGCTTTTC
1517426 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1517465 ATGTAAGGTT
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 35 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1521969 original size:29 final size:29
Alignment explanation
Indices: 1521935--1521990 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
1521925 ATGATTTAAT
*
1521935 ATGTAATT-TCATACGTAAATTTTAATTTG
1 ATGTAATTAT-ATACGTAAATTTGAATTTG
*
1521964 ATGTAATTATATATGTAAATTTGAATT
1 ATGTAATTATATACGTAAATTTGAATT
1521991 GCGATTCATA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 23 0.96
30 1 0.04
ACGTcount: A:0.38, C:0.04, G:0.11, T:0.48
Consensus pattern (29 bp):
ATGTAATTATATACGTAAATTTGAATTTG
Found at i:1523098 original size:20 final size:20
Alignment explanation
Indices: 1523060--1523099 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
1523050 TTATACTAAT
* * *
1523060 TTTAAAGTGTCTAACATAAA
1 TTTAAAGTGACCAAAATAAA
1523080 TTTAAAGTGACCAAAATAAA
1 TTTAAAGTGACCAAAATAAA
1523100 ACAAAATAAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.50, C:0.10, G:0.10, T:0.30
Consensus pattern (20 bp):
TTTAAAGTGACCAAAATAAA
Found at i:1523280 original size:19 final size:18
Alignment explanation
Indices: 1523252--1523294 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 18
1523242 ATATTACATA
*
1523252 TTAAATCTAAACTAATAT
1 TTAAATCTAAACTAATAG
*
1523270 TTAACATCTAAATTAATAG
1 TTAA-ATCTAAACTAATAG
1523289 TTAAAT
1 TTAAAT
1523295 TAAGGGAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 6 0.27
19 16 0.73
ACGTcount: A:0.49, C:0.09, G:0.02, T:0.40
Consensus pattern (18 bp):
TTAAATCTAAACTAATAG
Found at i:1529987 original size:30 final size:29
Alignment explanation
Indices: 1529953--1530011 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 29
1529943 GTAATTTTTG
*
1529953 AAAATTGAACCAAATCAAGAATTCATGTAT
1 AAAATTGAACAAAATCAA-AATTCATGTAT
* * *
1529983 AAAATTGCACAAAATTAAAGTTCATGTAT
1 AAAATTGAACAAAATCAAAATTCATGTAT
1530012 GACATTACAC
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
29 10 0.40
30 15 0.60
ACGTcount: A:0.49, C:0.12, G:0.10, T:0.29
Consensus pattern (29 bp):
AAAATTGAACAAAATCAAAATTCATGTAT
Found at i:1531550 original size:41 final size:42
Alignment explanation
Indices: 1531493--1531582 Score: 164
Period size: 41 Copynumber: 2.2 Consensus size: 42
1531483 TATTGACAGG
1531493 TAAAACATACCTTAAATTCAAGTCAAAC-AAAAAAAAGACTA
1 TAAAACATACCTTAAATTCAAGTCAAACAAAAAAAAAGACTA
*
1531534 TAAAACATACCTTAAATTCAAGTCAAACAAAAAAAAAGGCTA
1 TAAAACATACCTTAAATTCAAGTCAAACAAAAAAAAAGACTA
1531576 TAAAACA
1 TAAAACA
1531583 ACGATACAAG
Statistics
Matches: 47, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
41 28 0.60
42 19 0.40
ACGTcount: A:0.59, C:0.17, G:0.06, T:0.19
Consensus pattern (42 bp):
TAAAACATACCTTAAATTCAAGTCAAACAAAAAAAAAGACTA
Found at i:1536630 original size:6 final size:6
Alignment explanation
Indices: 1536619--1536643 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
1536609 TAATAATTAT
1536619 ATTTTA ATTTTA ATTTTA ATTTTA A
1 ATTTTA ATTTTA ATTTTA ATTTTA A
1536644 GTGTAATTAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (6 bp):
ATTTTA
Found at i:1543723 original size:18 final size:18
Alignment explanation
Indices: 1543689--1543724 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
1543679 AAAAAGCTAG
*
1543689 TGATGAAGAAGAGTTGCT
1 TGATGAAGAAGAATTGCT
*
1543707 TGATGAAGATGAATTGCT
1 TGATGAAGAAGAATTGCT
1543725 GAGAAAATAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.33, C:0.06, G:0.31, T:0.31
Consensus pattern (18 bp):
TGATGAAGAAGAATTGCT
Found at i:1545467 original size:18 final size:18
Alignment explanation
Indices: 1545435--1545476 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
1545425 CGATAATAAT
1545435 ATTTA-ATTTAAATTTAA
1 ATTTAGATTTAAATTTAA
*
1545452 ATTTAGATTTAGATTTAA
1 ATTTAGATTTAAATTTAA
*
1545470 ATATAGA
1 ATTTAGA
1545477 CAATAATATA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 5 0.23
18 17 0.77
ACGTcount: A:0.45, C:0.00, G:0.07, T:0.48
Consensus pattern (18 bp):
ATTTAGATTTAAATTTAA
Found at i:1545476 original size:12 final size:12
Alignment explanation
Indices: 1545435--1545476 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
1545425 CGATAATAAT
1545435 ATTTA-ATTTAA
1 ATTTAGATTTAA
* *
1545446 ATTTAAATTTAG
1 ATTTAGATTTAA
1545458 ATTTAGATTTAA
1 ATTTAGATTTAA
*
1545470 ATATAGA
1 ATTTAGA
1545477 CAATAATATA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
11 5 0.19
12 21 0.81
ACGTcount: A:0.45, C:0.00, G:0.07, T:0.48
Consensus pattern (12 bp):
ATTTAGATTTAA
Found at i:1548657 original size:25 final size:25
Alignment explanation
Indices: 1548623--1548672 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
1548613 GCTAGGCTAC
1548623 CACTTATCACTTTGTCACTTGATCA
1 CACTTATCACTTTGTCACTTGATCA
1548648 CACTTATCACTTTGTCACTTGATCA
1 CACTTATCACTTTGTCACTTGATCA
1548673 GATAAGTGTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.24, C:0.28, G:0.08, T:0.40
Consensus pattern (25 bp):
CACTTATCACTTTGTCACTTGATCA
Found at i:1548708 original size:71 final size:68
Alignment explanation
Indices: 1548580--1548718 Score: 224
Period size: 71 Copynumber: 2.0 Consensus size: 68
1548570 TACGTATGAT
*
1548580 CACTTATCACTTGTCCCTGATCAGATAAGTGTAGCTAGGCTACCACTTATCACTTTGTCACTTGA
1 CACTTATCACTTGTCCCTGATCAGATAAGTGTAGCTAAGCTACCACTTATCACTTTGTCACTTGA
1548645 TCA
66 TCA
* *
1548648 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTTACT
1 CACTTATCAC-TTGTC-CCTGATCAGATAAGTGTAGCT-AAGCTACCACTTATCACTTTGTCACT
1548713 TGATCA
63 TGATCA
1548719 GATAAGTGTA
Statistics
Matches: 65, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
68 10 0.15
69 5 0.08
70 20 0.31
71 30 0.46
ACGTcount: A:0.27, C:0.24, G:0.14, T:0.35
Consensus pattern (68 bp):
CACTTATCACTTGTCCCTGATCAGATAAGTGTAGCTAAGCTACCACTTATCACTTTGTCACTTGA
TCA
Found at i:1548715 original size:46 final size:46
Alignment explanation
Indices: 1548648--1548848 Score: 248
Period size: 46 Copynumber: 4.6 Consensus size: 46
1548638 CACTTGATCA
*
1548648 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTGTTACTTGATCAGATAAGTGTAGCTAAAGCTAC
*
1548694 CACTTATCACTTTGTTACTTGATCAGATAAGTGTAGCTAATGCTAC
1 CACTTATCACTTTGTTACTTGATCAGATAAGTGTAGCTAAAGCTAC
1548740 CACTTATCACTTTGTCTA-TTGATCAGATAA--GT-G-T--AG----
1 CACTTATCACTTTGT-TACTTGATCAGATAAGTGTAGCTAAAGCTAC
*
1548776 CACTTATCACTTT-TTCACTTGATTAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTGTT-ACTTGATCAGATAAGTGTAGCTAAAGCTAC
*
1548822 CACTTATCACTTTATCT-CTTGATCAGA
1 CACTTATCACTTTGT-TACTTGATCAGA
1548849 AGTACTCAAA
Statistics
Matches: 135, Mismatches: 5, Indels: 30
0.79 0.03 0.18
Matches are distributed among these distances:
34 1 0.01
35 2 0.01
36 24 0.18
38 2 0.01
39 1 0.01
40 2 0.01
42 3 0.02
43 1 0.01
44 2 0.01
46 93 0.69
47 3 0.02
48 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.14, T:0.37
Consensus pattern (46 bp):
CACTTATCACTTTGTTACTTGATCAGATAAGTGTAGCTAAAGCTAC
Found at i:1548780 original size:36 final size:36
Alignment explanation
Indices: 1548740--1548812 Score: 112
Period size: 36 Copynumber: 2.0 Consensus size: 36
1548730 CTAATGCTAC
1548740 CACTTATCACTTTGTCTA-TTGATCAGATAAGTGTAG
1 CACTTATCACTTTGTC-ACTTGATCAGATAAGTGTAG
* *
1548776 CACTTATCACTTTTTCACTTGATTAGATAAGTGTAG
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAG
1548812 C
1 C
1548813 TAAAGCTACC
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
35 1 0.03
36 33 0.97
ACGTcount: A:0.27, C:0.18, G:0.15, T:0.40
Consensus pattern (36 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAG
Found at i:1548831 original size:82 final size:82
Alignment explanation
Indices: 1548694--1548848 Score: 258
Period size: 82 Copynumber: 1.9 Consensus size: 82
1548684 CTAAAGCTAC
* *
1548694 CACTTATCACTTTGTTACTTGATCAGATAAGTGTAGCTAATGCTACCACTTATCACTTTGTCTAT
1 CACTTATCACTTTGTTACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTATCTAT
1548759 TGATCAGATAAGTGTAG
66 TGATCAGATAAGTGTAG
* *
1548776 CACTTATCACTTT-TTCACTTGATTAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTATCTC
1 CACTTATCACTTTGTT-ACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTATCTA
1548840 TTGATCAGA
65 TTGATCAGA
1548849 AGTACTCAAA
Statistics
Matches: 68, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
81 2 0.03
82 66 0.97
ACGTcount: A:0.28, C:0.20, G:0.14, T:0.38
Consensus pattern (82 bp):
CACTTATCACTTTGTTACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTATCTAT
TGATCAGATAAGTGTAG
Found at i:1551349 original size:31 final size:31
Alignment explanation
Indices: 1551308--1551381 Score: 103
Period size: 31 Copynumber: 2.4 Consensus size: 31
1551298 TAAATTTTTA
*
1551308 GACAAGTTCAGGTACCAATTAGGTACTTCCG
1 GACAAGTTCAGGTACCAAATAGGTACTTCCG
* * * *
1551339 GATAAGTTCAGGTATCAAATAGGTATTTCTG
1 GACAAGTTCAGGTACCAAATAGGTACTTCCG
1551370 GACAAGTTCAGG
1 GACAAGTTCAGG
1551382 GGACAAACTA
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 37 1.00
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.28
Consensus pattern (31 bp):
GACAAGTTCAGGTACCAAATAGGTACTTCCG
Found at i:1555100 original size:3 final size:3
Alignment explanation
Indices: 1555092--1555120 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
1555082 CATTGTCTAA
1555092 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1555121 GAAAATAAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:1557812 original size:20 final size:20
Alignment explanation
Indices: 1557787--1557827 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
1557777 TCTTTATATA
1557787 TTTTTTCAAAATTTTGAATT
1 TTTTTTCAAAATTTTGAATT
* *
1557807 TTTTTTTATAATTTTGAATT
1 TTTTTTCAAAATTTTGAATT
1557827 T
1 T
1557828 ATTTGTTGAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.27, C:0.02, G:0.05, T:0.66
Consensus pattern (20 bp):
TTTTTTCAAAATTTTGAATT
Found at i:1577115 original size:18 final size:17
Alignment explanation
Indices: 1577091--1577135 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 17
1577081 ATTTTAGTTG
1577091 AATTTTTATATTTTTAA
1 AATTTTTATATTTTTAA
*
1577108 ATATTTTTGA-ATTTTTAC
1 A-ATTTTT-ATATTTTTAA
1577126 AATTTTTATA
1 AATTTTTATA
1577136 CAAAATTAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
16 1 0.04
17 8 0.33
18 14 0.58
19 1 0.04
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.62
Consensus pattern (17 bp):
AATTTTTATATTTTTAA
Found at i:1584039 original size:12 final size:13
Alignment explanation
Indices: 1584022--1584058 Score: 51
Period size: 12 Copynumber: 3.0 Consensus size: 13
1584012 GAACCGGACA
1584022 CGAACCGAA-CTC
1 CGAACCGAAGCTC
1584034 CGAACC-AAGCTC
1 CGAACCGAAGCTC
*
1584046 CGAACCGTAGCTC
1 CGAACCGAAGCTC
1584059 TGATGCCACT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
11 2 0.09
12 15 0.68
13 5 0.23
ACGTcount: A:0.30, C:0.41, G:0.19, T:0.11
Consensus pattern (13 bp):
CGAACCGAAGCTC
Found at i:1586104 original size:14 final size:14
Alignment explanation
Indices: 1586080--1586114 Score: 54
Period size: 14 Copynumber: 2.5 Consensus size: 14
1586070 GACATCTACC
1586080 ACATG-TAAATCAT
1 ACATGATAAATCAT
1586093 ACATGATAAATCAT
1 ACATGATAAATCAT
1586107 ACAATGAT
1 AC-ATGAT
1586115 TATTTTTGCT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 5 0.25
14 10 0.50
15 5 0.25
ACGTcount: A:0.49, C:0.14, G:0.09, T:0.29
Consensus pattern (14 bp):
ACATGATAAATCAT
Found at i:1597175 original size:18 final size:19
Alignment explanation
Indices: 1597152--1597189 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
1597142 GGAAGCAAGC
*
1597152 AATGATTGAAGA-AATCAG
1 AATGATTGAAAAGAATCAG
1597170 AATGATTGAAAAGAATCAG
1 AATGATTGAAAAGAATCAG
1597189 A
1 A
1597190 CCTGGAGTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.53, C:0.05, G:0.21, T:0.21
Consensus pattern (19 bp):
AATGATTGAAAAGAATCAG
Found at i:1605338 original size:36 final size:36
Alignment explanation
Indices: 1605298--1605371 Score: 148
Period size: 36 Copynumber: 2.1 Consensus size: 36
1605288 TCTTGAAAAG
1605298 CTTGATAGCTTTAATTTGCCTCTTCTAAGGCCTTAC
1 CTTGATAGCTTTAATTTGCCTCTTCTAAGGCCTTAC
1605334 CTTGATAGCTTTAATTTGCCTCTTCTAAGGCCTTAC
1 CTTGATAGCTTTAATTTGCCTCTTCTAAGGCCTTAC
1605370 CT
1 CT
1605372 GAAATGGAAC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.19, C:0.26, G:0.14, T:0.42
Consensus pattern (36 bp):
CTTGATAGCTTTAATTTGCCTCTTCTAAGGCCTTAC
Found at i:1607162 original size:13 final size:13
Alignment explanation
Indices: 1607144--1607168 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1607134 TGTAGAAGCA
1607144 ATTTTTTATACAT
1 ATTTTTTATACAT
1607157 ATTTTTTATACA
1 ATTTTTTATACA
1607169 ATTCCTTCGC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.08, G:0.00, T:0.60
Consensus pattern (13 bp):
ATTTTTTATACAT
Found at i:1607224 original size:18 final size:18
Alignment explanation
Indices: 1607201--1607235 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
1607191 AACTTGTGAG
1607201 TTCGTCACTTGCGGATTT
1 TTCGTCACTTGCGGATTT
*
1607219 TTCGTCACTTGTGGATT
1 TTCGTCACTTGCGGATT
1607236 ATTCTTCCTC
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:0.11, C:0.20, G:0.23, T:0.46
Consensus pattern (18 bp):
TTCGTCACTTGCGGATTT
Found at i:1610786 original size:22 final size:23
Alignment explanation
Indices: 1610746--1610793 Score: 64
Period size: 21 Copynumber: 2.1 Consensus size: 23
1610736 GAAAGGCATA
*
1610746 TTTTAAATGTTTTATAATATTATT
1 TTTTAAATATTTTATAATA-TATT
1610770 TTTTAAA-ATTTTA-AATATATT
1 TTTTAAATATTTTATAATATATT
1610791 TTT
1 TTT
1610794 ATATTAATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 7 0.30
22 4 0.17
23 5 0.22
24 7 0.30
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.62
Consensus pattern (23 bp):
TTTTAAATATTTTATAATATATT
Found at i:1610888 original size:23 final size:23
Alignment explanation
Indices: 1610862--1610933 Score: 78
Period size: 23 Copynumber: 3.2 Consensus size: 23
1610852 TTATTATCTG
*
1610862 TTTTATAATATTTTAAATGTATA
1 TTTTATAATATTTTAAATATATA
*
1610885 TTTTAAAATA-TTTAAATATATA
1 TTTTATAATATTTTAAATATATA
*
1610907 TATATT-TTA-ATTTTAAATATATA
1 T-T-TTATAATATTTTAAATATATA
1610930 TTTT
1 TTTT
1610934 TCAATTATAA
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
21 2 0.05
22 14 0.33
23 24 0.57
24 2 0.05
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.57
Consensus pattern (23 bp):
TTTTATAATATTTTAAATATATA
Found at i:1610928 original size:21 final size:20
Alignment explanation
Indices: 1610871--1610939 Score: 66
Period size: 21 Copynumber: 3.1 Consensus size: 20
1610861 GTTTTATAAT
* *
1610871 ATTTTAAATGTATATTTTAAA
1 ATTTTAAATATATATTTT-TA
1610892 ATATTTAAATATATATATATTTTA
1 AT-TTT-AA-ATATATAT-TTTTA
1610916 ATTTTAAATATATATTTTTCA
1 ATTTTAAATATATATTTTT-A
1610937 ATT
1 ATT
1610940 ATAATTTTTT
Statistics
Matches: 41, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
20 4 0.10
21 14 0.34
22 5 0.12
23 5 0.12
24 10 0.24
25 3 0.07
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.55
Consensus pattern (20 bp):
ATTTTAAATATATATTTTTA
Found at i:1611027 original size:22 final size:22
Alignment explanation
Indices: 1610997--1611119 Score: 58
Period size: 22 Copynumber: 5.5 Consensus size: 22
1610987 TTAAAAATAT
*
1610997 ATAAATTAAAATTATATTTAAA
1 ATAATTTAAAATTATATTTAAA
*
1611019 ATAATTTAAAAATATAATTTTAAA
1 ATAATTTAAAATTAT-A-TTTAAA
* * **
1611043 TTCTATTTAAAATT-T-TAAAAA
1 AT-AATTTAAAATTATATTTAAA
* *
1611064 ATCATAATTAAAAATAT-TTTAAA
1 AT-A-ATTTAAAATTATATTTAAA
* *
1611087 AT-TTTTAAAATATACATTTAAA
1 ATAATTTAAAAT-TATATTTAAA
1611109 AT-ATTATAAAA
1 ATAATT-TAAAA
1611120 CAAATAATAA
Statistics
Matches: 75, Mismatches: 18, Indels: 15
0.69 0.17 0.14
Matches are distributed among these distances:
20 6 0.08
21 8 0.11
22 31 0.41
23 13 0.17
24 8 0.11
25 9 0.12
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.42
Consensus pattern (22 bp):
ATAATTTAAAATTATATTTAAA
Found at i:1611044 original size:35 final size:33
Alignment explanation
Indices: 1610990--1611110 Score: 129
Period size: 35 Copynumber: 3.5 Consensus size: 33
1610980 AATATCTTTA
*
1610990 AAAATATATAAATTAAAATTATATTTAAAATAATTT
1 AAAA-ATATAATTTAAAATTATATTTAAAAT--TTT
* *
1611026 AAAAATATAATTTTAAATTCTATTTAAAATTTT
1 AAAAATATAATTTAAAATTATATTTAAAATTTT
*
1611059 AAAAAATCATAA-TTAAAAATAT-TTTAAAATTTT
1 -AAAAAT-ATAATTTAAAATTATATTTAAAATTTT
*
1611092 TAAAATATACATTTAAAAT
1 AAAAATATA-ATTTAAAAT
1611111 ATTATAAAAC
Statistics
Matches: 73, Mismatches: 8, Indels: 11
0.79 0.09 0.12
Matches are distributed among these distances:
31 3 0.04
32 6 0.08
33 20 0.27
34 13 0.18
35 27 0.37
36 4 0.05
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.42
Consensus pattern (33 bp):
AAAAATATAATTTAAAATTATATTTAAAATTTT
Found at i:1611082 original size:32 final size:30
Alignment explanation
Indices: 1610947--1611119 Score: 107
Period size: 35 Copynumber: 5.2 Consensus size: 30
1610937 ATTATAATTT
* *
1610947 TTTAAAATTTT--AAATAGAATTAAAAAATG
1 TTTAAAATTTTAAAAATATAATT-AAAAATA
*
1610976 TTTGAATATCTTTAAAAATATATAAATTAAAATTATA
1 TTT-AAAAT-TTT-AAAA-ATAT-AATTAAAA--ATA
**
1611013 TTTAAAATAATTTAAAAATATAATTTTAAATTCTA
1 TTTAAAAT--TTTAAAAATATAA--TTAAA-AATA
1611048 TTTAAAATTTTAAAAAATCATAATTAAAAATA
1 TTTAAAATTTT-AAAAAT-ATAATTAAAAATA
* *
1611080 TTTTAAAATTTTTAAAATATACATTTAAAATA
1 -TTTAAAATTTTAAAAATATA-ATTAAAAATA
1611112 TTATAAAA
1 TT-TAAAA
1611120 CAAATAATAA
Statistics
Matches: 115, Mismatches: 11, Indels: 33
0.72 0.07 0.21
Matches are distributed among these distances:
29 3 0.03
30 4 0.03
31 8 0.07
32 21 0.18
33 19 0.17
34 10 0.09
35 25 0.22
36 17 0.15
37 8 0.07
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (30 bp):
TTTAAAATTTTAAAAATATAATTAAAAATA
Found at i:1611262 original size:22 final size:24
Alignment explanation
Indices: 1611237--1611283 Score: 71
Period size: 22 Copynumber: 2.0 Consensus size: 24
1611227 AAAAAAAACT
1611237 AATTTTAAAAAAAT-ATATT-TAA
1 AATTTTAAAAAAATAATATTATAA
*
1611259 AATTTTTAAAAAATAATATTATAA
1 AATTTTAAAAAAATAATATTATAA
1611283 A
1 A
1611284 GCATTTCAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 13 0.59
23 5 0.23
24 4 0.18
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (24 bp):
AATTTTAAAAAAATAATATTATAA
Found at i:1611270 original size:37 final size:34
Alignment explanation
Indices: 1611202--1611275 Score: 94
Period size: 35 Copynumber: 2.1 Consensus size: 34
1611192 ATATTTTAAA
*
1611202 AATTTTAAAAATAATATTTAAATTTAAAAAAAACT
1 AATTTTAAAAAAAATATTTAAATTTAAAAAAAA-T
**
1611237 AATTTTAAAAAAATATATTTAAAATTTTTAAAAAAT
1 AATTTTAAAAAAA-ATATTT-AAATTTAAAAAAAAT
1611273 AAT
1 AAT
1611276 ATTATAAAGC
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
35 12 0.35
36 10 0.29
37 12 0.35
ACGTcount: A:0.59, C:0.01, G:0.00, T:0.39
Consensus pattern (34 bp):
AATTTTAAAAAAAATATTTAAATTTAAAAAAAAT
Found at i:1615276 original size:78 final size:77
Alignment explanation
Indices: 1615194--1615336 Score: 234
Period size: 78 Copynumber: 1.8 Consensus size: 77
1615184 ACCAGTTTCC
* * *
1615194 AATTTT-AATATGTTAAAAAAATGTTGAGTATAACTAATTTTAAATTTTTAATATACTTAATATA
1 AATTTTGAATATATTAAAAAAAT-TTAAGTATAACCAATTTTAAATTTTTAATATA-TTAATATA
1615258 TTAAAATATATTAA
64 TTAAAATATATTAA
1615272 AATTTTGAATATATTAAAAAAATTTAAGTATAACCAATTTTAAATTTTTAATATATTAATATATT
1 AATTTTGAATATATTAAAAAAATTTAAGTATAACCAATTTTAAATTTTTAATATATTAATATATT
1615337 TTTTAATAGG
Statistics
Matches: 61, Mismatches: 3, Indels: 3
0.91 0.04 0.04
Matches are distributed among these distances:
77 10 0.16
78 36 0.59
79 15 0.25
ACGTcount: A:0.48, C:0.03, G:0.04, T:0.45
Consensus pattern (77 bp):
AATTTTGAATATATTAAAAAAATTTAAGTATAACCAATTTTAAATTTTTAATATATTAATATATT
AAAATATATTAA
Found at i:1625544 original size:28 final size:29
Alignment explanation
Indices: 1625504--1625566 Score: 85
Period size: 28 Copynumber: 2.2 Consensus size: 29
1625494 AAAAATATAG
* *
1625504 AAAAATTACGTTAAAAGAAA-AT-AAAGAA
1 AAAAATAAAGTTAAAA-AAATATAAAAGAA
1625532 AAAAATAAAGTTAAAAAAATATAAAAGAA
1 AAAAATAAAGTTAAAAAAATATAAAAGAA
1625561 AAAAAT
1 AAAAAT
1625567 TAAATTACTC
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
27 3 0.10
28 16 0.52
29 12 0.39
ACGTcount: A:0.73, C:0.02, G:0.08, T:0.17
Consensus pattern (29 bp):
AAAAATAAAGTTAAAAAAATATAAAAGAA
Found at i:1628241 original size:13 final size:13
Alignment explanation
Indices: 1628223--1628254 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
1628213 TATCATTCAT
1628223 AATATAAATATAA
1 AATATAAATATAA
1628236 AATATAAATATAA
1 AATATAAATATAA
*
1628249 GATATA
1 AATATA
1628255 GTTTTTTAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (13 bp):
AATATAAATATAA
Found at i:1633681 original size:21 final size:21
Alignment explanation
Indices: 1633655--1633696 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
1633645 TATTTTTTAC
1633655 ATTATAAA-AAATTTAAAAATA
1 ATTATAAATAAA-TTAAAAATA
1633676 ATTATAAATTAAATTAAAAAT
1 ATTATAAA-TAAATTAAAAAT
1633697 TTAGTTCATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 8 0.42
22 8 0.42
23 3 0.16
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (21 bp):
ATTATAAATAAATTAAAAATA
Found at i:1635447 original size:2 final size:2
Alignment explanation
Indices: 1635436--1635472 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
1635426 GTTTTCTTCA
1635436 CT CT -T CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1635473 TATAATATAA
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
CT
Found at i:1635894 original size:3 final size:3
Alignment explanation
Indices: 1635888--1635917 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
1635878 GCTAGTGCCG
*
1635888 CCA CCA CCA CCA CCA CCA CCA CCA CAA CCA
1 CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA
1635918 GTTATAATAG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.37, C:0.63, G:0.00, T:0.00
Consensus pattern (3 bp):
CCA
Found at i:1640312 original size:7 final size:7
Alignment explanation
Indices: 1640300--1640329 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
1640290 TCTAAATTTT
1640300 TTTAAAA
1 TTTAAAA
1640307 TTTAAAA
1 TTTAAAA
1640314 TTTAAAA
1 TTTAAAA
1640321 TTTAAAA
1 TTTAAAA
1640328 TT
1 TT
1640330 ATAATATATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (7 bp):
TTTAAAA
Found at i:1642706 original size:15 final size:16
Alignment explanation
Indices: 1642686--1642724 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 16
1642676 AACTAGCTTG
1642686 AATTAATATT-TAAAA
1 AATTAATATTATAAAA
1642701 AATTAAT-TTATAAAA
1 AATTAATATTATAAAA
*
1642716 TATTAATAT
1 AATTAATAT
1642725 ATTATGGATT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 2 0.10
15 18 0.86
16 1 0.05
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (16 bp):
AATTAATATTATAAAA
Found at i:1653143 original size:13 final size:13
Alignment explanation
Indices: 1653116--1653148 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
1653106 CAAGGATAAG
*
1653116 GAAAGA-AATAAA
1 GAAAGAGAAGAAA
1653128 GAAAGAGAAGAAA
1 GAAAGAGAAGAAA
1653141 GAAAGAGA
1 GAAAGAGA
1653149 GTAAAAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 6 0.32
13 13 0.68
ACGTcount: A:0.70, C:0.00, G:0.27, T:0.03
Consensus pattern (13 bp):
GAAAGAGAAGAAA
Found at i:1655365 original size:28 final size:28
Alignment explanation
Indices: 1655262--1655360 Score: 164
Period size: 28 Copynumber: 3.5 Consensus size: 28
1655252 AATAATAAAA
1655262 ATTTACCAAAATATTACAACTTTTTTTTT
1 ATTTACCAAAATATTACAAC-TTTTTTTT
*
1655291 ATTTATCAAAATATTACAACTTTTTTTT
1 ATTTACCAAAATATTACAACTTTTTTTT
1655319 ATTTACCAAAATATATA-AACTTTTTTTT
1 ATTTACCAAAATAT-TACAACTTTTTTTT
1655347 ATTTACCAAAATAT
1 ATTTACCAAAATAT
1655361 ATAAAAAAAA
Statistics
Matches: 67, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
28 46 0.69
29 21 0.31
ACGTcount: A:0.38, C:0.12, G:0.00, T:0.49
Consensus pattern (28 bp):
ATTTACCAAAATATTACAACTTTTTTTT
Found at i:1655375 original size:11 final size:12
Alignment explanation
Indices: 1655361--1655392 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
1655351 ACCAAAATAT
1655361 ATAAAAAAAAA-
1 ATAAAAAAAAAC
1655372 ATAAAAAAAAAC
1 ATAAAAAAAAAC
1655384 A-AAAAAAAA
1 ATAAAAAAAA
1655393 CAAAACCTGC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 19 0.95
12 1 0.05
ACGTcount: A:0.91, C:0.03, G:0.00, T:0.06
Consensus pattern (12 bp):
ATAAAAAAAAAC
Found at i:1655377 original size:10 final size:10
Alignment explanation
Indices: 1655364--1655397 Score: 59
Period size: 10 Copynumber: 3.4 Consensus size: 10
1655354 AAAATATATA
*
1655364 AAAAAAAAAT
1 AAAAAAAAAC
1655374 AAAAAAAAAC
1 AAAAAAAAAC
1655384 AAAAAAAAAC
1 AAAAAAAAAC
1655394 AAAA
1 AAAA
1655398 CCTGCAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.91, C:0.06, G:0.00, T:0.03
Consensus pattern (10 bp):
AAAAAAAAAC
Found at i:1655387 original size:15 final size:15
Alignment explanation
Indices: 1655353--1655398 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
1655343 TTTTATTTAC
*
1655353 CAAAATATATAAAAAA
1 CAAAATA-AAAAAAAA
1655369 -AAAATAAAAAAAAA
1 CAAAATAAAAAAAAA
1655383 CAAAA-AAAAACAAAA
1 CAAAATAAAAA-AAAA
1655398 C
1 C
1655399 CTGCAAAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
14 12 0.44
15 15 0.56
ACGTcount: A:0.83, C:0.09, G:0.00, T:0.09
Consensus pattern (15 bp):
CAAAATAAAAAAAAA
Found at i:1655479 original size:27 final size:27
Alignment explanation
Indices: 1655440--1655515 Score: 116
Period size: 27 Copynumber: 2.8 Consensus size: 27
1655430 TACTGGTCAC
**
1655440 GCCAATGGTATTGGCGGCACCAAAGGT
1 GCCAATGCCATTGGCGGCACCAAAGGT
*
1655467 GCCAATGCCATTGGCGGCACCAATGGT
1 GCCAATGCCATTGGCGGCACCAAAGGT
*
1655494 GCCAATGCCATTGGTGGCACCA
1 GCCAATGCCATTGGCGGCACCA
1655516 CTCGTATTAT
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 45 1.00
ACGTcount: A:0.24, C:0.28, G:0.30, T:0.18
Consensus pattern (27 bp):
GCCAATGCCATTGGCGGCACCAAAGGT
Found at i:1655666 original size:19 final size:21
Alignment explanation
Indices: 1655628--1655666 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
1655618 AATAATTGAT
*
1655628 TATATTATTGTTATTATTTTG
1 TATATTATTGTTAATATTTTG
1655649 TATATT-TTG-TAATATTTT
1 TATATTATTGTTAATATTTT
1655667 TTGTTGTAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 8 0.47
20 3 0.18
21 6 0.35
ACGTcount: A:0.26, C:0.00, G:0.08, T:0.67
Consensus pattern (21 bp):
TATATTATTGTTAATATTTTG
Found at i:1655959 original size:36 final size:36
Alignment explanation
Indices: 1655919--1656017 Score: 92
Period size: 26 Copynumber: 3.0 Consensus size: 36
1655909 TTTTTTTTAG
1655919 TAAAATTAATAATTTTAGTGTGTATTATTTTGAGTA
1 TAAAATTAATAATTTTAGTGTGTATTATTTTGAGTA
* **
1655955 TAAAATTATTAA---TA---T-TA-T-TCGT-AGTA
1 TAAAATTAATAATTTTAGTGTGTATTATTTTGAGTA
*
1655981 TAAAATTAATAATTTTAGTGTGTATTATTTTGTGTA
1 TAAAATTAATAATTTTAGTGTGTATTATTTTGAGTA
1656017 T
1 T
1656018 TATTTTGAGT
Statistics
Matches: 46, Mismatches: 7, Indels: 20
0.63 0.10 0.27
Matches are distributed among these distances:
26 15 0.33
27 2 0.04
28 1 0.02
29 4 0.09
30 1 0.02
32 1 0.02
33 4 0.09
34 1 0.02
35 2 0.04
36 15 0.33
ACGTcount: A:0.36, C:0.01, G:0.12, T:0.51
Consensus pattern (36 bp):
TAAAATTAATAATTTTAGTGTGTATTATTTTGAGTA
Found at i:1656016 original size:12 final size:12
Alignment explanation
Indices: 1655999--1656029 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
1655989 ATAATTTTAG
1655999 TGTGTATTATTT
1 TGTGTATTATTT
1656011 TGTGTATTATTT
1 TGTGTATTATTT
*
1656023 TGAGTAT
1 TGTGTAT
1656030 AAATTTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.19, C:0.00, G:0.19, T:0.61
Consensus pattern (12 bp):
TGTGTATTATTT
Found at i:1662405 original size:37 final size:38
Alignment explanation
Indices: 1662363--1662478 Score: 146
Period size: 40 Copynumber: 3.0 Consensus size: 38
1662353 CTTCCCTCTT
*
1662363 CTTCTTT-TTTTTTTCTCTTCTCCTTTCCCTTTCTTTC
1 CTTCTTTCTTTTTTTCTCTTCTCCTTTCCTTTTCTTTC
*
1662400 CTTCTTTCTTTCTTTTTTCTTCT-CTTCTCCTTTTCTTCTTC
1 CTTCTTTCTTT-TTTTCTCTTCTCCTT-TCCTTTTC-T-TTC
* *
1662441 TTTCTTTCCTTTTTTCTCTTCTCCTTTCCTTTTCTTTC
1 CTTCTTTCTTTTTTTCTCTTCTCCTTTCCTTTTCTTTC
1662479 TTTCCTCTCC
Statistics
Matches: 68, Mismatches: 5, Indels: 11
0.81 0.06 0.13
Matches are distributed among these distances:
37 7 0.10
38 9 0.13
39 18 0.26
40 19 0.28
41 15 0.22
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (38 bp):
CTTCTTTCTTTTTTTCTCTTCTCCTTTCCTTTTCTTTC
Found at i:1662408 original size:4 final size:4
Alignment explanation
Indices: 1662391--1662500 Score: 68
Period size: 4 Copynumber: 26.2 Consensus size: 4
1662381 TCTCCTTTCC
*
1662391 CTTT CTTT CCTT CTTT CTTT CTTT -TTT CTTCT CTTCT CCTTT -TCTT
1 CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTT-T CTT-T -CTTT CT-TT
*
1662437 C-TT CTTT CTTT CCTTT -TTT CTCTT C-TC CTTT CCTTTT CTTT CTTT
1 CTTT CTTT CTTT -CTTT CTTT CT-TT CTTT CTTT -C-TTT CTTT CTTT
*
1662482 CCTCTC CTTT CTTT CTTT C
1 -CT-TT CTTT CTTT CTTT C
1662501 CCTCCTTCTG
Statistics
Matches: 86, Mismatches: 6, Indels: 28
0.72 0.05 0.23
Matches are distributed among these distances:
3 12 0.14
4 47 0.55
5 20 0.23
6 7 0.08
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (4 bp):
CTTT
Found at i:1662438 original size:34 final size:35
Alignment explanation
Indices: 1662395--1662482 Score: 112
Period size: 34 Copynumber: 2.6 Consensus size: 35
1662385 CTTTCCCTTT
*
1662395 CTTTCCTTCTTTCTTTCTTT-TTTCTTCTCTTCTC
1 CTTTTCTTCTTTCTTTCTTTCTTTCTTCTCTTCTC
*
1662429 CTTTTCTTC-TTCTTTCTTTCCTTTTTTCTCTTCTC
1 CTTTTCTTCTTTCTTTCTTT-CTTTCTTCTCTTCTC
*
1662464 C-TTTCCT-TTTCTTTCTTTC
1 CTTTTCTTCTTTCTTTCTTTC
1662483 CTCTCCTTTC
Statistics
Matches: 48, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
33 11 0.23
34 23 0.48
35 14 0.29
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (35 bp):
CTTTTCTTCTTTCTTTCTTTCTTTCTTCTCTTCTC
Found at i:1662448 original size:49 final size:45
Alignment explanation
Indices: 1662344--1662499 Score: 140
Period size: 44 Copynumber: 3.7 Consensus size: 45
1662334 ATTACCTTTT
*
1662344 TTTCCCTTTC-TTCCCTC-TTCTTCTT-TTTTTT-TTCTCTTCTCC
1 TTTCCCTTTCTTTCCTTCTTTC-TCTTCTTTTTTCTTCTCTTCTCC
1662386 TTTCCCTTTCTTTCCTTCTTTCT-TTCTTTTTTCTTCTCTTCTCC
1 TTTCCCTTTCTTTCCTTCTTTCTCTTCTTTTTTCTTCTCTTCTCC
* * *
1662430 TTT-TC-TTC-TTCTTTCTTTC-CTT-TTTTCTCTTCTCCTT-TCC
1 TTTCCCTTTCTTTCCTTCTTTCTCTTCTTTTTTCTTCT-CTTCTCC
*
1662470 TTT-TCTTTCTTTCCTCTCCTTTCT-TTCTTT
1 TTTCCCTTTCTTTCCT-T-CTTTCTCTTCTTT
1662500 CCCTCCTTCT
Statistics
Matches: 97, Mismatches: 5, Indels: 21
0.79 0.04 0.17
Matches are distributed among these distances:
40 18 0.19
41 18 0.19
42 19 0.20
43 15 0.15
44 24 0.25
45 3 0.03
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (45 bp):
TTTCCCTTTCTTTCCTTCTTTCTCTTCTTTTTTCTTCTCTTCTCC
Found at i:1662458 original size:30 final size:32
Alignment explanation
Indices: 1662394--1662484 Score: 87
Period size: 35 Copynumber: 2.7 Consensus size: 32
1662384 CCTTTCCCTT
*
1662394 TCTTTCCTTCTTTCTTTCTTT--TTTCTTCTCTTC
1 TCTTTCC-T-TTTCTTTCTTTCCTTTTTTCTC-TC
*
1662427 TCCTTTTCTTCTTCTTTCTTTCCTTTTTTCTCTTC
1 T-CTTTCCTT-TTCTTTCTTTCCTTTTTTCTC-TC
1662462 TCCTTTCCTTTTCTTTCTTTCCT
1 T-CTTTCCTTTTCTTTCTTTCCT
1662485 CTCCTTTCTT
Statistics
Matches: 51, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
32 1 0.02
33 12 0.24
34 18 0.35
35 20 0.39
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (32 bp):
TCTTTCCTTTTCTTTCTTTCCTTTTTTCTCTC
Found at i:1662473 original size:19 final size:19
Alignment explanation
Indices: 1662358--1662491 Score: 82
Period size: 19 Copynumber: 6.9 Consensus size: 19
1662348 CCTTTCTTCC
* **
1662358 CTCTTCTTCTTTTTTTTTT
1 CTCTTCTCCTTTCCTTTTT
1662377 CTCTTCTCCTTTCCCTTTCTT
1 CTCTTCTCCTTT-CCTTT-TT
*
1662398 -TCCTTCTTTCTTT-CTTTTT
1 CT-CTTC-TCCTTTCCTTTTT
1662417 -TCTTCT-CTTCTCC-TTTT
1 CTCTTCTCCTT-TCCTTTTT
*
1662434 CTTCTTCTTTCTTTCCTTTTTT
1 C-TCTTC-TCCTTTCC-TTTTT
1662456 CTCTTCTCCTTTCCTTTTCT
1 CTCTTCTCCTTTCCTTTT-T
* *
1662476 TTCTT-TCCTCTCCTTT
1 CTCTTCTCCTTTCCTTT
1662492 CTTTCTTTCC
Statistics
Matches: 95, Mismatches: 7, Indels: 26
0.74 0.05 0.20
Matches are distributed among these distances:
16 3 0.03
17 6 0.06
18 5 0.05
19 33 0.35
20 24 0.25
21 14 0.15
22 10 0.11
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (19 bp):
CTCTTCTCCTTTCCTTTTT
Found at i:1662483 original size:34 final size:36
Alignment explanation
Indices: 1662360--1662484 Score: 134
Period size: 37 Copynumber: 3.5 Consensus size: 36
1662350 TTTCTTCCCT
*
1662360 CTTCTTCTTT-TTT-TTTTCTCTTCTCCTT-TCCCTTTC
1 CTTCTTCTTTCTTTCCTTT-TCTTCT-CTTCT-CCTTTC
* * *
1662396 TTTCCTTCTTTCTTTCTTTTTTCTTCTCTTCTCCTTTT
1 CTT-CTTCTTTCTTTC-CTTTTCTTCTCTTCTCCTTTC
1662434 CTTCTTCTTTCTTTCCTTTT-TTCTCTTCTCCTTTC
1 CTTCTTCTTTCTTTCCTTTTCTTCTCTTCTCCTTTC
1662469 CTT-TTCTTTCTTTCCT
1 CTTCTTCTTTCTTTCCT
1662485 CTCCTTTCTT
Statistics
Matches: 79, Mismatches: 5, Indels: 12
0.82 0.05 0.12
Matches are distributed among these distances:
34 13 0.16
35 17 0.22
36 6 0.08
37 19 0.24
38 13 0.16
39 7 0.09
40 4 0.05
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (36 bp):
CTTCTTCTTTCTTTCCTTTTCTTCTCTTCTCCTTTC
Found at i:1662616 original size:27 final size:27
Alignment explanation
Indices: 1662542--1662608 Score: 107
Period size: 27 Copynumber: 2.5 Consensus size: 27
1662532 TAACACCAAC
1662542 TGGTGCCGCCAATGGTATTGGCACCAT
1 TGGTGCCGCCAATGGTATTGGCACCAT
* * *
1662569 TGGTGCCGCCAATGGTTTTGGTACCTT
1 TGGTGCCGCCAATGGTATTGGCACCAT
1662596 TGGTGCCGCCAAT
1 TGGTGCCGCCAAT
1662609 ACCATTGGCG
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.15, C:0.25, G:0.30, T:0.30
Consensus pattern (27 bp):
TGGTGCCGCCAATGGTATTGGCACCAT
Found at i:1662709 original size:27 final size:28
Alignment explanation
Indices: 1662671--1662772 Score: 165
Period size: 28 Copynumber: 3.7 Consensus size: 28
1662661 TTTTGGTTTT
1662671 TTTATATATTTTGGTAAAT-AAAAAAAG
1 TTTATATATTTTGGTAAATAAAAAAAAG
1662698 TTTATATATTTTGGTAAATAAAAAAAAG
1 TTTATATATTTTGGTAAATAAAAAAAAG
1662726 -TTATAATATTTTGGTAAATAAAAAAAAG
1 TTTAT-ATATTTTGGTAAATAAAAAAAAG
1662754 TTGTA-ATATTTTGGTAAAT
1 TT-TATATATTTTGGTAAAT
1662773 TTTTATTATT
Statistics
Matches: 71, Mismatches: 0, Indels: 7
0.91 0.00 0.09
Matches are distributed among these distances:
27 23 0.32
28 45 0.63
29 1 0.01
30 2 0.03
ACGTcount: A:0.47, C:0.00, G:0.12, T:0.41
Consensus pattern (28 bp):
TTTATATATTTTGGTAAATAAAAAAAAG
Found at i:1665714 original size:2 final size:2
Alignment explanation
Indices: 1665707--1665734 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
1665697 ATAAATAAAG
1665707 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1665735 GAATTATAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1665776 original size:18 final size:16
Alignment explanation
Indices: 1665755--1665793 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
1665745 AATAATGGAA
1665755 ATATATAAAAACATGT
1 ATATATAAAAACATGT
**
1665771 ATATATAAAAGTATGT
1 ATATATAAAAACATGT
1665787 ATATATA
1 ATATATA
1665794 TAAATTAAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.54, C:0.03, G:0.08, T:0.36
Consensus pattern (16 bp):
ATATATAAAAACATGT
Found at i:1667897 original size:88 final size:88
Alignment explanation
Indices: 1667826--1668678 Score: 1280
Period size: 88 Copynumber: 9.7 Consensus size: 88
1667816 TCTTCGATCT
* * * * *
1667826 GCTCCA-CTACAACCGATGA-AGGTAAGGTTTGTGTCTTCGATCTGCTTTGCTGTCAATGCAGGA
1 GCTCCATC-ACAACCGA-GAGAGGCAAGGTTTGTGTCTTCGACCTGCTTCGCTGTCAATACAGAA
** * ** *
1667889 AGGCAAGATCTGCTATCTTTGACCT
64 AGGCAAGATCTTTTGTCTTCAACCA
* * * * * ** *
1667914 GCTCCA-CTAAAACAGAGAGAGGTAAGGCTTGTGTCTTCGACCTGCTTCGTTGTCAATGTAGGAA
1 GCTCCATC-ACAACCGAGAGAGGCAAGGTTTGTGTCTTCGACCTGCTTCGCTGTCAATACAGAAA
*
1667978 GACAAGATCTTTTGTCTTCAACCA
65 GGCAAGATCTTTTGTCTTCAACCA
* * * *
1668002 GCTCCATCACAACCGAGAGAGGCAAGGTTTGTGTCTTCGACCTGCTTCACTGTCACTGCAGGAAG
1 GCTCCATCACAACCGAGAGAGGCAAGGTTTGTGTCTTCGACCTGCTTCGCTGTCAATACAGAAAG
1668067 GCAAGATCTTTTGTCTTCAACCA
66 GCAAGATCTTTTGTCTTCAACCA
* *
1668090 GCTCCATCACAATCGAGAGAGGCAAGGTTTGTGTCTTCGACCTACTTCGCTGTCAATACAGAAAG
1 GCTCCATCACAACCGAGAGAGGCAAGGTTTGTGTCTTCGACCTGCTTCGCTGTCAATACAGAAAG
*
1668155 GCAAGATCTTTTGTCTTTAACCA
66 GCAAGATCTTTTGTCTTCAACCA
1668178 GCTCCATCACAACCGAGAGAGGCAAGGTTTGTGTCTTCGACCTGCTTCGCTGTCAATACAGAAAG
1 GCTCCATCACAACCGAGAGAGGCAAGGTTTGTGTCTTCGACCTGCTTCGCTGTCAATACAGAAAG
1668243 GCAAGATCTTTTGTCTTCAACCA
66 GCAAGATCTTTTGTCTTCAACCA
* *
1668266 GCTCCATCACAATCGAGAGAGGCAAGGTTTGTGTCTTCGACCTGCTTCGCTATCAATACAGAAAG
1 GCTCCATCACAACCGAGAGAGGCAAGGTTTGTGTCTTCGACCTGCTTCGCTGTCAATACAGAAAG
1668331 GCAAGATCTTTTGTCTTCAACCA
66 GCAAGATCTTTTGTCTTCAACCA
* * * *
1668354 GCTCCATCACAACTGAAAGAGGCAAGGTTTGTGTCTTTGACCTGCTTCGCTGTCAATACAGGAAG
1 GCTCCATCACAACCGAGAGAGGCAAGGTTTGTGTCTTCGACCTGCTTCGCTGTCAATACAGAAAG
1668419 GCAAGATCTTTTGTCTTCAACCA
66 GCAAGATCTTTTGTCTTCAACCA
* *
1668442 GCTCCATCACAACCGAGAGAGACAAGGTTTGTGTCTTCGACCTGCTTCGCTATCAATACAGAAAG
1 GCTCCATCACAACCGAGAGAGGCAAGGTTTGTGTCTTCGACCTGCTTCGCTGTCAATACAGAAAG
1668507 GCAAGATCTTTTGTCTTCAACCA
66 GCAAGATCTTTTGTCTTCAACCA
* * **
1668530 GCTCTATCACAATCGAGAGAGGCAAGGTTTGTGTCTTCGACCTGCTTCGCTGGAAATACAGAAAG
1 GCTCCATCACAACCGAGAGAGGCAAGGTTTGTGTCTTCGACCTGCTTCGCTGTCAATACAGAAAG
*
1668595 GCAAGATCTTTTATCTTCAACCA
66 GCAAGATCTTTTGTCTTCAACCA
* *
1668618 GCTCTATCACAATCGAGAGAGGCAAGGTTTGTGTCTTCGACCTGCTTCGCTGTCAATACAG
1 GCTCCATCACAACCGAGAGAGGCAAGGTTTGTGTCTTCGACCTGCTTCGCTGTCAATACAG
1668679 GAAGTTAAGA
Statistics
Matches: 707, Mismatches: 56, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
87 2 0.00
88 704 1.00
89 1 0.00
ACGTcount: A:0.26, C:0.24, G:0.22, T:0.28
Consensus pattern (88 bp):
GCTCCATCACAACCGAGAGAGGCAAGGTTTGTGTCTTCGACCTGCTTCGCTGTCAATACAGAAAG
GCAAGATCTTTTGTCTTCAACCA
Found at i:1669813 original size:21 final size:21
Alignment explanation
Indices: 1669787--1669833 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
1669777 GGTATAGCAA
1669787 GATCACCACATGCCCCAATCT
1 GATCACCACATGCCCCAATCT
** *
1669808 GATCACTTCATGCCCCATTCT
1 GATCACCACATGCCCCAATCT
1669829 GATCA
1 GATCA
1669834 ATATTTGAGC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.26, C:0.38, G:0.11, T:0.26
Consensus pattern (21 bp):
GATCACCACATGCCCCAATCT
Found at i:1669942 original size:23 final size:23
Alignment explanation
Indices: 1669916--1669968 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
1669906 TTAGCCTCTC
**
1669916 CATTTTT-ACTTTTTCATTTTTTT
1 CATTTTTCACTTTTTC-TTTCATT
*
1669939 CATTTTTCATTTTTTCTTTCATT
1 CATTTTTCACTTTTTCTTTCATT
1669962 CATTTTT
1 CATTTTT
1669969 TATATATATT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
23 19 0.73
24 7 0.27
ACGTcount: A:0.13, C:0.15, G:0.00, T:0.72
Consensus pattern (23 bp):
CATTTTTCACTTTTTCTTTCATT
Found at i:1669963 original size:16 final size:14
Alignment explanation
Indices: 1669916--1669969 Score: 63
Period size: 16 Copynumber: 3.6 Consensus size: 14
1669906 TTAGCCTCTC
*
1669916 CATTTTTACTTTTT
1 CATTTTTTCTTTTT
1669930 CATTTTTTTCATTTTT
1 CA-TTTTTTC-TTTTT
1669946 CATTTTTTCTTTCATT
1 CATTTTTTCTTT--TT
1669962 CATTTTTT
1 CATTTTTT
1669970 ATATATATTT
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
14 5 0.14
15 13 0.37
16 17 0.49
ACGTcount: A:0.13, C:0.15, G:0.00, T:0.72
Consensus pattern (14 bp):
CATTTTTTCTTTTT
Found at i:1670788 original size:1 final size:1
Alignment explanation
Indices: 1670782--1670843 Score: 52
Period size: 1 Copynumber: 62.0 Consensus size: 1
1670772 ACCTCTCCCC
* * * * * * * *
1670782 TTTTTTTTCTTTCTTTTTTTTGTTTTTTGTTTTTGTTTTTGTTTTTGTTTTTTGTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1670844 AATCTGAACT
Statistics
Matches: 45, Mismatches: 16, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
1 45 1.00
ACGTcount: A:0.00, C:0.03, G:0.10, T:0.87
Consensus pattern (1 bp):
T
Found at i:1670797 original size:13 final size:13
Alignment explanation
Indices: 1670781--1670840 Score: 63
Period size: 13 Copynumber: 4.7 Consensus size: 13
1670771 GACCTCTCCC
*
1670781 CTTTTTTTTCTTT
1 CTTTTTTTTGTTT
1670794 CTTTTTTTTGTTT
1 CTTTTTTTTGTTT
1670807 -TTTGTTTTTGTTT
1 CTTT-TTTTTGTTT
*
1670820 -TTGTTTTTGTTT
1 CTTTTTTTTGTTT
1670832 -TTTGTTTTT
1 CTTT-TTTTT
1670841 TTTAATCTGA
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
12 14 0.33
13 28 0.67
ACGTcount: A:0.00, C:0.05, G:0.10, T:0.85
Consensus pattern (13 bp):
CTTTTTTTTGTTT
Found at i:1670809 original size:7 final size:7
Alignment explanation
Indices: 1670784--1670841 Score: 70
Period size: 7 Copynumber: 8.9 Consensus size: 7
1670774 CTCTCCCCTT
*
1670784 TTTTTTC
1 TTTTTTG
*
1670791 TTTCTT-
1 TTTTTTG
1670797 TTTTTTG
1 TTTTTTG
1670804 TTTTTTG
1 TTTTTTG
1670811 -TTTTTG
1 TTTTTTG
1670817 -TTTTTG
1 TTTTTTG
1670823 -TTTTTG
1 TTTTTTG
1670829 TTTTTTG
1 TTTTTTG
1670836 TTTTTT
1 TTTTTT
1670842 TTAATCTGAA
Statistics
Matches: 47, Mismatches: 2, Indels: 4
0.89 0.04 0.08
Matches are distributed among these distances:
6 23 0.49
7 24 0.51
ACGTcount: A:0.00, C:0.03, G:0.10, T:0.86
Consensus pattern (7 bp):
TTTTTTG
Found at i:1670814 original size:6 final size:6
Alignment explanation
Indices: 1670798--1670840 Score: 68
Period size: 6 Copynumber: 6.8 Consensus size: 6
1670788 TTCTTTCTTT
1670798 TTTTTG TTTTTTG TTTTTG TTTTTG TTTTTG TTTTTTG TTTTT
1 TTTTTG -TTTTTG TTTTTG TTTTTG TTTTTG -TTTTTG TTTTT
1670841 TTTAATCTGA
Statistics
Matches: 35, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
6 23 0.66
7 12 0.34
ACGTcount: A:0.00, C:0.00, G:0.14, T:0.86
Consensus pattern (6 bp):
TTTTTG
Found at i:1673493 original size:19 final size:20
Alignment explanation
Indices: 1673459--1673515 Score: 64
Period size: 19 Copynumber: 2.9 Consensus size: 20
1673449 AGGGCCACTT
* *
1673459 CATGAAAATCTAATGCATATG
1 CATG-AAATGTAATGCAAATG
*
1673480 -ATGCAATGTAATGCAAATG
1 CATGAAATGTAATGCAAATG
1673499 CATGAAATG-AATGCAAA
1 CATGAAATGTAATGCAAA
1673516 AAAGGGACGT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
19 21 0.68
20 10 0.32
ACGTcount: A:0.46, C:0.12, G:0.18, T:0.25
Consensus pattern (20 bp):
CATGAAATGTAATGCAAATG
Found at i:1675649 original size:18 final size:16
Alignment explanation
Indices: 1675628--1675666 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
1675618 AATAATGGAA
1675628 ATATATAAAAACATGT
1 ATATATAAAAACATGT
**
1675644 ATATATAAAAGTATGT
1 ATATATAAAAACATGT
1675660 ATATATA
1 ATATATA
1675667 TAAATTAAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.54, C:0.03, G:0.08, T:0.36
Consensus pattern (16 bp):
ATATATAAAAACATGT
Found at i:1677953 original size:5 final size:5
Alignment explanation
Indices: 1677909--1677976 Score: 61
Period size: 5 Copynumber: 13.4 Consensus size: 5
1677899 TTATGTTATG
* *
1677909 TATAT TAT-T T-TAT TATAT AATATAA TATAA TATAT T-TAT TATAT TATAT
1 TATAT TATAT TATAT TATAT --TATAT TATAT TATAT TATAT TATAT TATAT
1677958 TATAT TATTAT ATATAT TA
1 TATAT TA-TAT -TATAT TA
1677977 AATAAAGTAA
Statistics
Matches: 54, Mismatches: 2, Indels: 14
0.77 0.03 0.20
Matches are distributed among these distances:
3 1 0.02
4 8 0.15
5 33 0.61
6 6 0.11
7 6 0.11
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (5 bp):
TATAT
Found at i:1677954 original size:31 final size:31
Alignment explanation
Indices: 1677904--1677975 Score: 85
Period size: 31 Copynumber: 2.4 Consensus size: 31
1677894 GATTTTTATG
* *
1677904 TTATGTATA-TTATTTTATTATATAATATAA
1 TTATATATATTTATTATATTATATAATATAA
* *
1677934 -TATAATATATTTATTATATTATATTATATTA
1 TTAT-ATATATTTATTATATTATATAATATAA
1677965 TTATATATATT
1 TTATATATATT
1677976 AAATAAAGTA
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
29 3 0.09
30 4 0.11
31 25 0.71
32 3 0.09
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.58
Consensus pattern (31 bp):
TTATATATATTTATTATATTATATAATATAA
Found at i:1678248 original size:17 final size:17
Alignment explanation
Indices: 1678226--1678270 Score: 81
Period size: 17 Copynumber: 2.6 Consensus size: 17
1678216 CAGGGGAAGA
1678226 AAAAGGGGAAAGAAAAG
1 AAAAGGGGAAAGAAAAG
1678243 AAAAGGGGAAAGAAAAG
1 AAAAGGGGAAAGAAAAG
*
1678260 AAAAGCGGAAA
1 AAAAGGGGAAA
1678271 ATTGGATTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.64, C:0.02, G:0.33, T:0.00
Consensus pattern (17 bp):
AAAAGGGGAAAGAAAAG
Found at i:1678936 original size:19 final size:19
Alignment explanation
Indices: 1678908--1678944 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
1678898 GTAATAACAT
*
1678908 TTGAAATTATGTGTGAATA
1 TTGAAATTATATGTGAATA
*
1678927 TTGAATTTATATGTGAAT
1 TTGAAATTATATGTGAAT
1678945 TGATATAATA
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:0.35, C:0.00, G:0.19, T:0.46
Consensus pattern (19 bp):
TTGAAATTATATGTGAATA
Found at i:1681397 original size:130 final size:128
Alignment explanation
Indices: 1681232--1681954 Score: 750
Period size: 130 Copynumber: 5.5 Consensus size: 128
1681222 AAAAATGACA
* * * * * *
1681232 GTTGCGATCGTAAATCAGCGAACCTTAATAATATCAGCTATGATCGTAAATCAATGGGCTGTTTG
1 GTTGTGATCATAAATCA--GAACCTTAATAATATCAGCTGTGATCGTAAATCAACGAGTTGTTTG
* * ** *
1681297 GACTAGCCATAGTAAATCAGGTAACTCAGAGAAGATTGTTCATGATAGTAAATCAATGAACTTAA
64 GAATAGCGATAGTAAATCAACTAACTCAGAGAAGATTGTTCATGATAGTAAATCAATGAACTTAG
** ** * * *
1681362 GTTGTGATTGTAAATCAGCAAGCCTTAATGGTATCAGTTGTGATTGTAAATCGACGAGTTGTTTG
1 GTTGTGATCATAAATCAG-AA-CCTTAATAATATCAGCTGTGATCGTAAATCAACGAGTTGTTTG
*
1681427 GAGTAGCGATAGTAAATCAACTAACTCAGA-AAGTATTGTTCATGATAGTAAATCAATGAACTTA
64 GAATAGCGATAGTAAATCAACTAACTCAGAGAAG-ATTGTTCATGATAGTAAATCAATGAACTTA
1681491 G
128 G
* *
1681492 GTTGTGATCATAAATCAATGAACCTTTGTGATCATAAATCAATGAAAGCTGTAATCGTAAATCAA
1 GTTGTGATCATAAATC-A-GAACC--T-T-A--AT-AAT--AT--CAGCTGTGATCGTAAATCAA
* * *
1681557 CAAGTTTTTTGGAATAGAGATAGTAAATCAACTAACTCAGAGAAGATTGTTCATGATAGTAAATC
53 CGAGTTGTTTGGAATAGCGATAGTAAATCAACTAACTCAGAGAAGATTGTTCATGATAGTAAATC
1681622 AATGAACTTAG
118 AATGAACTTAG
* ** *** * *
1681633 GTTGTGATCATAAATTAGTGAACCTTAATAATATCAATTGTGATCGTAAATCGGTGAGCTATTTG
1 GTTGTGATCATAAATCA--GAACCTTAATAATATCAGCTGTGATCGTAAATCAACGAGTTGTTTG
* * *
1681698 GAATAGAGATAGTAAATCAACTAACTCAGAGCAGATTGTTCATGATAGTAAATCAATTAACTTAG
64 GAATAGCGATAGTAAATCAACTAACTCAGAGAAGATTGTTCATGATAGTAAATCAATGAACTTAG
* * ***
1681763 GTTCTGATCATAAATCAATGAACCTTAATAATATCAGTTGTGATCGTAAATTGGCGAGTTGTTTG
1 GTTGTGATCATAAATC-A-GAACCTTAATAATATCAGCTGTGATCGTAAATCAACGAGTTGTTTG
* * *
1681828 GAGTAGCGATAGTAAATCAGCTAACTC--AGAAGATTGTTCATGATAGTAAATCAATGAAATTAG
64 GAATAGCGATAGTAAATCAACTAACTCAGAGAAGATTGTTCATGATAGTAAATCAATGAACTTAG
* * * * * * * *
1681891 GTTGTGACCGTAAATTAGTAAACCTTAATAATATCAACTCTGATTGTAAATCAGCAAGTTGTTT
1 GTTGTGATCATAAATCAG--AACCTTAATAATATCAGCTGTGATCGTAAATCAACGAGTTGTTT
1681955 CATATATGTT
Statistics
Matches: 506, Mismatches: 66, Indels: 44
0.82 0.11 0.07
Matches are distributed among these distances:
126 1 0.00
127 1 0.00
128 83 0.16
129 5 0.01
130 285 0.56
131 4 0.01
132 4 0.01
133 1 0.00
134 4 0.01
135 2 0.00
136 2 0.00
137 2 0.00
138 1 0.00
139 3 0.01
140 1 0.00
141 104 0.21
142 3 0.01
ACGTcount: A:0.37, C:0.13, G:0.19, T:0.32
Consensus pattern (128 bp):
GTTGTGATCATAAATCAGAACCTTAATAATATCAGCTGTGATCGTAAATCAACGAGTTGTTTGGA
ATAGCGATAGTAAATCAACTAACTCAGAGAAGATTGTTCATGATAGTAAATCAATGAACTTAG
Found at i:1681525 original size:24 final size:25
Alignment explanation
Indices: 1681475--1681537 Score: 92
Period size: 24 Copynumber: 2.5 Consensus size: 25
1681465 TTCATGATAG
*
1681475 TAAATCAATGAACTTAGGTTGTGATCA
1 TAAATCAATGAACCT--GTTGTGATCA
1681502 TAAATCAATGAACCT-TTGTGATCA
1 TAAATCAATGAACCTGTTGTGATCA
1681526 TAAATCAATGAA
1 TAAATCAATGAA
1681538 AGCTGTAATC
Statistics
Matches: 35, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
24 21 0.60
27 14 0.40
ACGTcount: A:0.41, C:0.13, G:0.14, T:0.32
Consensus pattern (25 bp):
TAAATCAATGAACCTGTTGTGATCA
Found at i:1681762 original size:271 final size:260
Alignment explanation
Indices: 1681237--1681942 Score: 842
Period size: 271 Copynumber: 2.7 Consensus size: 260
1681227 TGACAGTTGC
* ** * * * *** * *
1681237 GATCGTAAATCAGCGAACCTTAATAATATCAGCTATGATCGTAAATCAATGGGCTGTTTGGACTA
1 GATCATAAATCAATGAACCTTAATAATATAAGCTGTAATCGTAAATCAACAAGTTGTTTGGAATA
** * *
1681302 GCCATAGTAAATCAGGTAACTCAGAGAAGATTGTTCATGATAGTAAATCAATGAACTTAAGTTGT
66 GAGATAGTAAATCAGCTAACTCAGAGAAGATTGTTCATGATAGTAAATCAATGAACTTAGGTTGT
* * * * ** * * * *
1681367 GATTGTAAATCAGCAAGCCTTAATGGTATCAGTTGTGATTGTAAATCGACGAGTTGTTTGGAGTA
131 GATCGTAAATTAGTAAACCTTAATAATATCAATTGTGATTGTAAATCGACGAGCTATTTGGAATA
* *
1681432 GCGATAGTAAATCAACTAACTCAGAAAGTATTGTTCATGATAGTAAATCAATGAACTTAGGTTGT
196 GAGATAGTAAATCAACTAACTCAGAAAGTATTGTTCATGATAGTAAATCAATGAACTTAGGTTCT
1681497 GATCATAAATCAATGAACCTTTGTGATCATAAATCAATGAAAGCTGTAATCGTAAATCAACAAGT
1 GATCATAAATCAATGAACC--T-T-A--AT-AAT--AT--AAGCTGTAATCGTAAATCAACAAGT
* *
1681562 TTTTTGGAATAGAGATAGTAAATCAACTAACTCAGAGAAGATTGTTCATGATAGTAAATCAATGA
55 TGTTTGGAATAGAGATAGTAAATCAGCTAACTCAGAGAAGATTGTTCATGATAGTAAATCAATGA
* * * **
1681627 ACTTAGGTTGTGATCATAAATTAGTGAACCTTAATAATATCAATTGTGATCGTAAATCGGTGAGC
120 ACTTAGGTTGTGATCGTAAATTAGTAAACCTTAATAATATCAATTGTGATTGTAAATCGACGAGC
* *
1681692 TATTTGGAATAGAGATAGTAAATCAACTAACTCAGAGCAG-ATTGTTCATGATAGTAAATCAATT
185 TATTTGGAATAGAGATAGTAAATCAACTAACTCAGA-AAGTATTGTTCATGATAGTAAATCAATG
1681756 AACTTAGGTTCT
249 AACTTAGGTTCT
* * * *** * *
1681768 GATCATAAATCAATGAACCTTAATAATATCAGTTGTGATCGTAAATTGGCGAGTTGTTTGGAGTA
1 GATCATAAATCAATGAACCTTAATAATATAAGCTGTAATCGTAAATCAACAAGTTGTTTGGAATA
* *
1681833 GCGATAGTAAATCAGCTAACTC--AGAAGATTGTTCATGATAGTAAATCAATGAAATTAGGTTGT
66 GAGATAGTAAATCAGCTAACTCAGAGAAGATTGTTCATGATAGTAAATCAATGAACTTAGGTTGT
* * *
1681896 GACCGTAAATTAGTAAACCTTAATAATATCAACTCTGATTGTAAATC
131 GATCGTAAATTAGTAAACCTTAATAATATCAATTGTGATTGTAAATC
1681943 AGCAAGTTGT
Statistics
Matches: 380, Mismatches: 54, Indels: 26
0.83 0.12 0.06
Matches are distributed among these distances:
258 81 0.21
260 63 0.17
262 3 0.01
263 1 0.00
264 4 0.01
265 2 0.01
266 2 0.01
267 4 0.01
268 1 0.00
269 3 0.01
271 214 0.56
272 2 0.01
ACGTcount: A:0.37, C:0.13, G:0.19, T:0.31
Consensus pattern (260 bp):
GATCATAAATCAATGAACCTTAATAATATAAGCTGTAATCGTAAATCAACAAGTTGTTTGGAATA
GAGATAGTAAATCAGCTAACTCAGAGAAGATTGTTCATGATAGTAAATCAATGAACTTAGGTTGT
GATCGTAAATTAGTAAACCTTAATAATATCAATTGTGATTGTAAATCGACGAGCTATTTGGAATA
GAGATAGTAAATCAACTAACTCAGAAAGTATTGTTCATGATAGTAAATCAATGAACTTAGGTTCT
Found at i:1688052 original size:26 final size:27
Alignment explanation
Indices: 1688001--1688052 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 27
1687991 TCTGTTAAGA
*
1688001 ATTTGGGGGCTCAAAACGAAATTTTAT
1 ATTTGGGGGCTCAAAACGAAACTTTAT
*
1688028 ATTTTGGGG-TCAAAA-GATAACTTTA
1 ATTTGGGGGCTCAAAACGA-AACTTTA
1688053 CCGTTATACC
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
25 2 0.09
26 12 0.55
27 8 0.36
ACGTcount: A:0.35, C:0.10, G:0.21, T:0.35
Consensus pattern (27 bp):
ATTTGGGGGCTCAAAACGAAACTTTAT
Found at i:1691494 original size:15 final size:16
Alignment explanation
Indices: 1691474--1691505 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
1691464 CCTCAATCGA
1691474 TAAATTT-AATAATTT
1 TAAATTTAAATAATTT
1691489 TAAATTTAAATAATTT
1 TAAATTTAAATAATTT
1691505 T
1 T
1691506 CCATATTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
TAAATTTAAATAATTT
Found at i:1692508 original size:20 final size:20
Alignment explanation
Indices: 1692483--1692532 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
1692473 TGGCTTAAAA
1692483 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
1692503 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
1692520 GTGGTAGTGGATT
1 TTGGTAGTGGATT
1692533 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:1697147 original size:20 final size:20
Alignment explanation
Indices: 1697122--1697171 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
1697112 TGGCTTAAAA
1697122 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
1697142 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
1697159 GTGGTAGTGGATT
1 TTGGTAGTGGATT
1697172 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:1698206 original size:21 final size:21
Alignment explanation
Indices: 1698172--1698212 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
1698162 CACGTCAACA
*
1698172 AAATATAATAAATTCATTTTTT
1 AAATATAAAAAATT-ATTTTTT
1698194 AAATA-AAAAAATTATTTTT
1 AAATATAAAAAATTATTTTT
1698213 ATTGGAATGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 6 0.33
21 7 0.39
22 5 0.28
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.46
Consensus pattern (21 bp):
AAATATAAAAAATTATTTTTT
Found at i:1698305 original size:14 final size:14
Alignment explanation
Indices: 1698263--1698310 Score: 51
Period size: 14 Copynumber: 3.1 Consensus size: 14
1698253 CTTTCAAAGC
1698263 TTAATTTCTTTTAAAA
1 TTAA-TTCTTTT-AAA
*
1698279 TTTATATTTTTTTAAA
1 -TTA-ATTCTTTTAAA
1698295 TTAATTCTTTTAAA
1 TTAATTCTTTTAAA
1698309 TT
1 TT
1698311 TCATATTTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
14 12 0.43
15 3 0.11
16 3 0.11
17 9 0.32
18 1 0.04
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.62
Consensus pattern (14 bp):
TTAATTCTTTTAAA
Found at i:1700597 original size:142 final size:141
Alignment explanation
Indices: 1700451--1700731 Score: 463
Period size: 142 Copynumber: 2.0 Consensus size: 141
1700441 GGAAGAGAGG
* * *
1700451 TTAAACCAAAATAGAAACTCAGCAGAGAAGAGGGAAGAAATTTTAGTAGCAATTGAATGGAAAAA
1 TTAAACCAAAACAGAAACTCACCACAGAAGAGGGAAGAAATTTTAGTAGCAATTGAATGGAAAAA
* *
1700516 ATGCAAAAAAAAAAAAAGAAGGAAGAATTTTGCAATAACAAAGGAACTAATGTGAAAAGAAAGAT
66 ATGCAAAAAAAAAAAAA-AAGGAAGAATTTTGCAATAACAAAGGAAATAATGTCAAAAGAAAGAT
1700581 AGTGGGATGTGA
130 AGTGGGATGTGA
* * *
1700593 TTAAACCAAAACAGAAACTCACCACAGAAGAGGGAGGAAATTTTAGTAGTAATTGAATGGAAAAT
1 TTAAACCAAAACAGAAACTCACCACAGAAGAGGGAAGAAATTTTAGTAGCAATTGAATGGAAAAA
* *
1700658 TTGCAAAAAAAATAAAAAAGGAAGAATTTTGCAATAACAAAGGAAATAATGTCAAAAGAAAGATA
66 ATGCAAAAAAAAAAAAAAAGGAAGAATTTTGCAATAACAAAGGAAATAATGTCAAAAGAAAGATA
1700723 GTGGGATGT
131 GTGGGATGT
1700732 AGACTGCAGT
Statistics
Matches: 129, Mismatches: 10, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
141 55 0.43
142 74 0.57
ACGTcount: A:0.52, C:0.08, G:0.21, T:0.19
Consensus pattern (141 bp):
TTAAACCAAAACAGAAACTCACCACAGAAGAGGGAAGAAATTTTAGTAGCAATTGAATGGAAAAA
ATGCAAAAAAAAAAAAAAAGGAAGAATTTTGCAATAACAAAGGAAATAATGTCAAAAGAAAGATA
GTGGGATGTGA
Found at i:1702282 original size:14 final size:14
Alignment explanation
Indices: 1702242--1702284 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
1702232 TTTTAATCTT
1702242 ATAAAAAATATTAAA
1 ATAAAAAATATT-AA
* * *
1702257 ATATAAATTATTAG
1 ATAAAAAATATTAA
1702271 ATAAAAAATATTAA
1 ATAAAAAATATTAA
1702285 TTTCAACACT
Statistics
Matches: 22, Mismatches: 6, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
14 12 0.55
15 10 0.45
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (14 bp):
ATAAAAAATATTAA
Found at i:1710310 original size:41 final size:40
Alignment explanation
Indices: 1710247--1710323 Score: 100
Period size: 41 Copynumber: 1.9 Consensus size: 40
1710237 GTTGAATGCA
* * *
1710247 ATAAATCATTCAAAGCACTAAAATGAATAATTAATTCAAT
1 ATAAATCATTAAAAGCACTAAAATAAACAATTAATTCAAT
* *
1710287 ATAATATCATTAAAAGTATTAAAATAAACAATTAATT
1 ATAA-ATCATTAAAAGCACTAAAATAAACAATTAATT
1710324 TAACTTTAAT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
40 4 0.13
41 27 0.87
ACGTcount: A:0.55, C:0.09, G:0.04, T:0.32
Consensus pattern (40 bp):
ATAAATCATTAAAAGCACTAAAATAAACAATTAATTCAAT
Found at i:1715444 original size:45 final size:45
Alignment explanation
Indices: 1715375--1715503 Score: 161
Period size: 45 Copynumber: 2.9 Consensus size: 45
1715365 TACACGGTGG
* * * *
1715375 ATCAGCACACAGC-ACCACCCTTATAGTCATTGATACTCGGTGAA
1 ATCAGCACATAGCAACCACCCTTATAATCAATGATACTCGGCGAA
* * * *
1715419 ATCAGCACATAGCAACCACCTTTATAATCAATGGTACCCGGCGGA
1 ATCAGCACATAGCAACCACCCTTATAATCAATGATACTCGGCGAA
* *
1715464 ATCAGCACATAGCAACCACCGTTACAATCAATGATACTCG
1 ATCAGCACATAGCAACCACCCTTATAATCAATGATACTCG
1715504 ATACACGTAG
Statistics
Matches: 72, Mismatches: 12, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
44 12 0.17
45 60 0.83
ACGTcount: A:0.34, C:0.29, G:0.16, T:0.21
Consensus pattern (45 bp):
ATCAGCACATAGCAACCACCCTTATAATCAATGATACTCGGCGAA
Found at i:1725994 original size:18 final size:19
Alignment explanation
Indices: 1725973--1726019 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
1725963 TAAAAATATC
1725973 AAAATTTATA-TTTTTTAA
1 AAAATTTATATTTTTTTAA
*
1725991 AAAA-TTATAATTTTTTTCA
1 AAAATTTAT-ATTTTTTTAA
1726010 AAAATTTATA
1 AAAATTTATA
1726020 AAGAAATTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
17 4 0.16
18 5 0.20
19 12 0.48
20 4 0.16
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (19 bp):
AAAATTTATATTTTTTTAA
Found at i:1725998 original size:17 final size:18
Alignment explanation
Indices: 1725973--1726020 Score: 53
Period size: 20 Copynumber: 2.6 Consensus size: 18
1725963 TAAAAATATC
1725973 AAAATT-TATATTTTTTAA
1 AAAATTATA-ATTTTTTAA
1725991 AAAATTATAATTTTTTTCAA
1 AAAATTATAA-TTTTTT-AA
*
1726011 AAATTTATAA
1 AAAATTATAA
1726021 AGAAATTTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
18 7 0.27
19 8 0.31
20 11 0.42
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (18 bp):
AAAATTATAATTTTTTAA
Found at i:1726007 original size:19 final size:20
Alignment explanation
Indices: 1725983--1726020 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
1725973 AAAATTTATA
1725983 TTTTTT-AAAAAATTATAAT
1 TTTTTTCAAAAAATTATAAT
*
1726002 TTTTTTCAAAAATTTATAA
1 TTTTTTCAAAAAATTATAA
1726021 AGAAATTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.53
Consensus pattern (20 bp):
TTTTTTCAAAAAATTATAAT
Found at i:1729849 original size:31 final size:28
Alignment explanation
Indices: 1729813--1729892 Score: 72
Period size: 31 Copynumber: 2.7 Consensus size: 28
1729803 GATTAAATCA
1729813 AAATTAAAGTTTCAAGTATATATTTGAACC
1 AAATTAAAGTTTCAAGTATA-A-TTGAACC
* * *
1729843 ACAATTAAAATTTTATATGTATAATTGTACC
1 A-AATTAAAGTTTCA-A-GTATAATTGAACC
*
1729874 AAATTAAAG-TTCATGTATA
1 AAATTAAAGTTTCAAGTATA
1729893 CAATCATATA
Statistics
Matches: 41, Mismatches: 6, Indels: 9
0.73 0.11 0.16
Matches are distributed among these distances:
27 5 0.12
29 3 0.07
30 8 0.20
31 18 0.44
32 2 0.05
33 5 0.12
ACGTcount: A:0.44, C:0.09, G:0.09, T:0.39
Consensus pattern (28 bp):
AAATTAAAGTTTCAAGTATAATTGAACC
Done.