Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D04
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 52479919
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.33
Warning! 336953 characters in sequence are not A, C, G, or T
File 79 of 173
Found at i:24437628 original size:143 final size:147
Alignment explanation
Indices: 24437472--24437742 Score: 478
Period size: 143 Copynumber: 1.9 Consensus size: 147
24437462 ATAAGAATAT
*
24437472 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATT-TATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
24437536 AAATATGATTAAATTATTTATTATTGAT-AT-TAATCTTATTAAAATTTAAATAA-AATAATTTA
66 AAATATGATTAAATTATTTATTATTGATAATATAATCTTATTAAAATTTAAATAACAATAATTTA
24437598 CCAAAACAAATTTCTGC
131 CCAAAACAAATTTCTGC
24437615 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
*
24437680 AAATATGATTAAATTATTTATTTTTGATAATAAATAATCTTATTAAAATTTAAATAACAATAA
66 AAATATGATTAAATTATTTATTATTGATAAT--ATAATCTTATTAAAATTTAAATAACAATAA
24437743 CAATAATCAT
Statistics
Matches: 120, Mismatches: 2, Indels: 6
0.94 0.02 0.05
Matches are distributed among these distances:
143 48 0.40
144 42 0.35
145 2 0.02
148 23 0.19
149 5 0.04
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (147 bp):
TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
AAATATGATTAAATTATTTATTATTGATAATATAATCTTATTAAAATTTAAATAACAATAATTTA
CCAAAACAAATTTCTGC
Found at i:24437655 original size:18 final size:17
Alignment explanation
Indices: 24437627--24437661 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
24437617 ATTATTAAGA
*
24437627 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
24437644 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
24437662 TAAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:24437872 original size:44 final size:45
Alignment explanation
Indices: 24437823--24437917 Score: 138
Period size: 45 Copynumber: 2.1 Consensus size: 45
24437813 TTACACCTCT
* *
24437823 ATTACATTCAACCAAACA-CAGTTTTACTATTACGCCTCTATTCC
1 ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
** *
24437867 ATTACATTCAACCAAACAGTTGATTTGCTATTACACCTCTATTCC
1 ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
24437912 ATTACA
1 ATTACA
24437918 CCTCTAATCC
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 18 0.40
45 27 0.60
ACGTcount: A:0.33, C:0.27, G:0.05, T:0.35
Consensus pattern (45 bp):
ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
Found at i:24437917 original size:16 final size:16
Alignment explanation
Indices: 24437896--24437928 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
24437886 TTGATTTGCT
*
24437896 ATTACACCTCTATTCC
1 ATTACACCTCTAATCC
24437912 ATTACACCTCTAATCC
1 ATTACACCTCTAATCC
24437928 A
1 A
24437929 ATCCAATACA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.30, C:0.36, G:0.00, T:0.33
Consensus pattern (16 bp):
ATTACACCTCTAATCC
Found at i:24437938 original size:21 final size:21
Alignment explanation
Indices: 24437909--24437951 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
24437899 ACACCTCTAT
* *
24437909 TCCATTACACCTCTAATCCAA
1 TCCAATACACCGCTAATCCAA
24437930 TCCAATACACCGCTAATCCAA
1 TCCAATACACCGCTAATCCAA
24437951 T
1 T
24437952 ACAGCGAACC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.35, C:0.37, G:0.02, T:0.26
Consensus pattern (21 bp):
TCCAATACACCGCTAATCCAA
Found at i:24444289 original size:20 final size:21
Alignment explanation
Indices: 24444261--24444309 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 21
24444251 GATAAATTTC
*
24444261 AACAGAAATCGAAAGAAGGA-
1 AACAAAAATCGAAAGAAGGAG
* **
24444281 AACAAAAATTGAAAGTGGGAG
1 AACAAAAATCGAAAGAAGGAG
24444302 AACAAAAA
1 AACAAAAA
24444310 AGGAAAAAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
20 16 0.67
21 8 0.33
ACGTcount: A:0.61, C:0.08, G:0.22, T:0.08
Consensus pattern (21 bp):
AACAAAAATCGAAAGAAGGAG
Found at i:24448188 original size:16 final size:16
Alignment explanation
Indices: 24448149--24448191 Score: 68
Period size: 16 Copynumber: 2.7 Consensus size: 16
24448139 GTATGGGAGC
*
24448149 ATACATGAATGGCTGG
1 ATACATGGATGGCTGG
24448165 ATACATGGATGGCTGG
1 ATACATGGATGGCTGG
*
24448181 ATTCATGGATG
1 ATACATGGATG
24448192 TGGCTTATTC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.28, C:0.12, G:0.33, T:0.28
Consensus pattern (16 bp):
ATACATGGATGGCTGG
Found at i:24456470 original size:30 final size:29
Alignment explanation
Indices: 24456412--24456534 Score: 131
Period size: 30 Copynumber: 4.1 Consensus size: 29
24456402 ATAGAACATG
* * * *
24456412 CAGAGTCTGGGCTTGAGCCCTATACAGTAG
1 CAGAGTGTGGGCCT-AGCCCAATACAGTAA
* *
24456442 CA-ATGTGTCGGCCATAGCCCAATGCAGTAA
1 CAGA-GTGTGGGCC-TAGCCCAATACAGTAA
24456472 CAGAGTGTGGGCCTCAGCCCAATACAGTAA
1 CAGAGTGTGGGCCT-AGCCCAATACAGTAA
*
24456502 CAGAGTGTGGGCCTTAGCCCAATACAATAA
1 CAGAGTGTGGGCC-TAGCCCAATACAGTAA
24456532 CAG
1 CAG
24456535 TGCAAATGCA
Statistics
Matches: 79, Mismatches: 9, Indels: 10
0.81 0.09 0.10
Matches are distributed among these distances:
29 2 0.03
30 74 0.94
31 3 0.04
ACGTcount: A:0.29, C:0.25, G:0.26, T:0.20
Consensus pattern (29 bp):
CAGAGTGTGGGCCTAGCCCAATACAGTAA
Found at i:24456520 original size:60 final size:60
Alignment explanation
Indices: 24456412--24456534 Score: 149
Period size: 60 Copynumber: 2.0 Consensus size: 60
24456402 ATAGAACATG
* * * * * *
24456412 CAGAGTCTGGGCTTGAGCCCTATACAGTAGCAATGTGTCGGCCATAGCCCAATGCAGTAA
1 CAGAGTCTGGGCCTCAGCCCAATACAGTAACAATGTGTCGGCCATAGCCCAATACAATAA
* * *
24456472 CAGAGTGTGGGCCTCAGCCCAATACAGTAACAGA-GTGTGGGCCTTAGCCCAATACAATAA
1 CAGAGTCTGGGCCTCAGCCCAATACAGTAACA-ATGTGTCGGCCATAGCCCAATACAATAA
24456532 CAG
1 CAG
24456535 TGCAAATGCA
Statistics
Matches: 53, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
60 52 0.98
61 1 0.02
ACGTcount: A:0.29, C:0.25, G:0.26, T:0.20
Consensus pattern (60 bp):
CAGAGTCTGGGCCTCAGCCCAATACAGTAACAATGTGTCGGCCATAGCCCAATACAATAA
Found at i:24456931 original size:27 final size:27
Alignment explanation
Indices: 24456901--24457161 Score: 316
Period size: 27 Copynumber: 9.7 Consensus size: 27
24456891 CATCTCCTAG
24456901 GGGTATTTCAGTAATTTTACCCATCGA
1 GGGTATTTCAGTAATTTTACCCATCGA
* *
24456928 GGGTATTTCAGTAATATTACCCATCAA
1 GGGTATTTCAGTAATTTTACCCATCGA
24456955 GGGTATTTC-GATAATTTTACCCATCGA
1 GGGTATTTCAG-TAATTTTACCCATCGA
*
24456982 GGGTATTT-TGATAATTTTACCCATCGA
1 GGGTATTTCAG-TAATTTTACCCATCGA
* *
24457009 GGGTATTTCGGTAATTTTA-CCAT-TA
1 GGGTATTTCAGTAATTTTACCCATCGA
* *
24457034 GGAGTATTT-TGATAATTTTACCCATCAA
1 GG-GTATTTCAG-TAATTTTACCCATCGA
* *
24457062 AGGTATTTCGGTAATTTTACCCATCGA
1 GGGTATTTCAGTAATTTTACCCATCGA
*
24457089 GGGTATTTTAGTAATTTTACCCATCGA
1 GGGTATTTCAGTAATTTTACCCATCGA
** * *
24457116 GATTATTTCGGTCATTTTACCCATCGA
1 GGGTATTTCAGTAATTTTACCCATCGA
*
24457143 GGGTATTTCAGTTATTTTA
1 GGGTATTTCAGTAATTTTA
24457162 GAGGCCTATT
Statistics
Matches: 203, Mismatches: 23, Indels: 16
0.84 0.10 0.07
Matches are distributed among these distances:
25 4 0.02
26 19 0.09
27 176 0.87
28 4 0.02
ACGTcount: A:0.26, C:0.16, G:0.18, T:0.40
Consensus pattern (27 bp):
GGGTATTTCAGTAATTTTACCCATCGA
Found at i:24457088 original size:107 final size:107
Alignment explanation
Indices: 24456901--24457154 Score: 361
Period size: 107 Copynumber: 2.4 Consensus size: 107
24456891 CATCTCCTAG
* *
24456901 GGGTATTTCAGTAATTTTACCCATCGAGGGTATTTCAGTAATATTACCCATCAAGGGTATTTCGA
1 GGGTATTTCGGTAATTTTA-CCATCGAGGGTATTTCAGTAATATTACCCATCAAAGGTATTTCGA
24456966 TAATTTTACCCATCGAGGGTATTTT-GATAATTTTACCCATCGA
65 TAATTTTACCCATCGAGGGTATTTTAG-TAATTTTACCCATCGA
* * *
24457009 GGGTATTTCGGTAATTTTACCAT-TAGGAGTATTT-TGATAATTTTACCCATCAAAGGTATTTCG
1 GGGTATTTCGGTAATTTTACCATCGAGG-GTATTTCAG-TAATATTACCCATCAAAGGTATTTCG
*
24457072 GTAATTTTACCCATCGAGGGTATTTTAGTAATTTTACCCATCGA
64 ATAATTTTACCCATCGAGGGTATTTTAGTAATTTTACCCATCGA
** *
24457116 GATTATTTCGGTCATTTTACCCATCGAGGGTATTTCAGT
1 GGGTATTTCGGTAATTTTA-CCATCGAGGGTATTTCAGT
24457155 TATTTTAGAG
Statistics
Matches: 129, Mismatches: 11, Indels: 12
0.85 0.07 0.08
Matches are distributed among these distances:
106 4 0.03
107 91 0.71
108 30 0.23
109 4 0.03
ACGTcount: A:0.26, C:0.17, G:0.18, T:0.39
Consensus pattern (107 bp):
GGGTATTTCGGTAATTTTACCATCGAGGGTATTTCAGTAATATTACCCATCAAAGGTATTTCGAT
AATTTTACCCATCGAGGGTATTTTAGTAATTTTACCCATCGA
Found at i:24457143 original size:134 final size:134
Alignment explanation
Indices: 24456912--24457161 Score: 367
Period size: 134 Copynumber: 1.9 Consensus size: 134
24456902 GGTATTTCAG
* * *
24456912 TAATTTTACCCATCGAGGGTATTTCAGTAATATTACCCATCAAGGGTATTTCGATAATTTTACCC
1 TAATTTTACCCATCAAAGGTATTTCAGTAATATTACCCATCAAGGGTATTTAGATAATTTTACCC
* * *
24456977 ATCGAGGGTATTTTGATAATTTTACCCATCGAGGGTATTTCGGTAATTTTACCATTAGGAGTATT
66 ATCGAGAGTATTTCGATAATTTTACCCATCGAGGGTATTTCAGTAATTTTACCATTAGGAGTATT
24457042 TTGA
131 TTGA
* * *
24457046 TAATTTTACCCATCAAAGGTATTTCGGTAATTTTACCCATCGAGGGTATTTTAG-TAATTTTACC
1 TAATTTTACCCATCAAAGGTATTTCAGTAATATTACCCATCAAGGGTA-TTTAGATAATTTTACC
* * * *
24457110 CATCGAGATTATTTCGGTCATTTTACCCATCGAGGGTATTTCAGTTATTTTA
65 CATCGAGAGTATTTCGATAATTTTACCCATCGAGGGTATTTCAGTAATTTTA
24457162 GAGGCCTATT
Statistics
Matches: 102, Mismatches: 13, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
134 98 0.96
135 4 0.04
ACGTcount: A:0.27, C:0.16, G:0.17, T:0.40
Consensus pattern (134 bp):
TAATTTTACCCATCAAAGGTATTTCAGTAATATTACCCATCAAGGGTATTTAGATAATTTTACCC
ATCGAGAGTATTTCGATAATTTTACCCATCGAGGGTATTTCAGTAATTTTACCATTAGGAGTATT
TTGA
Found at i:24462819 original size:43 final size:43
Alignment explanation
Indices: 24462754--24462861 Score: 112
Period size: 42 Copynumber: 2.5 Consensus size: 43
24462744 CCAACATCCT
* * * * *
24462754 AGACGAGGTCTTTCATGT-AATCAAATACCGATGCCACTGTCCT
1 AGACAAGGTCTTACACGTAAATCAAATA-CGATGCCAATGTCCC
* * *
24462797 AGATAAGGTCTTACACG-AAATCATATATGATGCCAATGTCCC
1 AGACAAGGTCTTACACGTAAATCAAATACGATGCCAATGTCCC
*
24462839 AGACATGGTCTTACACGTAAATC
1 AGACAAGGTCTTACACGTAAATC
24462862 TCAAATCAAT
Statistics
Matches: 53, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
42 27 0.51
43 26 0.49
ACGTcount: A:0.32, C:0.23, G:0.18, T:0.27
Consensus pattern (43 bp):
AGACAAGGTCTTACACGTAAATCAAATACGATGCCAATGTCCC
Found at i:24462849 original size:42 final size:43
Alignment explanation
Indices: 24462741--24462910 Score: 130
Period size: 43 Copynumber: 4.0 Consensus size: 43
24462731 AGCTCGTACA
** * * * * *
24462741 ATGCCAACATCCTAGACGA-GGTCTTTCATGTAATCAAATACCG
1 ATGCCAATGTCCTAGAC-ATGGTCTTACACGAAATCATATATCG
* * *
24462784 ATGCCACTGTCCTAGATAAGGTCTTACACGAAATCATATAT-G
1 ATGCCAATGTCCTAGACATGGTCTTACACGAAATCATATATCG
* * *
24462826 ATGCCAATGTCCCAGACATGGTCTTACACGTAAATC-TCAAATCA
1 ATGCCAATGTCCTAGACATGGTCTTACACG-AAATCAT-ATATCG
* * * * *
24462870 ATGCCAACGTCCTAGACGTGGCCTTACACAAAATCACATAT
1 ATGCCAATGTCCTAGACATGGTCTTACACGAAATCATATAT
24462911 TAGAATCCTA
Statistics
Matches: 100, Mismatches: 22, Indels: 10
0.76 0.17 0.08
Matches are distributed among these distances:
42 29 0.29
43 46 0.46
44 25 0.25
ACGTcount: A:0.34, C:0.26, G:0.15, T:0.25
Consensus pattern (43 bp):
ATGCCAATGTCCTAGACATGGTCTTACACGAAATCATATATCG
Found at i:24464241 original size:46 final size:46
Alignment explanation
Indices: 24464169--24464259 Score: 173
Period size: 46 Copynumber: 2.0 Consensus size: 46
24464159 TATTGCAAGC
*
24464169 TGAACTTTAATTTAATTAAACTCATCTTAGTTAATAATTGAGTTGT
1 TGAAATTTAATTTAATTAAACTCATCTTAGTTAATAATTGAGTTGT
24464215 TGAAATTTAATTTAATTAAACTCATCTTAGTTAATAATTGAGTTG
1 TGAAATTTAATTTAATTAAACTCATCTTAGTTAATAATTGAGTTG
24464260 CTGGACTTTA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 44 1.00
ACGTcount: A:0.36, C:0.08, G:0.11, T:0.45
Consensus pattern (46 bp):
TGAAATTTAATTTAATTAAACTCATCTTAGTTAATAATTGAGTTGT
Found at i:24470086 original size:12 final size:12
Alignment explanation
Indices: 24470071--24470096 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
24470061 ACCACCATTA
24470071 CATCGACCACTG
1 CATCGACCACTG
24470083 CATCGACCACTG
1 CATCGACCACTG
24470095 CA
1 CA
24470097 CCTATGACAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.27, C:0.42, G:0.15, T:0.15
Consensus pattern (12 bp):
CATCGACCACTG
Found at i:24472989 original size:19 final size:19
Alignment explanation
Indices: 24472961--24472999 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
24472951 TAATATTTAG
*
24472961 TTTAAGTATTAAATGTGTC
1 TTTAAGTATTAAATATGTC
* *
24472980 TTTAATTATTTAATATGTC
1 TTTAAGTATTAAATATGTC
24472999 T
1 T
24473000 AAGTTTTTTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.31, C:0.05, G:0.10, T:0.54
Consensus pattern (19 bp):
TTTAAGTATTAAATATGTC
Found at i:24477656 original size:30 final size:30
Alignment explanation
Indices: 24477579--24477657 Score: 104
Period size: 30 Copynumber: 2.6 Consensus size: 30
24477569 TGGTTAACTC
* * * *
24477579 ATCCCTTTTCATAATTCGATAATCGAAGTT
1 ATCCCTTTTCATAGTTCGACAACCGAAGCT
*
24477609 ATCCCTTTTCATAGTTCGACAGCCGAAGCT
1 ATCCCTTTTCATAGTTCGACAACCGAAGCT
*
24477639 ATCCCTTTTCATTGTTCGA
1 ATCCCTTTTCATAGTTCGA
24477658 TGGTCGTAAC
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 43 1.00
ACGTcount: A:0.24, C:0.25, G:0.13, T:0.38
Consensus pattern (30 bp):
ATCCCTTTTCATAGTTCGACAACCGAAGCT
Found at i:24477738 original size:89 final size:90
Alignment explanation
Indices: 24477573--24477777 Score: 241
Period size: 89 Copynumber: 2.3 Consensus size: 90
24477563 ACACACTGGT
* * * * *
24477573 TAACTCATCCCTTTTCATAATTCGATAATCGAAGTTATCCCTTTTCATAGTTCGACAGCCGAAGC
1 TAAC-CATCCCTTTTCATAATTCGATAACCAAAGCTATCCCCTTTCATAGATCGACAGCCGAAGC
* * **
24477638 TATCCCTTTTCATTGTTCGATGGTCG
65 CATCCCGTTTCATAATTCGATGGTCG
* * * * *
24477664 TAACCATTCCTTTTCATAATT-GATAGCCAAAGCTATCCCCTTTCGTAGATCGATAGCCGAATCC
1 TAACCATCCCTTTTCATAATTCGATAACCAAAGCTATCCCCTTTCATAGATCGACAGCCGAAGCC
*
24477728 ATCCCGTTTCATAATTTGATGGTCG
66 ATCCCGTTTCATAATTCGATGGTCG
* *
24477753 TTACCATCCCTTTTCATTATTCGAT
1 TAACCATCCCTTTTCATAATTCGAT
24477778 GGTCGTCACC
Statistics
Matches: 95, Mismatches: 18, Indels: 3
0.82 0.16 0.03
Matches are distributed among these distances:
89 72 0.76
90 19 0.20
91 4 0.04
ACGTcount: A:0.24, C:0.26, G:0.13, T:0.37
Consensus pattern (90 bp):
TAACCATCCCTTTTCATAATTCGATAACCAAAGCTATCCCCTTTCATAGATCGACAGCCGAAGCC
ATCCCGTTTCATAATTCGATGGTCG
Found at i:24477760 original size:30 final size:30
Alignment explanation
Indices: 24477726--24477803 Score: 111
Period size: 30 Copynumber: 2.6 Consensus size: 30
24477716 ATAGCCGAAT
* * *
24477726 CCATCCCGTTTCATAATTTGATGGTCGTTA
1 CCATCCCTTTTCATAATTCGATGGTCGTCA
*
24477756 CCATCCCTTTTCATTATTCGATGGTCGTCA
1 CCATCCCTTTTCATAATTCGATGGTCGTCA
*
24477786 CCATCCCTTTTCACAATT
1 CCATCCCTTTTCATAATT
24477804 GATAGCAGAA
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 42 1.00
ACGTcount: A:0.19, C:0.29, G:0.12, T:0.40
Consensus pattern (30 bp):
CCATCCCTTTTCATAATTCGATGGTCGTCA
Found at i:24478625 original size:4 final size:4
Alignment explanation
Indices: 24478616--24478643 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
24478606 TTTGTTTTAC
24478616 TTAA TTAA TTAA TTAA TTAA TTAA TTAA
1 TTAA TTAA TTAA TTAA TTAA TTAA TTAA
24478644 CTTATTTAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (4 bp):
TTAA
Found at i:24479268 original size:21 final size:21
Alignment explanation
Indices: 24479242--24479295 Score: 81
Period size: 21 Copynumber: 2.5 Consensus size: 21
24479232 TCATCTTCGG
*
24479242 CAACTTCTTCTTCTTTAGCAA
1 CAACTTCTTCTTCTGTAGCAA
*
24479263 CAACTTCCTCTTCTGTAGCAA
1 CAACTTCTTCTTCTGTAGCAA
24479284 CAACTTCCTTCT
1 CAACTT-CTTCT
24479296 CAATAATAGT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
21 25 0.86
22 4 0.14
ACGTcount: A:0.22, C:0.33, G:0.06, T:0.39
Consensus pattern (21 bp):
CAACTTCTTCTTCTGTAGCAA
Found at i:24496211 original size:40 final size:39
Alignment explanation
Indices: 24496167--24496271 Score: 122
Period size: 39 Copynumber: 2.6 Consensus size: 39
24496157 AGTGACCATA
*
24496167 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGACTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
* *
24496207 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGACTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
* * *
24496245 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGACTAAG-CCCGAAGGCATTTG
24496272 AACGAGTAGC
Statistics
Matches: 58, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
38 2 0.03
39 32 0.55
40 24 0.41
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (39 bp):
TCCGGACTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:24496228 original size:39 final size:40
Alignment explanation
Indices: 24496127--24496290 Score: 169
Period size: 40 Copynumber: 4.1 Consensus size: 40
24496117 TTGAATGATG
* *
24496127 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTATA
*
24496167 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-A
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTATA
*
24496206 TTCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTATA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTATA
* * **
24496246 ACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATA-CTATA
24496286 TCCGG
1 TCCGG
24496291 TTAAATTCCG
Statistics
Matches: 106, Mismatches: 10, Indels: 16
0.80 0.08 0.12
Matches are distributed among these distances:
39 36 0.34
40 59 0.56
41 10 0.09
42 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTATA
Found at i:24496290 original size:79 final size:80
Alignment explanation
Indices: 24496127--24496277 Score: 191
Period size: 79 Copynumber: 1.9 Consensus size: 80
24496117 TTGAATGATG
*
24496127 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTT
**
24496192 GTGCGAGATACTAAT
66 GAACGAGATACTAAT
* * * * *
24496207 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTATAACCGGGCTATG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAACCGGACTAAGAT-CCGAAGGCAT
24496269 TTGAACGAG
64 TTGAACGAG
24496278 TAGCTATATC
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
78 1 0.02
79 42 0.69
80 18 0.30
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTT
GAACGAGATACTAAT
Found at i:24504222 original size:39 final size:40
Alignment explanation
Indices: 24504127--24504310 Score: 209
Period size: 40 Copynumber: 4.7 Consensus size: 40
24504117 TTGAATGATG
* * *
24504127 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
* *
24504165 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
*
24504206 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
*
24504245 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
24504284 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
24504311 AACGAGTAGC
Statistics
Matches: 125, Mismatches: 13, Indels: 13
0.83 0.09 0.09
Matches are distributed among these distances:
39 54 0.43
40 63 0.50
41 8 0.06
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:24504262 original size:79 final size:81
Alignment explanation
Indices: 24504127--24504310 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
24504117 TTGAATGATG
*
24504127 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
24504190 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
24504205 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
24504267 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
24504285 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
24504311 AACGAGTAGC
Statistics
Matches: 91, Mismatches: 9, Indels: 9
0.83 0.08 0.08
Matches are distributed among these distances:
78 10 0.11
79 60 0.66
80 21 0.23
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:24504332 original size:79 final size:79
Alignment explanation
Indices: 24504179--24504343 Score: 210
Period size: 79 Copynumber: 2.1 Consensus size: 79
24504169 GGACTAAGAT
* **
24504179 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
24504244 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
24504258 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
24504321 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
24504337 CCGAAGG
1 CCGAAGG
24504344 TACGTGATTT
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.64
80 25 0.33
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:24509405 original size:37 final size:37
Alignment explanation
Indices: 24509362--24509535 Score: 153
Period size: 39 Copynumber: 4.6 Consensus size: 37
24509352 AGCTACTCTT
24509362 CAAATGCCTTCGGGACATAGCCCGTATAGTAACTCGCA
1 CAAATGCCTTCGGGAC-TAGCCCGTATAGTAACTCGCA
* *
24509400 C-AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGAC-TAGCCC-G-TATAGTAACTCGCA
*
24509439 CAAATGCCTTCGGG-CTAG-CCGGATTAGT-ACTCGCA
1 CAAATGCCTTCGGGACTAGCCCGTA-TAGTAACTCGCA
* * * * *
24509474 CAAATGCCTTC-GGATCTTGTCCGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTAGCCCG-TATAGTAAC-TCGCA
24509513 CAAA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGAC-TAGCCCG
24509536 GACATCATTC
Statistics
Matches: 112, Mismatches: 12, Indels: 23
0.76 0.08 0.16
Matches are distributed among these distances:
34 2 0.02
35 18 0.16
36 8 0.07
37 27 0.24
38 14 0.12
39 31 0.28
40 12 0.11
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.24
Consensus pattern (37 bp):
CAAATGCCTTCGGGACTAGCCCGTATAGTAACTCGCA
Found at i:24509478 original size:35 final size:38
Alignment explanation
Indices: 24509362--24509486 Score: 161
Period size: 37 Copynumber: 3.3 Consensus size: 38
24509352 AGCTACTCTT
*
24509362 CAAATGCCTTCGGGACATAGCCCG-TATAGTAACTCGCA
1 CAAATGCCTTCGGGACATAGCCGGAT-TAGTAACTCGCA
* *
24509400 C-AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACAT-AGCCGGA-TTAGTAACTCGCA
24509439 CAAATGCCTTCGGG-C-TAGCCGGATTAGT-ACTCGCA
1 CAAATGCCTTCGGGACATAGCCGGATTAGTAACTCGCA
24509474 CAAATGCCTTCGG
1 CAAATGCCTTCGG
24509487 ATCTTGTCCG
Statistics
Matches: 79, Mismatches: 4, Indels: 11
0.84 0.04 0.12
Matches are distributed among these distances:
35 20 0.25
36 5 0.06
37 21 0.27
38 6 0.08
39 14 0.18
40 13 0.16
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.23
Consensus pattern (38 bp):
CAAATGCCTTCGGGACATAGCCGGATTAGTAACTCGCA
Found at i:24517378 original size:34 final size:39
Alignment explanation
Indices: 24517266--24517392 Score: 151
Period size: 39 Copynumber: 3.4 Consensus size: 39
24517256 GCTACTCGTT
* * *
24517266 CAAATGCCTTCGGGACATAGCCC-GTTTATAGTAACTCGCA
1 CAAATGCCTTC-GGACTTAACCCGGATT-TAGTAACTCGCA
24517306 C-AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTC-GGACTTAACCCGGATTTAGTAACTCGCA
24517345 CAAATGCCTTCGG-CTT-A-CCGGA-TTAGT-ACTCGCA
1 CAAATGCCTTCGGACTTAACCCGGATTTAGTAACTCGCA
24517379 CAAATGCCTTCGGA
1 CAAATGCCTTCGGA
24517393 TCTTGTCCGG
Statistics
Matches: 81, Mismatches: 3, Indels: 11
0.85 0.03 0.12
Matches are distributed among these distances:
34 20 0.25
35 5 0.06
36 5 0.06
37 1 0.01
38 3 0.04
39 34 0.42
40 13 0.16
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.25
Consensus pattern (39 bp):
CAAATGCCTTCGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:24523038 original size:37 final size:39
Alignment explanation
Indices: 24522920--24523103 Score: 196
Period size: 41 Copynumber: 4.7 Consensus size: 39
24522910 GCTACTCGTT
* * *
24522920 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCCA
1 CAAATGCCTTCGGGACTTAACCCGGAT-TAGTAACTCG-CA
24522961 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGA-TTAGTAACTCGCA
24523001 CAAATGCCTTC-GG-CTTAACCCGGATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTAGTAACTCGCA
*** * * *
24523038 CAAATGCCTTC-GGATCTTTGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGAT-TAGTAAC-TCGCA
*
24523079 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
24523104 CATCATTCAA
Statistics
Matches: 126, Mismatches: 11, Indels: 13
0.84 0.07 0.09
Matches are distributed among these distances:
37 26 0.21
38 11 0.09
39 11 0.09
40 33 0.26
41 44 0.35
42 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAACCCGGATTAGTAACTCGCA
Found at i:24523103 original size:40 final size:40
Alignment explanation
Indices: 24522901--24523103 Score: 220
Period size: 40 Copynumber: 5.1 Consensus size: 40
24522891 CGGAATTTAA
** *
24522901 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
24522941 CCGGTTATAGTAACTCGCCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCG-CACAAATGCCTTCGGGACTTAGC
* *
24522982 CCGGATTTAGTAACTCGCACAAATGCCTTC-GG-CTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
24523020 CCGGAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTTGT
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
24523059 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
24523099 CCGGA
1 CCGGA
24523104 CATCATTCAA
Statistics
Matches: 141, Mismatches: 15, Indels: 14
0.83 0.09 0.08
Matches are distributed among these distances:
37 25 0.18
38 12 0.09
39 12 0.09
40 47 0.33
41 45 0.32
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:24528691 original size:79 final size:82
Alignment explanation
Indices: 24528580--24528764 Score: 238
Period size: 79 Copynumber: 2.3 Consensus size: 82
24528570 GCTACTCGTT
* *
24528580 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
24528643 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
24528660 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
24528723 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
24528740 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
24528765 CATCATTCAA
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 55 0.60
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:24528764 original size:40 final size:40
Alignment explanation
Indices: 24528561--24528764 Score: 238
Period size: 40 Copynumber: 5.1 Consensus size: 40
24528551 CGGAATTTAA
** *
24528561 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
24528601 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
24528641 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
24528680 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
24528720 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
24528760 CCGGA
1 CCGGA
24528765 CATCATTCAA
Statistics
Matches: 141, Mismatches: 16, Indels: 14
0.82 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.23
40 94 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:24536641 original size:39 final size:40
Alignment explanation
Indices: 24536520--24536704 Score: 216
Period size: 40 Copynumber: 4.7 Consensus size: 40
24536510 GCTACTCGTT
*
24536520 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
* *
24536560 CAAATGCCTTTGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
24536600 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCTCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
24536639 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
24536680 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
24536705 CATCATTCAA
Statistics
Matches: 123, Mismatches: 17, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
38 2 0.02
39 32 0.26
40 77 0.63
41 12 0.10
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:24536642 original size:79 final size:82
Alignment explanation
Indices: 24536520--24536704 Score: 220
Period size: 79 Copynumber: 2.3 Consensus size: 82
24536510 GCTACTCGTT
* * *
24536520 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTTGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCC-TTCGGATCTTAACCC
* *
24536583 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* * **
24536600 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCTCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
24536663 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
24536680 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
24536705 CATCATTCAA
Statistics
Matches: 90, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
78 5 0.06
79 51 0.57
80 34 0.38
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:24550037 original size:10 final size:10
Alignment explanation
Indices: 24550022--24550055 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
24550012 AAGCATTGAT
24550022 AAAAAAATTC
1 AAAAAAATTC
24550032 AAAAAAATTC
1 AAAAAAATTC
24550042 AAAAATAA-TC
1 AAAAA-AATTC
24550052 AAAA
1 AAAA
24550056 TATATCAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 21 0.91
11 2 0.09
ACGTcount: A:0.74, C:0.09, G:0.00, T:0.18
Consensus pattern (10 bp):
AAAAAAATTC
Found at i:24571434 original size:27 final size:27
Alignment explanation
Indices: 24571404--24571819 Score: 445
Period size: 27 Copynumber: 15.4 Consensus size: 27
24571394 AATGGGCCTC
*
24571404 TAAAATGACTGAAATACCCTTGAAGGG
1 TAAAATGACTGAAATACCCTCGAAGGG
*
24571431 TAAAATGACTGAAATACCCTCGAAAGG
1 TAAAATGACTGAAATACCCTCGAAGGG
* **
24571458 TAAAATTACCAAAATACCCTCGAAGGG
1 TAAAATGACTGAAATACCCTCGAAGGG
24571485 TAAAATGACTGAAATACCCTCGAAGGG
1 TAAAATGACTGAAATACCCTCGAAGGG
24571512 TAAAATGA-TCGAAATACCCTCGAAGGG
1 TAAAATGACT-GAAATACCCTCGAAGGG
*
24571539 TAAAAT-AATCGAAATACCCTCGAAGGG
1 TAAAATGACT-GAAATACCCTCGAAGGG
* *
24571566 TAAAATGA-TCGAAATACCCCCAAAGGG
1 TAAAATGACT-GAAATACCCTCGAAGGG
** * *
24571593 TAAAATGACCAAAATACCCCCGAATGG
1 TAAAATGACTGAAATACCCTCGAAGGG
* *
24571620 TAAAATGA-TCGAAATGCCCTCAAAGGG
1 TAAAATGACT-GAAATACCCTCGAAGGG
** ** *
24571647 TAAAATGACCAAAATACCCTTAAAAGG
1 TAAAATGACTGAAATACCCTCGAAGGG
24571674 TAAAATGACTGAAATACCC-CTGAAGGG
1 TAAAATGACTGAAATACCCTC-GAAGGG
* *
24571701 TAAAATGATTGAAATACCCTCGATGGG
1 TAAAATGACTGAAATACCCTCGAAGGG
* **
24571728 TAAAATTA-TCGAAATAGGCTCGAAGGG
1 TAAAATGACT-GAAATACCCTCGAAGGG
* * *
24571755 TAAAATGACCGAAAAACCC-CTAAAGGG
1 TAAAATGACTGAAATACCCTC-GAAGGG
24571782 TAAAATGA-TCGAAATACCCT-GATAGGG
1 TAAAATGACT-GAAATACCCTCGA-AGGG
24571809 TAAAATGACTG
1 TAAAATGACTG
24571820 TTATAACCCT
Statistics
Matches: 328, Mismatches: 46, Indels: 30
0.81 0.11 0.07
Matches are distributed among these distances:
26 5 0.02
27 320 0.98
28 3 0.01
ACGTcount: A:0.43, C:0.18, G:0.20, T:0.19
Consensus pattern (27 bp):
TAAAATGACTGAAATACCCTCGAAGGG
Found at i:24572022 original size:26 final size:26
Alignment explanation
Indices: 24571993--24572084 Score: 78
Period size: 26 Copynumber: 3.5 Consensus size: 26
24571983 TGCCACAAAC
*
24571993 ACTGTTACTGGCAGATTTGTTGCGTT
1 ACTGTTACTAGCAGATTTGTTGCGTT
* * * * * *
24572019 ACTGATACTGGCAGCTCTGCTGCATT
1 ACTGTTACTAGCAGATTTGTTGCGTT
* *
24572045 ACTTTTATTAGCA-ACTTTGTTGCGTT
1 ACTGTTACTAGCAGA-TTTGTTGCGTT
*
24572071 ACTATTACTAGCAG
1 ACTGTTACTAGCAG
24572085 TTTTTCTACG
Statistics
Matches: 49, Mismatches: 15, Indels: 3
0.73 0.22 0.04
Matches are distributed among these distances:
26 49 1.00
ACGTcount: A:0.21, C:0.20, G:0.21, T:0.39
Consensus pattern (26 bp):
ACTGTTACTAGCAGATTTGTTGCGTT
Found at i:24572242 original size:30 final size:30
Alignment explanation
Indices: 24572206--24572303 Score: 135
Period size: 30 Copynumber: 3.3 Consensus size: 30
24572196 TTTGCATTGT
*
24572206 TACTGTATTAGGCTAAGGCCCACACTCTGA
1 TACTGTATTGGGCTAAGGCCCACACTCTGA
*
24572236 TACTGTATTGGGCTAAGGCCCACACTCTGT
1 TACTGTATTGGGCTAAGGCCCACACTCTGA
* * *
24572266 TACTATATTGGGCTATGGCCCACACACT-A
1 TACTGTATTGGGCTAAGGCCCACACTCTGA
24572295 CTACTGTAT
1 -TACTGTAT
24572304 AGGGATCAGA
Statistics
Matches: 60, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
30 60 1.00
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.30
Consensus pattern (30 bp):
TACTGTATTGGGCTAAGGCCCACACTCTGA
Found at i:24574917 original size:11 final size:11
Alignment explanation
Indices: 24574901--24574935 Score: 61
Period size: 11 Copynumber: 3.2 Consensus size: 11
24574891 AAATATATGG
24574901 AATCACTCCAT
1 AATCACTCCAT
24574912 AATCACTCCAT
1 AATCACTCCAT
*
24574923 AATCGCTCCAT
1 AATCACTCCAT
24574934 AA
1 AA
24574936 GAACAAAACA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.37, C:0.34, G:0.03, T:0.26
Consensus pattern (11 bp):
AATCACTCCAT
Found at i:24576479 original size:29 final size:29
Alignment explanation
Indices: 24576437--24576494 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
24576427 TCGTAGAAGA
* *
24576437 GGTGGAGAACTTATTTATTGAGAGTTCGT
1 GGTGAAGAAATTATTTATTGAGAGTTCGT
*
24576466 GGTGAAGAAATTATTTGTTGAGAGTTCGT
1 GGTGAAGAAATTATTTATTGAGAGTTCGT
24576495 ATCAAGGTGG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.26, C:0.05, G:0.31, T:0.38
Consensus pattern (29 bp):
GGTGAAGAAATTATTTATTGAGAGTTCGT
Found at i:24576642 original size:50 final size:50
Alignment explanation
Indices: 24576557--24576655 Score: 128
Period size: 50 Copynumber: 2.0 Consensus size: 50
24576547 ATAAATAAAA
* * ** *
24576557 TACAAGTAGAATTCGTATATAACTACTCTTTTTCTATTTGATATTGATTG
1 TACAAGTAGAATTCGTATAGAAATACTCTCATTCTATTTGACATTGATTG
*
24576607 TACAAGTAGAA-TCTGTATAGAAATTCTCTCATTCTATTTGACATTGATT
1 TACAAGTAGAATTC-GTATAGAAATACTCTCATTCTATTTGACATTGATT
24576656 AGGATAAGGT
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
49 2 0.05
50 40 0.95
ACGTcount: A:0.31, C:0.13, G:0.12, T:0.43
Consensus pattern (50 bp):
TACAAGTAGAATTCGTATAGAAATACTCTCATTCTATTTGACATTGATTG
Found at i:24577005 original size:20 final size:20
Alignment explanation
Indices: 24576977--24577014 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
24576967 GGGTTTAGGG
*
24576977 TTTATAAATATTGATAAAAC
1 TTTAGAAATATTGATAAAAC
*
24576997 TTTAGAAATATTGTTAAA
1 TTTAGAAATATTGATAAA
24577015 TCCTTAGATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.47, C:0.03, G:0.08, T:0.42
Consensus pattern (20 bp):
TTTAGAAATATTGATAAAAC
Found at i:24577021 original size:20 final size:20
Alignment explanation
Indices: 24576982--24577072 Score: 71
Period size: 20 Copynumber: 4.7 Consensus size: 20
24576972 TAGGGTTTAT
* * *
24576982 AAATATTGATAAAACTTTAG
1 AAATATTGGTAAATCCTTAG
*
24577002 AAATATTGTTAAATCCTTAG
1 AAATATTGGTAAATCCTTAG
* * *
24577022 ATATTTTGGT-AGT-CTTAG
1 AAATATTGGTAAATCCTTAG
*
24577040 AAATATTGGTAAGTCCTTA-
1 AAATATTGGTAAATCCTTAG
*
24577059 AATATTTTGGTAAA
1 AA-ATATTGGTAAA
24577073 ATTTTTTCCT
Statistics
Matches: 57, Mismatches: 11, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
18 13 0.23
19 7 0.12
20 37 0.65
ACGTcount: A:0.38, C:0.07, G:0.14, T:0.41
Consensus pattern (20 bp):
AAATATTGGTAAATCCTTAG
Found at i:24577038 original size:18 final size:19
Alignment explanation
Indices: 24577015--24577070 Score: 69
Period size: 18 Copynumber: 2.9 Consensus size: 19
24577005 TATTGTTAAA
24577015 TCCTTAGATATTTTGGTAG
1 TCCTTAGATATTTTGGTAG
* *
24577034 T-CTTAGAAATATTGGTAAG
1 TCCTTAGATATTTTGGT-AG
*
24577053 TCCTTAAATATTTTGGTA
1 TCCTTAGATATTTTGGTA
24577071 AAATTTTTTC
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
18 13 0.43
19 5 0.17
20 12 0.40
ACGTcount: A:0.29, C:0.09, G:0.18, T:0.45
Consensus pattern (19 bp):
TCCTTAGATATTTTGGTAG
Found at i:24577040 original size:38 final size:38
Alignment explanation
Indices: 24576998--24577070 Score: 119
Period size: 38 Copynumber: 1.9 Consensus size: 38
24576988 TGATAAAACT
* *
24576998 TTAGAAATATTGTTAAATCCTTAGATATTTTGGTAGTC
1 TTAGAAATATTGGTAAATCCTTAAATATTTTGGTAGTC
*
24577036 TTAGAAATATTGGTAAGTCCTTAAATATTTTGGTA
1 TTAGAAATATTGGTAAATCCTTAAATATTTTGGTA
24577071 AAATTTTTTC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
38 32 1.00
ACGTcount: A:0.33, C:0.07, G:0.16, T:0.44
Consensus pattern (38 bp):
TTAGAAATATTGGTAAATCCTTAAATATTTTGGTAGTC
Found at i:24577803 original size:36 final size:36
Alignment explanation
Indices: 24577756--24577825 Score: 113
Period size: 36 Copynumber: 1.9 Consensus size: 36
24577746 CATGGGTCAA
*
24577756 AATATATATATATCACTTGTCAGTCAACCTTGTGTC
1 AATATATATATATCACTTGCCAGTCAACCTTGTGTC
* *
24577792 AATATATATATATCAGTTGCCAGTCAACGTTGTG
1 AATATATATATATCACTTGCCAGTCAACCTTGTG
24577826 CATTTGTTAC
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 31 1.00
ACGTcount: A:0.31, C:0.17, G:0.14, T:0.37
Consensus pattern (36 bp):
AATATATATATATCACTTGCCAGTCAACCTTGTGTC
Found at i:24587646 original size:36 final size:37
Alignment explanation
Indices: 24587601--24587675 Score: 98
Period size: 36 Copynumber: 2.1 Consensus size: 37
24587591 ATATGGATGT
* * *
24587601 TAATTTAAAAATAGTATATAATAA-CAATGAAATTTA
1 TAATTTAAAAATAATAAATAATAACCAATGAAATATA
* *
24587637 TAATTTAAAATTAATAAATAATAACCTATGAAATATA
1 TAATTTAAAAATAATAAATAATAACCAATGAAATATA
24587674 TA
1 TA
24587676 CAATATTAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
36 21 0.64
37 12 0.36
ACGTcount: A:0.56, C:0.04, G:0.04, T:0.36
Consensus pattern (37 bp):
TAATTTAAAAATAATAAATAATAACCAATGAAATATA
Found at i:24596779 original size:47 final size:47
Alignment explanation
Indices: 24596717--24597486 Score: 1265
Period size: 47 Copynumber: 16.4 Consensus size: 47
24596707 AGATTCAGCC
*
24596717 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGA
*
24596764 AAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGA
*
24596811 AAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGA
* *
24596858 AAGTGTATATATGTGATAAGGCGTAATGGCCGATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGA
*
24596905 AAGT-TATATATGTGATAAGG-CTAATGGCCGATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGA
*
24596950 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGA
*
24596997 AAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGA
*
24597044 AAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGA
*
24597091 AAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGA
*
24597138 AAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGA
* *
24597185 AAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGCGA
1 AAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGA
* *
24597232 AAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGCGA
1 AAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGA
*
24597279 AAGTGTATATATGTGATAAGGCCTAATAGCTGATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGA
* *
24597326 AAGTGTATATATGTAATAAGGCCTAATGGCCGATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGA
*
24597373 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGA
* * * * * * * *
24597420 AAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGA
1 AAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGA
* *
24597467 AAGTGCATAAATGTGATAAG
1 AAGTGTATATATGTGATAAG
24597487 TCCCGAAGGG
Statistics
Matches: 694, Mismatches: 27, Indels: 4
0.96 0.04 0.01
Matches are distributed among these distances:
45 28 0.04
46 32 0.05
47 634 0.91
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
AAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGA
Found at i:24597661 original size:37 final size:37
Alignment explanation
Indices: 24597605--24597683 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
24597595 CCGAGCTCTA
* *
24597605 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGGGT
*
24597642 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
24597679 AAGAC
1 AAGAC
24597684 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 37 0.97
38 1 0.03
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:24602679 original size:16 final size:17
Alignment explanation
Indices: 24602647--24602686 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
24602637 TAAATTGAGA
*
24602647 AATTAATTTAGTTAAAT
1 AATTAATTGAGTTAAAT
24602664 AATTAATTGA-TTAAAT
1 AATTAATTGAGTTAAAT
*
24602680 AAATAAT
1 AATTAAT
24602687 ATTTTGGGCA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 12 0.57
17 9 0.43
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (17 bp):
AATTAATTGAGTTAAAT
Found at i:24607775 original size:23 final size:23
Alignment explanation
Indices: 24607749--24607796 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
24607739 AATCAGCTTC
24607749 TTTAATAC-ACCTATTAGGACACA
1 TTTAA-ACGACCTATTAGGACACA
*
24607772 TTTAAACGACTTATTAGGACACA
1 TTTAAACGACCTATTAGGACACA
24607795 TT
1 TT
24607797 AATCATACCA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 2 0.09
23 21 0.91
ACGTcount: A:0.38, C:0.19, G:0.10, T:0.33
Consensus pattern (23 bp):
TTTAAACGACCTATTAGGACACA
Found at i:24612401 original size:16 final size:16
Alignment explanation
Indices: 24612380--24612410 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
24612370 ATTTTGTTGC
*
24612380 TAATTTTACTTTTTCA
1 TAATTTCACTTTTTCA
24612396 TAATTTCACTTTTTC
1 TAATTTCACTTTTTC
24612411 CCTTTCAATC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.23, C:0.16, G:0.00, T:0.61
Consensus pattern (16 bp):
TAATTTCACTTTTTCA
Found at i:24612693 original size:51 final size:51
Alignment explanation
Indices: 24612638--24612829 Score: 203
Period size: 51 Copynumber: 3.8 Consensus size: 51
24612628 ACCGATTCAT
* * *
24612638 ATAGTAGCCTGCACATAGTACTACACATGTGACCATCACTATCCGATAAAC
1 ATAGTAGCCTGCACATAGTACTACACACGTGACCATCACTATCCGGTACAC
* ** * * *
24612689 ATAGTAGCCTACATGTAGTACTATACACGTGATCGA--AGCTATCCGGTACGC
1 ATAGTAGCCTGCACATAGTACTACACACGTGA-CCATCA-CTATCCGGTACAC
* * *
24612740 ATAGTAGCCTGCACATAGTACTACACATGCGACCTATCA-T-TCTGGTACAC
1 ATAGTAGCCTGCACATAGTACTACACACGTGACC-ATCACTATCCGGTACAC
* *
24612790 GTAGTAGCCTGCACATATTACTACACACGTGACCATCACT
1 ATAGTAGCCTGCACATAGTACTACACACGTGACCATCACT
24612830 TTCACTTTCA
Statistics
Matches: 113, Mismatches: 22, Indels: 13
0.76 0.15 0.09
Matches are distributed among these distances:
49 4 0.04
50 41 0.36
51 65 0.58
52 2 0.02
53 1 0.01
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.25
Consensus pattern (51 bp):
ATAGTAGCCTGCACATAGTACTACACACGTGACCATCACTATCCGGTACAC
Found at i:24614960 original size:48 final size:49
Alignment explanation
Indices: 24614884--24614984 Score: 159
Period size: 48 Copynumber: 2.1 Consensus size: 49
24614874 ATTAAGTATT
* * * *
24614884 TGACAATTCAGTGTATGGTCCATTGTGATTGTCTAGTCAAATAATTGTG
1 TGACAATTCAGTATATGCTCCATTGTGATTGTCGAGTCAAAGAATTGTG
24614933 TGACAATTCAG-ATATGCTCCATTGTGATTGTCGAGTCAAAGAATTGTG
1 TGACAATTCAGTATATGCTCCATTGTGATTGTCGAGTCAAAGAATTGTG
24614981 TGAC
1 TGAC
24614985 GAGTTGAGCC
Statistics
Matches: 48, Mismatches: 4, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
48 37 0.77
49 11 0.23
ACGTcount: A:0.28, C:0.14, G:0.23, T:0.36
Consensus pattern (49 bp):
TGACAATTCAGTATATGCTCCATTGTGATTGTCGAGTCAAAGAATTGTG
Found at i:24616596 original size:25 final size:26
Alignment explanation
Indices: 24616554--24616603 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 26
24616544 TACCCCCCTT
24616554 CACCTATTAATTCAACACACCTCTCA
1 CACCTATTAATTCAACACACCTCTCA
* * *
24616580 CACCT-TTCATTCTACACATCTCTC
1 CACCTATTAATTCAACACACCTCTC
24616604 TCCCTTCCAC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 16 0.76
26 5 0.24
ACGTcount: A:0.28, C:0.40, G:0.00, T:0.32
Consensus pattern (26 bp):
CACCTATTAATTCAACACACCTCTCA
Found at i:24618579 original size:26 final size:26
Alignment explanation
Indices: 24618550--24618601 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
24618540 ATATAATTTC
24618550 CAAATCATGTATC-TATATATCATGTA
1 CAAATCAT-TATCATATATATCATGTA
* *
24618576 CAAATCATTTTCATATATCTCATGTA
1 CAAATCATTATCATATATATCATGTA
24618602 AATACCTGTG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 3 0.13
26 20 0.87
ACGTcount: A:0.37, C:0.17, G:0.06, T:0.40
Consensus pattern (26 bp):
CAAATCATTATCATATATATCATGTA
Found at i:24618787 original size:25 final size:25
Alignment explanation
Indices: 24618746--24618831 Score: 86
Period size: 25 Copynumber: 3.5 Consensus size: 25
24618736 CATGTATGCT
*
24618746 ATACAAGCTGTA-AACGGTAAGCTC
1 ATACAAGCTGAATAACGGTAAGCTC
* * *
24618770 CTCCGAGCTGAATAACGGTAAGCTC
1 ATACAAGCTGAATAACGGTAAGCTC
* * *
24618795 ATACAAGCTGAGTATCGGTAAGCTT
1 ATACAAGCTGAATAACGGTAAGCTC
24618820 ATA-AGAGCTGAA
1 ATACA-AGCTGAA
24618832 ATCGATAACC
Statistics
Matches: 49, Mismatches: 11, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
24 9 0.18
25 40 0.82
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (25 bp):
ATACAAGCTGAATAACGGTAAGCTC
Found at i:24619713 original size:17 final size:16
Alignment explanation
Indices: 24619687--24619725 Score: 51
Period size: 17 Copynumber: 2.4 Consensus size: 16
24619677 AATATATCAT
*
24619687 TTAATTACCTATATAC
1 TTAATTACCTATATAA
*
24619703 TTAATTAACCTTTATAA
1 TTAATT-ACCTATATAA
24619720 TTAATT
1 TTAATT
24619726 CAAATTACTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 6 0.30
17 14 0.70
ACGTcount: A:0.38, C:0.13, G:0.00, T:0.49
Consensus pattern (16 bp):
TTAATTACCTATATAA
Found at i:24623653 original size:40 final size:40
Alignment explanation
Indices: 24623609--24623832 Score: 260
Period size: 40 Copynumber: 5.7 Consensus size: 40
24623599 GCTCCTCGTT
* *
24623609 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
24623649 CAAATGCCTTCGGGACTTAACCCGGATTT-GTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
24623688 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * * * *
24623728 CCAATGCCTTCAGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * * * * *
24623767 CAAATGCCTTC-GGATCTTAATCTGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
24623808 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
24623833 CATCATTCAA
Statistics
Matches: 158, Mismatches: 20, Indels: 12
0.83 0.11 0.06
Matches are distributed among these distances:
38 2 0.01
39 71 0.45
40 72 0.46
41 13 0.08
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:24623712 original size:79 final size:79
Alignment explanation
Indices: 24623609--24623832 Score: 267
Period size: 79 Copynumber: 2.8 Consensus size: 79
24623599 GCTCCTCGTT
* * *
24623609 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACTTAACCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
*
24623674 ATTTGTAACTCGCA
66 ATTAGTAACTCGCA
* *
24623688 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCACCAATGCCTTCAGG-CTTAGCCCG
1 CAAATGCCTTCGGGACTTAACCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCG
*
24623751 GAATTAGTATCTCGCA
65 G-ATTAGTAACTCGCA
* * * * * *
24623767 CAAATGCCTTC-GGATCTTAATCTGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGA-CTTAACCCGGTTATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGCCC
24623830 GGA
64 GGA
24623833 CATCATTCAA
Statistics
Matches: 124, Mismatches: 15, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
78 13 0.10
79 92 0.74
80 19 0.15
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (79 bp):
CAAATGCCTTCGGGACTTAACCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
ATTAGTAACTCGCA
Found at i:24632065 original size:36 final size:36
Alignment explanation
Indices: 24632021--24632108 Score: 142
Period size: 36 Copynumber: 2.5 Consensus size: 36
24632011 ATGTACAAAT
*
24632021 AGAA-AAGAATGAAAAAGAGAGTGAAAAGAAAATCG
1 AGAAGAAGAATGAAAAAGAGAGTAAAAAGAAAATCG
24632056 AGAAGAAGAATGAAAAAGAGAGTAAAAAGAAAATCG
1 AGAAGAAGAATGAAAAAGAGAGTAAAAAGAAAATCG
* *
24632092 AGAAGAGGAAAGAAAAA
1 AGAAGAAGAATGAAAAA
24632109 CCATTGAAAA
Statistics
Matches: 49, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
35 4 0.08
36 45 0.92
ACGTcount: A:0.65, C:0.02, G:0.26, T:0.07
Consensus pattern (36 bp):
AGAAGAAGAATGAAAAAGAGAGTAAAAAGAAAATCG
Found at i:24632094 original size:18 final size:18
Alignment explanation
Indices: 24632037--24632094 Score: 57
Period size: 18 Copynumber: 3.2 Consensus size: 18
24632027 GAATGAAAAA
*
24632037 GAGAGTGAAAAGAAAATC
1 GAGAGTAAAAAGAAAATC
* *
24632055 GAGAAG-AAGAATGAAAA-A
1 GAG-AGTAA-AAAGAAAATC
24632073 GAGAGTAAAAAGAAAATC
1 GAGAGTAAAAAGAAAATC
24632091 GAGA
1 GAGA
24632095 AGAGGAAAGA
Statistics
Matches: 31, Mismatches: 5, Indels: 8
0.70 0.11 0.18
Matches are distributed among these distances:
17 9 0.29
18 13 0.42
19 9 0.29
ACGTcount: A:0.60, C:0.03, G:0.28, T:0.09
Consensus pattern (18 bp):
GAGAGTAAAAAGAAAATC
Found at i:24632105 original size:19 final size:18
Alignment explanation
Indices: 24632045--24632107 Score: 58
Period size: 19 Copynumber: 3.4 Consensus size: 18
24632035 AAGAGAGTGA
24632045 AAAGAAAATCGAGAAGAAG
1 AAAGAAAATCGAGAAG-AG
* * *
24632064 AATGAAAA-AGAG-AGTAA
1 AAAGAAAATCGAGAAG-AG
24632081 AAAGAAAATCGAGAAGAGG
1 AAAGAAAATCGAGAAGA-G
24632100 AAAGAAAA
1 AAAGAAAA
24632108 ACCATTGAAA
Statistics
Matches: 34, Mismatches: 7, Indels: 6
0.72 0.15 0.13
Matches are distributed among these distances:
17 10 0.29
18 7 0.21
19 17 0.50
ACGTcount: A:0.65, C:0.03, G:0.25, T:0.06
Consensus pattern (18 bp):
AAAGAAAATCGAGAAGAG
Found at i:24637459 original size:48 final size:48
Alignment explanation
Indices: 24637397--24637804 Score: 753
Period size: 48 Copynumber: 8.5 Consensus size: 48
24637387 TATATATGTG
*
24637397 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
24637445 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
24637493 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
24637541 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
* *
24637589 CGTGGTAAAGCCTAATGGCTAGTGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
*
24637637 CGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
*
24637685 CGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
* *
24637733 TGTGGTAAAGCCGAATGGCTAATGCGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
24637781 TGTGGTAAAGCCGAATGGCTAGTG
1 TGTGGTAAAGCCGAATGGCTAGTG
24637805 ATTCGGCTAG
Statistics
Matches: 352, Mismatches: 8, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 352 1.00
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (48 bp):
TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
Found at i:24638027 original size:37 final size:37
Alignment explanation
Indices: 24637974--24638113 Score: 253
Period size: 37 Copynumber: 3.8 Consensus size: 37
24637964 GGAAATATAT
*
24637974 TCCGGGTAAGATCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
24638011 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
24638048 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
24638085 TCCGGGTAAGACCCGATAACTACGTGTGG
1 TCCGGGTAAGACCCGATGACTACGTGTGG
24638114 GGACTATTCG
Statistics
Matches: 100, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 100 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:24640511 original size:26 final size:27
Alignment explanation
Indices: 24640447--24640523 Score: 102
Period size: 26 Copynumber: 2.9 Consensus size: 27
24640437 GGATGTCCCT
* * *
24640447 GTGTTTATTGTCCTGGCGAACTACTTC
1 GTGTTTATTGTCCCGGTGAACTACTCC
* *
24640474 ATGTTTATTGTCCCAGTGAACTAC-CC
1 GTGTTTATTGTCCCGGTGAACTACTCC
24640500 GTGTTTATTGTCCCGGTGAACTAC
1 GTGTTTATTGTCCCGGTGAACTAC
24640524 ACTGATAACC
Statistics
Matches: 43, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
26 23 0.53
27 20 0.47
ACGTcount: A:0.18, C:0.23, G:0.21, T:0.38
Consensus pattern (27 bp):
GTGTTTATTGTCCCGGTGAACTACTCC
Found at i:24641072 original size:14 final size:14
Alignment explanation
Indices: 24641055--24641081 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
24641045 CTTATGCAGT
24641055 CAAGCATTCTCCAG
1 CAAGCATTCTCCAG
24641069 CAAGCATTCTCCA
1 CAAGCATTCTCCA
24641082 ACAACAGATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.37, G:0.11, T:0.22
Consensus pattern (14 bp):
CAAGCATTCTCCAG
Found at i:24642086 original size:15 final size:15
Alignment explanation
Indices: 24642066--24642100 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
24642056 ACTCGAATCT
24642066 ATTTCGCAGG-TAAAA
1 ATTTCG-AGGATAAAA
24642081 ATTTCGAGGATAAAA
1 ATTTCGAGGATAAAA
24642096 ATTTC
1 ATTTC
24642101 TAAGGGGGTG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 3 0.16
15 16 0.84
ACGTcount: A:0.40, C:0.11, G:0.17, T:0.31
Consensus pattern (15 bp):
ATTTCGAGGATAAAA
Found at i:24642471 original size:9 final size:9
Alignment explanation
Indices: 24642454--24642489 Score: 63
Period size: 9 Copynumber: 4.0 Consensus size: 9
24642444 GGACTAAATC
*
24642454 GTAAGAGTT
1 GTAAAAGTT
24642463 GTAAAAGTT
1 GTAAAAGTT
24642472 GTAAAAGTT
1 GTAAAAGTT
24642481 GTAAAAGTT
1 GTAAAAGTT
24642490 AATCGCTATT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.42, C:0.00, G:0.25, T:0.33
Consensus pattern (9 bp):
GTAAAAGTT
Found at i:24644834 original size:19 final size:20
Alignment explanation
Indices: 24644790--24644836 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 20
24644780 AATTTCATGC
*
24644790 ATTTTAGTTGCTGGAATAGA
1 ATTTTAGTTGCTGAAATAGA
* *
24644810 A-CTTAGTTGCTTAAATA-A
1 ATTTTAGTTGCTGAAATAGA
24644828 ATTTTAGTT
1 ATTTTAGTT
24644837 AATTTAGTTT
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
18 2 0.09
19 19 0.86
20 1 0.05
ACGTcount: A:0.32, C:0.06, G:0.17, T:0.45
Consensus pattern (20 bp):
ATTTTAGTTGCTGAAATAGA
Found at i:24644860 original size:22 final size:21
Alignment explanation
Indices: 24644830--24644871 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 21
24644820 TTAAATAAAT
*
24644830 TTTAGTTAATTTAGTTTAAGTA
1 TTTAATTAATTTAG-TTAAGTA
24644852 TTTAATTAATTTAGTTAAGT
1 TTTAATTAATTTAGTTAAGT
24644872 GTTAAATGTG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.33, C:0.00, G:0.12, T:0.55
Consensus pattern (21 bp):
TTTAATTAATTTAGTTAAGTA
Found at i:24654681 original size:23 final size:23
Alignment explanation
Indices: 24654648--24654697 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 23
24654638 TATGCAGAAT
* *
24654648 GGAAAATTCATAGCTACACAAAA
1 GGAAAAGTCATAGATACACAAAA
*
24654671 GGAAAAGTCATAGATACACGAAA
1 GGAAAAGTCATAGATACACAAAA
24654694 GGAA
1 GGAA
24654698 TTACCGGACG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.52, C:0.14, G:0.20, T:0.14
Consensus pattern (23 bp):
GGAAAAGTCATAGATACACAAAA
Found at i:24655192 original size:11 final size:13
Alignment explanation
Indices: 24655176--24655208 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
24655166 ATTTCACGAA
24655176 AAAATTTCG-T-G
1 AAAATTTCGTTCG
24655187 AAAATTTCGTTCG
1 AAAATTTCGTTCG
24655200 AAAATTTCG
1 AAAATTTCG
24655209 ACGTTTGGGC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 9 0.45
12 1 0.05
13 10 0.50
ACGTcount: A:0.36, C:0.12, G:0.15, T:0.36
Consensus pattern (13 bp):
AAAATTTCGTTCG
Found at i:24657523 original size:50 final size:51
Alignment explanation
Indices: 24657436--24657768 Score: 342
Period size: 50 Copynumber: 6.6 Consensus size: 51
24657426 GATGAACACG
* * * *
24657436 TGTGTAGTACTGTGTGAAGGCTACTACGTGGATCGATAAATAATGGTCACA
1 TGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAAATATTGGTCACA
* * * * * *
24657487 TGTGTAG-ACTAAGTGAAGGCTACAATGTGTACCGATAAGCT-TTGGTCACG
1 TGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAA-ATATTGGTCACA
* * *
24657537 TGTGTAGTACTGTGTGAAGGCTACAACGTGAATCGATAAATGA-TGGTCACA
1 TGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAAAT-ATTGGTCACA
* * * *
24657588 TGTGTAGTGCTAAGTGAAGGCTACTATGTGTACCGA-AAAGCT-TTGGTCACA
1 TGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAAA--TATTGGTCACA
* * * *
24657639 TGTGTAGTACTATGTGAAGGCTACGACATGAACCG-TAAA-ACTTGATCACG
1 TGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAAATA-TTGGTCACA
* *
24657689 TGTGTAGTACTATGTGAAGGCCACTACGTGAACCG-TAAA-ACTTGATCACA
1 TGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAAATA-TTGGTCACA
24657739 TGTGTAGTACTATGTGAAGGCTACTACGTG
1 TGTGTAGTACTATGTGAAGGCTACTACGTG
24657769 TATCGAATGA
Statistics
Matches: 236, Mismatches: 36, Indels: 21
0.81 0.12 0.07
Matches are distributed among these distances:
50 125 0.53
51 110 0.47
52 1 0.00
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.28
Consensus pattern (51 bp):
TGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAAATATTGGTCACA
Found at i:24658296 original size:43 final size:43
Alignment explanation
Indices: 24658163--24658323 Score: 187
Period size: 43 Copynumber: 3.7 Consensus size: 43
24658153 GCATCGCTAA
* **
24658163 CTTTAGCGGCGCTTTCCCCACAAACGCCGCTATAGGTCATGGT
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGACCATGGT
* * ** *
24658206 CTATAGCAGCGCTTTTCCCACAAACGTTGCTATAGACCATGGC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGACCATGGT
* *
24658249 CTTTAGCGGCGCTTTTCCCACAAACACCGCTATAGACCATGAT
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGACCATGGT
** * **
24658292 CTTTAGCAACACTTTTATCACAAACGCCGCTA
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTA
24658324 AAGGCAGCTT
Statistics
Matches: 97, Mismatches: 21, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
43 97 1.00
ACGTcount: A:0.25, C:0.32, G:0.17, T:0.26
Consensus pattern (43 bp):
CTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGACCATGGT
Found at i:24662431 original size:18 final size:18
Alignment explanation
Indices: 24662408--24662443 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
24662398 ACCTTCAGCT
24662408 ACCTTAGAAGATTAGACA
1 ACCTTAGAAGATTAGACA
24662426 ACCTTAGAAGATTAGACA
1 ACCTTAGAAGATTAGACA
24662444 TGCACCAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.44, C:0.17, G:0.17, T:0.22
Consensus pattern (18 bp):
ACCTTAGAAGATTAGACA
Found at i:24663943 original size:30 final size:30
Alignment explanation
Indices: 24663907--24663963 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
24663897 CCTAGACCCA
* *
24663907 ACTTGCATTGAACCTTCGGAATAAATGTGT
1 ACTTGCATCGAACCTTCAGAATAAATGTGT
24663937 ACTTGCATCGAACCTTCAGAATAAATG
1 ACTTGCATCGAACCTTCAGAATAAATG
24663964 CGTCCAAACT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.33, C:0.19, G:0.18, T:0.30
Consensus pattern (30 bp):
ACTTGCATCGAACCTTCAGAATAAATGTGT
Found at i:24670689 original size:20 final size:21
Alignment explanation
Indices: 24670666--24670704 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
24670656 TAAATTTCAA
*
24670666 TTTAACCCAAAA-TATTTATT
1 TTTAACCAAAAATTATTTATT
*
24670686 TTTAGCCAAAAATTATTTA
1 TTTAACCAAAAATTATTTA
24670705 AAACCATAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 10 0.62
21 6 0.38
ACGTcount: A:0.41, C:0.13, G:0.03, T:0.44
Consensus pattern (21 bp):
TTTAACCAAAAATTATTTATT
Found at i:24670745 original size:19 final size:19
Alignment explanation
Indices: 24670721--24670760 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
24670711 TAAAATTAAT
24670721 TTTTCTAAAAATATT-TTTA
1 TTTTCT-AAAATATTATTTA
*
24670740 TTTTCTAGAATATTATTTA
1 TTTTCTAAAATATTATTTA
24670759 TT
1 TT
24670761 AATTTTTAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 7 0.37
19 12 0.63
ACGTcount: A:0.33, C:0.05, G:0.03, T:0.60
Consensus pattern (19 bp):
TTTTCTAAAATATTATTTA
Found at i:24672094 original size:27 final size:28
Alignment explanation
Indices: 24672034--24672087 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 28
24672024 AAAAATAATT
*
24672034 AAAATTAAATATTTTAATAATTTAAGTG
1 AAAATTAAATATTTTAATAATTAAAGTG
*
24672062 AAAATTAATTATTTT-ATAATTAAAGT
1 AAAATTAAATATTTTAATAATTAAAGT
24672088 ATGAATTTTG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
27 10 0.42
28 14 0.58
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (28 bp):
AAAATTAAATATTTTAATAATTAAAGTG
Found at i:24684688 original size:23 final size:24
Alignment explanation
Indices: 24684644--24684689 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 24
24684634 TTTCTCACAT
* **
24684644 TTTCAATTCAATCATTTTTCCACC
1 TTTCAATTCAATAATTAATCCACC
24684668 TTTCAA-TCAATAATTAATCCAC
1 TTTCAATTCAATAATTAATCCAC
24684690 AATTTCATAC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 13 0.68
24 6 0.32
ACGTcount: A:0.33, C:0.26, G:0.00, T:0.41
Consensus pattern (24 bp):
TTTCAATTCAATAATTAATCCACC
Found at i:24685961 original size:9 final size:9
Alignment explanation
Indices: 24685917--24685961 Score: 58
Period size: 9 Copynumber: 5.1 Consensus size: 9
24685907 CATTTAAATA
24685917 AATAATTAT
1 AATAATTAT
24685926 AATAATTAT
1 AATAATTAT
24685935 AATAATTAT
1 AATAATTAT
24685944 -ATACA-TAT
1 AATA-ATTAT
*
24685952 AATATTTAT
1 AATAATTAT
24685961 A
1 A
24685962 TATATCTTAA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
8 6 0.19
9 26 0.81
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.44
Consensus pattern (9 bp):
AATAATTAT
Found at i:24692507 original size:12 final size:12
Alignment explanation
Indices: 24692486--24692517 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
24692476 TGCCACACAC
24692486 GGCCGTGTGCTA
1 GGCCGTGTGCTA
*
24692498 GGCTGTGTGCTA
1 GGCCGTGTGCTA
24692510 GGCCGTGT
1 GGCCGTGT
24692518 AACTCACTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.06, C:0.22, G:0.44, T:0.28
Consensus pattern (12 bp):
GGCCGTGTGCTA
Found at i:24698384 original size:21 final size:21
Alignment explanation
Indices: 24698358--24698400 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
24698348 TCGTAGCCAT
24698358 ATTACACAAAAGAGTGTTCTA
1 ATTACACAAAAGAGTGTTCTA
24698379 ATTACACAAAAGAGTGTTCTA
1 ATTACACAAAAGAGTGTTCTA
24698400 A
1 A
24698401 GCTTTCTCCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.44, C:0.14, G:0.14, T:0.28
Consensus pattern (21 bp):
ATTACACAAAAGAGTGTTCTA
Found at i:24703956 original size:9 final size:9
Alignment explanation
Indices: 24703942--24704017 Score: 107
Period size: 9 Copynumber: 8.4 Consensus size: 9
24703932 TTTGGTTAAA
24703942 AATTAACCG
1 AATTAACCG
24703951 AATTAACCG
1 AATTAACCG
* * *
24703960 TATTACCCA
1 AATTAACCG
24703969 AATTAACCG
1 AATTAACCG
24703978 AATTAACCG
1 AATTAACCG
* *
24703987 GATTACCCG
1 AATTAACCG
24703996 AATTAACCG
1 AATTAACCG
24704005 AATTAACCG
1 AATTAACCG
24704014 AATT
1 AATT
24704018 GAATCACTAC
Statistics
Matches: 57, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
9 57 1.00
ACGTcount: A:0.41, C:0.24, G:0.11, T:0.25
Consensus pattern (9 bp):
AATTAACCG
Found at i:24703971 original size:27 final size:27
Alignment explanation
Indices: 24703941--24704013 Score: 128
Period size: 27 Copynumber: 2.7 Consensus size: 27
24703931 TTTTGGTTAA
*
24703941 AAATTAACCGAATTAACCGTATTACCC
1 AAATTAACCGAATTAACCGGATTACCC
24703968 AAATTAACCGAATTAACCGGATTACCC
1 AAATTAACCGAATTAACCGGATTACCC
*
24703995 GAATTAACCGAATTAACCG
1 AAATTAACCGAATTAACCG
24704014 AATTGAATCA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 44 1.00
ACGTcount: A:0.41, C:0.25, G:0.11, T:0.23
Consensus pattern (27 bp):
AAATTAACCGAATTAACCGGATTACCC
Found at i:24704154 original size:18 final size:18
Alignment explanation
Indices: 24704114--24704157 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
24704104 AATTTTTATG
**
24704114 ATTGGGTTGGGTTGGGTA
1 ATTGGGTTGGGTTGAATA
24704132 ATTGGGTTGGGTTGAATA
1 ATTGGGTTGGGTTGAATA
*
24704150 CTTGGGTT
1 ATTGGGTT
24704158 TGGATTGGGT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.14, C:0.02, G:0.43, T:0.41
Consensus pattern (18 bp):
ATTGGGTTGGGTTGAATA
Found at i:24705823 original size:64 final size:64
Alignment explanation
Indices: 24705680--24705824 Score: 188
Period size: 64 Copynumber: 2.2 Consensus size: 64
24705670 AGTTGATGAT
* * *
24705680 GTGGTTTTGCGGAGGTTCGGATGGGCGTTAAGAGGGCTATGCGGGGTATGACTATTATGACTATA
1 GTGG-TTTGCTGAGGTTCGGATGGACGTTAAGAGGGCTATGCGGAGTATGACTATTATGACTATA
* *
24705745 -CGGTTT-CGTGGAGGTTCGGATGGACTTTAAGAGGGCTATGCGGAGTATGACTATTATGACTA-
1 GTGGTTTGC-T-GAGGTTCGGATGGACGTTAAGAGGGCTATGCGGAGTATGACTATTATGACTAT
24705807 A
64 A
24705808 GTGGCTTTGCTGAGGTT
1 GTGG-TTTGCTGAGGTT
24705825 TGGGTTGGTT
Statistics
Matches: 69, Mismatches: 6, Indels: 11
0.80 0.07 0.13
Matches are distributed among these distances:
62 1 0.01
63 4 0.06
64 59 0.86
65 4 0.06
66 1 0.01
ACGTcount: A:0.20, C:0.12, G:0.37, T:0.32
Consensus pattern (64 bp):
GTGGTTTGCTGAGGTTCGGATGGACGTTAAGAGGGCTATGCGGAGTATGACTATTATGACTATA
Found at i:24709943 original size:27 final size:27
Alignment explanation
Indices: 24709905--24709956 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
24709895 CTAAGATTAC
24709905 AAAAATGAGCTAGTTAGAACTTAGACA
1 AAAAATGAGCTAGTTAGAACTTAGACA
*
24709932 AAAAATGGGCTAGTTAGAACTTAGA
1 AAAAATGAGCTAGTTAGAACTTAGA
24709957 AATCAATTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.46, C:0.10, G:0.21, T:0.23
Consensus pattern (27 bp):
AAAAATGAGCTAGTTAGAACTTAGACA
Found at i:24710776 original size:27 final size:27
Alignment explanation
Indices: 24710728--24710791 Score: 74
Period size: 27 Copynumber: 2.4 Consensus size: 27
24710718 TAATACAAAG
* * *
24710728 TAGTGGCGCCTATCTCAGAGGCGCCAA
1 TAGTGGTGCCTATCTCACAGGCACCAA
* * *
24710755 TGGTGGTGCCTATCTGACAGGCACCAT
1 TAGTGGTGCCTATCTCACAGGCACCAA
24710782 TAGTGGTGCC
1 TAGTGGTGCC
24710792 ATGTTGAGAG
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.19, C:0.27, G:0.31, T:0.23
Consensus pattern (27 bp):
TAGTGGTGCCTATCTCACAGGCACCAA
Found at i:24712475 original size:3 final size:3
Alignment explanation
Indices: 24712467--24712533 Score: 134
Period size: 3 Copynumber: 22.3 Consensus size: 3
24712457 GCAAAAAATA
24712467 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
24712515 AAG AAG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG A
24712534 TTCCATAACC
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 64 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:24719578 original size:17 final size:17
Alignment explanation
Indices: 24719552--24719585 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
24719542 ATACTTTATA
*
24719552 TTTCAAGTTTTCCATAT
1 TTTCAAGTTTTACATAT
*
24719569 TTTCATGTTTTACATAT
1 TTTCAAGTTTTACATAT
24719586 ACGTGCAGAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.24, C:0.15, G:0.06, T:0.56
Consensus pattern (17 bp):
TTTCAAGTTTTACATAT
Found at i:24722389 original size:276 final size:277
Alignment explanation
Indices: 24721639--24722411 Score: 1176
Period size: 275 Copynumber: 2.8 Consensus size: 277
24721629 TACAGTTTCT
* * *
24721639 GCTGCTCATCAATGTGGATGATTCTGTCTAGCAAAATATTATCTAATGCTTAAACTGCCATTGAC
1 GCTGCTCATCAATGTGGATGATTCTGTCGAGCAAAATATTATCCAATGC-TAAACAGCCATTGAC
* * *
24721704 CATTTTACTTCCAAGTAGACTACCAGTCATGTGGATAGGATTTTCTACTGAGTAACCTTTTGCTC
65 CATTCTACTTCCAAGTAGACTACCATTCATGTGGATAGGATTTTCTACCGAGTAACCTTTTGCTC
* *
24721769 AATGATCCATCTTTTTGGTCTAGCTGATTTATGGCAACCCTTTTAAAAGCAGTTCCAATGATACA
130 AATGATCCATCTTTTTGATCTAGCTGATTTATGGTAACCCTTTT--AAGCAGTTCCAATGATACA
* * *
24721834 AAATGTAGTTTGACTCATACCCATTCACGTGGATAGGATTTTCTACCAAGTAACCTTATGCTCAA
193 AAAAGTAGTTTGACCCATACCCATTCACGTGAATAGGATTTTCTACCAAGTAACCTTATGCTCAA
24721899 TGATCCATCTTTTTGATCTA
258 TGATCCATCTTTTTGATCTA
* ** ***
24721919 GCTGTTTGTCAATGTGGATGATTCTGTCTG-GCAAAATATTATCCAATGCTTGGCAGCCATTGAC
1 GCTGCTCATCAATGTGGATGATTCTGTC-GAGCAAAATATTATCCAATGCTAAACAGCCATTGAC
* *
24721983 CATTCTACTTCCAAGCAGACTACCATTCATGTGGATAGGATTTTCTACC-AGGTAGCCTTTTGCT
65 CATTCTACTTCCAAGTAGACTACCATTCATGTGGATAGGATTTTCTACCGA-GTAACCTTTTGCT
**
24722047 CAATGATCCATCTTTTTGATCTAGCTGATTTATGGTAGTCCTTTTAAGCAGTTCCAATGATACAA
129 CAATGATCCATCTTTTTGATCTAGCTGATTTATGGTAACCCTTTTAAGCAGTTCCAATGATACAA
* * * * *
24722112 AAAGTAGTTTGACCCAT-TCCATTCATGTGAATAGGATTTTCTA-CGAGTAACCTTTTGTTCAAT
194 AAAGTAGTTTGACCCATACCCATTCACGTGAATAGGATTTTCTACCAAGTAACCTTATGCTCAAT
*
24722175 GATTCATCTTTTTGATCTA
259 GATCCATCTTTTTGATCTA
*
24722194 GCTGCTCATCAGTGTGGATGATTCTGTCGAGCAAAATATTATCCAATGCTAAACAGCCATTGACC
1 GCTGCTCATCAATGTGGATGATTCTGTCGAGCAAAATATTATCCAATGCTAAACAGCCATTGACC
* * *
24722259 ATTCTACTTACAAGTAGATTACCATTCATGTGGATAGGATTTTCTACCGAGTAACCTTTTTACTC
66 ATTCTACTTCCAAGTAGACTACCATTCATGTGGATAGGATTTTCTACCGAGTAACC-TTTTGCTC
*
24722324 AATGATCCGTCTTTTTGATCTAGCTGATTTATGGTAACCCTTTTAAGCAGTTCCAATGATACAAA
130 AATGATCCATCTTTTTGATCTAGCTGATTTATGGTAACCCTTTTAAGCAGTTCCAATGATACAAA
24722389 AAGTAGTTTGACCCATACCCATT
195 AAGTAGTTTGACCCATACCCATT
24722412 AGCTGGATCC
Statistics
Matches: 444, Mismatches: 43, Indels: 15
0.88 0.09 0.03
Matches are distributed among these distances:
274 1 0.00
275 141 0.32
276 109 0.25
277 40 0.09
278 1 0.00
279 109 0.25
280 43 0.10
ACGTcount: A:0.27, C:0.20, G:0.16, T:0.36
Consensus pattern (277 bp):
GCTGCTCATCAATGTGGATGATTCTGTCGAGCAAAATATTATCCAATGCTAAACAGCCATTGACC
ATTCTACTTCCAAGTAGACTACCATTCATGTGGATAGGATTTTCTACCGAGTAACCTTTTGCTCA
ATGATCCATCTTTTTGATCTAGCTGATTTATGGTAACCCTTTTAAGCAGTTCCAATGATACAAAA
AGTAGTTTGACCCATACCCATTCACGTGAATAGGATTTTCTACCAAGTAACCTTATGCTCAATGA
TCCATCTTTTTGATCTA
Found at i:24725901 original size:20 final size:20
Alignment explanation
Indices: 24725873--24725912 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
24725863 CTCTAATTAG
*
24725873 AATCTCTAAAAATCAGCTAT
1 AATCCCTAAAAATCAGCTAT
* *
24725893 AATCCCTAAAGATTAGCTAT
1 AATCCCTAAAAATCAGCTAT
24725913 TCAATGCTGA
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:0.42, C:0.20, G:0.07, T:0.30
Consensus pattern (20 bp):
AATCCCTAAAAATCAGCTAT
Found at i:24732921 original size:21 final size:21
Alignment explanation
Indices: 24732897--24732992 Score: 68
Period size: 21 Copynumber: 4.3 Consensus size: 21
24732887 TTATTATTAA
24732897 ATATAATTTAATAAAAATAAT
1 ATATAATTTAATAAAAATAAT
* * * **
24732918 ATATATTTTAATAACATTCTT
1 ATATAATTTAATAAAAATAAT
24732939 AATATAATTTAATAAAAATCATAATAT
1 -ATATAATTTAAT-AAAA--AT-A-AT
*
24732966 ATATAATATT-AGAAAAATAAT
1 ATATAAT-TTAATAAAAATAAT
24732987 ATATAA
1 ATATAA
24732993 CCTACTTTAT
Statistics
Matches: 57, Mismatches: 11, Indels: 14
0.70 0.13 0.17
Matches are distributed among these distances:
21 24 0.42
22 12 0.21
23 5 0.09
25 5 0.09
26 8 0.14
27 3 0.05
ACGTcount: A:0.56, C:0.03, G:0.01, T:0.40
Consensus pattern (21 bp):
ATATAATTTAATAAAAATAAT
Found at i:24732963 original size:22 final size:22
Alignment explanation
Indices: 24732896--24732966 Score: 90
Period size: 22 Copynumber: 3.3 Consensus size: 22
24732886 ATTATTATTA
*
24732896 AATATAATTTAATAAAAATAAT
1 AATATAATTTAATAAAAATCAT
* * * *
24732918 -ATATATTTTAATAACATTCTT
1 AATATAATTTAATAAAAATCAT
24732939 AATATAATTTAATAAAAATCAT
1 AATATAATTTAATAAAAATCAT
24732961 AATATA
1 AATATA
24732967 TATAATATTA
Statistics
Matches: 39, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
21 16 0.41
22 23 0.59
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.41
Consensus pattern (22 bp):
AATATAATTTAATAAAAATCAT
Found at i:24746752 original size:21 final size:20
Alignment explanation
Indices: 24746706--24746753 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
24746696 TCTTGAATTT
* *
24746706 TTTATTTATATTTTTAAATA
1 TTTATTTATAGTTATAAATA
*
24746726 TATTATTTATAGTTATATATTA
1 T-TTATTTATAGTTATA-AATA
24746748 TTTATT
1 TTTATT
24746754 ATTTATTTAG
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
20 1 0.04
21 18 0.78
22 4 0.17
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (20 bp):
TTTATTTATAGTTATAAATA
Found at i:24748185 original size:17 final size:17
Alignment explanation
Indices: 24748163--24748201 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
24748153 TATGTTTTGT
*
24748163 ACTGATGGAAATATTGC
1 ACTGATGGAAATAGTGC
24748180 ACTGATGGAAATAGTGC
1 ACTGATGGAAATAGTGC
24748197 ACTGA
1 ACTGA
24748202 GCATTGAGCG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.36, C:0.13, G:0.26, T:0.26
Consensus pattern (17 bp):
ACTGATGGAAATAGTGC
Found at i:24753055 original size:19 final size:19
Alignment explanation
Indices: 24753031--24753069 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
24753021 ATTAATTTTG
24753031 ATCAAATAAAATT-AAATTA
1 ATCAAAT-AAATTAAAATTA
*
24753050 ATCAAATTAATTAAAATTA
1 ATCAAATAAATTAAAATTA
24753069 A
1 A
24753070 AATGATATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (19 bp):
ATCAAATAAATTAAAATTA
Found at i:24759043 original size:50 final size:50
Alignment explanation
Indices: 24758968--24759262 Score: 401
Period size: 50 Copynumber: 5.9 Consensus size: 50
24758958 TTTCTTGTAC
* * * * * ** * * *
24758968 TGCCAATGCCATATCCCGGATATGGTCTTACATGAGAGTTCTAATATAGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * * ** *
24759018 TGCCCATGCCATGTCCGAGACATGGTCTTACGGGGGACCTCTCATCTTGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
24759068 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
** *
24759118 TGCCAGTGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGA
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
24759168 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* *
24759218 TGCCAACGCCATGTCCCAGACATAGTCTTACATGGGACTTCTCAT
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT
24759263 AATCTCAATG
Statistics
Matches: 218, Mismatches: 27, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
50 218 1.00
ACGTcount: A:0.21, C:0.30, G:0.22, T:0.26
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:24759095 original size:100 final size:100
Alignment explanation
Indices: 24758968--24759315 Score: 410
Period size: 100 Copynumber: 3.4 Consensus size: 100
24758958 TTTCTTGTAC
* * * * * ** * * *
24758968 TGCCAATGCCATATCCCGGATATGGTCTTACATGAGAGTTCTAATATAGGTGCCCATGCCATGTC
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCCATGCCATGTC
* ** * *
24759033 CGAGACATGGTCTTACGGGGGACCTCTCATCTTGG
66 CCAGACATGGTCTTACATGGGACCTCTCATCTCGA
24759068 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTG-CCAGTGCCATGT
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCCA-TGCCATGT
24759132 CCCAGACATGGTCTTACATGGGACCTCTCATCTCGA
65 CCCAGACATGGTCTTACATGGGACCTCTCATCTCGA
* *
24759168 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATGTC
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCCATGCCATGTC
* *
24759233 CCAGACATAGTCTTACATGGGACTTCTCATAATCTCAATGA
66 CCAGACATGGTCTTACATGGGAC--CTC-TCATCTC---GA
* * * * *
24759274 TGCCAATGCCATGTCCCAGGCTTGGTCTTATATGGGATCTCT
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
24759316 ATACCCAAAT
Statistics
Matches: 216, Mismatches: 24, Indels: 10
0.86 0.10 0.04
Matches are distributed among these distances:
99 3 0.01
100 163 0.75
101 2 0.01
102 3 0.01
103 6 0.03
106 39 0.18
ACGTcount: A:0.22, C:0.29, G:0.22, T:0.27
Consensus pattern (100 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCCATGCCATGTC
CCAGACATGGTCTTACATGGGACCTCTCATCTCGA
Found at i:24765949 original size:50 final size:50
Alignment explanation
Indices: 24765875--24766213 Score: 363
Period size: 50 Copynumber: 6.7 Consensus size: 50
24765865 TTCTTGTACC
* * * ** * * *
24765875 GCCAATGCCATATCCCAGATATGGTCTTACATGAGAGTTCTAATATAGGT
1 GCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGT
* ** ** *
24765925 GCCCATGCCATGTCTGAGACATGGTCTTACGGGGGACCTCTCATCTTGGT
1 GCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGT
* * * *
24765975 GCCAACGCCATGTCCCAAACATAGTCTTACATGGGACCTGTCATCTCGGT
1 GCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGT
* *
24766025 GCCAATGCCATGTCCCAGACATGATCTTACATGAGACCTCTCATCTCGGT
1 GCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGT
* *
24766075 GCCAATGCCATGTCCTAGACATGATCTTACATGGGACCTCTCATCTCGGT
1 GCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGT
* * * *
24766125 GCCAACGCCATGTCCCAAACATGGTCTTACATGGGACCTTTCATAATCTCAATGAT
1 GCCAATGCCATGTCCCAGACATGGTCTTACATGGGACC--TC-TCATCTC---GGT
* * *
24766181 GCTAATGCCATGTCCCAGGCATGGTTTTACATG
1 GCCAATGCCATGTCCCAGACATGGTCTTACATG
24766214 AGATGTCTTT
Statistics
Matches: 241, Mismatches: 42, Indels: 6
0.83 0.15 0.02
Matches are distributed among these distances:
50 203 0.84
52 2 0.01
53 6 0.02
56 30 0.12
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.27
Consensus pattern (50 bp):
GCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGT
Found at i:24766083 original size:150 final size:150
Alignment explanation
Indices: 24765825--24766168 Score: 437
Period size: 150 Copynumber: 2.3 Consensus size: 150
24765815 GAAAATAACA
* * * * *
24765825 TGCCAAAGCTATGTCCCAGACATAGTCTTACATGGGA--TGT-TTCTTGTACCGCCAATGCCATA
1 TGCCAACGCCATGTCCCAAACATAGTCTTACATGGGACCTGTCATCTGGT--CGCCAATGCCATA
* * ** * *
24765887 TCCCAGATATGGTCTTACATGAGAGTTCTAATATAGGTGCCCATGCCATGT-CTGAGACATGGTC
64 TCCCAGACATGATCTTACATGAGACCTCTAATATAGGTGCCAATGCCATGTCCT-AGACATGATC
* *
24765951 TTACGGGGGACCTCTCATCTTGG
128 TTACAGGGGACCTCTCATCTCGG
*
24765974 TGCCAACGCCATGTCCCAAACATAGTCTTACATGGGACCTGTCATCTCGGT-GCCAATGCCATGT
1 TGCCAACGCCATGTCCCAAACATAGTCTTACATGGGACCTGTCATCT-GGTCGCCAATGCCATAT
* * *
24766038 CCCAGACATGATCTTACATGAGACCTCTCATCTCGGTGCCAATGCCATGTCCTAGACATGATCTT
65 CCCAGACATGATCTTACATGAGACCTCTAATATAGGTGCCAATGCCATGTCCTAGACATGATCTT
*
24766103 ACATGGGACCTCTCATCTCGG
130 ACAGGGGACCTCTCATCTCGG
* *
24766124 TGCCAACGCCATGTCCCAAACATGGTCTTACATGGGACCTTTCAT
1 TGCCAACGCCATGTCCCAAACATAGTCTTACATGGGACCTGTCAT
24766169 AATCTCAATG
Statistics
Matches: 170, Mismatches: 20, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
149 34 0.20
150 126 0.74
151 5 0.03
152 3 0.02
153 2 0.01
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.28
Consensus pattern (150 bp):
TGCCAACGCCATGTCCCAAACATAGTCTTACATGGGACCTGTCATCTGGTCGCCAATGCCATATC
CCAGACATGATCTTACATGAGACCTCTAATATAGGTGCCAATGCCATGTCCTAGACATGATCTTA
CAGGGGACCTCTCATCTCGG
Found at i:24775133 original size:37 final size:37
Alignment explanation
Indices: 24775083--24775161 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
24775073 TTATTACGAA
* * *
24775083 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
24775120 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
24775157 GTCTT
1 GTCTT
24775162 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:24775367 original size:47 final size:47
Alignment explanation
Indices: 24775280--24775803 Score: 735
Period size: 47 Copynumber: 11.1 Consensus size: 47
24775270 CCTTTCGGGA
* * * * * * * * *
24775280 CTTATCACATTTATGCACTTCCACATCCATTACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
24775327 CTTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
24775374 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * * *
24775421 CTTATCACACACATACACTTTCACATTCATCACGTCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
24775468 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
24775515 CCTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * * *
24775562 CCT-TCACACATATACACTTTCACATTCATCACGTCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
24775608 CTTGTCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
24775655 CTTATCACGTATATACACTTTCACATTCATCACATCGACCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
24775702 CTTATCACGTATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
24775749 CCTATCACATATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC----ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
24775800 CTTA
1 CTTA
24775804 CTATCATTTC
Statistics
Matches: 442, Mismatches: 30, Indels: 6
0.92 0.06 0.01
Matches are distributed among these distances:
46 44 0.10
47 357 0.81
51 41 0.09
ACGTcount: A:0.28, C:0.31, G:0.10, T:0.31
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:24775748 original size:234 final size:235
Alignment explanation
Indices: 24775331--24775800 Score: 753
Period size: 234 Copynumber: 2.0 Consensus size: 235
24775321 CTCGGCCTTG
* *
24775331 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTC
1 TCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATACACTTTC
* * * *
24775396 ACATTCATCACATCGGCTATTAGGCCTTATCACACACATACACTTTCACATTCATCACGTCGGCT
66 ACATTCATCACATCGGCCATTAGGCCTTATCACACACATACACTTTCACATTCATCACATCGACC
*
24775461 ATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCCTATCAC-AC
131 ATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACAAC
*
24775525 ATATACACTTTCACATTCATCACATCGGCTATTAGGCCCT
196 ATATACACTTTCACATTCATCACATCGGCCATTAGGCCCT
* * *
24775565 TCACACATATACACTTTCACATTCATCACGTCGGCTATTAGGCCTTGTCACACATATACACTTTC
1 TCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATACACTTTC
** *
24775630 ACATTCATCACATCGGCCATTAGGCCTTATCACGTATATACACTTTCACATTCATCACATCGACC
66 ACATTCATCACATCGGCCATTAGGCCTTATCACACACATACACTTTCACATTCATCACATCGACC
**
24775695 ATTAGGCCTTATCACGTATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATA
131 ATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCAC--A
*
24775760 TATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
194 -ACATATACACTTTCACATTCATCACATCGGCCATTAGGCC
24775801 TTACTATCAT
Statistics
Matches: 215, Mismatches: 17, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
234 177 0.82
238 38 0.18
ACGTcount: A:0.29, C:0.31, G:0.09, T:0.31
Consensus pattern (235 bp):
TCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATACACTTTC
ACATTCATCACATCGGCCATTAGGCCTTATCACACACATACACTTTCACATTCATCACATCGACC
ATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACAAC
ATATACACTTTCACATTCATCACATCGGCCATTAGGCCCT
Found at i:24778287 original size:27 final size:27
Alignment explanation
Indices: 24778257--24778434 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
24778247 ATATTGAGTC
* * * *
24778257 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
24778284 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
24778311 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
24778339 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
24778366 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
24778393 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
24778420 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
24778435 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:24778396 original size:82 final size:81
Alignment explanation
Indices: 24778278--24778433 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
24778268 TGCTATATAA
* *
24778278 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
24778343 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
24778360 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
24778424 CACTTAGTGC
65 CACTTAGTGC
24778434 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:24783487 original size:13 final size:13
Alignment explanation
Indices: 24783469--24783493 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
24783459 TAATGGTATA
24783469 TTGAATCCATGAT
1 TTGAATCCATGAT
24783482 TTGAATCCATGA
1 TTGAATCCATGA
24783494 AAATTTAGTA
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:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TTGAATCCATGAT
Found at i:24784861 original size:47 final size:47
Alignment explanation
Indices: 24784783--24785422 Score: 1082
Period size: 47 Copynumber: 13.6 Consensus size: 47
24784773 TATTTGAATA
24784783 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
24784832 AATGTAAAAGTGTATATATGTGATAAGGCCGAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
24784879 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
24784926 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
24784973 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
24785020 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
24785067 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
24785114 AATGTGAAAGTGTAAATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
24785161 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
24785208 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
24785255 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
24785302 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * * *
24785349 AATGTGAAAGTGTATATATATGACAAGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
24785396 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
24785423 TCCCGAAGGG
Statistics
Matches: 567, Mismatches: 24, Indels: 2
0.96 0.04 0.00
Matches are distributed among these distances:
47 556 0.98
49 11 0.02
ACGTcount: A:0.34, C:0.08, G:0.29, T:0.29
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:24785597 original size:37 final size:37
Alignment explanation
Indices: 24785541--24785619 Score: 106
Period size: 37 Copynumber: 2.1 Consensus size: 37
24785531 CCGAGCTCTG
* *
24785541 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGA
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGGGA
* *
24785578 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGA
24785615 AAGAC
1 AAGAC
24785620 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
37 36 0.97
38 1 0.03
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGA
Found at i:24786930 original size:43 final size:43
Alignment explanation
Indices: 24786882--24786984 Score: 206
Period size: 43 Copynumber: 2.4 Consensus size: 43
24786872 TTGGTTTTCA
24786882 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
24786925 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
24786968 GCACTAAGTGTGCGGGC
1 GCACTAAGTGTGCGGGC
24786985 TTGAAATGCA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 60 1.00
ACGTcount: A:0.22, C:0.16, G:0.36, T:0.26
Consensus pattern (43 bp):
GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
Found at i:24787001 original size:29 final size:29
Alignment explanation
Indices: 24786966--24787039 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
24786956 GTTGTGAGAT
* *
24786966 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
24786995 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
24787024 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
24787040 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:24787473 original size:40 final size:40
Alignment explanation
Indices: 24787350--24787625 Score: 254
Period size: 40 Copynumber: 6.9 Consensus size: 40
24787340 TCGAATGATG
** *
24787350 TCCGGGCTAAGTCCCGAAG-GC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCT-AGTGA-TATA
* ** * * *
24787390 TCCGGACTAAGAT-CCGAAG-GCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGAGCATTCATGCTAGTGA-TATA
** *
24787430 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGCAATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
*
24787470 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
* *
24787510 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
* * ** * * * *
24787550 TCCGTGCAAAACCCCGAAGAGCATTCGTGCTGGTGTTATG
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
* * *
24787590 TCCGGGCTAGGTCCCGAAGAGCAATCATGCTGGTGA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGA
24787626 CGTGTATTCG
Statistics
Matches: 197, Mismatches: 35, Indels: 8
0.82 0.15 0.03
Matches are distributed among these distances:
39 1 0.01
40 178 0.90
41 18 0.09
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
Found at i:24787566 original size:120 final size:121
Alignment explanation
Indices: 24787350--24787626 Score: 292
Period size: 120 Copynumber: 2.3 Consensus size: 121
24787340 TCGAATGATG
**
24787350 TCCGGGCTAAGTCCCGAAG-GC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCT-AGTGACCATATCCGGACTAAGATCCGAAGGCAT
* * * ** *
24787413 TGGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGCAATGTA
65 TCGTGCGAGTGACTAAATCCGGGCAAAACCCCGAAGAGCATTCATGCTAGCAATATA
** * *
24787470 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGA-TGTATCCGGGCTAAGTTCCGAAGAGCAT
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGACCATATCCGGACTAAGATCCGAAG-GCAT
* * * * * *** *
24787534 TCGTGCTAGTGA-TATATCCGTGCAAAACCCCGAAGAGCATTCGTGCTGGTGTTATG
65 TCGTGCGAGTGACTAAATCCGGGCAAAACCCCGAAGAGCATTCATGCTAGCAATATA
* * *
24787590 TCCGGGCTAGGTCCCGAAGAGCAATCATGCTGGTGAC
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGAC
24787627 GTGTATTCGG
Statistics
Matches: 129, Mismatches: 24, Indels: 7
0.81 0.15 0.04
Matches are distributed among these distances:
120 103 0.80
121 20 0.16
122 6 0.05
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (121 bp):
TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGACCATATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTGACTAAATCCGGGCAAAACCCCGAAGAGCATTCATGCTAGCAATATA
Found at i:24791097 original size:40 final size:38
Alignment explanation
Indices: 24790987--24791186 Score: 259
Period size: 40 Copynumber: 5.3 Consensus size: 38
24790977 GGACTAAGAT
*
24790987 CCGAAGGC-TTTGTGCGAGA-TACAATCCGGGTTAAG-C
1 CCGAAGGCATTCGTGCGAGATTA-AATCCGGGTTAAGTC
24791023 CCGAAGGCATTCGTGCGAGATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATTAAATCCGGGTTAAGTC
24791061 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAG--ATTAAATCCGGGTTAAGTC
24791101 CCGAAGGCATTCGTGCGAG-TTAAATCCGGGTT-AGTC
1 CCGAAGGCATTCGTGCGAGATTAAATCCGGGTTAAGTC
* * * * *
24791137 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAG--ATTAAATCCGGGTTAAGTC
24791176 CCGAAGGCATT
1 CCGAAGGCATT
24791187 TGAACGAGGA
Statistics
Matches: 149, Mismatches: 6, Indels: 15
0.88 0.04 0.09
Matches are distributed among these distances:
35 6 0.04
36 23 0.15
37 36 0.24
38 32 0.21
39 14 0.09
40 38 0.26
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.24
Consensus pattern (38 bp):
CCGAAGGCATTCGTGCGAGATTAAATCCGGGTTAAGTC
Found at i:24791126 original size:77 final size:76
Alignment explanation
Indices: 24790987--24791186 Score: 291
Period size: 75 Copynumber: 2.7 Consensus size: 76
24790977 GGACTAAGAT
* *
24790987 CCGAAGGCTTTGTGCGAGATAC--AATCCGGGTTAAG-CCCGAAGGCATTCGTGCGAGATTAAAT
1 CCGAAGGCATTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGATTAAAT
24791049 CCGGGTTAAGTC
66 CCGGGTT-AGTC
*
24791061 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAG-TTAAA
1 CCGAAGGCATT-GTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGATTAAA
24791125 TCCGGGTTAGTC
65 TCCGGGTTAGTC
* * * *
24791137 CCGAAGGCATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 CCGAAGGCATTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATT
24791187 TGAACGAGGA
Statistics
Matches: 114, Mismatches: 8, Indels: 7
0.88 0.06 0.05
Matches are distributed among these distances:
74 10 0.09
75 43 0.38
76 15 0.13
77 26 0.23
78 20 0.18
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.24
Consensus pattern (76 bp):
CCGAAGGCATTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGATTAAAT
CCGGGTTAGTC
Done.