Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D11
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: 73211361
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1690000 characters in sequence are not A, C, G, or T
File 72 of 240
Found at i:22990336 original size:15 final size:15
Alignment explanation
Indices: 22990312--22990367 Score: 55
Period size: 15 Copynumber: 3.9 Consensus size: 15
22990302 AATTATTTTT
22990312 ATTTTT-ATTTTAAA
1 ATTTTTAATTTTAAA
* *
22990326 ATTTTTAATTTTTAT
1 ATTTTTAATTTTAAA
**
22990341 ATTTCAAATTTTAAA
1 ATTTTTAATTTTAAA
22990356 A--TTTAATTTTAA
1 ATTTTTAATTTTAA
22990368 TTATTAGTAT
Statistics
Matches: 33, Mismatches: 8, Indels: 3
0.75 0.18 0.07
Matches are distributed among these distances:
13 9 0.27
14 6 0.18
15 18 0.55
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.61
Consensus pattern (15 bp):
ATTTTTAATTTTAAA
Found at i:22995393 original size:29 final size:29
Alignment explanation
Indices: 22995347--22995410 Score: 69
Period size: 29 Copynumber: 2.2 Consensus size: 29
22995337 GGTTGTCACT
*
22995347 TCCACCTAGGTGCTGCCT-ATCAGATGCCC
1 TCCACCTAGGTGCTGCCTGA-CACATGCCC
*
22995376 TCCACCTGGGTG-TCGCCTGACACATGCCC
1 TCCACCTAGGTGCT-GCCTGACACATGCCC
*
22995405 TTCACC
1 TCCACC
22995411 CCTCCAACCC
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
28 1 0.03
29 28 0.93
30 1 0.03
ACGTcount: A:0.16, C:0.41, G:0.20, T:0.23
Consensus pattern (29 bp):
TCCACCTAGGTGCTGCCTGACACATGCCC
Found at i:22997210 original size:16 final size:16
Alignment explanation
Indices: 22997189--22997240 Score: 86
Period size: 16 Copynumber: 3.2 Consensus size: 16
22997179 TTTGGTTCGC
22997189 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
22997205 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
* *
22997221 TGTAATGGAATAGAGG
1 TGTATTGGATTAGAGG
22997237 TGTA
1 TGTA
22997241 ATAGCAAATC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.29, C:0.00, G:0.37, T:0.35
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:22997287 original size:45 final size:44
Alignment explanation
Indices: 22997221--22997315 Score: 136
Period size: 45 Copynumber: 2.1 Consensus size: 44
22997211 GGATTAGAGG
* *
22997221 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAAC-ACTGTTTGGTTGAA
* **
22997266 TGTAATGGAATAGAGGCGTAATAGTAAAACTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
22997310 TGTAAT
1 TGTAAT
22997316 AGAGGTGTAA
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:0.35, C:0.05, G:0.27, T:0.33
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
Found at i:22997485 original size:25 final size:25
Alignment explanation
Indices: 22997453--22997507 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 25
22997443 TAATTTAATC
*
22997453 ATAT-TTAAACATAATTATTATT-AA
1 ATATATTAAACAT-ATTATAATTAAA
*
22997477 ATATATTAAATATATTATAATTAAA
1 ATATATTAAACATATTATAATTAAA
22997502 ATATAT
1 ATATAT
22997508 AATTTAATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
24 12 0.44
25 15 0.56
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (25 bp):
ATATATTAAACATATTATAATTAAA
Found at i:22997689 original size:47 final size:46
Alignment explanation
Indices: 22997638--22997798 Score: 140
Period size: 47 Copynumber: 3.6 Consensus size: 46
22997628 GATTTAATAA
22997638 AATTTAAAATAATTATAACTAATAAATTATCTTATATGAATTTGTAT
1 AATTTAAAATAATTATAA-TAATAAATTATCTTATATGAATTTGTAT
* * * * *
22997685 AATTTAAAATAATTATTATTACATATAAT-TTA-AT-AA---GATAT
1 AATTTAAAATAATTATAATAATAAATTATCTTATATGAATTTG-TAT
* * * *
22997726 AATTTCATAA-AATTATTGATAATAAATTTTCTTATATGAATTTATAT
1 AATTT-AAAATAATTA-TAATAATAAATTATCTTATATGAATTTGTAT
22997773 AATTTAAAATAATT-TATATAATAAAT
1 AATTTAAAATAATTATA-ATAATAAAT
22997799 CTATTGTATA
Statistics
Matches: 88, Mismatches: 15, Indels: 23
0.70 0.12 0.18
Matches are distributed among these distances:
40 1 0.01
41 13 0.15
42 11 0.12
43 5 0.06
44 4 0.05
45 6 0.07
46 19 0.22
47 29 0.33
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.45
Consensus pattern (46 bp):
AATTTAAAATAATTATAATAATAAATTATCTTATATGAATTTGTAT
Found at i:23005908 original size:30 final size:29
Alignment explanation
Indices: 23005852--23005930 Score: 70
Period size: 30 Copynumber: 2.7 Consensus size: 29
23005842 TTTAGGATTG
*
23005852 AAATTTTTAAATGTGAAAATTTTAAGTATT
1 AAATTTTT-ATTGTGAAAATTTTAAGTATT
* * *
23005882 AAATTTTTATTGTTAAATTTTATAAGTGTT
1 AAATTTTTATTGTGAAAATTT-TAAGTATT
* * *
23005912 GAATTTGTATT-AGAAAATT
1 AAATTTTTATTGTGAAAATT
23005931 ATTTGAAAAA
Statistics
Matches: 39, Mismatches: 9, Indels: 3
0.76 0.18 0.06
Matches are distributed among these distances:
29 15 0.38
30 24 0.62
ACGTcount: A:0.39, C:0.00, G:0.11, T:0.49
Consensus pattern (29 bp):
AAATTTTTATTGTGAAAATTTTAAGTATT
Found at i:23017991 original size:32 final size:33
Alignment explanation
Indices: 23017947--23018008 Score: 83
Period size: 32 Copynumber: 1.9 Consensus size: 33
23017937 ATAGATGGAG
*
23017947 AAGCATAAAAGAATAGAAAAT-AAAAAAAAAGGA
1 AAGCATAAAAGAACA-AAAATGAAAAAAAAAGGA
*
23017980 AAGC-TAAAAGAACATAAATGAAAAAAAAA
1 AAGCATAAAAGAACAAAAATGAAAAAAAAA
23018009 ATTAAATTAC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
31 4 0.15
32 18 0.69
33 4 0.15
ACGTcount: A:0.73, C:0.05, G:0.13, T:0.10
Consensus pattern (33 bp):
AAGCATAAAAGAACAAAAATGAAAAAAAAAGGA
Found at i:23019025 original size:24 final size:24
Alignment explanation
Indices: 23018977--23019025 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
23018967 TTCTAAAAAA
*
23018977 TTCAAAAAAATATACATAAATATT
1 TTCAAAAAAATATACATAAAAATT
*
23019001 TTCAAATAAATATA-ATAATAAATT
1 TTCAAAAAAATATACATAA-AAATT
23019025 T
1 T
23019026 AAATTTAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 4 0.18
24 18 0.82
ACGTcount: A:0.57, C:0.06, G:0.00, T:0.37
Consensus pattern (24 bp):
TTCAAAAAAATATACATAAAAATT
Found at i:23019039 original size:6 final size:6
Alignment explanation
Indices: 23019030--23019076 Score: 58
Period size: 6 Copynumber: 7.7 Consensus size: 6
23019020 AAATTTAAAT
** *
23019030 TTAATA TTAATA TTAATA TTAAATA AAAATA TTTATA TTAATA TTAA
1 TTAATA TTAATA TTAATA TT-AATA TTAATA TTAATA TTAATA TTAA
23019077 ATAAAATAAG
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
6 30 0.88
7 4 0.12
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (6 bp):
TTAATA
Found at i:23019039 original size:12 final size:13
Alignment explanation
Indices: 23019024--23019079 Score: 64
Period size: 12 Copynumber: 4.5 Consensus size: 13
23019014 AATAATAAAT
23019024 TTAAAT-TTAATA
1 TTAAATATTAATA
23019036 TT-AATATTAATA
1 TTAAATATTAATA
**
23019048 TTAAATAAAAATA
1 TTAAATATTAATA
*
23019061 TT-TATATTAATA
1 TTAAATATTAATA
23019073 TTAAATA
1 TTAAATA
23019080 AAATAAGCCC
Statistics
Matches: 35, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
11 3 0.09
12 19 0.54
13 13 0.37
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
TTAAATATTAATA
Found at i:23019067 original size:25 final size:25
Alignment explanation
Indices: 23019032--23019082 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
23019022 ATTTAAATTT
23019032 AATATTAATATTAATATTAAATAAA
1 AATATTAATATTAATATTAAATAAA
*
23019057 AATATTTATATTAATATTAAATAAA
1 AATATTAATATTAATATTAAATAAA
23019082 A
1 A
23019083 TAAGCCCTTC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (25 bp):
AATATTAATATTAATATTAAATAAA
Found at i:23019078 original size:19 final size:19
Alignment explanation
Indices: 23019009--23019079 Score: 62
Period size: 19 Copynumber: 3.9 Consensus size: 19
23018999 TTTTCAAATA
*
23019009 AATA-TAATAATAAAT-TT
1 AATATTAATATTAAATATT
23019026 AA-ATTTAATATT-AATATT
1 AATA-TTAATATTAAATATT
*
23019044 AATATTAA-ATAAAAATATT
1 AATATTAATAT-TAAATATT
*
23019063 TATATTAATATTAAATA
1 AATATTAATATTAAATA
23019080 AAATAAGCCC
Statistics
Matches: 43, Mismatches: 4, Indels: 12
0.73 0.07 0.20
Matches are distributed among these distances:
16 1 0.02
17 7 0.16
18 14 0.33
19 19 0.44
20 2 0.05
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (19 bp):
AATATTAATATTAAATATT
Found at i:23019145 original size:18 final size:18
Alignment explanation
Indices: 23019117--23019158 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 18
23019107 CCCATCCTCC
23019117 CACCCCACCCTC-ACCCT
1 CACCCCACCCTCGACCCT
23019134 CACCCTCACCCTCGACCCT
1 CACCC-CACCCTCGACCCT
*
23019153 CTCCCC
1 CACCCC
23019159 CTCAAAATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 5 0.23
18 8 0.36
19 9 0.41
ACGTcount: A:0.14, C:0.69, G:0.02, T:0.14
Consensus pattern (18 bp):
CACCCCACCCTCGACCCT
Found at i:23019153 original size:7 final size:6
Alignment explanation
Indices: 23019117--23019153 Score: 58
Period size: 6 Copynumber: 6.2 Consensus size: 6
23019107 CCCATCCTCC
23019117 CACCC- CACCCT CACCCT CACCCT CACCCT CGACCCT C
1 CACCCT CACCCT CACCCT CACCCT CACCCT C-ACCCT C
23019154 TCCCCCTCAA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
5 5 0.17
6 19 0.63
7 6 0.20
ACGTcount: A:0.16, C:0.68, G:0.03, T:0.14
Consensus pattern (6 bp):
CACCCT
Found at i:23032979 original size:41 final size:41
Alignment explanation
Indices: 23032934--23033018 Score: 152
Period size: 41 Copynumber: 2.1 Consensus size: 41
23032924 AGTTTGCTCA
*
23032934 CTATCTTCCGGTCAGGACTGATTATTCACTTCAGAAATTGG
1 CTATCTTCCGGTCAGGACTAATTATTCACTTCAGAAATTGG
*
23032975 CTATCTTCCGGTCAGGACTAATTATTCGCTTCAGAAATTGG
1 CTATCTTCCGGTCAGGACTAATTATTCACTTCAGAAATTGG
23033016 CTA
1 CTA
23033019 AGTTGTATGT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.25, C:0.22, G:0.19, T:0.34
Consensus pattern (41 bp):
CTATCTTCCGGTCAGGACTAATTATTCACTTCAGAAATTGG
Found at i:23037682 original size:21 final size:21
Alignment explanation
Indices: 23037616--23037710 Score: 100
Period size: 21 Copynumber: 4.5 Consensus size: 21
23037606 CAAACACGCC
*
23037616 AACAGAAGCTCATAAGAGCTA
1 AACAGAAGCTCAAAAGAGCTA
* * * *
23037637 AGCAAAAGCTTAAAAGAGCTG
1 AACAGAAGCTCAAAAGAGCTA
23037658 AACAGAAGCTCAAAAGAGCTA
1 AACAGAAGCTCAAAAGAGCTA
* *** *
23037679 AACAGAAACTCGTGAGAGCTG
1 AACAGAAGCTCAAAAGAGCTA
23037700 AACAGAAGCTC
1 AACAGAAGCTC
23037711 GTAAGAGTTG
Statistics
Matches: 59, Mismatches: 15, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 59 1.00
ACGTcount: A:0.46, C:0.19, G:0.22, T:0.13
Consensus pattern (21 bp):
AACAGAAGCTCAAAAGAGCTA
Found at i:23037717 original size:42 final size:42
Alignment explanation
Indices: 23037616--23037717 Score: 125
Period size: 42 Copynumber: 2.4 Consensus size: 42
23037606 CAAACACGCC
* *
23037616 AACAGAAGCTCATAAGAGCTAAGCAAAAGCTTAAAAGAGCTG
1 AACAGAAGCTCATAAGAGCTAAACAAAAGCTCAAAAGAGCTG
* ***
23037658 AACAGAAGCTCAAAAGAGCTAAACAGAAA-CTCGTGAGAGCTG
1 AACAGAAGCTCATAAGAGCTAAACA-AAAGCTCAAAAGAGCTG
*
23037700 AACAGAAGCTCGTAAGAG
1 AACAGAAGCTCATAAGAG
23037718 TTGATCAACC
Statistics
Matches: 51, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
42 48 0.94
43 3 0.06
ACGTcount: A:0.46, C:0.18, G:0.24, T:0.13
Consensus pattern (42 bp):
AACAGAAGCTCATAAGAGCTAAACAAAAGCTCAAAAGAGCTG
Found at i:23037926 original size:17 final size:17
Alignment explanation
Indices: 23037906--23037942 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
23037896 ATTAAATTCG
*
23037906 ATAATATATTTCCAACA
1 ATAATATAATTCCAACA
*
23037923 ATAATTTAATTCCAACA
1 ATAATATAATTCCAACA
23037940 ATA
1 ATA
23037943 GAAAAAATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.49, C:0.16, G:0.00, T:0.35
Consensus pattern (17 bp):
ATAATATAATTCCAACA
Found at i:23043732 original size:21 final size:21
Alignment explanation
Indices: 23043704--23043774 Score: 97
Period size: 21 Copynumber: 3.4 Consensus size: 21
23043694 ACACACCAAT
*
23043704 AGAAGCTCATAAGAGCTGAAC
1 AGAAGCTCAAAAGAGCTGAAC
* *
23043725 AAAAGCTCAAAAGAGCTTAAC
1 AGAAGCTCAAAAGAGCTGAAC
* *
23043746 AGAAGCTCAAAAAAGCTGAAT
1 AGAAGCTCAAAAGAGCTGAAC
23043767 AGAAGCTC
1 AGAAGCTC
23043775 GTAAGAGTTG
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 43 1.00
ACGTcount: A:0.48, C:0.18, G:0.20, T:0.14
Consensus pattern (21 bp):
AGAAGCTCAAAAGAGCTGAAC
Found at i:23057046 original size:18 final size:17
Alignment explanation
Indices: 23057016--23057050 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
23057006 TTCCTTTTGG
23057016 CCTTAGTTGTTCTATAT
1 CCTTAGTTGTTCTATAT
*
23057033 CCTTAAGTTTTTCTATAT
1 CCTT-AGTTGTTCTATAT
23057051 TTGGGGTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.20, C:0.17, G:0.09, T:0.54
Consensus pattern (17 bp):
CCTTAGTTGTTCTATAT
Found at i:23060798 original size:31 final size:30
Alignment explanation
Indices: 23060733--23060799 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 30
23060723 TCTTTATTTT
* *
23060733 CCCCCAAAATTTTTACTCCTTCCCACTTTC
1 CCCCCAAAACTTTTACTCCTTCCCACTCTC
* *
23060763 CCCCCAAAGCTTTTACTCCTCTCCCATCTCAC
1 CCCCCAAAACTTTTACTCCT-TCCCA-CTCTC
23060795 CCCCC
1 CCCCC
23060800 TTCTACCCCA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
30 18 0.58
31 5 0.16
32 8 0.26
ACGTcount: A:0.18, C:0.51, G:0.01, T:0.30
Consensus pattern (30 bp):
CCCCCAAAACTTTTACTCCTTCCCACTCTC
Found at i:23061245 original size:17 final size:18
Alignment explanation
Indices: 23061211--23061245 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
23061201 TTTTATTAAA
23061211 AATACATTTTTTACATTT
1 AATACATTTTTTACATTT
*
23061229 AATATATTTTTTA-ATTT
1 AATACATTTTTTACATTT
23061246 CAAAATACAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.34, C:0.06, G:0.00, T:0.60
Consensus pattern (18 bp):
AATACATTTTTTACATTT
Found at i:23066833 original size:14 final size:15
Alignment explanation
Indices: 23066796--23066837 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
23066786 AAGCAATATC
23066796 CATTCAAAATCTAAAG
1 CATTCAAAATC-AAAG
23066812 -ATTCAAAATCAAAG
1 CATTCAAAATCAAAG
23066826 CATT-AAAA-CAAA
1 CATTCAAAATCAAA
23066838 AACACTTGGT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
13 4 0.16
14 8 0.32
15 13 0.52
ACGTcount: A:0.57, C:0.17, G:0.05, T:0.21
Consensus pattern (15 bp):
CATTCAAAATCAAAG
Found at i:23073231 original size:28 final size:28
Alignment explanation
Indices: 23073191--23073253 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 28
23073181 ATGAACCATA
* *
23073191 AAAAATTATGAAAAATGGAAATAAAATAT
1 AAAAA-TAAGAAAAATAGAAATAAAATAT
* * *
23073220 AAAAATAAGAAAAATATATATAAAATCT
1 AAAAATAAGAAAAATAGAAATAAAATAT
23073248 AAAAAT
1 AAAAAT
23073254 TTTATATGAC
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
28 24 0.83
29 5 0.17
ACGTcount: A:0.68, C:0.02, G:0.06, T:0.24
Consensus pattern (28 bp):
AAAAATAAGAAAAATAGAAATAAAATAT
Found at i:23076592 original size:51 final size:51
Alignment explanation
Indices: 23076502--23076609 Score: 155
Period size: 51 Copynumber: 2.1 Consensus size: 51
23076492 CCAAACATTT
* * *
23076502 GTTCATATAAAATAATAGTTCTTACCAAATGACAGTTCATGCAAAATAATA
1 GTTCATATAAAATAATAGTTCATACCAAATAACAATTCATGCAAAATAATA
* *
23076553 GTTCATATGAAAT-ATCAGTTCATACCGAATAACAATTCATGCAAAATAATA
1 GTTCATATAAAATAAT-AGTTCATACCAAATAACAATTCATGCAAAATAATA
23076604 GTTCAT
1 GTTCAT
23076610 GCTCCATCAT
Statistics
Matches: 51, Mismatches: 5, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
50 2 0.04
51 49 0.96
ACGTcount: A:0.44, C:0.15, G:0.10, T:0.31
Consensus pattern (51 bp):
GTTCATATAAAATAATAGTTCATACCAAATAACAATTCATGCAAAATAATA
Found at i:23076611 original size:17 final size:17
Alignment explanation
Indices: 23076502--23076609 Score: 83
Period size: 17 Copynumber: 6.4 Consensus size: 17
23076492 CCAAACATTT
*
23076502 GTTCATATAAAATAATA
1 GTTCATACAAAATAATA
* * * *
23076519 GTTCTTACCAAATGACA
1 GTTCATACAAAATAATA
*
23076536 GTTCATGCAAAATAATA
1 GTTCATACAAAATAATA
**
23076553 GTTCATATGAAAT-ATCA
1 GTTCATACAAAATAAT-A
** *
23076570 GTTCATACCGAATAACA
1 GTTCATACAAAATAATA
* *
23076587 ATTCATGCAAAATAATA
1 GTTCATACAAAATAATA
23076604 GTTCAT
1 GTTCAT
23076610 GCTCCATCAT
Statistics
Matches: 66, Mismatches: 23, Indels: 4
0.71 0.25 0.04
Matches are distributed among these distances:
16 2 0.03
17 63 0.95
18 1 0.02
ACGTcount: A:0.44, C:0.15, G:0.10, T:0.31
Consensus pattern (17 bp):
GTTCATACAAAATAATA
Found at i:23077705 original size:33 final size:31
Alignment explanation
Indices: 23077651--23077758 Score: 89
Period size: 33 Copynumber: 3.5 Consensus size: 31
23077641 ATATACATTT
* * *
23077651 TATATATTAGATA-ATACAAAACCTATAAACTCA
1 TATATATTATATATA-ATAAAACC-A-AAACACA
*
23077684 TATATATTATATATAATAAAACC--CACACA
1 TATATATTATATATAATAAAACCAAAACACA
* * * *
23077713 CATATATTATATAT-TTAACACCAAAACCCA
1 TATATATTATATATAATAAAACCAAAACACA
23077743 TATATATTATATATAA
1 TATATATTATATATAA
23077759 ATAACAAAAC
Statistics
Matches: 60, Mismatches: 11, Indels: 10
0.74 0.14 0.12
Matches are distributed among these distances:
28 6 0.10
29 17 0.28
30 17 0.28
33 19 0.32
34 1 0.02
ACGTcount: A:0.50, C:0.16, G:0.01, T:0.33
Consensus pattern (31 bp):
TATATATTATATATAATAAAACCAAAACACA
Found at i:23079241 original size:32 final size:31
Alignment explanation
Indices: 23079176--23079242 Score: 82
Period size: 32 Copynumber: 2.1 Consensus size: 31
23079166 ACCTAAAATT
* * *
23079176 ATTAATTCTAATTATTTTAATATTTTATTTA
1 ATTAATTCTAATTATTTTAATATCTAATCTA
23079207 ATTAATTTCTAATTA-TTTAATTATCTAATCTA
1 ATTAA-TTCTAATTATTTTAA-TATCTAATCTA
23079239 ATTA
1 ATTA
23079243 CGATTTTCGG
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
31 10 0.32
32 21 0.68
ACGTcount: A:0.37, C:0.06, G:0.00, T:0.57
Consensus pattern (31 bp):
ATTAATTCTAATTATTTTAATATCTAATCTA
Found at i:23084369 original size:19 final size:18
Alignment explanation
Indices: 23084345--23084381 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
23084335 TAATTGAATT
*
23084345 AAAATAAATTTAAATTTTA
1 AAAATAAAATT-AATTTTA
23084364 AAAATAAAATTAATTTTA
1 AAAATAAAATTAATTTTA
23084382 TAATTCGAGC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (18 bp):
AAAATAAAATTAATTTTA
Found at i:23086588 original size:25 final size:26
Alignment explanation
Indices: 23086537--23086593 Score: 73
Period size: 26 Copynumber: 2.2 Consensus size: 26
23086527 CTTGTTATCT
*
23086537 TTTTTTCAAATTTCAGCTTCTCATAC
1 TTTTTCCAAATTTCAGCTTCTCATAC
*
23086563 TTTTTCCAAATTTCGGCCTT-TC-TAC
1 TTTTTCCAAATTTCAG-CTTCTCATAC
23086588 TTTTTC
1 TTTTTC
23086594 TTTGAAATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
25 9 0.32
26 16 0.57
27 3 0.11
ACGTcount: A:0.18, C:0.25, G:0.05, T:0.53
Consensus pattern (26 bp):
TTTTTCCAAATTTCAGCTTCTCATAC
Found at i:23097416 original size:43 final size:44
Alignment explanation
Indices: 23097341--23097472 Score: 130
Period size: 43 Copynumber: 3.0 Consensus size: 44
23097331 CAAAAAGCTC
* *
23097341 ATACGATGCCAAC-GTCCTAGAC-GTGGTCTTACATGTAATCAAAT
1 ATACGATGCC-ACTGTCCCAGACAG-GGTCTTACACGTAATCAAAT
* * *
23097385 A-ACGATGCCACTGTCCCAGACAGGGTTTTACACGAAATCATAT
1 ATACGATGCCACTGTCCCAGACAGGGTCTTACACGTAATCAAAT
* * *
23097428 ATA--ATGCCAATGTCCCAGACATGGTCTTACACGTGAATCACAT
1 ATACGATGCCACTGTCCCAGACAGGGTCTTACACGT-AATCAAAT
23097471 AT
1 AT
23097473 CGGAAACCTA
Statistics
Matches: 74, Mismatches: 10, Indels: 9
0.80 0.11 0.10
Matches are distributed among these distances:
42 29 0.39
43 42 0.57
44 3 0.04
ACGTcount: A:0.33, C:0.24, G:0.17, T:0.26
Consensus pattern (44 bp):
ATACGATGCCACTGTCCCAGACAGGGTCTTACACGTAATCAAAT
Found at i:23101132 original size:18 final size:18
Alignment explanation
Indices: 23101109--23101167 Score: 65
Period size: 18 Copynumber: 3.5 Consensus size: 18
23101099 AAGACTTAAA
23101109 CACATCTAAACATCCTAT
1 CACATCTAAACATCCTAT
23101127 CACATCTAAACA---TA-
1 CACATCTAAACATCCTAT
*
23101141 C-CATTTCAAACATCCTAT
1 CACATCT-AAACATCCTAT
23101159 CACATCTAA
1 CACATCTAA
23101168 CCAACATGCC
Statistics
Matches: 33, Mismatches: 2, Indels: 12
0.70 0.04 0.26
Matches are distributed among these distances:
13 4 0.12
14 6 0.18
15 2 0.06
17 2 0.06
18 15 0.45
19 4 0.12
ACGTcount: A:0.41, C:0.32, G:0.00, T:0.27
Consensus pattern (18 bp):
CACATCTAAACATCCTAT
Found at i:23104488 original size:22 final size:22
Alignment explanation
Indices: 23104460--23104530 Score: 83
Period size: 21 Copynumber: 3.2 Consensus size: 22
23104450 GGGAAAAAAT
*
23104460 AAAAAAAT-GAATTATAGGGACA
1 AAAAAAATCGAATTACA-GGACA
*
23104482 AAAAAAATCAAATTACAGGA-A
1 AAAAAAATCGAATTACAGGACA
*
23104503 AAAAAAGTCGAATTACAAGGACA
1 AAAAAAATCGAATTAC-AGGACA
23104526 AAAAA
1 AAAAA
23104531 GGGTTGAATT
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
21 15 0.36
22 15 0.36
23 12 0.29
ACGTcount: A:0.63, C:0.08, G:0.14, T:0.14
Consensus pattern (22 bp):
AAAAAAATCGAATTACAGGACA
Found at i:23104531 original size:22 final size:22
Alignment explanation
Indices: 23104460--23104530 Score: 76
Period size: 22 Copynumber: 3.3 Consensus size: 22
23104450 GGGAAAAAAT
* *
23104460 AAAAAAAT-GAATTATAGGGAC
1 AAAAAAATCGAATTACAAGGAC
*
23104481 AAAAAAAATCAAATTAC-AGGA-
1 -AAAAAAATCGAATTACAAGGAC
23104502 AAAAAAAGTCGAATTACAAGGAC
1 AAAAAAA-TCGAATTACAAGGAC
23104525 AAAAAA
1 AAAAAA
23104531 GGGTTGAATT
Statistics
Matches: 41, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
20 7 0.17
21 8 0.20
22 15 0.37
23 11 0.27
ACGTcount: A:0.63, C:0.08, G:0.14, T:0.14
Consensus pattern (22 bp):
AAAAAAATCGAATTACAAGGAC
Found at i:23104612 original size:22 final size:23
Alignment explanation
Indices: 23104587--23104648 Score: 83
Period size: 22 Copynumber: 2.7 Consensus size: 23
23104577 TACATGAACT
23104587 AAAAATTTGAATTATAGAGACAA
1 AAAAATTTGAATTATAGAGACAA
* *
23104610 AAAAA--TCAATTTACAGAGACAA
1 AAAAATTTGAA-TTATAGAGACAA
23104632 AAAAATTTGAATTATAG
1 AAAAATTTGAATTATAG
23104649 GGGGAAAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
21 3 0.09
22 16 0.50
23 10 0.31
24 3 0.09
ACGTcount: A:0.56, C:0.06, G:0.11, T:0.26
Consensus pattern (23 bp):
AAAAATTTGAATTATAGAGACAA
Found at i:23104697 original size:40 final size:43
Alignment explanation
Indices: 23104587--23104703 Score: 132
Period size: 40 Copynumber: 2.7 Consensus size: 43
23104577 TACATGAACT
*
23104587 AAAAATTTGAATTATAGAGACAAAAAAATCAATTTACAGAGACAA
1 AAAAATTTGAATTATAGGGACAAAAAAATCAA--TACAGAGACAA
** *
23104632 AAAAATTTGAATTATAGGGGGAAAAAAA-C-A-ACAGGGACAA
1 AAAAATTTGAATTATAGGGACAAAAAAATCAATACAGAGACAA
* * *
23104672 ACAAATTAGAATTATAGGGACAAAAAATTCAA
1 AAAAATTTGAATTATAGGGACAAAAAAATCAA
23104704 ATTACAAGGA
Statistics
Matches: 61, Mismatches: 9, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
40 32 0.52
41 1 0.02
42 1 0.02
43 1 0.02
44 1 0.02
45 25 0.41
ACGTcount: A:0.56, C:0.09, G:0.15, T:0.20
Consensus pattern (43 bp):
AAAAATTTGAATTATAGGGACAAAAAAATCAATACAGAGACAA
Found at i:23108766 original size:86 final size:88
Alignment explanation
Indices: 23108669--23108844 Score: 248
Period size: 91 Copynumber: 2.0 Consensus size: 88
23108659 AGTGTAAAAA
* *
23108669 GCCCTCAAACTTTTTCAAAAAAAGCAATTAAGCCC-C-TTTTTTTGCACTCAATTGGGTACTTGA
1 GCCCTCAAACTTTTTCAAAAAAAGAAATTAAGCCCTCTTTTTTTTACACTCAATTGGGTACTTGA
** *
23108732 ACTTTCAAAATGTATAAAAAAGT
66 ACTGCCAAAATGCATAAAAAAGT
*
23108755 GCCCTTAAACTTTTTCAAAAAAAGAAATTAAGCCCTGTCTTTTTTTTTACACTCAATTGGGTACT
1 GCCCTCAAACTTTTTCAAAAAAAGAAATTAAGCCC--TC-TTTTTTTTACACTCAATTGGGTACT
*
23108820 TGAACTGCCAAAATGCATCAAAAAG
63 TGAACTGCCAAAATGCATAAAAAAG
23108845 GCTCTTTGAC
Statistics
Matches: 78, Mismatches: 7, Indels: 5
0.87 0.08 0.06
Matches are distributed among these distances:
86 33 0.42
89 1 0.01
91 44 0.56
ACGTcount: A:0.36, C:0.20, G:0.12, T:0.32
Consensus pattern (88 bp):
GCCCTCAAACTTTTTCAAAAAAAGAAATTAAGCCCTCTTTTTTTTACACTCAATTGGGTACTTGA
ACTGCCAAAATGCATAAAAAAGT
Found at i:23108986 original size:10 final size:10
Alignment explanation
Indices: 23108973--23109034 Score: 81
Period size: 10 Copynumber: 6.3 Consensus size: 10
23108963 AAAAATAAAT
23108973 AAAAATTATA
1 AAAAATTATA
*
23108983 AAAAATTGTA
1 AAAAATTATA
23108993 AAAAATTATA
1 AAAAATTATA
**
23109003 AAATTTTAT-
1 AAAAATTATA
*
23109012 AAAAATCATA
1 AAAAATTATA
23109022 AAAAATTATA
1 AAAAATTATA
23109032 AAA
1 AAA
23109035 TGCATCAAAA
Statistics
Matches: 43, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
9 6 0.14
10 37 0.86
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.31
Consensus pattern (10 bp):
AAAAATTATA
Found at i:23108994 original size:19 final size:19
Alignment explanation
Indices: 23108971--23109034 Score: 83
Period size: 19 Copynumber: 3.3 Consensus size: 19
23108961 ATAAAAATAA
23108971 ATAAAAATTATAAAAAATT
1 ATAAAAATTATAAAAAATT
* **
23108990 GTAAAAAATTATAAAATTTT
1 AT-AAAAATTATAAAAAATT
*
23109010 ATAAAAATCATAAAAAATT
1 ATAAAAATTATAAAAAATT
23109029 ATAAAA
1 ATAAAA
23109035 TGCATCAAAA
Statistics
Matches: 37, Mismatches: 7, Indels: 2
0.80 0.15 0.04
Matches are distributed among these distances:
19 21 0.57
20 16 0.43
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.31
Consensus pattern (19 bp):
ATAAAAATTATAAAAAATT
Found at i:23109035 original size:29 final size:28
Alignment explanation
Indices: 23108974--23109035 Score: 88
Period size: 29 Copynumber: 2.2 Consensus size: 28
23108964 AAAATAAATA
**
23108974 AAAATTATAAAAAATTGTAAAAAATTAT
1 AAAATTATAAAAAATCATAAAAAATTAT
*
23109002 AAAATTTTATAAAAATCATAAAAAATTAT
1 AAAATTATA-AAAAATCATAAAAAATTAT
23109031 AAAAT
1 AAAAT
23109036 GCATCAAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
28 8 0.27
29 22 0.73
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.32
Consensus pattern (28 bp):
AAAATTATAAAAAATCATAAAAAATTAT
Found at i:23110096 original size:19 final size:19
Alignment explanation
Indices: 23110072--23110182 Score: 168
Period size: 19 Copynumber: 5.8 Consensus size: 19
23110062 AATCTTTAGG
23110072 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
* *
23110091 GATATGCAATATTAGTTAT
1 GATATGCAATCTTAGATAT
**
23110110 GATATATAATCTTAGATAT
1 GATATGCAATCTTAGATAT
23110129 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
**
23110148 GATATATAATCTTAGATAT
1 GATATGCAATCTTAGATAT
23110167 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
23110183 AGATATGATT
Statistics
Matches: 80, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 80 1.00
ACGTcount: A:0.39, C:0.08, G:0.14, T:0.39
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:23110123 original size:38 final size:38
Alignment explanation
Indices: 23110079--23110182 Score: 190
Period size: 38 Copynumber: 2.7 Consensus size: 38
23110069 AGGGATATGC
* *
23110079 AATCTTAGATATGATATGCAATATTAGTTATGATATAT
1 AATCTTAGATATGATATGCAATCTTAGATATGATATAT
23110117 AATCTTAGATATGATATGCAATCTTAGATATGATATAT
1 AATCTTAGATATGATATGCAATCTTAGATATGATATAT
23110155 AATCTTAGATATGATATGCAATCTTAGA
1 AATCTTAGATATGATATGCAATCTTAGA
23110183 AGATATGATT
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 64 1.00
ACGTcount: A:0.39, C:0.08, G:0.13, T:0.39
Consensus pattern (38 bp):
AATCTTAGATATGATATGCAATCTTAGATATGATATAT
Found at i:23110208 original size:22 final size:21
Alignment explanation
Indices: 23110072--23110208 Score: 105
Period size: 19 Copynumber: 6.9 Consensus size: 21
23110062 AATCTTTAGG
*
23110072 GATATGCAATCTT--AGATAT
1 GATATGTAATCTTAGAGATAT
* * *
23110091 GATATGCAATATT--AGTTAT
1 GATATGTAATCTTAGAGATAT
*
23110110 GATATATAATCTT--AGATAT
1 GATATGTAATCTTAGAGATAT
*
23110129 GATATGCAATCTT--AGATAT
1 GATATGTAATCTTAGAGATAT
*
23110148 GATATATAATCTT--AGATAT
1 GATATGTAATCTTAGAGATAT
*
23110167 GATATGCAATCTTAGAAGATAT
1 GATATGTAATCTTAG-AGATAT
*
23110189 GATTTTGTAATCTTAGAGAT
1 GA-TATGTAATCTTAGAGAT
23110209 TTAATTTGTA
Statistics
Matches: 100, Mismatches: 14, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
19 77 0.77
22 12 0.12
23 11 0.11
ACGTcount: A:0.38, C:0.07, G:0.15, T:0.39
Consensus pattern (21 bp):
GATATGTAATCTTAGAGATAT
Found at i:23120549 original size:6 final size:6
Alignment explanation
Indices: 23120540--23120566 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
23120530 ACTTAAAGAC
23120540 AAAGGA AAAGGA AAAGGA AAAGGA AAA
1 AAAGGA AAAGGA AAAGGA AAAGGA AAA
23120567 ATAGATGAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (6 bp):
AAAGGA
Found at i:23131675 original size:22 final size:22
Alignment explanation
Indices: 23131650--23131692 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
23131640 CCAGAAAAAG
23131650 TAAGATCCAATTTCAAAGTTTC
1 TAAGATCCAATTTCAAAGTTTC
*
23131672 TAAGATCCACTTTCAAAGTTT
1 TAAGATCCAATTTCAAAGTTT
23131693 TCTATTAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.35, C:0.19, G:0.09, T:0.37
Consensus pattern (22 bp):
TAAGATCCAATTTCAAAGTTTC
Found at i:23134958 original size:17 final size:17
Alignment explanation
Indices: 23134936--23134975 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
23134926 GGCCAATTTG
23134936 GGGCATGTGGACCACAC
1 GGGCATGTGGACCACAC
* *
23134953 GGGCATGTGGGCCACAT
1 GGGCATGTGGACCACAC
23134970 GGGCAT
1 GGGCAT
23134976 ATGAGCCCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.20, C:0.25, G:0.40, T:0.15
Consensus pattern (17 bp):
GGGCATGTGGACCACAC
Found at i:23136388 original size:36 final size:35
Alignment explanation
Indices: 23136347--23136425 Score: 106
Period size: 36 Copynumber: 2.2 Consensus size: 35
23136337 TACTTTCTAT
* *
23136347 TTGGTGTGTTTTGGTGGGACTAGCTCTGT-TGAGCA
1 TTGGTGTGTTCTAGTGGGACTAGCTCT-TATGAGCA
*
23136382 TCTGGTGTGTTCTAGTTGGACTAGCTCTTATGAGCA
1 T-TGGTGTGTTCTAGTGGGACTAGCTCTTATGAGCA
23136418 TTGGTGTG
1 TTGGTGTG
23136426 ATTGGCTCGT
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
35 9 0.23
36 30 0.77
ACGTcount: A:0.13, C:0.13, G:0.34, T:0.41
Consensus pattern (35 bp):
TTGGTGTGTTCTAGTGGGACTAGCTCTTATGAGCA
Found at i:23139650 original size:27 final size:28
Alignment explanation
Indices: 23139618--23139689 Score: 94
Period size: 27 Copynumber: 2.6 Consensus size: 28
23139608 CGACTTTATA
23139618 AAATTTTATAATTTTTTATA-T-TTCTAT
1 AAATTTTATAATTTTTTATATTGTTC-AT
* *
23139645 ATATTTTATAATTTTTTATGTTGTTCAT
1 AAATTTTATAATTTTTTATATTGTTCAT
*
23139673 AAATTTTACAATTTTTT
1 AAATTTTATAATTTTTT
23139690 TTATATATTT
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
27 18 0.46
28 18 0.46
29 3 0.08
ACGTcount: A:0.31, C:0.04, G:0.03, T:0.62
Consensus pattern (28 bp):
AAATTTTATAATTTTTTATATTGTTCAT
Found at i:23140071 original size:93 final size:91
Alignment explanation
Indices: 23139906--23140080 Score: 208
Period size: 93 Copynumber: 1.9 Consensus size: 91
23139896 ACGATCAAAG
* * *
23139906 GGCCTTTTTAATACATTTGGCAATTCAAGTACCTAATTGAGTGTAAAAAAAACGTAGGGGTTTAA
1 GGCCTTTTTAATACATTTGGAAATTCAAGTACCTAATTGAGTGTAAAAAAAACG-AGGAGCTTAA
*
23139971 TAGTTTTTTTTAAAAAAAAAATTTGAA
65 TAGTTTTTTTGAAAAAAAAAATTTGAA
* ** * * *
23139998 GGCCTTTTTGATATTTTTGGAAAGTTTAAGTATCTAATTGAGTGTAAAAGAAAAC-ATGAGCTTA
1 GGCCTTTTTAATACATTTGGAAA-TTCAAGTACCTAATTGAGTGTAAAA-AAAACGAGGAGCTTA
*
23140062 ATTATTTTTTTTGAAAAAA
64 A-TAGTTTTTTTGAAAAAA
23140081 TTTGAAGAAT
Statistics
Matches: 69, Mismatches: 11, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
92 26 0.38
93 38 0.55
94 5 0.07
ACGTcount: A:0.38, C:0.07, G:0.17, T:0.38
Consensus pattern (91 bp):
GGCCTTTTTAATACATTTGGAAATTCAAGTACCTAATTGAGTGTAAAAAAAACGAGGAGCTTAAT
AGTTTTTTTGAAAAAAAAAATTTGAA
Found at i:23140079 original size:92 final size:91
Alignment explanation
Indices: 23139906--23140080 Score: 210
Period size: 92 Copynumber: 1.9 Consensus size: 91
23139896 ACGATCAAAG
* * *
23139906 GGCCTTTTTAATACATTTGGCAATTCAAGTACCTAATTGAGTGTAAAAAAAACGTAGGGGTTTAA
1 GGCCTTTTTAATACATTTGGAAATTCAAGTACCTAATTGAGTGTAAAAAAAACG-AGGAGCTTAA
23139971 TAGTTTTTTTTAAAAAAAAAATTTGAA
65 TAGTTTTTTTTAAAAAAAAAATTTGAA
* ** * * *
23139998 GGCCTTTTTGATATTTTTGGAAAGTTTAAGTATCTAATTGAGTGTAAAAGAAAAC-ATGAGCTTA
1 GGCCTTTTTAATACATTTGGAAA-TTCAAGTACCTAATTGAGTGTAAAA-AAAACGAGGAGCTTA
*
23140062 ATTA-TTTTTTTTGAAAAAA
64 A-TAGTTTTTTTTAAAAAAA
23140081 TTTGAAGAAT
Statistics
Matches: 70, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
92 40 0.57
93 25 0.36
94 5 0.07
ACGTcount: A:0.38, C:0.07, G:0.17, T:0.38
Consensus pattern (91 bp):
GGCCTTTTTAATACATTTGGAAATTCAAGTACCTAATTGAGTGTAAAAAAAACGAGGAGCTTAAT
AGTTTTTTTTAAAAAAAAAATTTGAA
Found at i:23140397 original size:7 final size:7
Alignment explanation
Indices: 23140375--23140419 Score: 56
Period size: 8 Copynumber: 6.1 Consensus size: 7
23140365 GTTTAGTGAC
23140375 TAGGGTT
1 TAGGGTT
23140382 TATGGGTT
1 TA-GGGTT
23140390 TAGGGTTT
1 TAGGG-TT
23140398 TAGTGGTT
1 TAG-GGTT
23140406 TAGGG-T
1 TAGGGTT
23140412 TAGGGTT
1 TAGGGTT
23140419 T
1 T
23140420 TGTTAAAAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
6 6 0.18
7 9 0.26
8 17 0.50
9 2 0.06
ACGTcount: A:0.13, C:0.00, G:0.40, T:0.47
Consensus pattern (7 bp):
TAGGGTT
Found at i:23140528 original size:34 final size:34
Alignment explanation
Indices: 23140489--23140605 Score: 146
Period size: 34 Copynumber: 3.4 Consensus size: 34
23140479 AGGTTTAAAA
*
23140489 TTTTTAAAAAAATTAATTAAATTAGGTTTTAGGG
1 TTTTTAAAAAAATTAATTAAATTAGGATTTAGGG
* ** * *
23140523 GTTTTAAGTAAATTAATTAAATTAGGGTCTAGGG
1 TTTTTAAAAAAATTAATTAAATTAGGATTTAGGG
*
23140557 TTTTTAAGAAAAA-TAATTAAATTAAGATTTAGGG
1 TTTTTAA-AAAAATTAATTAAATTAGGATTTAGGG
23140591 TTTTTAAAAATAATT
1 TTTTTAAAAA-AATT
23140606 TTGTGTTTAT
Statistics
Matches: 69, Mismatches: 11, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
33 3 0.04
34 62 0.90
35 4 0.06
ACGTcount: A:0.42, C:0.01, G:0.15, T:0.42
Consensus pattern (34 bp):
TTTTTAAAAAAATTAATTAAATTAGGATTTAGGG
Found at i:23140892 original size:125 final size:125
Alignment explanation
Indices: 23140682--23141951 Score: 1467
Period size: 125 Copynumber: 10.2 Consensus size: 125
23140672 ATTTTGTTTT
* * * * * * * *
23140682 TTTTTCTACAGCAGTTTCTAAAAAAATTAATTTTGAGAATATGATTCTAAAAAAATAGTGAC-AA
1 TTTTTCTACAGTAGTTCCTGAAAAAA-TAATTTTGAGAAGACGGTTCTGAAAAAATAGTGTCAAA
* *
23140746 AATGCTTCAAGCAGGATGCACTGTCAGAAAAAGTACTGAAAAAAGCTCCCACGTGGACGCTC
65 AATGCTTCAAGCAGGATGCACTGTCAGCAAAATTACT-AAAAAAGCTCCCACGTGGACGCTC
* ** * * *
23140808 TTTTTCTATAGTAGTTTTTG-AAAAATAATTTTGAAAAGACGGTTCTGAAAAAATAATGTAAAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAGTGTCAAAA
* * * * * * * *
23140872 ATGCTTTAAGTAGTACGCACTGTTAGCAAAAGTACTAAAAAAAC-CCCACGTGGACACTC
66 ATGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTAAAAAAGCTCCCACGTGGACGCTC
* * * *
23140931 TTTTTGTACAGTAGTTCCTG-AAAAATAATTTTGAGAAGATGGTTTTGAAAAAATAGTGTGAAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAGTGTCAAAA
* * * * * *
23140995 CTGCTTCAAGCAGCATGCACTATTAGCAAAATTACTAAAAAAAGCTCTCACGTGGACACTC
66 ATGCTTCAAGCAGGATGCACTGTCAGCAAAATTACT-AAAAAAGCTCCCACGTGGACGCTC
* * * * **
23141056 TTTTTTTACAGTAGTTCTTG-AAAAGTAATTTTGAAAAGACAATTCTGAAAAAATAGTGTCAAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAGTGTCAAAA
* * * *
23141120 ACGCTTAAAGTAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACACTC
66 ATGCTTCAAGCAGGATGCACTGTCAGCAAAATTACT-AAAAAAGCTCCCACGTGGACGCTC
* **
23141181 TTTTTCTACAGTAGTTCTTGAAAAAATAATTTTGAGAAGATAGTTCTGAAAAAATAGTGTCAAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAGTGTCAAAA
* * * * * * * *
23141246 ACGCTTCAAGCAGGATACATTGTCAGCAAAATTACTAAAAAATCTCCCATGCGGATGCTA
66 ATGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTAAAAAAGCTCCCACGTGGACGCTC
** ** * * *
23141306 TTTTTCTATTGTAGTTTTTGAAAAAATAATTTTGAGAAGACGGTTAT-AAAAAATAATGTAAAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAGTGTCAAAA
* ** * * * * *
23141370 ACGCTTCAATTAGTATGTACTGTCAGCAAAAGTACTAAAAAAGCTCCTACATGGACGCTC
66 ATGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTAAAAAAGCTCCCACGTGGACGCTC
* * *
23141430 TTTTTCTACAGTAGCTCCTGAAAAAATAATTTTTAGAAGACGGTTCTGAAAAAATAGTGTAAAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAGTGTCAAAA
* * * * *
23141495 ATTCTTCAAGCAGGATGCACTGTAAGCAAAATTACTAAAAAAAGCTCCCACATGGATGCTT
66 ATGCTTCAAGCAGGATGCACTGTCAGCAAAATTACT-AAAAAAGCTCCCACGTGGACGCTC
* **
23141556 TTTTTCTATAACAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCTG-AAAAATAGTGTCAAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAGTGTCAAAA
* * * * * *
23141620 ACGCTTCAAGCAGGATGCACTGTCAACAAAATTACTAACAAAAGCTTCCATGTAGACACTC
66 ATGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTAA-AAAAGCTCCCACGTGGACGCTC
* * * *
23141681 TTTTTTTATAGTAGTTCCTGAAAAAATAATTCT-AAAAGACGGTTCTGAAAAAATAGTGTCAAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAGTGTCAAAA
* * * **
23141745 ATGCTTCAAGCAAGATGCACTGTCAACAAAATTACTGAAACAAGCTCCCGTGTGGACGCTC
66 ATGCTTCAAGCAGGATGCACTGTCAGCAAAATTACT-AAAAAAGCTCCCACGTGGACGCTC
** * *
23141806 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGATAGTTCTGAAAATATAGTTTCAAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAGTGTCAAAA
* ** *
23141871 ATGCTTCAAGCAGAATGCACTGTCAGCAAAATTACTGAAAAAAGCTCATACGTGGACGTTC
66 ATGCTTCAAGCAGGATGCACTGTCAGCAAAATTACT-AAAAAAGCTCCCACGTGGACGCTC
*
23141932 TTTTTCTATAGTAGTTCCTG
1 TTTTTCTACAGTAGTTCCTG
23141952 CTTGGCTTTA
Statistics
Matches: 975, Mismatches: 159, Indels: 20
0.84 0.14 0.02
Matches are distributed among these distances:
123 98 0.10
124 157 0.16
125 469 0.48
126 251 0.26
ACGTcount: A:0.39, C:0.16, G:0.16, T:0.29
Consensus pattern (125 bp):
TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAGTGTCAAAA
ATGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTAAAAAAGCTCCCACGTGGACGCTC
Found at i:23141897 original size:625 final size:625
Alignment explanation
Indices: 23140702--23141913 Score: 1684
Period size: 625 Copynumber: 1.9 Consensus size: 625
23140692 GCAGTTTCTA
* * * * * *
23140702 AAAAAATTAATTTTGAGAATATGATTCTAAAAAAATAGTGACAAAATGCTTCAAGCAGGATGCAC
1 AAAAAATTAATTTTGAGAAGACGATTATAAAAAAATAATGAAAAAACGCTTCAAGCAGGATGCAC
* * * **
23140767 TGTCAGAAAAAGTACTGAAAAAAGCTCCCACGTGGACGCTCTTTTTCTATAGTAGTTTTTGAAAA
66 TGTCAGAAAAAGTACTGAAAAAAGCTCCCACATGGACGCTCTTTTTCTACAGTAGCTCCTGAAAA
* * * *
23140832 ATAATTTTGAAAAGACGGTTCTGAAAAAATAATGTAAAAAATGCTTTAAGTAGTACGCACTGTTA
131 ATAATTTTGAAAAGACGGTTCTGAAAAAATAATGTAAAAAATGCTTCAAGCAGGACGCACTGTAA
* * **
23140897 GCAAAAGTACTAAAAAAACCCCACGTGGACACTCTTTTTGTACAGTAGTTCCTGAAAAATAATTT
196 GCAAAAGTACTAAAAAAACCCCACATGGACACTCTTTTTCTACAACAGTTCCTGAAAAATAATTT
* * * * *
23140962 TGAGAAGATGGTTTTGAAAAAATAGTGTGAAAACTGCTTCAAGCAGCATGCACTATTAGCAAAAT
261 TGAGAAGACGGTTCTGAAAAAATAGTGTAAAAACTGCTTCAAGCAGCATGCACTATCAACAAAAT
* * * *
23141027 TACTAAAAAAAGCTCTCACGTGGACACTCTTTTTTTACAGTAGTTCTTGAAAAGTAATTTTGAAA
326 TACTAAAAAAAGCTCTCACGTAGACACTCTTTTTTTACAGTAGTTCCTGAAAAATAATTCTGAAA
* * *
23141092 AGACAATTCTGAAAAAATAGTGTCAAAAACGCTTAAAGTAGGATGCACTGTCAGCAAAATTACTG
391 AGACAATTCTGAAAAAATAGTGTCAAAAACGCTTAAAGCAAGATGCACTGTCAACAAAATTACTG
*
23141157 AAAAAAGCTCCCACGTGGACACTCTTTTTCTACAGTAGTTCTTGAAAAAATAATTTTGAGAAGAT
456 AAAAAAGCTCCCACGTGGACACTCTTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGAT
* *
23141222 AGTTCTGAAAAAATAGTGTCAAAAACGCTTCAAGCAGGATACATTGTCAGCAAAATTACT-AAAA
521 AGTTCTGAAAAAATAGTGTCAAAAACGCTTCAAGCAGAATACACTGTCAGCAAAATTACTGAAAA
23141286 AATCTCCCATGCGGATGCTATTTTTCTATTGTAGTTTTTG
586 AATCTCCCATGCGGATGCTATTTTTCTATTGTAGTTTTTG
* ** * *
23141326 AAAAAA-TAATTTTGAGAAGACGGTTAT-AAAAAATAATGTAAAAAACGCTTCAATTAGTATGTA
1 AAAAAATTAATTTTGAGAAGACGATTATAAAAAAATAATG-AAAAAACGCTTCAAGCAGGATGCA
* *
23141389 CTGTCAGCAAAAGTACT-AAAAAAGCTCCTACATGGACGCTCTTTTTCTACAGTAGCTCCTGAAA
65 CTGTCAGAAAAAGTACTGAAAAAAGCTCCCACATGGACGCTCTTTTTCTACAGTAGCTCCTG-AA
* * * * *
23141453 AAATAATTTTTAGAAGACGGTTCTGAAAAAATAGTGTAAAAAATTCTTCAAGCAGGATGCACTGT
129 AAATAATTTTGAAAAGACGGTTCTGAAAAAATAATGTAAAAAATGCTTCAAGCAGGACGCACTGT
* ** * *
23141518 AAGCAAAATTACTAAAAAAAGCTCCCACATGGATGCTTTTTTTCTATAACAGTTCCTGAAAAAAT
194 AAGCAAAAGTACTAAAAAAA-C-CCCACATGGACACTCTTTTTCTACAACAGTTCCTG-AAAAAT
* *
23141583 AATTTTGAGAAGACGGTTCTG-AAAAATAGTGTCAAAAAC-GCTTCAAGCAGGATGCACTGTCAA
256 AATTTTGAGAAGACGGTTCTGAAAAAATAGTGT-AAAAACTGCTTCAAGCAGCATGCACTATCAA
* * *
23141646 CAAAATTACTAACAAAAGCT-TCCATGTAGACACTCTTTTTTTATAGTAGTTCCTGAAAAAATAA
320 CAAAATTACTAAAAAAAGCTCT-CACGTAGACACTCTTTTTTTACAGTAGTTCCTG-AAAAATAA
** * *
23141710 TTCT-AAAAGACGGTTCTGAAAAAATAGTGTCAAAAATGCTTCAAGCAAGATGCACTGTCAACAA
383 TTCTGAAAAGACAATTCTGAAAAAATAGTGTCAAAAACGCTTAAAGCAAGATGCACTGTCAACAA
* ** *
23141774 AATTACTGAAACAAGCTCCCGTGTGGACGCTCTTTTTCTACAGTAGTTCCTGAAAAAATAATTTT
448 AATTACTGAAAAAAGCTCCCACGTGGACACTCTTTTTCTACAGTAGTTCCTGAAAAAATAATTTT
* * * *
23141839 GAGAAGATAGTTCTGAAAATATAGTTTCAAAAATGCTTCAAGCAGAATGCACTGTCAGCAAAATT
513 GAGAAGATAGTTCTGAAAAAATAGTGTCAAAAACGCTTCAAGCAGAATACACTGTCAGCAAAATT
23141904 ACTGAAAAAA
578 ACTGAAAAAA
23141914 GCTCATACGT
Statistics
Matches: 511, Mismatches: 68, Indels: 16
0.86 0.11 0.03
Matches are distributed among these distances:
622 48 0.09
623 128 0.25
624 8 0.02
625 281 0.55
626 46 0.09
ACGTcount: A:0.40, C:0.15, G:0.16, T:0.29
Consensus pattern (625 bp):
AAAAAATTAATTTTGAGAAGACGATTATAAAAAAATAATGAAAAAACGCTTCAAGCAGGATGCAC
TGTCAGAAAAAGTACTGAAAAAAGCTCCCACATGGACGCTCTTTTTCTACAGTAGCTCCTGAAAA
ATAATTTTGAAAAGACGGTTCTGAAAAAATAATGTAAAAAATGCTTCAAGCAGGACGCACTGTAA
GCAAAAGTACTAAAAAAACCCCACATGGACACTCTTTTTCTACAACAGTTCCTGAAAAATAATTT
TGAGAAGACGGTTCTGAAAAAATAGTGTAAAAACTGCTTCAAGCAGCATGCACTATCAACAAAAT
TACTAAAAAAAGCTCTCACGTAGACACTCTTTTTTTACAGTAGTTCCTGAAAAATAATTCTGAAA
AGACAATTCTGAAAAAATAGTGTCAAAAACGCTTAAAGCAAGATGCACTGTCAACAAAATTACTG
AAAAAAGCTCCCACGTGGACACTCTTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGAT
AGTTCTGAAAAAATAGTGTCAAAAACGCTTCAAGCAGAATACACTGTCAGCAAAATTACTGAAAA
AATCTCCCATGCGGATGCTATTTTTCTATTGTAGTTTTTG
Found at i:23146966 original size:18 final size:18
Alignment explanation
Indices: 23146943--23146981 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
23146933 GGAAAATGAA
*
23146943 ACATATAAGAGTTAGGAT
1 ACATATAAGAGTTAGAAT
*
23146961 ACATATAAGGGTTAGAAT
1 ACATATAAGAGTTAGAAT
23146979 ACA
1 ACA
23146982 CACCTGGCAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.46, C:0.08, G:0.21, T:0.26
Consensus pattern (18 bp):
ACATATAAGAGTTAGAAT
Found at i:23148552 original size:20 final size:21
Alignment explanation
Indices: 23148524--23148562 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
23148514 ATTAATTAAA
*
23148524 ATTACATAA-ATGAAAAAAAT
1 ATTAAATAATATGAAAAAAAT
*
23148544 ATTAAATAATATTAAAAAA
1 ATTAAATAATATGAAAAAA
23148563 TTGAAACTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 8 0.50
21 8 0.50
ACGTcount: A:0.67, C:0.03, G:0.03, T:0.28
Consensus pattern (21 bp):
ATTAAATAATATGAAAAAAAT
Found at i:23150004 original size:6 final size:6
Alignment explanation
Indices: 23149993--23150032 Score: 80
Period size: 6 Copynumber: 6.7 Consensus size: 6
23149983 TAATGCTCAT
23149993 CCATTG CCATTG CCATTG CCATTG CCATTG CCATTG CCAT
1 CCATTG CCATTG CCATTG CCATTG CCATTG CCATTG CCAT
23150033 CAATATTTTA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.17, C:0.35, G:0.15, T:0.33
Consensus pattern (6 bp):
CCATTG
Found at i:23151565 original size:28 final size:28
Alignment explanation
Indices: 23151533--23151589 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
23151523 GATAATAAAG
*
23151533 ATAGAATTTTGTTTTTCTCTCAAATGGA
1 ATAGAATTTTGCTTTTCTCTCAAATGGA
23151561 ATAGAATTTTGCTTTTCTCTCAAATGGA
1 ATAGAATTTTGCTTTTCTCTCAAATGGA
23151589 A
1 A
23151590 ACGTATAGGA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.30, C:0.12, G:0.14, T:0.44
Consensus pattern (28 bp):
ATAGAATTTTGCTTTTCTCTCAAATGGA
Found at i:23152888 original size:7 final size:7
Alignment explanation
Indices: 23152876--23152908 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
23152866 TCTGAAATTG
23152876 ATATACT
1 ATATACT
23152883 ATATACT
1 ATATACT
23152890 ATATACT
1 ATATACT
23152897 ATATACT
1 ATATACT
23152904 ATATA
1 ATATA
23152909 ATGTTTCAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.45, C:0.12, G:0.00, T:0.42
Consensus pattern (7 bp):
ATATACT
Found at i:23157629 original size:86 final size:86
Alignment explanation
Indices: 23157509--23157671 Score: 222
Period size: 86 Copynumber: 1.9 Consensus size: 86
23157499 AAATTTAGAT
* * *
23157509 TCGGTGAATTCATCAAGTACGTCTCAATAAGACCATCCACACTCTCGAATATGAACTCATTAAAA
1 TCGGTGAATTCATCAAGTACATCTCAATAAGACCACCCAAACTCTCGAATATGAACTCATTAAAA
23157574 GTATA-AACTCAACATCTCAAG
66 GTA-AGAACTCAACATCTCAAG
* * ** *
23157595 TCGGTGAATTCATCAAGT-CTATCTCAATAGGACCACCCAAACTCTTGGCTATGAACTCATTAAG
1 TCGGTGAATTCATCAAGTAC-ATCTCAATAAGACCACCCAAACTCTCGAATATGAACTCATTAAA
23157659 AGTAAGAACTCAA
65 AGTAAGAACTCAA
23157672 ACTTATGCAT
Statistics
Matches: 67, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
85 2 0.03
86 65 0.97
ACGTcount: A:0.37, C:0.24, G:0.13, T:0.26
Consensus pattern (86 bp):
TCGGTGAATTCATCAAGTACATCTCAATAAGACCACCCAAACTCTCGAATATGAACTCATTAAAA
GTAAGAACTCAACATCTCAAG
Found at i:23165849 original size:10 final size:11
Alignment explanation
Indices: 23165777--23165870 Score: 58
Period size: 12 Copynumber: 8.8 Consensus size: 11
23165767 CACTCTCACT
23165777 TTCTTTTTCAA
1 TTCTTTTTCAA
**
23165788 TTTCTTTTTCGTT
1 -TTCTTTTTC-AA
23165801 TTCTTTTTCACA
1 TTCTTTTTCA-A
* *
23165813 ATCTTTTTCGA
1 TTCTTTTTCAA
23165824 TTC-TTTTC--
1 TTCTTTTTCAA
*
23165832 -TCTCTTTCAA
1 TTCTTTTTCAA
23165842 TT-TTTTTC--
1 TTCTTTTTCAA
23165850 TTCTTTTTCAA
1 TTCTTTTTCAA
23165861 TCTCTTTTTC
1 T-TCTTTTTC
23165871 TTTTTCATTA
Statistics
Matches: 63, Mismatches: 9, Indels: 20
0.68 0.10 0.22
Matches are distributed among these distances:
7 2 0.03
8 6 0.10
9 6 0.10
10 10 0.16
11 5 0.08
12 34 0.54
ACGTcount: A:0.11, C:0.21, G:0.02, T:0.66
Consensus pattern (11 bp):
TTCTTTTTCAA
Found at i:23165860 original size:19 final size:19
Alignment explanation
Indices: 23165814--23165877 Score: 69
Period size: 18 Copynumber: 3.5 Consensus size: 19
23165804 TTTTTCACAA
* *
23165814 TCTTTTTCGATTCTTTTC-
1 TCTTTTTCAATTTTTTTCT
*
23165832 TCTCTTTCAATTTTTTTCT
1 TCTTTTTCAATTTTTTTCT
* *
23165851 TCTTTTTCAATCTCTTT-T
1 TCTTTTTCAATTTTTTTCT
23165869 TCTTTTTCA
1 TCTTTTTCA
23165878 TTACAACATG
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
18 25 0.64
19 14 0.36
ACGTcount: A:0.09, C:0.22, G:0.02, T:0.67
Consensus pattern (19 bp):
TCTTTTTCAATTTTTTTCT
Found at i:23167795 original size:40 final size:40
Alignment explanation
Indices: 23167735--23167811 Score: 127
Period size: 40 Copynumber: 1.9 Consensus size: 40
23167725 TCTGCCTTGG
* *
23167735 GAAGCTGAACATGCAGCAACATTTTAATGGGAGTTTTTTA
1 GAAGCTGAACATGCAACAACATTTTAATAGGAGTTTTTTA
*
23167775 GAAGCTGAACGTGCAACAACATTTTAATAGGAGTTTT
1 GAAGCTGAACATGCAACAACATTTTAATAGGAGTTTT
23167812 GGAGCACGAA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.34, C:0.13, G:0.22, T:0.31
Consensus pattern (40 bp):
GAAGCTGAACATGCAACAACATTTTAATAGGAGTTTTTTA
Found at i:23170525 original size:18 final size:17
Alignment explanation
Indices: 23170496--23170531 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
23170486 ATCTCTCCCG
*
23170496 TTTTGAAATATTATAAA
1 TTTTGAAATATTAGAAA
23170513 TTTTGATAATATTAGAAA
1 TTTTGA-AATATTAGAAA
23170531 T
1 T
23170532 CAACTACCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 6 0.35
18 11 0.65
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.47
Consensus pattern (17 bp):
TTTTGAAATATTAGAAA
Found at i:23171178 original size:16 final size:16
Alignment explanation
Indices: 23171150--23171192 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
23171140 AGTTAAAATG
23171150 TAATTTCATAATTGTAT
1 TAATTT-ATAATTGTAT
*
23171167 TAATTTATAATTTTAT
1 TAATTTATAATTGTAT
* *
23171183 AAATATATAA
1 TAATTTATAA
23171193 ATATATTGTC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
16 17 0.74
17 6 0.26
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.51
Consensus pattern (16 bp):
TAATTTATAATTGTAT
Found at i:23175735 original size:21 final size:22
Alignment explanation
Indices: 23175709--23175749 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
23175699 AAAAATAAAC
23175709 TGCTATTTT-TTGTTATTTTAA
1 TGCTATTTTCTTGTTATTTTAA
*
23175730 TGCTATTTTCTTGTTGTTTT
1 TGCTATTTTCTTGTTATTTT
23175750 CTCCGTATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.12, C:0.07, G:0.12, T:0.68
Consensus pattern (22 bp):
TGCTATTTTCTTGTTATTTTAA
Found at i:23176591 original size:6 final size:7
Alignment explanation
Indices: 23176570--23176601 Score: 55
Period size: 7 Copynumber: 4.4 Consensus size: 7
23176560 GAAAATCCTG
23176570 AAATAAA
1 AAATAAA
23176577 AAATAAA
1 AAATAAA
23176584 AAATAAA
1 AAATAAA
23176591 AAATGAAA
1 AAAT-AAA
23176599 AAA
1 AAA
23176602 AGTTTATAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 18 0.75
8 6 0.25
ACGTcount: A:0.84, C:0.00, G:0.03, T:0.12
Consensus pattern (7 bp):
AAATAAA
Found at i:23182074 original size:21 final size:23
Alignment explanation
Indices: 23182035--23182077 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 23
23182025 ATTCAAAATA
23182035 AAATAATACAGTCTAAAAATATC
1 AAATAATACAGTCTAAAAATATC
*
23182058 AAATAATA-A-TCTTAAAATAT
1 AAATAATACAGTCTAAAAATAT
23182078 TTTTAATAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 10 0.53
22 1 0.05
23 8 0.42
ACGTcount: A:0.58, C:0.09, G:0.02, T:0.30
Consensus pattern (23 bp):
AAATAATACAGTCTAAAAATATC
Found at i:23182907 original size:34 final size:33
Alignment explanation
Indices: 23182802--23182899 Score: 142
Period size: 34 Copynumber: 2.9 Consensus size: 33
23182792 GAGCAATACG
*
23182802 GTAGCAATCAATATGCTTATAACAGTTCAATATA
1 GTAGCAAT-AATATGCTTATAACAGTTCAATAAA
*
23182836 GTAGCAAATAATATGCTTATAACGGTTCAATAAA
1 GTAGC-AATAATATGCTTATAACAGTTCAATAAA
*
23182870 GTAGCAAGTAATATGCTTATAACAGATCAA
1 GTAGCAA-TAATATGCTTATAACAGTTCAA
23182900 CTCAGTAGTA
Statistics
Matches: 58, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
33 2 0.03
34 53 0.91
35 3 0.05
ACGTcount: A:0.43, C:0.13, G:0.14, T:0.30
Consensus pattern (33 bp):
GTAGCAATAATATGCTTATAACAGTTCAATAAA
Found at i:23184182 original size:11 final size:11
Alignment explanation
Indices: 23184166--23184190 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
23184156 AACTTGTTCA
23184166 AATTAATCATC
1 AATTAATCATC
23184177 AATTAATCATC
1 AATTAATCATC
23184188 AAT
1 AAT
23184191 ACACAAACAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.48, C:0.16, G:0.00, T:0.36
Consensus pattern (11 bp):
AATTAATCATC
Found at i:23192706 original size:26 final size:28
Alignment explanation
Indices: 23192677--23192728 Score: 72
Period size: 26 Copynumber: 1.9 Consensus size: 28
23192667 TTTTTTCTTT
*
23192677 TAAAAAAACATAAATT-T-AAAAAAATG
1 TAAAAAAACAAAAATTGTCAAAAAAATG
*
23192703 TAAAAATACAAAAATTGTCAAAAAAA
1 TAAAAAAACAAAAATTGTCAAAAAAA
23192729 AACCTCTGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 14 0.64
27 1 0.05
28 7 0.32
ACGTcount: A:0.69, C:0.06, G:0.04, T:0.21
Consensus pattern (28 bp):
TAAAAAAACAAAAATTGTCAAAAAAATG
Found at i:23193154 original size:18 final size:17
Alignment explanation
Indices: 23193114--23193160 Score: 51
Period size: 18 Copynumber: 2.7 Consensus size: 17
23193104 TTTAAAAAAA
*
23193114 ATATTTTTTTAATTTCT
1 ATATTTTTTTAAATTCT
23193131 -TGATTTTTTTATAATTCT
1 AT-ATTTTTTTA-AATTCT
*
23193149 ATATTTCTTTAA
1 ATATTTTTTTAA
23193161 TTTTTAATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
16 1 0.04
17 10 0.40
18 13 0.52
19 1 0.04
ACGTcount: A:0.26, C:0.06, G:0.02, T:0.66
Consensus pattern (17 bp):
ATATTTTTTTAAATTCT
Found at i:23194129 original size:12 final size:12
Alignment explanation
Indices: 23194114--23194156 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
23194104 TGATAAATAA
*
23194114 TAAAATAATATT
1 TAAAATAAAATT
*
23194126 TAAAATAAAATG
1 TAAAATAAAATT
*
23194138 CAATAATAAAATT
1 TAA-AATAAAATT
23194151 TAAAAT
1 TAAAAT
23194157 TAACATCATA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
12 15 0.60
13 10 0.40
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (12 bp):
TAAAATAAAATT
Found at i:23197677 original size:29 final size:29
Alignment explanation
Indices: 23197629--23197684 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
23197619 GTCGTACATA
** *
23197629 GTCTGGCACACGACTGTGTGTCACACACG
1 GTCTGGCACACGACCATGTGCCACACACG
23197658 GTCTGGCACACGACCATGTGCCACACA
1 GTCTGGCACACGACCATGTGCCACACA
23197685 TGGCCTACCA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.23, C:0.34, G:0.25, T:0.18
Consensus pattern (29 bp):
GTCTGGCACACGACCATGTGCCACACACG
Found at i:23198054 original size:16 final size:16
Alignment explanation
Indices: 23198033--23198063 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
23198023 AATTTCATAA
*
23198033 AACCAATTACAACAAG
1 AACCAATTAAAACAAG
23198049 AACCAATTAAAACAA
1 AACCAATTAAAACAA
23198064 CCTCTTTACA
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:0.61, C:0.23, G:0.03, T:0.13
Consensus pattern (16 bp):
AACCAATTAAAACAAG
Found at i:23202464 original size:6 final size:6
Alignment explanation
Indices: 23202453--23202479 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
23202443 ATGTGCAACT
23202453 CAATAC CAATAC CAATAC CAATAC CAA
1 CAATAC CAATAC CAATAC CAATAC CAA
23202480 GCAGACAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.52, C:0.33, G:0.00, T:0.15
Consensus pattern (6 bp):
CAATAC
Found at i:23202755 original size:23 final size:23
Alignment explanation
Indices: 23202729--23202773 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
23202719 TGATTTTGAA
*
23202729 TATTATTTGACAAA-ATTTCTAAG
1 TATT-TTTCACAAATATTTCTAAG
*
23202752 TATTTTTCATAAATATTTCTAA
1 TATTTTTCACAAATATTTCTAA
23202774 AAAATAATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.38, C:0.09, G:0.04, T:0.49
Consensus pattern (23 bp):
TATTTTTCACAAATATTTCTAAG
Found at i:23225413 original size:232 final size:232
Alignment explanation
Indices: 23225003--23225462 Score: 722
Period size: 232 Copynumber: 2.0 Consensus size: 232
23224993 GCTGCCTATC
* ** *
23225003 GAGAAAGACTCAGTTTGAGCCCACAAAACCCAAATCCATGACTACCATATGAACTCATTTCAATA
1 GAGAAAGACTCAGCTTGAGCCCACAAAACCCAAATCCACAACTACCATATGAACTCATTTCAACA
*
23225068 AAGTATCTACAATGTCAGAAATACACAGATCAGTTTAGAGTCTTCACCACAGTTCTCATGTCAAT
66 AAGTATCTACAATGTCAGAAATACACAGATCAGTTCAGAGTCTTCACCACAGTTCTCATGTCAAT
*
23225133 TCATATTAGAATGTTTGACCAAACCACAGTTTCAATCACTACTATGTCTCAACAAATCATAATAA
131 TCATATTAGAATGTTTGACCAAACCACAGTTTCAATCACTACTATGTCTCAACAAATCACAATAA
* *
23225198 CTAAACAGGAATACTTATAGGTTTAGTGTCAGACATT
196 CTAAACAGGAATACTTACAAGTTTAGTGTCAGACATT
* * ** *
23225235 GAGAAAGACTCAGCTTGAGCCCATAAAACTCACGTCCACAACTACCATGTGAACTCATTTCAACA
1 GAGAAAGACTCAGCTTGAGCCCACAAAACCCAAATCCACAACTACCATATGAACTCATTTCAACA
* * * * *
23225300 AATTATCTACAATGTCAGAAATGCATAGATCAGTTCAGAGTCTTTACCACAGTTCTTATGTCAAT
66 AAGTATCTACAATGTCAGAAATACACAGATCAGTTCAGAGTCTTCACCACAGTTCTCATGTCAAT
* * *
23225365 TCATTTTAGAATGTTTGACCAAGCCACAGTTTCAATCACTATTATGTCTCAACAAATCACAATAA
131 TCATATTAGAATGTTTGACCAAACCACAGTTTCAATCACTACTATGTCTCAACAAATCACAATAA
*
23225430 CTGAACAGGAATACTTACAAGTTTAGTGTCAGA
196 CTAAACAGGAATACTTACAAGTTTAGTGTCAGA
23225463 AACTCGATCC
Statistics
Matches: 206, Mismatches: 22, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
232 206 1.00
ACGTcount: A:0.37, C:0.22, G:0.13, T:0.28
Consensus pattern (232 bp):
GAGAAAGACTCAGCTTGAGCCCACAAAACCCAAATCCACAACTACCATATGAACTCATTTCAACA
AAGTATCTACAATGTCAGAAATACACAGATCAGTTCAGAGTCTTCACCACAGTTCTCATGTCAAT
TCATATTAGAATGTTTGACCAAACCACAGTTTCAATCACTACTATGTCTCAACAAATCACAATAA
CTAAACAGGAATACTTACAAGTTTAGTGTCAGACATT
Found at i:23226020 original size:22 final size:22
Alignment explanation
Indices: 23225995--23226055 Score: 68
Period size: 22 Copynumber: 2.8 Consensus size: 22
23225985 ACATAGTATG
* *
23225995 TCAGATACAGATGCAGAACATA
1 TCAGATTCAGATGCAGAACAAA
* * * *
23226017 TCAGATTTATATGTAGAATAAA
1 TCAGATTCAGATGCAGAACAAA
23226039 TCAGATTCAGATGCAGA
1 TCAGATTCAGATGCAGA
23226056 TTTCTAACCC
Statistics
Matches: 30, Mismatches: 9, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.43, C:0.13, G:0.18, T:0.26
Consensus pattern (22 bp):
TCAGATTCAGATGCAGAACAAA
Found at i:23227345 original size:749 final size:749
Alignment explanation
Indices: 23225891--23229409 Score: 6233
Period size: 749 Copynumber: 4.7 Consensus size: 749
23225881 ATTTAGTACT
* * *
23225891 AATTAGTAAACTACAATTGTTATCTCATTTACCGTAGATCATCTGTTACTCAGAATTAGATACAG
1 AATTAGTAAACTACAATTGTAATCTCATTTACCGTAGATCATCCGTTACTCAGAATTAGATACAA
* *
23225956 AATAGAAACAAAGAAAGTCGGATATAGTTACATAGTATGTCAGATACAGATGCAGAACATATCAG
66 AATAGAAACAAAGAAAGTCGGATACAGTTACATGGTATGTCAGATACAGATGCAGAACATATCAG
* * *
23226021 ATTTATATGTAGAATAAATCAGATTCAGATGCAGATTTCTAACCCTATCTATTACACACCATCTT
131 ATTTATATGTAGAATAAATCAGATTCAGATGCAGATTTCTAACCCCATCCATTACACACCATCTC
* * *
23226086 TATCCATCTCAACACACCATATAGGGCATCAAGTACTCGTCCATCCATACACTGC-TAATGACTA
196 CATCCATCCCAACACACCATATAGGGCATCAAGTACTCGTCCATCCCTACACTGCGTAATGACTA
* * * * *
23226150 TATCTCACGTTTCAGAATAATCAAAGCGTAATTGTCAAATCAGAATGCGATAAATCGCCACAGAT
261 TATCTCACATTTCAGAATAATCACAGCGTAGTTGCCAGATCAGAATGCGATAAATCGCCACAGAT
* * * *
23226215 TTAATAGATAATTAAACAGTCACACTTCCTTC-TTAAACAACACCAATCTCAATACGAATGCAAT
326 TCAATAGATAATTAAACAGTCACACTTCCTTCTTTATACAGCACCAATCTCAATGCGAATGCAAT
*
23226279 CCAACGGATGCAGATATAAGTATGCGGAGTAACAAATTCGGATCATACTCAATGTTATGTGTATA
391 CCAACGGATGCAGATATAAGTATGCGGAGTAACAGATTCGGATCATACTCAATGTTATGTGTATA
* *
23226344 ATAATAGTTTATACAAAAAC-----ACCCACTAATGGATTTCATAGCCAAAATTAGATCATACTA
456 ATAATAGTTTATACAAAAACAAATTACCCACTAATGGATTTCATAGCCCAAATTAGATCATACTG
23226404 GCTCTACTGTTACATGGTATGTCAGATACAGATGTAGAACATATCAGATTTATATGTAGAATAAA
521 GCTCTACTGTTACATGGTATGTCAGATACAGATGTAGAACATATCAGATTTATATGTAGAATAAA
*
23226469 TTAGATTCAGATGCAGATTTCTAACCCCATCCATTACACACCATCTCTATCCATCCCAACACACC
586 TCAGATTCAGATGCAGATTTCTAACCCCATCCATTACACACCATCTCTATCCATCCCAACACACC
*
23226534 ATATAGGGCATCAAGTACTCGTCCATCCCTACACTGCGTAATGACTATATGTCACATTTCAGAAT
651 ATATAGGGCATCAAGTACTCGTCCATCCCTACACTGCGTAATGACTATATGTCACGTTTCAGAAT
*
23226599 AATCGTAGCGTAGCTGCCAGATCAGAATGCAATA
716 AATCGCAGCGTAGCTGCCAGATCAGAATGCAATA
* * *
23226633 AATTAGTAAACTACAATTGTAATATCATTTATCGTAGATCATCTGTTACTCAGAATTAGATACAA
1 AATTAGTAAACTACAATTGTAATCTCATTTACCGTAGATCATCCGTTACTCAGAATTAGATACAA
* *
23226698 AATATAAACAAAGAAAGTCGGATACAGTTACATGGTATGTCAGACACAGATGCAGAACATATCAG
66 AATAGAAACAAAGAAAGTCGGATACAGTTACATGGTATGTCAGATACAGATGCAGAACATATCAG
23226763 ATTTATATGTAGAATAAATCAGATTCAGATGCAGATTTCTAACCCCATCCATTACACACCATCTC
131 ATTTATATGTAGAATAAATCAGATTCAGATGCAGATTTCTAACCCCATCCATTACACACCATCTC
* *
23226828 CATCCATCCCAACACACCATATAAGGCATCAAATACTCGTCCATCCCTACACTGCGTAATGACTA
196 CATCCATCCCAACACACCATATAGGGCATCAAGTACTCGTCCATCCCTACACTGCGTAATGACTA
** * *
23226893 TATCTCATGTTTCAGAATAATCACAGCGTAGCTGCCAGATCAGAATGCGATAAATCGTCACAGAT
261 TATCTCACATTTCAGAATAATCACAGCGTAGTTGCCAGATCAGAATGCGATAAATCGCCACAGAT
* *
23226958 TCAATAGATAATTAAACAGTCACACTTCTTTCTTTATACAGCACCAATCTGAATGCGAATGCAAT
326 TCAATAGATAATTAAACAGTCACACTTCCTTCTTTATACAGCACCAATCTCAATGCGAATGCAAT
* *
23227023 CTAACGGATGCAGATATAAGTATGCGGAGTAACAGATTCGGATCATTCTCAATGTTATGTGTATA
391 CCAACGGATGCAGATATAAGTATGCGGAGTAACAGATTCGGATCATACTCAATGTTATGTGTATA
23227088 ATAATAGTTTATACAAAAACAAATTACCCACTAATGGATTTCATAGCCCAAATTAGATCATACTG
456 ATAATAGTTTATACAAAAACAAATTACCCACTAATGGATTTCATAGCCCAAATTAGATCATACTG
23227153 GCTCTACTGTTACATGGTATGTCAGATACAGATGTAGAACATATCAGATTTATATGTAGAATAAA
521 GCTCTACTGTTACATGGTATGTCAGATACAGATGTAGAACATATCAGATTTATATGTAGAATAAA
*
23227218 TCAGATTCAGATGCAGATTTCTAACCCCATTCATTACACACCATCTCTATCCATCCCAACACACC
586 TCAGATTCAGATGCAGATTTCTAACCCCATCCATTACACACCATCTCTATCCATCCCAACACACC
23227283 ATATAGGGCATCAAGTACTCGTCCATCCCTACACTGCGTAATGACTATATGTCACGTTTCAGAAT
651 ATATAGGGCATCAAGTACTCGTCCATCCCTACACTGCGTAATGACTATATGTCACGTTTCAGAAT
23227348 AATCGCAGCGTAGCTGCCAGATCAGAATGCAATA
716 AATCGCAGCGTAGCTGCCAGATCAGAATGCAATA
23227382 AATTAGTAAACTACAATTGTAATCTCATTTACCGTAGATCATCCGTTACTCAGAATTAGATACAA
1 AATTAGTAAACTACAATTGTAATCTCATTTACCGTAGATCATCCGTTACTCAGAATTAGATACAA
* * *
23227447 AATAGAAACAAAGAAAGTCGGATATAGTTACATGGTATGCCAGACACAGATGCAGAACATATCAG
66 AATAGAAACAAAGAAAGTCGGATACAGTTACATGGTATGTCAGATACAGATGCAGAACATATCAG
23227512 ATTTATATGTAGAATAAATCAGATTCAGATGCAGATTTCTAACCCCATCCATTACACACCATCTC
131 ATTTATATGTAGAATAAATCAGATTCAGATGCAGATTTCTAACCCCATCCATTACACACCATCTC
23227577 CATCCATCCCAACACACCATATAGGGCATCAAGTACTCGTCCATCCCTACACTGCGTAATGACTA
196 CATCCATCCCAACACACCATATAGGGCATCAAGTACTCGTCCATCCCTACACTGCGTAATGACTA
* * * *
23227642 TATATCACATTTTAGAATAATCACAGCGTCGTTGCCAGATCAGAATGCGATAAATCGCCATAGAT
261 TATCTCACATTTCAGAATAATCACAGCGTAGTTGCCAGATCAGAATGCGATAAATCGCCACAGAT
*
23227707 TCAATAGATAATTAAACAGTCACACTTCCTTCTTTATACAGCACCAATCCCAATGCGAATGCAAT
326 TCAATAGATAATTAAACAGTCACACTTCCTTCTTTATACAGCACCAATCTCAATGCGAATGCAAT
* *
23227772 CCAACGGATGCATATTTAAGTATGCGGAGTAACAGATTCGGATCATACTCAATGTTATGTGTATA
391 CCAACGGATGCAGATATAAGTATGCGGAGTAACAGATTCGGATCATACTCAATGTTATGTGTATA
* *
23227837 ATAATAGTTTATACAAAAACAAATTATCCACTAATAGATTTCATAGCCCAAATTAGATCATACTG
456 ATAATAGTTTATACAAAAACAAATTACCCACTAATGGATTTCATAGCCCAAATTAGATCATACTG
* * *
23227902 GCTCTACTGTTACATGGTATGTTAGATATAGATGTAGAACATATCATATTTATATGTAGAATAAA
521 GCTCTACTGTTACATGGTATGTCAGATACAGATGTAGAACATATCAGATTTATATGTAGAATAAA
*
23227967 TCAGATTCAGATGCAGATTTTTAACCCCATCCATTACACACCATCTCTATCCATCCCAACACACC
586 TCAGATTCAGATGCAGATTTCTAACCCCATCCATTACACACCATCTCTATCCATCCCAACACACC
*
23228032 ATATAGGGTATCAAGTACTCGTCCATCCCTACACTGCGTAATGACTATATGTCACGTTTCAGAAT
651 ATATAGGGCATCAAGTACTCGTCCATCCCTACACTGCGTAATGACTATATGTCACGTTTCAGAAT
23228097 AATCGCAGCGTAGCTGCCAGATCAGAATGCAATA
716 AATCGCAGCGTAGCTGCCAGATCAGAATGCAATA
*
23228131 AATTAGGAAACTACAATTGTAATCTCATTTACCGTAGATCATCCGTTACTCAGAATTAGATACAA
1 AATTAGTAAACTACAATTGTAATCTCATTTACCGTAGATCATCCGTTACTCAGAATTAGATACAA
23228196 AATAGAAACAAAGAAAGTCGGATACAGTTACATGGTATGTCAGATACAGATGCAGAACATATCAG
66 AATAGAAACAAAGAAAGTCGGATACAGTTACATGGTATGTCAGATACAGATGCAGAACATATCAG
* * *
23228261 ATTTATATGTAGAATAAATCAGATTCAAATGCAAATTTCTAACCCTATCCATTACACACCATCTC
131 ATTTATATGTAGAATAAATCAGATTCAGATGCAGATTTCTAACCCCATCCATTACACACCATCTC
*
23228326 CATCCATCCCAACACACCATATAGGGCATCAAGTACTCGTCCATCCTTACACTGCGTAATGACTA
196 CATCCATCCCAACACACCATATAGGGCATCAAGTACTCGTCCATCCCTACACTGCGTAATGACTA
* * * *
23228391 TATCTCATATTTTAGAATAATCACAGCGTAGCTGCCAGATCAGAATGCGATAAATCCCCACAGAT
261 TATCTCACATTTCAGAATAATCACAGCGTAGTTGCCAGATCAGAATGCGATAAATCGCCACAGAT
23228456 TCAATAGATAATTAAACAGTCACACTTCCTTCTTTATACAGCACCAATCTCAATGCGAATGCAAT
326 TCAATAGATAATTAAACAGTCACACTTCCTTCTTTATACAGCACCAATCTCAATGCGAATGCAAT
*
23228521 CCAACGGATGCAGATATAAGTTTGCGGAGTAACAGATTCGGATCATACTCAATGTTATGTGTATA
391 CCAACGGATGCAGATATAAGTATGCGGAGTAACAGATTCGGATCATACTCAATGTTATGTGTATA
* *
23228586 ATAATAGTTTATACAAAAACCAATTACCCACTAATAGATTTCATAGCCCAAATTAGATCATACTG
456 ATAATAGTTTATACAAAAACAAATTACCCACTAATGGATTTCATAGCCCAAATTAGATCATACTG
* *
23228651 GCTCTACTGTTACATGGTATGTTAGATATAGATGTAGAACATATCAGATTTATATGTAGAATAAA
521 GCTCTACTGTTACATGGTATGTCAGATACAGATGTAGAACATATCAGATTTATATGTAGAATAAA
23228716 TCAGATTCAGATGCAGATTTCTAACCCCATCCATTACACACCATCTCTATCCATCCCAACACACC
586 TCAGATTCAGATGCAGATTTCTAACCCCATCCATTACACACCATCTCTATCCATCCCAACACACC
23228781 ATATAGGGCATCAAGTACTCGTCCATCCCTACACTGCGTAATGACTATATGTCACGTTTCAGAAT
651 ATATAGGGCATCAAGTACTCGTCCATCCCTACACTGCGTAATGACTATATGTCACGTTTCAGAAT
*
23228846 AATCGCAGCGTAGCTGCCAGATCAGAATGTAATA
716 AATCGCAGCGTAGCTGCCAGATCAGAATGCAATA
23228880 AATTAGTAAACTACAATTGTAATCTCATTTACCGTAGATCATCCGTTACTCAGAATTAGATACAA
1 AATTAGTAAACTACAATTGTAATCTCATTTACCGTAGATCATCCGTTACTCAGAATTAGATACAA
*
23228945 AATAGAAACAAAGAAAGTCGGATACAGTTACATGGTATGTCAGATACAGATGCAAAACATATCAG
66 AATAGAAACAAAGAAAGTCGGATACAGTTACATGGTATGTCAGATACAGATGCAGAACATATCAG
23229010 ATTTATATGTAGAATAAATCAGATTCAGATGCAGATTTCTAACCCCATCCATTACACACCATCTC
131 ATTTATATGTAGAATAAATCAGATTCAGATGCAGATTTCTAACCCCATCCATTACACACCATCTC
*
23229075 TATCCATCCCAACACACCATATAGGGCATCAAGTACTCGTCCATCCCTACACTGCGTAATGACTA
196 CATCCATCCCAACACACCATATAGGGCATCAAGTACTCGTCCATCCCTACACTGCGTAATGACTA
* * * *
23229140 TATGTCACATTTCAGAATAATCGCAGCGTAGTTGCCAGATCAGAATGTGATAAATCACCACAGAT
261 TATCTCACATTTCAGAATAATCACAGCGTAGTTGCCAGATCAGAATGCGATAAATCGCCACAGAT
* *
23229205 TTAATAGATAATTAAATAGTCACACTTCCTTCTTTATACAGCACCAATCTCAATGCGAATGCAAT
326 TCAATAGATAATTAAACAGTCACACTTCCTTCTTTATACAGCACCAATCTCAATGCGAATGCAAT
* *
23229270 CCAACGGATGCAAATATAAGTATGCGGAGTAACAGATTCGGATCATACTCAATTTTATGTGTATA
391 CCAACGGATGCAGATATAAGTATGCGGAGTAACAGATTCGGATCATACTCAATGTTATGTGTATA
23229335 ATAATAGTTTATACAAAAACAAATTACCCACTAATGGATTTCATAGCCCAAATTAGATCATACTG
456 ATAATAGTTTATACAAAAACAAATTACCCACTAATGGATTTCATAGCCCAAATTAGATCATACTG
23229400 GCTCTACTGT
521 GCTCTACTGT
23229410 AGGCCTATGT
Statistics
Matches: 2656, Mismatches: 114, Indels: 7
0.96 0.04 0.00
Matches are distributed among these distances:
742 234 0.09
743 97 0.04
744 110 0.04
749 2215 0.83
ACGTcount: A:0.36, C:0.22, G:0.14, T:0.28
Consensus pattern (749 bp):
AATTAGTAAACTACAATTGTAATCTCATTTACCGTAGATCATCCGTTACTCAGAATTAGATACAA
AATAGAAACAAAGAAAGTCGGATACAGTTACATGGTATGTCAGATACAGATGCAGAACATATCAG
ATTTATATGTAGAATAAATCAGATTCAGATGCAGATTTCTAACCCCATCCATTACACACCATCTC
CATCCATCCCAACACACCATATAGGGCATCAAGTACTCGTCCATCCCTACACTGCGTAATGACTA
TATCTCACATTTCAGAATAATCACAGCGTAGTTGCCAGATCAGAATGCGATAAATCGCCACAGAT
TCAATAGATAATTAAACAGTCACACTTCCTTCTTTATACAGCACCAATCTCAATGCGAATGCAAT
CCAACGGATGCAGATATAAGTATGCGGAGTAACAGATTCGGATCATACTCAATGTTATGTGTATA
ATAATAGTTTATACAAAAACAAATTACCCACTAATGGATTTCATAGCCCAAATTAGATCATACTG
GCTCTACTGTTACATGGTATGTCAGATACAGATGTAGAACATATCAGATTTATATGTAGAATAAA
TCAGATTCAGATGCAGATTTCTAACCCCATCCATTACACACCATCTCTATCCATCCCAACACACC
ATATAGGGCATCAAGTACTCGTCCATCCCTACACTGCGTAATGACTATATGTCACGTTTCAGAAT
AATCGCAGCGTAGCTGCCAGATCAGAATGCAATA
Found at i:23229963 original size:24 final size:24
Alignment explanation
Indices: 23229936--23229983 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
23229926 AAAAACTTCG
23229936 ACACTAACCTAAAAAGTAAAGTAA
1 ACACTAACCTAAAAAGTAAAGTAA
23229960 ACACTAACCTAAAAAGTAAAGTAA
1 ACACTAACCTAAAAAGTAAAGTAA
23229984 CTCTTACCGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.58, C:0.17, G:0.08, T:0.17
Consensus pattern (24 bp):
ACACTAACCTAAAAAGTAAAGTAA
Found at i:23232578 original size:68 final size:68
Alignment explanation
Indices: 23232469--23232624 Score: 213
Period size: 68 Copynumber: 2.3 Consensus size: 68
23232459 CAGTTATGAT
* * * * * * *
23232469 CTTACACAAATTAAACTCATGTTTACTGTCCTAACGGACTCCATATGTTGCCATAGTCTAGCTAT
1 CTTACACATATTAAACCCATGTTCACTATCCTAACGAACTCCATATGTTGCCATAGACTAACTAT
23232534 GGG
66 GGG
** *
23232537 CTTACACATATTAAACCCATGTTCACTATCCTGGCGAACTCCTTATGTTGCCATAGACTAACTAT
1 CTTACACATATTAAACCCATGTTCACTATCCTAACGAACTCCATATGTTGCCATAGACTAACTAT
*
23232602 GGT
66 GGG
23232605 CTTACACATATTAAACCCAT
1 CTTACACATATTAAACCCAT
23232625 ATTTAACTGG
Statistics
Matches: 77, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
68 77 1.00
ACGTcount: A:0.29, C:0.26, G:0.13, T:0.32
Consensus pattern (68 bp):
CTTACACATATTAAACCCATGTTCACTATCCTAACGAACTCCATATGTTGCCATAGACTAACTAT
GGG
Found at i:23234518 original size:25 final size:25
Alignment explanation
Indices: 23234475--23234531 Score: 80
Period size: 25 Copynumber: 2.3 Consensus size: 25
23234465 TGTAACTAAA
*
23234475 TATTAGG-CTTGTGCAAGTGTTATC
1 TATTAGGCCTTGTGCAAGTGTCATC
*
23234499 TATTAGGCCTTGTGCTAGTGTCATC
1 TATTAGGCCTTGTGCAAGTGTCATC
*
23234524 TATCAGGC
1 TATTAGGC
23234532 TTTGAGCCGG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
24 7 0.24
25 22 0.76
ACGTcount: A:0.19, C:0.18, G:0.25, T:0.39
Consensus pattern (25 bp):
TATTAGGCCTTGTGCAAGTGTCATC
Found at i:23234772 original size:28 final size:28
Alignment explanation
Indices: 23234732--23234787 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
23234722 TATCGTGAGC
23234732 TAGTCAAAATTCTGAAGTTAACTCGAAT
1 TAGTCAAAATTCTGAAGTTAACTCGAAT
23234760 TAGTCAAAATTCTGAAGTTAACTCGAAT
1 TAGTCAAAATTCTGAAGTTAACTCGAAT
23234788 GAGTGATACC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.39, C:0.14, G:0.14, T:0.32
Consensus pattern (28 bp):
TAGTCAAAATTCTGAAGTTAACTCGAAT
Found at i:23235688 original size:12 final size:12
Alignment explanation
Indices: 23235671--23235697 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
23235661 AAGTTTCACT
23235671 GTTTGTCACACG
1 GTTTGTCACACG
23235683 GTTTGTCACACG
1 GTTTGTCACACG
23235695 GTT
1 GTT
23235698 GACCACACAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.15, C:0.22, G:0.26, T:0.37
Consensus pattern (12 bp):
GTTTGTCACACG
Found at i:23240484 original size:16 final size:17
Alignment explanation
Indices: 23240463--23240494 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
23240453 AAATATGCAA
23240463 TCACATAA-TTCATATT
1 TCACATAACTTCATATT
23240479 TCACATAACTTCATAT
1 TCACATAACTTCATAT
23240495 CATCAATTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.38, C:0.22, G:0.00, T:0.41
Consensus pattern (17 bp):
TCACATAACTTCATATT
Found at i:23240809 original size:43 final size:42
Alignment explanation
Indices: 23240654--23240809 Score: 151
Period size: 43 Copynumber: 3.7 Consensus size: 42
23240644 CGCTCGTACA
*
23240654 ATGCCAACGTCCCAGACGTGGTCTTACATGTA-ATCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTATA-CACA-ATCG
* **
23240697 ATGCC-ACTGTCCCAGACAG-GGTCTTAGACAAAT-CA-AATACG
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACACGTATACACAAT-CG
* * * *
23240738 ATGCTAATGTCCTAGACATGGTCTTACACGTATACACAAGTCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTATACACAA-TCG
23240781 ATGCCAACGTCCCAGACGTGGTCTTACAC
1 ATGCCAACGTCCCAGACGTGGTCTTACAC
23240810 AAAAATACAT
Statistics
Matches: 89, Mismatches: 15, Indels: 18
0.73 0.12 0.15
Matches are distributed among these distances:
40 2 0.02
41 26 0.29
42 7 0.08
43 52 0.58
44 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.24
Consensus pattern (42 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGTATACACAATCG
Found at i:23243527 original size:22 final size:21
Alignment explanation
Indices: 23243476--23243527 Score: 54
Period size: 22 Copynumber: 2.4 Consensus size: 21
23243466 AATTGATCCT
23243476 AATTTT-AAAAACATTAAAGA
1 AATTTTAAAAAACATTAAAGA
*
23243496 AATATATAAAAATACA-TAAAGAA
1 AAT-TTTAAAAA-ACATTAAAG-A
23243519 AATTTTAAA
1 AATTTTAAA
23243528 TTTTATATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
20 3 0.12
21 2 0.08
22 14 0.54
23 7 0.27
ACGTcount: A:0.63, C:0.04, G:0.04, T:0.29
Consensus pattern (21 bp):
AATTTTAAAAAACATTAAAGA
Found at i:23243559 original size:19 final size:20
Alignment explanation
Indices: 23243518--23243559 Score: 54
Period size: 18 Copynumber: 2.2 Consensus size: 20
23243508 TACATAAAGA
*
23243518 AAAT-TTTAAATTTTATATT
1 AAATATTTAAATTTCATATT
23243537 -AATATTTAAA-TTCATATT
1 AAATATTTAAATTTCATATT
23243555 AAATA
1 AAATA
23243560 AATATAATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
18 10 0.50
19 10 0.50
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (20 bp):
AAATATTTAAATTTCATATT
Found at i:23249837 original size:20 final size:21
Alignment explanation
Indices: 23249801--23249840 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
23249791 TTTGTCCGGG
*
23249801 CTCAAAATTAAATAAATAAAA
1 CTCAAAATTAAAAAAATAAAA
23249822 CTCAAAA-TAAAAAAATAAA
1 CTCAAAATTAAAAAAATAAA
23249841 TAGTCCATAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.70, C:0.10, G:0.00, T:0.20
Consensus pattern (21 bp):
CTCAAAATTAAAAAAATAAAA
Found at i:23258141 original size:13 final size:13
Alignment explanation
Indices: 23258121--23258156 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
23258111 TCAAAGTTAT
23258121 CCTAGCCCAAATA
1 CCTAGCCCAAATA
*
23258134 CTTAGCCCAAATA
1 CCTAGCCCAAATA
23258147 CCTAGCCCAA
1 CCTAGCCCAA
23258157 TTGTTAAACC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.36, C:0.39, G:0.08, T:0.17
Consensus pattern (13 bp):
CCTAGCCCAAATA
Found at i:23258554 original size:23 final size:22
Alignment explanation
Indices: 23258527--23258569 Score: 68
Period size: 23 Copynumber: 1.9 Consensus size: 22
23258517 ATTTTTACGA
*
23258527 TTTCTTTTGTTCTTTTTCTTTGT
1 TTTCTTTTGTT-TTTCTCTTTGT
23258550 TTTCTTTTGTTTTTCTCTTT
1 TTTCTTTTGTTTTTCTCTTT
23258570 TCAAATAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 8 0.42
23 11 0.58
ACGTcount: A:0.00, C:0.14, G:0.07, T:0.79
Consensus pattern (22 bp):
TTTCTTTTGTTTTTCTCTTTGT
Found at i:23259384 original size:45 final size:46
Alignment explanation
Indices: 23259284--23259435 Score: 148
Period size: 45 Copynumber: 3.3 Consensus size: 46
23259274 TTTAAAATCC
* * **
23259284 AGTATTATTTTAATATCTAAGCT-TAACATTGTTTTAAATTTATCATT
1 AGTATTATTTTAATATATAA--TATATCATAATTTTAAATTTATCATT
*
23259331 AGTATTATTTTAATATATAATATA-CTATTATTTTAAA-TTATCATT
1 AGTATTATTTTAATATATAATATATC-ATAATTTTAAATTTATCATT
* * * * *
23259376 AATATTATTTAAATTTATCATATATCATAATTTGAAATTTATCATGT
1 AGTATTATTTTAATATATAATATATCATAATTTTAAATTTATCAT-T
*
23259423 AGTATAATTTTAA
1 AGTATTATTTTAA
23259436 ACTTATCATA
Statistics
Matches: 89, Mismatches: 11, Indels: 10
0.81 0.10 0.09
Matches are distributed among these distances:
45 39 0.44
46 20 0.22
47 30 0.34
ACGTcount: A:0.39, C:0.06, G:0.05, T:0.51
Consensus pattern (46 bp):
AGTATTATTTTAATATATAATATATCATAATTTTAAATTTATCATT
Found at i:23259416 original size:24 final size:23
Alignment explanation
Indices: 23259316--23259468 Score: 120
Period size: 24 Copynumber: 6.7 Consensus size: 23
23259306 TTAACATTGT
*
23259316 TTTAAATTTATCAT-TAGTATTA
1 TTTAAATTTATCATATAGTATAA
* * * * *
23259338 TTTTAATATATAATATACTATTAT
1 TTTAAATTTATCATATAGTA-TAA
* *
23259362 TTTAAA-TTATCAT-TAATATTA
1 TTTAAATTTATCATATAGTATAA
23259383 TTTAAATTTATCATATA-TCATAA
1 TTTAAATTTATCATATAGT-ATAA
*
23259406 TTTGAAATTTATCATGTAGTATAA
1 TTT-AAATTTATCATATAGTATAA
* *
23259430 TTTTAAACTTATCATATCGT-T-A
1 -TTTAAATTTATCATATAGTATAA
*
23259452 TTTATATTTATCATATA
1 TTTAAATTTATCATATA
23259469 CTATTTTTAT
Statistics
Matches: 103, Mismatches: 20, Indels: 17
0.74 0.14 0.12
Matches are distributed among these distances:
21 21 0.20
22 24 0.23
23 18 0.17
24 36 0.35
25 4 0.04
ACGTcount: A:0.39, C:0.07, G:0.03, T:0.52
Consensus pattern (23 bp):
TTTAAATTTATCATATAGTATAA
Found at i:23264251 original size:16 final size:17
Alignment explanation
Indices: 23264232--23264266 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
23264222 GGGAAGGAGT
23264232 AAAAGTTTTGAAGGAAA
1 AAAAGTTTTGAAGGAAA
23264249 AAAAGTTTTGAAGGAAA
1 AAAAGTTTTGAAGGAAA
23264266 A
1 A
23264267 GTAAAAAGGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.54, C:0.00, G:0.23, T:0.23
Consensus pattern (17 bp):
AAAAGTTTTGAAGGAAA
Found at i:23267706 original size:180 final size:175
Alignment explanation
Indices: 23267355--23267743 Score: 471
Period size: 180 Copynumber: 2.2 Consensus size: 175
23267345 CATGGTAAAT
* *
23267355 CTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAGCCATTAGTCATATCTCTCTGAAGTTGCAG
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCA-TAGTCATATCTCTCTGAAGTCGCAG
* * * *
23267420 TGGAGCAGACTGAAAATAGCGAATCTTATTTCCCTGAAGTTACAGTGGAACGGATTAAACTATAA
65 TAGAGAAGACTGAAAATAGCAAATCTTATTTCCCTGAAGTTACAGTGGAACAGATTAAACTATAA
23267485 ATTGCAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCAT-GACAAAC
130 ATTGCAGATCTTATCTCTCTGAAGTTGC---A-AGCAGATCATAG-CAAAC
* * *
23267535 CTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTACCA-AGTCTTATCTC-CTTGAAGTCG
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG---CCATAGTCATATCTCTC-TGAAGTCG
* *
23267598 CAGTAGAGAAGACTGAAGATCATATCAAATCTTATTTCCCTGAAGTTACAGTGGAACATATTGAA
62 CAGTAGAGAAGACTGAA-A--ATAGCAAATCTTATTTCCCTGAAGTTACAGTGGAACAGATT-AA
* *
23267663 GCTATAAATTGTAGATCTTATCTCTCTGAAGTTGC-AGCAGATCATAGCAAAC
123 ACTATAAATTGCAGATCTTATCTCTCTGAAGTTGCAAGCAGATCATAGCAAAC
* * * *
23267715 ATTATCGCCCTGAAATTACAGTGGAGCAG
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAG
23267744 TTGCAGTAGA
Statistics
Matches: 183, Mismatches: 17, Indels: 18
0.84 0.08 0.08
Matches are distributed among these distances:
180 74 0.40
181 33 0.18
182 1 0.01
183 3 0.02
184 37 0.20
185 35 0.19
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (175 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCATAGTCATATCTCTCTGAAGTCGCAGT
AGAGAAGACTGAAAATAGCAAATCTTATTTCCCTGAAGTTACAGTGGAACAGATTAAACTATAAA
TTGCAGATCTTATCTCTCTGAAGTTGCAAGCAGATCATAGCAAAC
Found at i:23267988 original size:20 final size:21
Alignment explanation
Indices: 23267952--23267991 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
23267942 TTTTCCCAAG
*
23267952 CCCAAAACTAAATAAATAAAA
1 CCCAAAACTAAAAAAATAAAA
23267973 CCCAAAA-TAAAAAAATAAA
1 CCCAAAACTAAAAAAATAAA
23267992 CAATCCATAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.70, C:0.17, G:0.00, T:0.12
Consensus pattern (21 bp):
CCCAAAACTAAAAAAATAAAA
Found at i:23269331 original size:3 final size:3
Alignment explanation
Indices: 23269323--23269358 Score: 63
Period size: 3 Copynumber: 12.0 Consensus size: 3
23269313 TTTATACATT
*
23269323 TTA TTA TTA TTA TTA TTA TTA TTA TCA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
23269359 GTGTTTAATT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:23275975 original size:11 final size:10
Alignment explanation
Indices: 23275950--23275991 Score: 50
Period size: 11 Copynumber: 4.1 Consensus size: 10
23275940 TTTTTACAAG
23275950 TATATAAAAA
1 TATATAAAAA
23275960 T-TATAAAATA
1 TATATAAAA-A
23275970 TATATAAAAA
1 TATATAAAAA
*
23275980 CATGATAAAAA
1 TAT-ATAAAAA
23275991 T
1 T
23275992 CCTAAAATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
9 7 0.26
10 6 0.22
11 14 0.52
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.31
Consensus pattern (10 bp):
TATATAAAAA
Found at i:23279340 original size:18 final size:19
Alignment explanation
Indices: 23279309--23279354 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
23279299 GAAGAGAATG
23279309 AAAAA-TAAAGAGAA-AAA
1 AAAAATTAAAGAGAACAAA
*
23279326 AAAAAGTTAAA-AGAACATA
1 AAAAA-TTAAAGAGAACAAA
23279345 AAAAATTAAA
1 AAAAATTAAA
23279355 TTGCTCAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
17 5 0.20
18 9 0.36
19 11 0.44
ACGTcount: A:0.76, C:0.02, G:0.09, T:0.13
Consensus pattern (19 bp):
AAAAATTAAAGAGAACAAA
Found at i:23288279 original size:8 final size:8
Alignment explanation
Indices: 23288262--23288315 Score: 99
Period size: 8 Copynumber: 6.8 Consensus size: 8
23288252 TACTTGGAAA
23288262 AAATGATT
1 AAATGATT
*
23288270 AAATGGTT
1 AAATGATT
23288278 AAATGATT
1 AAATGATT
23288286 AAATGATT
1 AAATGATT
23288294 AAATGATT
1 AAATGATT
23288302 AAATGATT
1 AAATGATT
23288310 AAATGA
1 AAATGA
23288316 ACTTGAACAT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.15, T:0.35
Consensus pattern (8 bp):
AAATGATT
Found at i:23289715 original size:25 final size:22
Alignment explanation
Indices: 23289672--23289718 Score: 67
Period size: 25 Copynumber: 2.0 Consensus size: 22
23289662 AAAATATATT
23289672 AAATATATATTTTTTATTTTTA
1 AAATATATATTTTTTATTTTTA
23289694 AAATATAATAGTTTTTTAATTTTTA
1 AAATAT-ATA-TTTTTT-ATTTTTA
23289719 GTTTCATTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 6 0.27
23 3 0.14
24 6 0.27
25 7 0.32
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (22 bp):
AAATATATATTTTTTATTTTTA
Found at i:23289716 original size:24 final size:22
Alignment explanation
Indices: 23289672--23289716 Score: 63
Period size: 24 Copynumber: 2.0 Consensus size: 22
23289662 AAAATATATT
*
23289672 AAATATATATTTTTTATTTTTA
1 AAATATATATTTTTTAATTTTA
23289694 AAATATAATAGTTTTTTAATTTT
1 AAATAT-ATA-TTTTTTAATTTT
23289717 TAGTTTCATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 6 0.30
23 3 0.15
24 11 0.55
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (22 bp):
AAATATATATTTTTTAATTTTA
Found at i:23293188 original size:9 final size:9
Alignment explanation
Indices: 23293174--23293205 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
23293164 TTGCAAAAAG
*
23293174 GACGATGAT
1 GACGATGAC
23293183 GACGATGAC
1 GACGATGAC
23293192 GACGATGAC
1 GACGATGAC
23293201 GACGA
1 GACGA
23293206 GGTTTCTTCA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.34, C:0.19, G:0.34, T:0.12
Consensus pattern (9 bp):
GACGATGAC
Found at i:23294336 original size:9 final size:9
Alignment explanation
Indices: 23294322--23294363 Score: 70
Period size: 9 Copynumber: 4.9 Consensus size: 9
23294312 AACTTACAAA
23294322 AATTAATAC
1 AATTAATAC
23294331 AATTAATAC
1 AATTAATAC
23294340 AATT-A-AC
1 AATTAATAC
23294347 AATTAATAC
1 AATTAATAC
23294356 AATTAATA
1 AATTAATA
23294364 ATTTGATAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
7 6 0.19
8 2 0.06
9 23 0.74
ACGTcount: A:0.57, C:0.10, G:0.00, T:0.33
Consensus pattern (9 bp):
AATTAATAC
Found at i:23294350 original size:16 final size:16
Alignment explanation
Indices: 23294329--23294366 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
23294319 AAAAATTAAT
23294329 ACAATTAATACAATTA
1 ACAATTAATACAATTA
23294345 ACAATTAATACAATTA
1 ACAATTAATACAATTA
*
23294361 ATAATT
1 ACAATT
23294367 TGATAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.55, C:0.11, G:0.00, T:0.34
Consensus pattern (16 bp):
ACAATTAATACAATTA
Found at i:23297266 original size:17 final size:17
Alignment explanation
Indices: 23297239--23297272 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
23297229 CCATTTTTAA
23297239 TTTTAATTTTAATATATT
1 TTTTAATTTTAAT-TATT
23297257 TTTTAA-TTTAATTATT
1 TTTTAATTTTAATTATT
23297273 ACGTTTTACT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.25
17 6 0.38
18 6 0.38
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (17 bp):
TTTTAATTTTAATTATT
Found at i:23304640 original size:12 final size:12
Alignment explanation
Indices: 23304623--23304652 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
23304613 ACAAAGTCCA
23304623 AATTTAATTTCC
1 AATTTAATTTCC
*
23304635 AATTTAATTTCT
1 AATTTAATTTCC
23304647 AATTTA
1 AATTTA
23304653 TTTATTTATG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.37, C:0.10, G:0.00, T:0.53
Consensus pattern (12 bp):
AATTTAATTTCC
Found at i:23310402 original size:18 final size:18
Alignment explanation
Indices: 23310361--23310399 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
23310351 TACATAGATT
*
23310361 TTTATTTTTATAATTTTA
1 TTTATTTTCATAATTTTA
*
23310379 TTTATTTTCATTATTGTTA
1 TTTATTTTCATAATT-TTA
23310398 TT
1 TT
23310400 ATTGTCTTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 13 0.72
19 5 0.28
ACGTcount: A:0.23, C:0.03, G:0.03, T:0.72
Consensus pattern (18 bp):
TTTATTTTCATAATTTTA
Found at i:23311103 original size:67 final size:67
Alignment explanation
Indices: 23310995--23311130 Score: 272
Period size: 67 Copynumber: 2.0 Consensus size: 67
23310985 AATAGAAAGA
23310995 GGTTTTGATTCACGTTCAGTTACTAAATAGAGAGCTTGTAATGGAAAATAGGTTTCTTGATAAAG
1 GGTTTTGATTCACGTTCAGTTACTAAATAGAGAGCTTGTAATGGAAAATAGGTTTCTTGATAAAG
23311060 TG
66 TG
23311062 GGTTTTGATTCACGTTCAGTTACTAAATAGAGAGCTTGTAATGGAAAATAGGTTTCTTGATAAAG
1 GGTTTTGATTCACGTTCAGTTACTAAATAGAGAGCTTGTAATGGAAAATAGGTTTCTTGATAAAG
23311127 TG
66 TG
23311129 GG
1 GG
23311131 AGACAATACG
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
67 69 1.00
ACGTcount: A:0.31, C:0.09, G:0.25, T:0.35
Consensus pattern (67 bp):
GGTTTTGATTCACGTTCAGTTACTAAATAGAGAGCTTGTAATGGAAAATAGGTTTCTTGATAAAG
TG
Found at i:23313462 original size:41 final size:40
Alignment explanation
Indices: 23313398--23313485 Score: 104
Period size: 41 Copynumber: 2.2 Consensus size: 40
23313388 AGGGACTAAA
* *
23313398 GTGAAAACCCGCAAAAGGCGCTTTGAATCTTAAAAAAAAAG
1 GTGAAAACCCACAAAAGGCGCTTTGAATC-CAAAAAAAAAG
* * * *
23313439 GTGAAAACCTACAAAATGTGCTTTGAGTCCAAAAAAAAAG
1 GTGAAAACCCACAAAAGGCGCTTTGAATCCAAAAAAAAAG
*
23313479 ATGAAAA
1 GTGAAAA
23313486 ATGAAAAAGT
Statistics
Matches: 40, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
40 16 0.40
41 24 0.60
ACGTcount: A:0.49, C:0.15, G:0.18, T:0.18
Consensus pattern (40 bp):
GTGAAAACCCACAAAAGGCGCTTTGAATCCAAAAAAAAAG
Found at i:23314429 original size:24 final size:24
Alignment explanation
Indices: 23314402--23314452 Score: 102
Period size: 24 Copynumber: 2.1 Consensus size: 24
23314392 AAAATTATAA
23314402 TGGATTGAACCTTGAAGATTACAG
1 TGGATTGAACCTTGAAGATTACAG
23314426 TGGATTGAACCTTGAAGATTACAG
1 TGGATTGAACCTTGAAGATTACAG
23314450 TGG
1 TGG
23314453 GGGCAATCCG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.31, C:0.12, G:0.27, T:0.29
Consensus pattern (24 bp):
TGGATTGAACCTTGAAGATTACAG
Found at i:23314802 original size:45 final size:45
Alignment explanation
Indices: 23314747--23314894 Score: 208
Period size: 45 Copynumber: 3.3 Consensus size: 45
23314737 GCAGCAATGG
* * * *
23314747 AGTAGGTCGAAGATAACAGATCTTGTCTTCCTGTCTTGACAGTGA
1 AGTAGATCGAAGATAGCAGATCTTGTCTTCCTGTATTGACAGCGA
* *
23314792 AGTAGATCGAAGATAGCAGATCTTGTCTTCCTATATT-AGTAGCGA
1 AGTAGATCGAAGATAGCAGATCTTGTCTTCCTGTATTGA-CAGCGA
* *
23314837 AGTAGATCGAATATAGCAGATCTTGTCTTCCTGTATTGGCAGCGA
1 AGTAGATCGAAGATAGCAGATCTTGTCTTCCTGTATTGACAGCGA
23314882 AGTAGATCGAAGA
1 AGTAGATCGAAGA
23314895 CACCAGCCTC
Statistics
Matches: 90, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
44 1 0.01
45 89 0.99
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (45 bp):
AGTAGATCGAAGATAGCAGATCTTGTCTTCCTGTATTGACAGCGA
Found at i:23314974 original size:24 final size:24
Alignment explanation
Indices: 23314947--23314993 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
23314937 ATAGCGAATA
23314947 TTATCTCTCTGAAGTTACAGTAGC
1 TTATCTCTCTGAAGTTACAGTAGC
*
23314971 TTATCTCTCTGAAGTTGCAGTAG
1 TTATCTCTCTGAAGTTACAGTAG
23314994 AGCAGATCAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.23, C:0.19, G:0.19, T:0.38
Consensus pattern (24 bp):
TTATCTCTCTGAAGTTACAGTAGC
Found at i:23315238 original size:44 final size:45
Alignment explanation
Indices: 23315187--23315406 Score: 151
Period size: 45 Copynumber: 4.9 Consensus size: 45
23315177 TAGACCATAT
* * *
23315187 CAAACCTTATCCCCCTAAAGTTGCAACGGGGCAGGTTGAA-ATTG
1 CAAACCTTATCCCCATAAAGTTGCAACGGAGCAGGTTGAAGATAG
* ***
23315231 CAAACCTTATCTCCATAAAGTTGCAGTTGAGCAGGTTGAAGATAG
1 CAAACCTTATCCCCATAAAGTTGCAACGGAGCAGGTTGAAGATAG
* * * * **
23315276 CAAACCTTATCTCCTTGAAGTTACAGTGGAGCAGGTTGAAGATA-
1 CAAACCTTATCCCCATAAAGTTGCAACGGAGCAGGTTGAAGATAG
* * * ** * ** *
23315320 CCAATCTTATCTCCC-TGAAGTTGCAGTGGAACAGACTGAAGATAA
1 CAAACCTTATC-CCCATAAAGTTGCAACGGAGCAGGTTGAAGATAG
* * ** *
23315365 CCAACCTTATTTCCC-TAAAGTTGCAGTGGAGTAGGTTGAAGA
1 CAAACCTTA-TCCCCATAAAGTTGCAACGGAGCAGGTTGAAGA
23315407 AACCAATCTT
Statistics
Matches: 147, Mismatches: 25, Indels: 7
0.82 0.14 0.04
Matches are distributed among these distances:
44 68 0.46
45 78 0.53
46 1 0.01
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.26
Consensus pattern (45 bp):
CAAACCTTATCCCCATAAAGTTGCAACGGAGCAGGTTGAAGATAG
Found at i:23315274 original size:181 final size:181
Alignment explanation
Indices: 23314970--23315309 Score: 468
Period size: 181 Copynumber: 1.9 Consensus size: 181
23314960 GTTACAGTAG
* ** ** *
23314970 CTTATCTCTCTGAAGTTGCAGTAGAGCAGATCATATCAAGTCTTATCTTCCTAAAGTTGCAGCGG
1 CTTATCTCTCTGAAGTTGCAGTAGAGCAGACCATATCAAACCTTATCCCCCTAAAGTTGCAACGG
* ** * * *
23315035 AGTAGGTTAAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAAT
66 AGCAGGTTAAAGTTACAAACCTTATCTCCATAAAGTTGCAGTGGAGCAGACTGAAGATAGCAAAC
*
23315100 CTTATCT-CTCTGAAGTTGCAGTAGAGCAGATTAAAGCTATAAATAACAAAT
131 CTTATCTCCT-TGAAGTTACAGTAGAGCAGATTAAAGCTATAAATAACAAAT
*
23315151 CTTATCTCTCTGAAGTTGCAGTAGAGTAGACCATATCAAACCTTATCCCCCTAAAGTTGCAACGG
1 CTTATCTCTCTGAAGTTGCAGTAGAGCAGACCATATCAAACCTTATCCCCCTAAAGTTGCAACGG
* * * **
23315216 GGCAGGTTGAAA-TTGCAAACCTTATCTCCATAAAGTTGCAGTTGAGCAGGTTGAAGATAGCAAA
66 AGCAGGTT-AAAGTTACAAACCTTATCTCCATAAAGTTGCAGTGGAGCAGACTGAAGATAGCAAA
*
23315280 CCTTATCTCCTTGAAGTTACAGTGGAGCAG
130 CCTTATCTCCTTGAAGTTACAGTAGAGCAG
23315310 GTTGAAGATA
Statistics
Matches: 137, Mismatches: 20, Indels: 4
0.85 0.12 0.02
Matches are distributed among these distances:
181 132 0.96
182 5 0.04
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.28
Consensus pattern (181 bp):
CTTATCTCTCTGAAGTTGCAGTAGAGCAGACCATATCAAACCTTATCCCCCTAAAGTTGCAACGG
AGCAGGTTAAAGTTACAAACCTTATCTCCATAAAGTTGCAGTGGAGCAGACTGAAGATAGCAAAC
CTTATCTCCTTGAAGTTACAGTAGAGCAGATTAAAGCTATAAATAACAAAT
Found at i:23315423 original size:89 final size:89
Alignment explanation
Indices: 23315187--23315430 Score: 265
Period size: 89 Copynumber: 2.7 Consensus size: 89
23315177 TAGACCATAT
* * ** * ** * * * *
23315187 CAAACCTTATCCCCCTAAAGTTGCAACGGGGCAGGTTGAA-ATTGCAAACCTTATCTCCATAAAG
1 CAAACCTTATCTCCCTAAAGTTACAGTGGAGCAGGTTGAAGA-AACCAATCTTATCTCCCTGAAG
* * ** *
23315251 TTGCAGTTGAGCAGGTTGAAGATAG
65 TTGCAGTGGAACAGACTGAAGATAA
* * *
23315276 CAAACCTTATCTCCTTGAAGTTACAGTGGAGCAGGTTGAAGATACCAATCTTATCTCCCTGAAGT
1 CAAACCTTATCTCCCTAAAGTTACAGTGGAGCAGGTTGAAGAAACCAATCTTATCTCCCTGAAGT
23315341 TGCAGTGGAACAGACTGAAGATAA
66 TGCAGTGGAACAGACTGAAGATAA
* * * *
23315365 CCAACCTTATTTCCCTAAAGTTGCAGTGGAGTAGGTTGAAGAAACCAATCTTATCTCCCTGAAGT
1 CAAACCTTATCTCCCTAAAGTTACAGTGGAGCAGGTTGAAGAAACCAATCTTATCTCCCTGAAGT
23315430 T
66 T
23315431 ATAGTGAAGC
Statistics
Matches: 130, Mismatches: 24, Indels: 2
0.83 0.15 0.01
Matches are distributed among these distances:
89 129 0.99
90 1 0.01
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.27
Consensus pattern (89 bp):
CAAACCTTATCTCCCTAAAGTTACAGTGGAGCAGGTTGAAGAAACCAATCTTATCTCCCTGAAGT
TGCAGTGGAACAGACTGAAGATAA
Found at i:23315430 original size:44 final size:45
Alignment explanation
Indices: 23315011--23315449 Score: 293
Period size: 44 Copynumber: 9.8 Consensus size: 45
23315001 CATATCAAGT
* * * * * * *
23315011 CTTATCTTCCTAAAGTTGCAGCGGAGTAGGTTAAAG-TTA-CAAGT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGATAACCAA-C
** * * *
23315055 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGATAACCAAC
* * * * * *
23315100 CTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAAGCTATAAATAACAAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGGTT---G--A-AGATAACCAAC
* * ** * *
23315151 CTTATCTCTCTGAAGTTGCAGT--AG-A-GTAGACCATATCAAAC
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGATAACCAAC
* * ** * ** *
23315192 CTTATCCCCCTAAAGTTGCAACGGGGCAGGTTGAA-ATTGCAAAC
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGATAACCAAC
* * * * *
23315236 CTTATCTCCATAAAGTTGCAGTTGAGCAGGTTGAAGATAGCAAAC
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGATAACCAAC
* * *
23315281 CTTATCTCCTTGAAGTTACAGTGGAGCAGGTTGAAGAT-ACCAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGATAACCAAC
* **
23315325 CTTATCTCCCTGAAGTTGCAGTGGAACAGACTGAAGATAACCAAC
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGATAACCAAC
* * * *
23315370 CTTATTTCCCTAAAGTTGCAGTGGAGTAGGTTGAAGA-AACCAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGATAACCAAC
** * *
23315414 CTTATCTCCCTGAAGTTATAGTGAAGCAGATTGAAG
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAG
23315450 TTGCTAGTCC
Statistics
Matches: 316, Mismatches: 65, Indels: 28
0.77 0.16 0.07
Matches are distributed among these distances:
41 24 0.08
42 1 0.00
43 1 0.00
44 138 0.44
45 113 0.36
46 2 0.01
47 1 0.00
48 2 0.01
49 2 0.01
50 1 0.00
51 31 0.10
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.28
Consensus pattern (45 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGATAACCAAC
Found at i:23315665 original size:100 final size:100
Alignment explanation
Indices: 23315492--23315692 Score: 384
Period size: 100 Copynumber: 2.0 Consensus size: 100
23315482 AGTGAATTAA
* *
23315492 AATGATGGATCTTATTTCTCTGAAGTTGCAATAGAGTAGATCGCATCAGACTTTATGCAGTAAAG
1 AATGATAGATCTTATTTCTCTGAAGTTGCAATAGAGCAGATCGCATCAGACTTTATGCAGTAAAG
23315557 CGAGTTGAAGCTACAAGTCTTATCTCACTGAGGTT
66 CGAGTTGAAGCTACAAGTCTTATCTCACTGAGGTT
23315592 AATGATAGATCTTATTTCTCTGAAGTTGCAATAGAGCAGATCGCATCAGACTTTATGCAGTAAAG
1 AATGATAGATCTTATTTCTCTGAAGTTGCAATAGAGCAGATCGCATCAGACTTTATGCAGTAAAG
23315657 CGAGTTGAAGCTACAAGTCTTATCTCACTGAGGTT
66 CGAGTTGAAGCTACAAGTCTTATCTCACTGAGGTT
23315692 A
1 A
23315693 CAGTAGAGTA
Statistics
Matches: 99, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
100 99 1.00
ACGTcount: A:0.31, C:0.16, G:0.21, T:0.31
Consensus pattern (100 bp):
AATGATAGATCTTATTTCTCTGAAGTTGCAATAGAGCAGATCGCATCAGACTTTATGCAGTAAAG
CGAGTTGAAGCTACAAGTCTTATCTCACTGAGGTT
Done.