Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 ID=Chr06-JGI_221_v2.0
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: 51074515
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 971674 characters in sequence are not A, C, G, or T
File 54 of 168
Found at i:15197252 original size:26 final size:26
Alignment explanation
Indices: 15197215--15197266 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
15197205 ACATTCACAA
15197215 ATAACAACTTGTAGAATAGTCCCCAG
1 ATAACAACTTGTAGAATAGTCCCCAG
*
15197241 ATAACAATTTGTAGAATAGTCCCCAG
1 ATAACAACTTGTAGAATAGTCCCCAG
15197267 CAACGGTGCC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.25
Consensus pattern (26 bp):
ATAACAACTTGTAGAATAGTCCCCAG
Found at i:15199985 original size:21 final size:21
Alignment explanation
Indices: 15199950--15199990 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
15199940 AAAAAAAGAA
* *
15199950 AACTAAGTCAGTTAAAAGATG
1 AACTAAGTAAATTAAAAGATG
*
15199971 AACTAAGTAAATTAAGAGAT
1 AACTAAGTAAATTAAAAGAT
15199991 ACCTTCTATA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.51, C:0.07, G:0.17, T:0.24
Consensus pattern (21 bp):
AACTAAGTAAATTAAAAGATG
Found at i:15208017 original size:18 final size:19
Alignment explanation
Indices: 15207991--15208039 Score: 57
Period size: 18 Copynumber: 2.7 Consensus size: 19
15207981 CTAGAAAAGG
*
15207991 GAGAGCAGAGAAAAAT-GA
1 GAGAACAGAGAAAAATAGA
*
15208009 GAGAACAGAG-AGAATAGA
1 GAGAACAGAGAAAAATAGA
*
15208027 GAGAATAGAGAAA
1 GAGAACAGAGAAA
15208040 GAGAGTAAGA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
17 4 0.16
18 20 0.80
19 1 0.04
ACGTcount: A:0.57, C:0.04, G:0.33, T:0.06
Consensus pattern (19 bp):
GAGAACAGAGAAAAATAGA
Found at i:15208019 original size:9 final size:9
Alignment explanation
Indices: 15208007--15208037 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
15207997 AGAGAAAAAT
*
15208007 GAGAGAACA
1 GAGAGAATA
15208016 GAGAGAATA
1 GAGAGAATA
15208025 GAGAGAATA
1 GAGAGAATA
15208034 GAGA
1 GAGA
15208038 AAGAGAGTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.55, C:0.03, G:0.35, T:0.06
Consensus pattern (9 bp):
GAGAGAATA
Found at i:15211142 original size:22 final size:23
Alignment explanation
Indices: 15211116--15211160 Score: 56
Period size: 24 Copynumber: 2.0 Consensus size: 23
15211106 AAATTAAAGA
* *
15211116 TCCT-ATCTATAATTTAAAATTT
1 TCCTAATCCATAAATTAAAATTT
15211138 TCCTAAATCCATAAATTAAAATT
1 TCCT-AATCCATAAATTAAAATT
15211161 CATCTAGTGA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 4 0.21
24 15 0.79
ACGTcount: A:0.42, C:0.16, G:0.00, T:0.42
Consensus pattern (23 bp):
TCCTAATCCATAAATTAAAATTT
Found at i:15218229 original size:19 final size:19
Alignment explanation
Indices: 15218201--15218238 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
15218191 CAGAATACAA
*
15218201 ATTTAGTATCGATAATTTT
1 ATTTAGTATCAATAATTTT
*
15218220 ATTTATTATCAATAATTTT
1 ATTTAGTATCAATAATTTT
15218239 TCTAATTTGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.34, C:0.05, G:0.05, T:0.55
Consensus pattern (19 bp):
ATTTAGTATCAATAATTTT
Found at i:15231353 original size:40 final size:41
Alignment explanation
Indices: 15231298--15231400 Score: 163
Period size: 41 Copynumber: 2.5 Consensus size: 41
15231288 GAGTGGAAGA
15231298 AGGGGCACGTATGTGCAATTCAGGGGAACC-AAGTACAAAC
1 AGGGGCACGTATGTGCAATTCAGGGGAACCGAAGTACAAAC
* * *
15231338 AGGGGCACATATGTGCAATTCAGGGGTACCGAAGTAGAAAC
1 AGGGGCACGTATGTGCAATTCAGGGGAACCGAAGTACAAAC
*
15231379 AAGGGCACGTATGTGCAATTCA
1 AGGGGCACGTATGTGCAATTCA
15231401 TAGAATAATT
Statistics
Matches: 57, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
40 28 0.49
41 29 0.51
ACGTcount: A:0.34, C:0.18, G:0.30, T:0.17
Consensus pattern (41 bp):
AGGGGCACGTATGTGCAATTCAGGGGAACCGAAGTACAAAC
Found at i:15231363 original size:21 final size:21
Alignment explanation
Indices: 15231298--15231363 Score: 66
Period size: 21 Copynumber: 3.2 Consensus size: 21
15231288 GAGTGGAAGA
*
15231298 AGGGGCACGTATGTGCAATTC
1 AGGGGCACATATGTGCAATTC
* * *
15231319 AGGGGAACCA-A-GTACAA-AC
1 AGGGGCA-CATATGTGCAATTC
15231338 AGGGGCACATATGTGCAATTC
1 AGGGGCACATATGTGCAATTC
15231359 AGGGG
1 AGGGG
15231364 TACCGAAGTA
Statistics
Matches: 34, Mismatches: 7, Indels: 8
0.69 0.14 0.16
Matches are distributed among these distances:
18 2 0.06
19 8 0.24
20 10 0.29
21 13 0.38
22 1 0.03
ACGTcount: A:0.32, C:0.18, G:0.33, T:0.17
Consensus pattern (21 bp):
AGGGGCACATATGTGCAATTC
Found at i:15274441 original size:12 final size:12
Alignment explanation
Indices: 15274426--15274455 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
15274416 ACACGAGTAC
*
15274426 GGACACGGGCTG
1 GGACACGGGCTA
15274438 GGACACGGGCTA
1 GGACACGGGCTA
15274450 GGACAC
1 GGACAC
15274456 AGCCGTGTGT
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:0.23, C:0.27, G:0.43, T:0.07
Consensus pattern (12 bp):
GGACACGGGCTA
Found at i:15278004 original size:30 final size:30
Alignment explanation
Indices: 15277968--15278027 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
15277958 AATTTTCAAA
15277968 GAAAGGTTGGAGTCTCTATTTTATAGATAT
1 GAAAGGTTGGAGTCTCTATTTTATAGATAT
15277998 GAAAGGTTGGAGTCTCTATTTTATAGATAT
1 GAAAGGTTGGAGTCTCTATTTTATAGATAT
15278028 AAATCTGCTC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.30, C:0.07, G:0.23, T:0.40
Consensus pattern (30 bp):
GAAAGGTTGGAGTCTCTATTTTATAGATAT
Found at i:15280973 original size:26 final size:27
Alignment explanation
Indices: 15280899--15280998 Score: 125
Period size: 26 Copynumber: 3.8 Consensus size: 27
15280889 GTAACATGTC
15280899 AAGAAAGAAAAGCCTTTATGGCGTAAT
1 AAGAAAGAAAAGCCTTTATGGCGTAAT
15280926 AA-AATAGAAAAGCCTTTATGGCGTAAT
1 AAGAA-AGAAAAGCCTTTATGGCGTAAT
** *
15280953 AAGAAAG-AAAGATTTTGTGGCGTAAT
1 AAGAAAGAAAAGCCTTTATGGCGTAAT
* *
15280979 ATGAAA-TAAAGCCTTTATGG
1 AAGAAAGAAAAGCCTTTATGG
15280999 AGAATTATAA
Statistics
Matches: 63, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
26 33 0.52
27 28 0.44
28 2 0.03
ACGTcount: A:0.43, C:0.09, G:0.22, T:0.26
Consensus pattern (27 bp):
AAGAAAGAAAAGCCTTTATGGCGTAAT
Found at i:15283715 original size:25 final size:25
Alignment explanation
Indices: 15283690--15283774 Score: 111
Period size: 25 Copynumber: 3.4 Consensus size: 25
15283680 GTACATATAT
*
15283690 GCTCATACGAGCT-ATGAATCGGTAT
1 GCTCATACGAGCTGA-GAATCGGTAA
*
15283715 GCTC-TCACAAGCTGAGAATCGGTAA
1 GCTCAT-ACGAGCTGAGAATCGGTAA
*
15283740 GTTCATACGAGCTGAGAATCGGTAA
1 GCTCATACGAGCTGAGAATCGGTAA
15283765 GCTCATACGA
1 GCTCATACGA
15283775 CCTATGGTGT
Statistics
Matches: 52, Mismatches: 5, Indels: 6
0.83 0.08 0.10
Matches are distributed among these distances:
24 1 0.02
25 49 0.94
26 2 0.04
ACGTcount: A:0.31, C:0.21, G:0.25, T:0.24
Consensus pattern (25 bp):
GCTCATACGAGCTGAGAATCGGTAA
Found at i:15287433 original size:22 final size:22
Alignment explanation
Indices: 15287405--15287521 Score: 162
Period size: 22 Copynumber: 5.3 Consensus size: 22
15287395 TTTATTGTTC
*
15287405 AAACATGAGAGCTTAGTACGTG
1 AAACATGAGAGCTTAGTACGTT
15287427 AAACATGAGAGCTTAGTACGTT
1 AAACATGAGAGCTTAGTACGTT
**
15287449 AGCCATGAGAGCTTAGTACGTT
1 AAACATGAGAGCTTAGTACGTT
** * * *
15287471 AGCCATGAGGGTTTAGTTCGTT
1 AAACATGAGAGCTTAGTACGTT
15287493 AAACATGAGAGCTTAGTACGTT
1 AAACATGAGAGCTTAGTACGTT
15287515 AAACATG
1 AAACATG
15287522 CTACGCTCAG
Statistics
Matches: 84, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 84 1.00
ACGTcount: A:0.32, C:0.15, G:0.26, T:0.27
Consensus pattern (22 bp):
AAACATGAGAGCTTAGTACGTT
Found at i:15290015 original size:13 final size:13
Alignment explanation
Indices: 15289981--15290013 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
15289971 TTTATTGTAT
*
15289981 TTGTATTTACTTA
1 TTGTATTTACTCA
15289994 TTGTATTTACTCA
1 TTGTATTTACTCA
15290007 -TGTATTT
1 TTGTATTT
15290014 TAGTTTGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 7 0.37
13 12 0.63
ACGTcount: A:0.21, C:0.09, G:0.09, T:0.61
Consensus pattern (13 bp):
TTGTATTTACTCA
Found at i:15291498 original size:117 final size:117
Alignment explanation
Indices: 15291291--15291521 Score: 381
Period size: 117 Copynumber: 2.0 Consensus size: 117
15291281 CGTATGACAG
* * *
15291291 ATCAGGAAGATTTTCAATTTCTTCCATTGAAATAACATGAGACGGATCTGAATGATATCTCTTGA
1 ATCAGGAAGAATTTCAAGTTCTTCCATTGAAATAACATGAGACGGATCTGAATGATATCTCCTGA
**
15291356 GCACCGAAGTATGAAAAAAAGCATGCATTTTCTGCAACTCAACCAAAAACAA
66 GCACCGAAACATGAAAAAAAGCATGCATTTTCTGCAACTCAACCAAAAACAA
15291408 ATCAGGAAGAATTTCAAGTTCTTCCATTGAAATAACATGAGACGGATCTGAATGATATCTCCTGA
1 ATCAGGAAGAATTTCAAGTTCTTCCATTGAAATAACATGAGACGGATCTGAATGATATCTCCTGA
* * * *
15291473 GCATCGAAACATGAAAAACATCATGCATTTTCTGCAACTTAACCAAAAA
66 GCACCGAAACATGAAAAAAAGCATGCATTTTCTGCAACTCAACCAAAAA
15291522 TGCCAAACGA
Statistics
Matches: 105, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
117 105 1.00
ACGTcount: A:0.39, C:0.19, G:0.15, T:0.26
Consensus pattern (117 bp):
ATCAGGAAGAATTTCAAGTTCTTCCATTGAAATAACATGAGACGGATCTGAATGATATCTCCTGA
GCACCGAAACATGAAAAAAAGCATGCATTTTCTGCAACTCAACCAAAAACAA
Found at i:15300398 original size:23 final size:23
Alignment explanation
Indices: 15300367--15300417 Score: 84
Period size: 23 Copynumber: 2.2 Consensus size: 23
15300357 ACGTACTTTC
* *
15300367 TTACTGTAGTAATTTTCGGGGTA
1 TTACAGTAGTAATTTTCGGGATA
15300390 TTACAGTAGTAATTTTCGGGATA
1 TTACAGTAGTAATTTTCGGGATA
15300413 TTACA
1 TTACA
15300418 AACTAGATAG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.27, C:0.10, G:0.22, T:0.41
Consensus pattern (23 bp):
TTACAGTAGTAATTTTCGGGATA
Found at i:15304506 original size:12 final size:12
Alignment explanation
Indices: 15304489--15304552 Score: 71
Period size: 12 Copynumber: 5.6 Consensus size: 12
15304479 GCTTTCCTCT
15304489 TTTTCTTTTTCA
1 TTTTCTTTTTCA
15304501 TTTTCTTTTTC-
1 TTTTCTTTTTCA
15304512 TTTTC--TTTCA
1 TTTTCTTTTTCA
* *
15304522 ATTTCTCTTTCA
1 TTTTCTTTTTCA
* *
15304534 TTCTCTTTTTCT
1 TTTTCTTTTTCA
15304546 TTTTCTT
1 TTTTCTT
15304553 CTCTTTTAAT
Statistics
Matches: 43, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
9 4 0.09
10 4 0.09
11 5 0.12
12 30 0.70
ACGTcount: A:0.06, C:0.20, G:0.00, T:0.73
Consensus pattern (12 bp):
TTTTCTTTTTCA
Found at i:15304571 original size:6 final size:6
Alignment explanation
Indices: 15304486--15304552 Score: 59
Period size: 6 Copynumber: 11.7 Consensus size: 6
15304476 CTCGCTTTCC
* ** *
15304486 TCTTTT TCTTTT TCATTT TCTTTT TC-TTT TC--TT TCAATT TCTCTT
1 TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT
* *
15304531 TCATTC TCTTTT TCTTTT TCTT
1 TCTTTT TCTTTT TCTTTT TCTT
15304553 CTCTTTTAAT
Statistics
Matches: 50, Mismatches: 9, Indels: 4
0.79 0.14 0.06
Matches are distributed among these distances:
4 4 0.08
5 5 0.10
6 41 0.82
ACGTcount: A:0.06, C:0.21, G:0.00, T:0.73
Consensus pattern (6 bp):
TCTTTT
Found at i:15305678 original size:37 final size:37
Alignment explanation
Indices: 15305637--15305709 Score: 128
Period size: 37 Copynumber: 2.0 Consensus size: 37
15305627 ACAACACACT
* *
15305637 TTTTTTTTAACACATAATTTTTTTTCACACTTTTTTC
1 TTTTTTTTAACACACAATTTTTTTTCACAATTTTTTC
15305674 TTTTTTTTAACACACAATTTTTTTTCACAATTTTTT
1 TTTTTTTTAACACACAATTTTTTTTCACAATTTTTT
15305710 TTCCTTTTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.23, C:0.15, G:0.00, T:0.62
Consensus pattern (37 bp):
TTTTTTTTAACACACAATTTTTTTTCACAATTTTTTC
Found at i:15305702 original size:13 final size:13
Alignment explanation
Indices: 15305686--15305712 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
15305676 TTTTTTAACA
15305686 CACAATTTTTTTT
1 CACAATTTTTTTT
15305699 CACAATTTTTTTT
1 CACAATTTTTTTT
15305712 C
1 C
15305713 CTTTTTTTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.19, G:0.00, T:0.59
Consensus pattern (13 bp):
CACAATTTTTTTT
Found at i:15305718 original size:37 final size:37
Alignment explanation
Indices: 15305640--15305718 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
15305630 ACACACTTTT
* * *
15305640 TTTTTAACACATAATTTTTTTTCACACTTTTTTCTTT
1 TTTTTAACACACAATTTTTTTTCACAATTTTTTCTTC
15305677 TTTTTAACACACAATTTTTTTTCACAATTTTTT-TTCC
1 TTTTTAACACACAATTTTTTTTCACAATTTTTTCTT-C
15305714 TTTTT
1 TTTTT
15305719 TTTGAATTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
36 2 0.05
37 36 0.95
ACGTcount: A:0.22, C:0.16, G:0.00, T:0.62
Consensus pattern (37 bp):
TTTTTAACACACAATTTTTTTTCACAATTTTTTCTTC
Found at i:15311290 original size:2 final size:2
Alignment explanation
Indices: 15311285--15311311 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
15311275 TATATATATA
15311285 TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG T
15311312 ATAAATGTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:15315634 original size:22 final size:22
Alignment explanation
Indices: 15315606--15315650 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
15315596 GACTTGTCTG
* *
15315606 TTGTTTGATTGATGAGATAATT
1 TTGTTTGATTCATGAGAAAATT
*
15315628 TTGTTTGGTTCATGAGAAAATT
1 TTGTTTGATTCATGAGAAAATT
15315650 T
1 T
15315651 GGGATAGTTG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.27, C:0.02, G:0.22, T:0.49
Consensus pattern (22 bp):
TTGTTTGATTCATGAGAAAATT
Found at i:15315768 original size:17 final size:17
Alignment explanation
Indices: 15315721--15315769 Score: 53
Period size: 19 Copynumber: 2.8 Consensus size: 17
15315711 ATTTACTTTT
* * *
15315721 TATTTTTATAATTATTT
1 TATTTTTATATTTAATA
15315738 TATTATTATATATTTAATA
1 TATT-TT-TATATTTAATA
15315757 TATTTTTATATTT
1 TATTTTTATATTT
15315770 TTATAAAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
17 11 0.41
18 4 0.15
19 12 0.44
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (17 bp):
TATTTTTATATTTAATA
Found at i:15316101 original size:29 final size:29
Alignment explanation
Indices: 15316069--15316124 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
15316059 GTTGGGTGGC
* *
15316069 CATTTTGAAAATTTTAAAAGTTGAGTGAT
1 CATTTTAAAAAATTTAAAAGTTGAGTGAT
*
15316098 CATTTTAAAAAATTTAAAAGTTTAGTG
1 CATTTTAAAAAATTTAAAAGTTGAGTG
15316125 GCCAAAAAGA
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:0.41, C:0.04, G:0.14, T:0.41
Consensus pattern (29 bp):
CATTTTAAAAAATTTAAAAGTTGAGTGAT
Found at i:15317853 original size:2 final size:2
Alignment explanation
Indices: 15317846--15317873 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
15317836 CATAAACAAG
15317846 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
15317874 GGTAAAGTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:15320468 original size:20 final size:18
Alignment explanation
Indices: 15320443--15320486 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 18
15320433 AGGGATCAAA
*
15320443 TTGAGACAAATAAGAAAATT
1 TTGAGA-AAACAAGAAAA-T
*
15320463 TTGAGAAAACATGAAAAT
1 TTGAGAAAACAAGAAAAT
15320481 TTGAGA
1 TTGAGA
15320487 TGCAGAGGAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 7 0.32
19 9 0.41
20 6 0.27
ACGTcount: A:0.52, C:0.05, G:0.18, T:0.25
Consensus pattern (18 bp):
TTGAGAAAACAAGAAAAT
Found at i:15320693 original size:54 final size:54
Alignment explanation
Indices: 15320593--15320695 Score: 134
Period size: 54 Copynumber: 1.9 Consensus size: 54
15320583 TCTCTACCTG
* * * * *
15320593 TGTAACTCTCTGACTAAATACACATGGTCGTGTCGCAGATCTTGTGCCAAGCCA
1 TGTAACTCACTGACTAAATACACATGGCCATGTCGCAGACCGTGTGCCAAGCCA
** *
15320647 TGTAACTCACTGACTTGATACACATGGCCATGTCGCAGCCCGTGTGCCA
1 TGTAACTCACTGACTAAATACACATGGCCATGTCGCAGACCGTGTGCCA
15320696 GGCCGTATGA
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
54 41 1.00
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.26
Consensus pattern (54 bp):
TGTAACTCACTGACTAAATACACATGGCCATGTCGCAGACCGTGTGCCAAGCCA
Found at i:15321676 original size:39 final size:39
Alignment explanation
Indices: 15321565--15321691 Score: 166
Period size: 39 Copynumber: 3.3 Consensus size: 39
15321555 CATTCAAGGT
* *
15321565 TACCAAAGTACAAATA-GAGCACGTATGTGCATTCAGGAG
1 TACCAAAGTACAAACAGGGGCACGTATGTGCA-TCAGGAG
* * *
15321604 TACCGAAGTACAAACAGGGGCATGTATGTGCATCAGGGG
1 TACCAAAGTACAAACAGGGGCACGTATGTGCATCAGGAG
* *
15321643 TACCAAAGTACAAACAGGGGCACATATGTGCATCAGAAG
1 TACCAAAGTACAAACAGGGGCACGTATGTGCATCAGGAG
*
15321682 TACCGAAGTA
1 TACCAAAGTA
15321692 AATTCACACA
Statistics
Matches: 76, Mismatches: 11, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
39 63 0.83
40 13 0.17
ACGTcount: A:0.37, C:0.19, G:0.26, T:0.18
Consensus pattern (39 bp):
TACCAAAGTACAAACAGGGGCACGTATGTGCATCAGGAG
Found at i:15326762 original size:12 final size:12
Alignment explanation
Indices: 15326745--15326769 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
15326735 ACTCCACCAT
15326745 CATCGCTGTCAC
1 CATCGCTGTCAC
15326757 CATCGCTGTCAC
1 CATCGCTGTCAC
15326769 C
1 C
15326770 GTAGCCGTCG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.44, G:0.16, T:0.24
Consensus pattern (12 bp):
CATCGCTGTCAC
Found at i:15327752 original size:26 final size:26
Alignment explanation
Indices: 15327723--15327775 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
15327713 TTTCTATTAT
*
15327723 TGATTGCATGTCTAAATCATGCCTAC
1 TGATGGCATGTCTAAATCATGCCTAC
* * *
15327749 TGATGGCATGTTTAAGTCATGCTTAC
1 TGATGGCATGTCTAAATCATGCCTAC
15327775 T
1 T
15327776 CTATAGCACT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.25, C:0.19, G:0.19, T:0.38
Consensus pattern (26 bp):
TGATGGCATGTCTAAATCATGCCTAC
Found at i:15335155 original size:21 final size:20
Alignment explanation
Indices: 15335126--15335171 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
15335116 TAAAATGAAA
15335126 TCAACCTAACA-TGAATTAAAT
1 TCAACCTAA-ATTG-ATTAAAT
*
15335147 TCAAGCTAAATTGATTAAAT
1 TCAACCTAAATTGATTAAAT
15335167 T-AACC
1 TCAACC
15335172 ATTCCAACAA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 3 0.14
20 9 0.41
21 10 0.45
ACGTcount: A:0.46, C:0.17, G:0.07, T:0.30
Consensus pattern (20 bp):
TCAACCTAAATTGATTAAAT
Found at i:15338640 original size:79 final size:79
Alignment explanation
Indices: 15338508--15338739 Score: 419
Period size: 79 Copynumber: 2.9 Consensus size: 79
15338498 GCGCATCAGA
*
15338508 GGATGTATGTGAGCAGCGTGCGGATCATTGAGCAAGCCTAGTGTGGGCACGCGCGGGGTGCTGCT
1 GGATGTATGTGAGCAGCGTGCGGATCATTGAGCAAGCCTAGTGTGGGCGCGCGCGGGGTGCTGCT
15338573 GACCGATCAGCAAG
66 GACCGATCAGCAAG
* *
15338587 GGATGTATGTGAGTAACGTGCGGATCATTGAGCAAGCCTAGTGTGGGCGCGCGCGGGGTGCTGCT
1 GGATGTATGTGAGCAGCGTGCGGATCATTGAGCAAGCCTAGTGTGGGCGCGCGCGGGGTGCTGCT
*
15338652 GACCGATCAGCAGG
66 GACCGATCAGCAAG
*
15338666 GGATGTATGTGAGCAGCGTGCGGATCATTGAGCAAGCCTAGTGTGGGCGCGCGCGGGGTGCTACT
1 GGATGTATGTGAGCAGCGTGCGGATCATTGAGCAAGCCTAGTGTGGGCGCGCGCGGGGTGCTGCT
15338731 GACCGATCA
66 GACCGATCA
15338740 ATTGGGAGAT
Statistics
Matches: 146, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
79 146 1.00
ACGTcount: A:0.19, C:0.21, G:0.40, T:0.20
Consensus pattern (79 bp):
GGATGTATGTGAGCAGCGTGCGGATCATTGAGCAAGCCTAGTGTGGGCGCGCGCGGGGTGCTGCT
GACCGATCAGCAAG
Found at i:15339208 original size:30 final size:30
Alignment explanation
Indices: 15339148--15339209 Score: 72
Period size: 30 Copynumber: 2.1 Consensus size: 30
15339138 GCTTTTCGAA
* * * *
15339148 AATATTTATAAAAAGAGACATCTAATTTTT
1 AATATTTACAAAAAGAGACACCAAAATTTT
15339178 AATATTTACAAAAAGAG-CAACCAAAATTTT
1 AATATTTACAAAAAGAGAC-ACCAAAATTTT
15339208 AA
1 AA
15339210 AATAATTCAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
29 1 0.04
30 26 0.96
ACGTcount: A:0.52, C:0.10, G:0.06, T:0.32
Consensus pattern (30 bp):
AATATTTACAAAAAGAGACACCAAAATTTT
Found at i:15357078 original size:95 final size:95
Alignment explanation
Indices: 15356766--15357070 Score: 576
Period size: 95 Copynumber: 3.2 Consensus size: 95
15356756 TCTCTTGACT
*
15356766 ATATCCCTATGTCAATTCAACTGATTAAACAAATCTTAATAGGCAAATATATTATTGCACATACA
1 ATATCCCTATGTCAATTCAACTGATTAAACAAATCTTAATAGGAAAATATATTATTGCACATACA
15356831 TACTTATTAAATCGAAATAATCTCTTTTAC
66 TACTTATTAAATCGAAATAATCTCTTTTAC
15356861 ATATCCCTATGTCAATTCAACTGATTAAACAAATCTTAATAGGAAAATATATTATTGCACATACA
1 ATATCCCTATGTCAATTCAACTGATTAAACAAATCTTAATAGGAAAATATATTATTGCACATACA
15356926 TACTTATTAAATCGAAATAATCTCTTTTAC
66 TACTTATTAAATCGAAATAATCTCTTTTAC
*
15356956 ATATCCCTATGTCAATTCAACCGATTAAACAAATCTTAATAGGAAAATATATTATTGCACATACA
1 ATATCCCTATGTCAATTCAACTGATTAAACAAATCTTAATAGGAAAATATATTATTGCACATACA
15357021 TACTTATTAAATCGAAATAATCT-TTTGTAC
66 TACTTATTAAATCGAAATAATCTCTTT-TAC
15357051 ATATCCCTATGTCAATTCAA
1 ATATCCCTATGTCAATTCAA
15357071 ACAATTAACT
Statistics
Matches: 207, Mismatches: 2, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
94 3 0.01
95 204 0.99
ACGTcount: A:0.40, C:0.18, G:0.07, T:0.35
Consensus pattern (95 bp):
ATATCCCTATGTCAATTCAACTGATTAAACAAATCTTAATAGGAAAATATATTATTGCACATACA
TACTTATTAAATCGAAATAATCTCTTTTAC
Found at i:15361571 original size:11 final size:11
Alignment explanation
Indices: 15361555--15361583 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
15361545 TTCTTAAAAT
15361555 GAACCACTTAA
1 GAACCACTTAA
15361566 GAACCACTTAA
1 GAACCACTTAA
15361577 GAACCAC
1 GAACCAC
15361584 CATATCACCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.45, C:0.31, G:0.10, T:0.14
Consensus pattern (11 bp):
GAACCACTTAA
Found at i:15361604 original size:22 final size:21
Alignment explanation
Indices: 15361578--15361640 Score: 63
Period size: 22 Copynumber: 2.9 Consensus size: 21
15361568 ACCACTTAAG
15361578 AACCACCATATCACCACCATAC
1 AACCACC-TATCACCACCATAC
* * *
15361600 GACCACCTAATCACTACCATTC
1 AACCACCT-ATCACCACCATAC
*
15361622 AACCACCTTAGCACCACCA
1 AACCACC-TATCACCACCA
15361641 CCGCATCAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
21 1 0.03
22 31 0.94
23 1 0.03
ACGTcount: A:0.37, C:0.44, G:0.03, T:0.16
Consensus pattern (21 bp):
AACCACCTATCACCACCATAC
Found at i:15362640 original size:48 final size:49
Alignment explanation
Indices: 15362552--15362672 Score: 165
Period size: 48 Copynumber: 2.5 Consensus size: 49
15362542 GTAAATAATT
* ** *
15362552 TGCAAATTTGGTGG-TTTTTCCACAACCTACATGTTTTGGTAGCTTGTC
1 TGCAAATTTGGTGGCTTTGTCCACAACCTACATGTACTGGTAGCTTGCC
*
15362600 TGCAAATTTGGTGGCTTTGTCCACAA-CTATATGTACTGGTAGCTTGCC
1 TGCAAATTTGGTGGCTTTGTCCACAACCTACATGTACTGGTAGCTTGCC
* *
15362648 TGCGAATTTGGTGGCTTCGTCCACA
1 TGCAAATTTGGTGGCTTTGTCCACA
15362673 TTTATATTGG
Statistics
Matches: 65, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
48 55 0.85
49 10 0.15
ACGTcount: A:0.19, C:0.21, G:0.23, T:0.37
Consensus pattern (49 bp):
TGCAAATTTGGTGGCTTTGTCCACAACCTACATGTACTGGTAGCTTGCC
Found at i:15372053 original size:22 final size:22
Alignment explanation
Indices: 15372002--15372063 Score: 61
Period size: 22 Copynumber: 2.8 Consensus size: 22
15371992 TAATTCGAAT
* *
15372002 CACCATCATACAACCACCTAAT
1 CACCACCATACAACCACCTAAG
* * *
15372024 CACTACCATTCAACCACCTTAG
1 CACCACCATACAACCACCTAAG
* *
15372046 CACCACCACACCACCACC
1 CACCACCATACAACCACC
15372064 ACATCAAAAT
Statistics
Matches: 31, Mismatches: 9, Indels: 0
0.77 0.22 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.35, C:0.48, G:0.02, T:0.15
Consensus pattern (22 bp):
CACCACCATACAACCACCTAAG
Found at i:15378125 original size:130 final size:130
Alignment explanation
Indices: 15377892--15378147 Score: 415
Period size: 130 Copynumber: 2.0 Consensus size: 130
15377882 ATTGACGCGG
15377892 CTGCCTACTTGGTGACTAATAAGGCTATACCTCTTTTGTATTCTTTATCTAATAAAATTTTCTTT
1 CTGCCTACTTGGTGACTAATAAGGCTATACCTCTTTTGTATTCTTTATCTAATAAAATTTTCTTT
* * * * *
15377957 CTCTATTAGTTGTACTTTTAATGTATGCACTTGCTTTTCCTTTCTCTACATTTATCTACTCTCGA
66 CTCTATCAATTGTACTTTCAATGTATGCACTTACTTTTCCTTTCTCTAAATTTATCTACTCTCGA
* *
15378022 CTGCCTACTTGGCT-ACTAATAAGGCTATACCTCTTTTGTATTCTTTATCTACTAAATTTTTCTT
1 CTGCCTACTTGG-TGACTAATAAGGCTATACCTCTTTTGTATTCTTTATCTAATAAAATTTTCTT
* *
15378086 TCTCTATCAATTGTACTTTCAATTTATGTACTTACTTTTCCTTTCTCTAAATTTATCTACTC
65 TCTCTATCAATTGTACTTTCAATGTATGCACTTACTTTTCCTTTCTCTAAATTTATCTACTC
15378148 GCATTTTCCT
Statistics
Matches: 116, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
130 115 0.99
131 1 0.01
ACGTcount: A:0.22, C:0.21, G:0.08, T:0.48
Consensus pattern (130 bp):
CTGCCTACTTGGTGACTAATAAGGCTATACCTCTTTTGTATTCTTTATCTAATAAAATTTTCTTT
CTCTATCAATTGTACTTTCAATGTATGCACTTACTTTTCCTTTCTCTAAATTTATCTACTCTCGA
Found at i:15381555 original size:72 final size:71
Alignment explanation
Indices: 15381431--15381669 Score: 309
Period size: 72 Copynumber: 3.3 Consensus size: 71
15381421 AAAATAAGCA
* *
15381431 TTAGCGGCGTTTTTGAGAAAGCACCGCAAAAAACCTAAGCCCAACGACGCCGTTTCCTGAGCTTT
1 TTAGCGGAGTTTTTGAGAAAGCGCCGCAAAAAACCTAAGCCCAACGACGCCGTTT-CTGAGCTTT
15381496 CGGGGAT
65 CGGGGAT
* * * *
15381503 TTAGCGGAGTTTTTGAGAAAGCGCCGCAAAAAACCTAAACCCAACAATGCCGTTTCTCGAGCTTA
1 TTAGCGGAGTTTTTGAGAAAGCGCCGCAAAAAACCTAAGCCCAACGACGCCGTTTCT-GAGCTTT
15381568 CGGGGAT
65 CGGGGAT
* * * * *
15381575 TTAGCGGCGTTTCTGAGAAAGCGCCACAAAAAACATAAGCCCAACGACGCCGTTTTGTGAGCTTT
1 TTAGCGGAGTTTTTGAGAAAGCGCCGCAAAAAACCTAAGCCCAACGACGCCG-TTTCTGAGCTTT
* *
15381640 CGAGGTT
65 CGGGGAT
*
15381647 TTAGCGGCA-TTTTTAAGAAAGCG
1 TTAGCGG-AGTTTTTGAGAAAGCG
15381670 TCGCTAATGC
Statistics
Matches: 144, Mismatches: 20, Indels: 6
0.85 0.12 0.04
Matches are distributed among these distances:
71 2 0.01
72 138 0.96
73 4 0.03
ACGTcount: A:0.28, C:0.23, G:0.25, T:0.23
Consensus pattern (71 bp):
TTAGCGGAGTTTTTGAGAAAGCGCCGCAAAAAACCTAAGCCCAACGACGCCGTTTCTGAGCTTTC
GGGGAT
Found at i:15381884 original size:114 final size:113
Alignment explanation
Indices: 15381574--15381902 Score: 455
Period size: 115 Copynumber: 2.9 Consensus size: 113
15381564 CTTACGGGGA
* *
15381574 TTTAGCGGCGTTTCTGAGAAAGCGCCACAAAAAACATAAGCCCAACGACGCCGTTTTGTGAGCTT
1 TTTAGCGGCGTTTCTGAGAAAGCGCCGCAAAAAACCTAAGCCCAACGACGCCGTTTTGTGAGCTT
* * * *
15381639 TCGAGGTTTTAGCGGCATTTTTAAGAAAGCGTCGCTAATGCTCAGGGC
66 TCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGC
* **
15381687 TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAAACCTAAGTTCAACGACGCCGTTTTGTGAGC
1 TTTAGCGGCGTTTCTGAGAAAGCGCCGC--AAAAAACCTAAGCCCAACGACGCCGTTTTGTGAGC
*
15381752 TTTCGGGGATTTATCGGCGTTTTTAATG-AAGCGCCGCTAATGCTCAGGGC
64 TTTCGGGGATTTAGCGGCGTTTTTAA-GAAAGCGCCGCTAATGCTCAGGGC
* * * **
15381802 TTTAGCGGCGCTTTCTCA-AAAACGCCGCAAGAAAACCTAAGCCCAACGGCGCCGTTTCCTGAGC
1 TTTAGCGGCG-TTTCTGAGAAAGCGCCGCAA-AAAACCTAAGCCCAACGACGCCGTTTTGTGAGC
*
15381866 TTTCGGGGATTTAGCGGCGTTTTTGAGAAAGCGCCGC
64 TTTCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGC
15381903 AAAAAACCTA
Statistics
Matches: 190, Mismatches: 20, Indels: 11
0.86 0.09 0.05
Matches are distributed among these distances:
113 29 0.15
114 61 0.32
115 94 0.49
116 6 0.03
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.26
Consensus pattern (113 bp):
TTTAGCGGCGTTTCTGAGAAAGCGCCGCAAAAAACCTAAGCCCAACGACGCCGTTTTGTGAGCTT
TCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGC
Found at i:15381928 original size:72 final size:71
Alignment explanation
Indices: 15381802--15382045 Score: 274
Period size: 72 Copynumber: 3.3 Consensus size: 71
15381792 TGCTCAGGGC
* * *
15381802 TTTAGCGGCGCTTTCTCA-AAAACGCCGCAAGAAAACCTAAGCCCAACGGCGCCGTTTCCTGAGC
1 TTTAGCGGCG-TTTCTGAGAAAGCGCCGCAA-AAAACCTAAGCCCAACGACGCCGTTT-CTGAGC
15381866 TTTCGGGGA
63 TTTCGGGGA
* * *
15381875 TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAAGCCCAACAATGCCGTTTCTCGAGCTT
1 TTTAGCGGCGTTTCTGAGAAAGCGCCGCAAAAAACCTAAGCCCAACGACGCCGTTTCT-GAGCTT
*
15381940 CCGGGGA
65 TCGGGGA
* * *
15381947 TTTAGCGGCGTTTCTGAGAAAGCGCCACAAAAAAAAACATAAGCCCAACGACGCCGTTTTGTGAG
1 TTTAGCGGCGTTTCTGAGAAAGCGCCGC---AAAAAACCTAAGCCCAACGACGCCG-TTTCTGAG
* *
15382012 CTTTCGAGGT
62 CTTTCGGGGA
* * *
15382022 TTTAGCGGCATTTTTAAGAAAGCG
1 TTTAGCGGCGTTTCTGAGAAAGCG
15382046 TCGCTAATGC
Statistics
Matches: 146, Mismatches: 19, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
71 2 0.01
72 66 0.45
73 21 0.14
75 53 0.36
76 4 0.03
ACGTcount: A:0.27, C:0.25, G:0.25, T:0.23
Consensus pattern (71 bp):
TTTAGCGGCGTTTCTGAGAAAGCGCCGCAAAAAACCTAAGCCCAACGACGCCGTTTCTGAGCTTT
CGGGGA
Found at i:15382016 original size:261 final size:260
Alignment explanation
Indices: 15381687--15382163 Score: 699
Period size: 261 Copynumber: 1.8 Consensus size: 260
15381677 TGCTCAGGGC
* * * **
15381687 TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAAACCTAAGTTCAACGACGCCGTTTTGTGAGC
1 TTTAGCGGCGTTTCTGAGAAAGCGCCACAAAAAAAACATAAGCCCAACGACGCCGTTTTGTGAGC
* * *
15381752 TTTCGGGGATTTATCGGCGTTTTTAATG-AAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGCTTT
66 TTTCGAGGATTTAGCGGCATTTTTAA-GAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCG-TTT
* *
15381816 CTCA-AAAACGCCGCAAGAAAACCTAAGCCCAACGGCGCCGTTTCCTGAGCTTTCGGGGATTTAG
129 CTCAGAAAACGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTCCTGAGCTTTCGGGGATTTAG
*
15381880 CGGCGTTTTTGA-GAAAGCGCCGCAAAAAACCTAAGCCCAACAATGCCGTTTCTCGAGCTTCCGG
194 CGGCGTTTTTAATG-AAGCGCCGCAAAAAACCTAAGCCCAACAATGCCGTTTCTCGAGCTTCCGG
15381944 GGA
258 GGA
15381947 TTTAGCGGCGTTTCTGAGAAAGCGCCACAAAAAAAAACATAAGCCCAACGACGCCGTTTTGTGAG
1 TTTAGCGGCGTTTCTGAGAAAGCGCCAC-AAAAAAAACATAAGCCCAACGACGCCGTTTTGTGAG
* * * *
15382012 CTTTCGAGGTTTTAGCGGCATTTTTAAGAAAGCGTCGCTAATGCTCAGGGCTTTAGCGGTGTTTT
65 CTTTCGAGGATTTAGCGGCATTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTC
* * ** ** *
15382077 TGAGAAAGCGCCGCAAAAAAACCTAAGTTCAACGACGCCGTTTTGTGAGCTTTCGGGGATTTATC
130 TCAGAAAACGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTCCTGAGCTTTCGGGGATTTAGC
15382142 GGCGTTTTTAATGAAGCGCCGC
195 GGCGTTTTTAATGAAGCGCCGC
15382164 TAATGCTCAG
Statistics
Matches: 191, Mismatches: 22, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
260 32 0.17
261 158 0.83
262 1 0.01
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.26
Consensus pattern (260 bp):
TTTAGCGGCGTTTCTGAGAAAGCGCCACAAAAAAAACATAAGCCCAACGACGCCGTTTTGTGAGC
TTTCGAGGATTTAGCGGCATTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTCT
CAGAAAACGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTCCTGAGCTTTCGGGGATTTAGCG
GCGTTTTTAATGAAGCGCCGCAAAAAACCTAAGCCCAACAATGCCGTTTCTCGAGCTTCCGGGGA
Found at i:15382150 original size:114 final size:115
Alignment explanation
Indices: 15381947--15382496 Score: 626
Period size: 114 Copynumber: 4.7 Consensus size: 115
15381937 CTTCCGGGGA
* * *
15381947 TTTAGCGGCG-TTTCTGAGAAAGCGCCACAAAAAAAAACATAAGCCCAACGACGCCGTTTTGTGA
1 TTTAGCGGCGCTTTTTGAGAAAGCGCCGC--AAAAAAACCTAAGCCCAACGACGCCGTTTTGTGA
* * * *
15382011 GCTTTCGAGGTTTTAGCGGCATTTTTAAGAAAGCGTCGCTAATGCTCAGGGC
64 GCTTTCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGC
* **
15382063 TTTAGCGGTG-TTTTTGAGAAAGCGCCGCAAAAAAACCTAAGTTCAACGACGCCGTTTTGTGAGC
1 TTTAGCGGCGCTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTGTGAGC
*
15382127 TTTCGGGGATTTATCGGCGTTTTTAATG-AAGCGCCGCTAATGCTCAGGGC
66 TTTCGGGGATTTAGCGGCGTTTTTAA-GAAAGCGCCGCTAATGCTCAGGGC
* * * * *
15382177 TTTAGCGGCGCTTTCTCA-AAAACGCCGCAAGAAAACCTAAGCCCAACGGCGCCGTTTTGTGAGC
1 TTTAGCGGCGCTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTGTGAGC
*
15382241 TTTCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTTATGCTCAGGGC
66 TTTCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGC
* ** * * *
15382291 TTTAACGG-GCATTTTTGAGAAAGCGCCGCAAAAAAACCTAAGTTTCAACGACGCCATTTTCTAA
1 TTTAGCGGCGC-TTTTTGAGAAAGCGCCGCAAAAAAACCTAAG-CCCAACGACGCCGTTTTGT-G
* * *
15382355 AACTTTCGGGGGATTTAGCGGCGTTTTTAATAAAGCGCCCGCTAATGTTTCAGGGC
63 AGCTTTC-GGGGATTTAGCGGCGTTTTTAAGAAAGCG-CCGCTAATG-CTCAGGGC
* * ** * *
15382411 TTTTAGCGGCGTTTTTTGAGGAAAGCCCCCGC-AAAAATTCTAAGCCCAAAGACGCCCGTTTTCT
1 -TTTAGCGGCGCTTTTTGA-GAAAG-CGCCGCAAAAAAACCTAAGCCCAACGACG-CCGTTTTGT
*
15382475 GAGGCTTTTCAGGGATTTAGCG
62 GA-GC-TTTCGGGGATTTAGCG
15382497 CCCAAAAATG
Statistics
Matches: 369, Mismatches: 48, Indels: 28
0.83 0.11 0.06
Matches are distributed among these distances:
113 3 0.01
114 184 0.50
115 27 0.07
116 39 0.11
117 6 0.02
118 28 0.08
119 8 0.02
120 7 0.02
121 22 0.06
122 36 0.10
123 9 0.02
ACGTcount: A:0.25, C:0.22, G:0.25, T:0.27
Consensus pattern (115 bp):
TTTAGCGGCGCTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTGTGAGC
TTTCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGC
Found at i:15382222 original size:375 final size:373
Alignment explanation
Indices: 15381454--15382277 Score: 1535
Period size: 375 Copynumber: 2.2 Consensus size: 373
15381444 TGAGAAAGCA
* *
15381454 CCGCAA-AAAACCTAAGCCCAACGACGCCGTTTCCTGAGCTTTCGGGGATTTAGCGGAGTTTTTG
1 CCGCAAGAAAACCTAAGCCCAACGGCGCCGTTTCCTGAGCTTTCGGGGATTTAGCGGCGTTTTTG
15381518 AGAAAGCGCCGCAAAAAACCTAAACCCAACAATGCCGTTTCTCGAGCTTACGGGGATTTAGCGGC
66 AGAAAGCGCCGCAAAAAACCTAAACCCAACAATGCCGTTTCTCGAGCTTACGGGGATTTAGCGGC
15381583 GTTTCTGAGAAAGCGCCACAAAAAACATAAGCCCAACGACGCCGTTTTGTGAGCTTTCGAGGTTT
131 GTTTCTGAGAAAGCGCCACAAAAAACATAAGCCCAACGACGCCGTTTTGTGAGCTTTCGAGGTTT
15381648 TAGCGGCATTTTTAAGAAAGCGTCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGAGAAAGCGCC
196 TAGCGGCATTTTTAAGAAAGCGTCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGAGAAAGCGCC
15381713 GCAAAAAAAACCTAAGTTCAACGACGCCGTTTTGTGAGCTTTCGGGGATTTATCGGCGTTTTTAA
261 GCAAAAAAAACCTAAGTTCAACGACGCCGTTTTGTGAGCTTTCGGGGATTTATCGGCGTTTTTAA
15381778 TGAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGCTTTCTCAAAAACG
326 TGAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGCTTTCTCAAAAACG
15381826 CCGCAAGAAAACCTAAGCCCAACGGCGCCGTTTCCTGAGCTTTCGGGGATTTAGCGGCGTTTTTG
1 CCGCAAGAAAACCTAAGCCCAACGGCGCCGTTTCCTGAGCTTTCGGGGATTTAGCGGCGTTTTTG
* *
15381891 AGAAAGCGCCGCAAAAAACCTAAGCCCAACAATGCCGTTTCTCGAGCTTCCGGGGATTTAGCGGC
66 AGAAAGCGCCGCAAAAAACCTAAACCCAACAATGCCGTTTCTCGAGCTTACGGGGATTTAGCGGC
15381956 GTTTCTGAGAAAGCGCCACAAAAAAAAACATAAGCCCAACGACGCCGTTTTGTGAGCTTTCGAGG
131 GTTTCTGAGAAAGCGCCAC---AAAAAACATAAGCCCAACGACGCCGTTTTGTGAGCTTTCGAGG
*
15382021 TTTTAGCGGCATTTTTAAGAAAGCGTCGCTAATGCTCAGGGCTTTAGCGGTGTTTTTGAGAAAGC
193 TTTTAGCGGCATTTTTAAGAAAGCGTCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGAGAAAGC
15382086 GCCGC-AAAAAAACCTAAGTTCAACGACGCCGTTTTGTGAGCTTTCGGGGATTTATCGGCGTTTT
258 GCCGCAAAAAAAACCTAAGTTCAACGACGCCGTTTTGTGAGCTTTCGGGGATTTATCGGCGTTTT
15382150 TAATGAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGCTTTCTCAAAAACG
323 TAATGAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGCTTTCTCAAAAACG
** *
15382201 CCGCAAGAAAACCTAAGCCCAACGGCGCCGTTTTGTGAGCTTTCGGGGATTTAGCGGCGTTTTTA
1 CCGCAAGAAAACCTAAGCCCAACGGCGCCGTTTCCTGAGCTTTCGGGGATTTAGCGGCGTTTTTG
15382266 AGAAAGCGCCGC
66 AGAAAGCGCCGC
15382278 TTATGCTCAG
Statistics
Matches: 440, Mismatches: 8, Indels: 5
0.97 0.02 0.01
Matches are distributed among these distances:
372 6 0.01
373 138 0.31
375 184 0.42
376 112 0.25
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.25
Consensus pattern (373 bp):
CCGCAAGAAAACCTAAGCCCAACGGCGCCGTTTCCTGAGCTTTCGGGGATTTAGCGGCGTTTTTG
AGAAAGCGCCGCAAAAAACCTAAACCCAACAATGCCGTTTCTCGAGCTTACGGGGATTTAGCGGC
GTTTCTGAGAAAGCGCCACAAAAAACATAAGCCCAACGACGCCGTTTTGTGAGCTTTCGAGGTTT
TAGCGGCATTTTTAAGAAAGCGTCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGAGAAAGCGCC
GCAAAAAAAACCTAAGTTCAACGACGCCGTTTTGTGAGCTTTCGGGGATTTATCGGCGTTTTTAA
TGAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGCTTTCTCAAAAACG
Found at i:15388173 original size:15 final size:15
Alignment explanation
Indices: 15388153--15388182 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
15388143 GAGTTGAAAG
15388153 TGAAGAAGAAGATGA
1 TGAAGAAGAAGATGA
*
15388168 TGAAGATGAAGATGA
1 TGAAGAAGAAGATGA
15388183 AGATGAAGAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.33, T:0.17
Consensus pattern (15 bp):
TGAAGAAGAAGATGA
Found at i:15388181 original size:12 final size:12
Alignment explanation
Indices: 15388166--15388194 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
15388156 AGAAGAAGAT
15388166 GATGAAGATGAA
1 GATGAAGATGAA
15388178 GATGAAGATGAA
1 GATGAAGATGAA
15388190 GATGA
1 GATGA
15388195 TCCATTTCCG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.48, C:0.00, G:0.34, T:0.17
Consensus pattern (12 bp):
GATGAAGATGAA
Found at i:15388658 original size:42 final size:40
Alignment explanation
Indices: 15388546--15388663 Score: 125
Period size: 42 Copynumber: 2.9 Consensus size: 40
15388536 GTTTGTAATC
* *
15388546 AAAGCGTCGCTAAAGGTCTTTGATCTATAGCGGCG--TGGGA
1 AAAGCG-CACTAAAGGTC-ATGATCTATAGCGGCGTTTGGGA
* * *
15388586 AAAGCGCACTAAAGGTCCTAACCTATAGCGGCGTTTGTGAGA
1 AAAGCGCACTAAAGGTCATGATCTATAGCGGCGTTTG-G-GA
15388628 AAAGCGCCACTAAAGGTCATGATCTA-AGCGGCGTTT
1 AAAGCG-CACTAAAGGTCATGATCTATAGCGGCGTTT
15388664 ATACAACAGC
Statistics
Matches: 66, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
38 13 0.20
39 10 0.15
40 8 0.12
41 1 0.02
42 18 0.27
43 16 0.24
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.23
Consensus pattern (40 bp):
AAAGCGCACTAAAGGTCATGATCTATAGCGGCGTTTGGGA
Found at i:15394605 original size:20 final size:20
Alignment explanation
Indices: 15394553--15394607 Score: 56
Period size: 22 Copynumber: 2.6 Consensus size: 20
15394543 TAATATAATT
*
15394553 TTTTTAATAATTTATATATTA
1 TTTTTAAT-GTTTATATATTA
* *
15394574 TATATTATATGTTTATATTTTA
1 T-TTTTA-ATGTTTATATATTA
15394596 TTTTTAATGTTT
1 TTTTTAATGTTT
15394608 GAATTTAGGA
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
20 6 0.21
21 5 0.18
22 15 0.54
23 2 0.07
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (20 bp):
TTTTTAATGTTTATATATTA
Found at i:15394872 original size:27 final size:27
Alignment explanation
Indices: 15394842--15394893 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
15394832 TGTTATTCTT
*
15394842 TTATGTTTTTAATTTTA-TTTTAATAGA
1 TTATGTTTAT-ATTTTATTTTTAATAGA
15394869 TTATGTTTATATTTTATTTTTAATA
1 TTATGTTTATATTTTATTTTTAATA
15394894 AAAATATTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 6 0.26
27 17 0.74
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (27 bp):
TTATGTTTATATTTTATTTTTAATAGA
Found at i:15394903 original size:26 final size:26
Alignment explanation
Indices: 15394849--15394910 Score: 65
Period size: 26 Copynumber: 2.4 Consensus size: 26
15394839 CTTTTATGTT
** *
15394849 TTTA-ATTTTATTTTAATAGATTATG
1 TTTATATTTTATTTTAATAGAAAATA
15394874 TTTATATTTTATTTTTAATA-AAAATA
1 TTTATATTTTA-TTTTAATAGAAAATA
*
15394900 TTTATGTTTTA
1 TTTATATTTTA
15394911 ATATTTATTT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
25 4 0.13
26 19 0.61
27 8 0.26
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (26 bp):
TTTATATTTTATTTTAATAGAAAATA
Found at i:15398024 original size:18 final size:20
Alignment explanation
Indices: 15397994--15398030 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
15397984 ATTAGAATGC
15397994 GTAAAAGAACAAAT-AAAAA
1 GTAAAAGAACAAATGAAAAA
15398013 GTAAAA-AACAAATGAAAA
1 GTAAAAGAACAAATGAAAA
15398031 CTTAAAGCTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.73, C:0.05, G:0.11, T:0.11
Consensus pattern (20 bp):
GTAAAAGAACAAATGAAAAA
Found at i:15398250 original size:17 final size:17
Alignment explanation
Indices: 15398213--15398250 Score: 53
Period size: 16 Copynumber: 2.3 Consensus size: 17
15398203 CACAGAATAT
15398213 TTTTTATTTTTTTCGTA
1 TTTTTATTTTTTTCGTA
15398230 -TTTTATTTTTTT-GTA
1 TTTTTATTTTTTTCGTA
15398245 CTTTTT
1 -TTTTT
15398251 TTAATCATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
15 3 0.16
16 12 0.63
17 4 0.21
ACGTcount: A:0.11, C:0.05, G:0.05, T:0.79
Consensus pattern (17 bp):
TTTTTATTTTTTTCGTA
Found at i:15409040 original size:15 final size:15
Alignment explanation
Indices: 15409005--15409046 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
15408995 TTAAGAATTT
*
15409005 TATTAAATTAT-ATA
1 TATTTAATTATAATA
15409019 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
15409033 TATTTAATAATAAT
1 TATTTAATTATAAT
15409047 TATGTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:15409255 original size:44 final size:45
Alignment explanation
Indices: 15409192--15409288 Score: 126
Period size: 45 Copynumber: 2.2 Consensus size: 45
15409182 CTATTATACC
* *
15409192 TCCATTCCATTCAACCAAACACA-AGA-ATACTATTACGCTTCTAT
1 TCCATTACATTCAACCAAACA-ATAGATATACTATTACGCCTCTAT
* * *
15409236 TCCATTACATTCAACCAAACAATTGATTTGCTATTACGCCTCTAT
1 TCCATTACATTCAACCAAACAATAGATATACTATTACGCCTCTAT
15409281 TCCATTAC
1 TCCATTAC
15409289 GTCTCTATTC
Statistics
Matches: 46, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
43 1 0.02
44 22 0.48
45 23 0.50
ACGTcount: A:0.33, C:0.29, G:0.05, T:0.33
Consensus pattern (45 bp):
TCCATTACATTCAACCAAACAATAGATATACTATTACGCCTCTAT
Found at i:15409289 original size:16 final size:16
Alignment explanation
Indices: 15409268--15409300 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
15409258 TTGATTTGCT
15409268 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
*
15409284 ATTACGTCTCTATTCC
1 ATTACGCCTCTATTCC
15409300 A
1 A
15409301 ATACAGCGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.21, C:0.33, G:0.06, T:0.39
Consensus pattern (16 bp):
ATTACGCCTCTATTCC
Found at i:15412529 original size:36 final size:36
Alignment explanation
Indices: 15412489--15412595 Score: 97
Period size: 36 Copynumber: 3.2 Consensus size: 36
15412479 AAGTTCATGA
15412489 AAAAAATTGAAGTTGATACAAGAATGAAAATTCAAT
1 AAAAAATTGAAGTTGATACAAGAATGAAAATTCAAT
* **
15412525 AAAAAA-T--A--T-ATAC-ATAAT-ACAAATAT-TGT
1 AAAAAATTGAAGTTGATACAAGAATGA-AAAT-TCAAT
*
15412554 AAATAATTGAAGTTGATACAAGAATGAAAATTCAAT
1 AAAAAATTGAAGTTGATACAAGAATGAAAATTCAAT
15412590 AAAAAA
1 AAAAAA
15412596 ACAGGTACAT
Statistics
Matches: 52, Mismatches: 8, Indels: 22
0.63 0.10 0.27
Matches are distributed among these distances:
28 1 0.02
29 14 0.27
30 6 0.12
31 1 0.02
32 1 0.02
33 1 0.02
34 1 0.02
35 6 0.12
36 20 0.38
37 1 0.02
ACGTcount: A:0.58, C:0.06, G:0.10, T:0.26
Consensus pattern (36 bp):
AAAAAATTGAAGTTGATACAAGAATGAAAATTCAAT
Found at i:15412661 original size:66 final size:66
Alignment explanation
Indices: 15412493--15412790 Score: 436
Period size: 67 Copynumber: 4.5 Consensus size: 66
15412483 TCATGAAAAA
* *
15412493 AATTGAAGTTGATACAAGAATGAAAATTCAATAAAAAATATATACATAATACAAATAT-TGTAAA
1 AATTGAAGTTGATACAAGAATGAAAATTCAATAAAAAACATATACATAATGCAAATATATGTAAA
15412557 T
66 T
** *
15412558 AATTGAAGTTGATACAAGAATGAAAATTCAATAAAAAAACAGGTACATAATGCAAATATATGTGA
1 AATTGAAGTTGATACAAGAATGAAAATTCAAT-AAAAAACATATACATAATGCAAATATATGTAA
15412623 AT
65 AT
* * *
15412625 AACTGAAGTTGATACAAGAATGAAAATTCAATAAAAAAACATATGCATAATGTAAATATATGTAA
1 AATTGAAGTTGATACAAGAATGAAAATTCAAT-AAAAAACATATACATAATGCAAATATATGTAA
15412690 AT
65 AT
* * * * * *
15412692 AAATGAAGTTGACACAATAATGAAAATTCAATAAAAAACAAATACATCATGCAAACATATGTAAA
1 AATTGAAGTTGATACAAGAATGAAAATTCAATAAAAAACATATACATAATGCAAATATATGTAAA
15412757 T
66 T
*
15412758 AATTGAATTTGATACAAGAATGAAAATTCAATA
1 AATTGAAGTTGATACAAGAATGAAAATTCAATA
15412791 CATAATTTAC
Statistics
Matches: 208, Mismatches: 23, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
65 32 0.15
66 80 0.38
67 96 0.46
ACGTcount: A:0.54, C:0.08, G:0.11, T:0.27
Consensus pattern (66 bp):
AATTGAAGTTGATACAAGAATGAAAATTCAATAAAAAACATATACATAATGCAAATATATGTAAA
T
Found at i:15412752 original size:133 final size:133
Alignment explanation
Indices: 15412496--15412790 Score: 441
Period size: 133 Copynumber: 2.2 Consensus size: 133
15412486 TGAAAAAAAT
*
15412496 TGAAGTTGATACAAGAATGAAAATTCAAT-AAAAAATATATACATAATACAAATATTGTAAATAA
1 TGAAGTTGATACAAGAATGAAAATTCAATAAAAAAACATATACATAATACAAATATTGTAAATAA
* * ** * *
15412560 TTGAAGTTGATACAAGAATGAAAATTCAATAAAAAAACAGGTACATAATGCAAATATATGTGAAT
66 ATGAAGTTGACACAAGAATGAAAATTCAATAAAAAAACAAATACATAATGCAAACATATGTAAAT
15412625 AAC
131 AAC
* **
15412628 TGAAGTTGATACAAGAATGAAAATTCAATAAAAAAACATATGCATAATGTAAATATATGTAAATA
1 TGAAGTTGATACAAGAATGAAAATTCAATAAAAAAACATATACATAATACAAATAT-TGTAAATA
* *
15412693 AATGAAGTTGACACAATAATGAAAATTCAAT-AAAAAACAAATACATCATGCAAACATATGTAAA
65 AATGAAGTTGACACAAGAATGAAAATTCAATAAAAAAACAAATACATAATGCAAACATATGTAAA
*
15412757 TAAT
130 TAAC
*
15412761 TGAATTTGATACAAGAATGAAAATTCAATA
1 TGAAGTTGATACAAGAATGAAAATTCAATA
15412791 CATAATTTAC
Statistics
Matches: 147, Mismatches: 14, Indels: 3
0.90 0.09 0.02
Matches are distributed among these distances:
132 29 0.20
133 82 0.56
134 36 0.24
ACGTcount: A:0.54, C:0.08, G:0.12, T:0.26
Consensus pattern (133 bp):
TGAAGTTGATACAAGAATGAAAATTCAATAAAAAAACATATACATAATACAAATATTGTAAATAA
ATGAAGTTGACACAAGAATGAAAATTCAATAAAAAAACAAATACATAATGCAAACATATGTAAAT
AAC
Found at i:15414116 original size:20 final size:18
Alignment explanation
Indices: 15414069--15414117 Score: 57
Period size: 20 Copynumber: 2.7 Consensus size: 18
15414059 CAAGATAAAC
15414069 ATTAAATTAA-ATTTAAT
1 ATTAAATTAATATTTAAT
15414086 ATTAAGA-TAATTACTTTAAT
1 ATTAA-ATTAA-TA-TTTAAT
15414106 ATTAAATTAATA
1 ATTAAATTAATA
15414118 AAATACTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
17 8 0.30
18 1 0.04
19 4 0.15
20 14 0.52
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (18 bp):
ATTAAATTAATATTTAAT
Found at i:15419883 original size:27 final size:27
Alignment explanation
Indices: 15419850--15420079 Score: 356
Period size: 27 Copynumber: 8.6 Consensus size: 27
15419840 TTAAGCACAC
15419850 AGTCATTTTATAACATAGGGGCATAAT
1 AGTCATTTTATAACATAGGGGCATAAT
*
15419877 AGTCATTTTATAACATAGGGGCATAAC
1 AGTCATTTTATAACATAGGGGCATAAT
* *
15419904 AGTCATTTTATAACTTAGGGGCATAAC
1 AGTCATTTTATAACATAGGGGCATAAT
* *
15419931 AGTCATTTTATAACAAAAGGGCATAACT
1 AGTCATTTTATAACATAGGGGCATAA-T
15419959 -GTCATTTTATAACATAGGGGCATAAT
1 AGTCATTTTATAACATAGGGGCATAAT
* *
15419985 CGTCATTTTATAACATAGGGGCATAAC
1 AGTCATTTTATAACATAGGGGCATAAT
* *
15420012 CGTCATTTTATAACATAGGGGCCTAAT
1 AGTCATTTTATAACATAGGGGCATAAT
15420039 AGTCATTTTATAACATA-GGGCATAAT
1 AGTCATTTTATAACATAGGGGCATAAT
15420065 AGTCATTTTATAACA
1 AGTCATTTTATAACA
15420080 GTTTTGGGGT
Statistics
Matches: 188, Mismatches: 13, Indels: 5
0.91 0.06 0.02
Matches are distributed among these distances:
26 24 0.13
27 164 0.87
ACGTcount: A:0.36, C:0.14, G:0.17, T:0.33
Consensus pattern (27 bp):
AGTCATTTTATAACATAGGGGCATAAT
Found at i:15429169 original size:20 final size:18
Alignment explanation
Indices: 15429122--15429228 Score: 69
Period size: 20 Copynumber: 5.8 Consensus size: 18
15429112 CAAGATAAAC
15429122 ATTAAATTAA-ATTTAAT
1 ATTAAATTAATATTTAAT
15429139 ATTAAGA-TAATCACTTTAAT
1 ATTAA-ATTAAT-A-TTTAAT
**
15429159 ATTAAATTAATAAAATAAT
1 ATTAAATTAAT-ATTTAAT
*
15429178 ATTAAGATAAATA-TTAA-
1 ATTAA-ATTAATATTTAAT
**
15429195 ATTAAATTTAATATAAAACT
1 ATTAAA-TTAATATTTAA-T
*
15429215 ATTAAAATAATATT
1 ATTAAATTAATATT
15429229 ATTTTTCGAA
Statistics
Matches: 70, Mismatches: 10, Indels: 18
0.71 0.10 0.18
Matches are distributed among these distances:
16 1 0.01
17 18 0.26
18 6 0.09
19 18 0.26
20 27 0.39
ACGTcount: A:0.55, C:0.03, G:0.02, T:0.40
Consensus pattern (18 bp):
ATTAAATTAATATTTAAT
Found at i:15429192 original size:12 final size:11
Alignment explanation
Indices: 15429156--15429229 Score: 50
Period size: 12 Copynumber: 6.6 Consensus size: 11
15429146 TAATCACTTT
*
15429156 AATATTAAATT
1 AATATTAAATA
15429167 AATA--AAAT-
1 AATATTAAATA
15429175 AATATTAAGATA
1 AATATTAA-ATA
15429187 AATATTAAATTA
1 AATATTAAA-TA
15429199 AAT-TTAATATAA
1 AATATTAA-AT-A
15429211 AACTATTAAA-A
1 AA-TATTAAATA
15429222 TAATATTA
1 -AATATTA
15429230 TTTTTCGAAT
Statistics
Matches: 53, Mismatches: 0, Indels: 20
0.73 0.00 0.27
Matches are distributed among these distances:
8 4 0.08
9 4 0.08
10 2 0.04
11 18 0.34
12 19 0.36
13 2 0.04
14 4 0.08
ACGTcount: A:0.59, C:0.01, G:0.01, T:0.38
Consensus pattern (11 bp):
AATATTAAATA
Found at i:15430866 original size:15 final size:15
Alignment explanation
Indices: 15430842--15430873 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
15430832 TATGAATGTA
*
15430842 AAATATAAAAGACAT
1 AAATACAAAAGACAT
15430857 AAATACAAAAGACAT
1 AAATACAAAAGACAT
15430872 AA
1 AA
15430874 TAGTGAAATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.69, C:0.09, G:0.06, T:0.16
Consensus pattern (15 bp):
AAATACAAAAGACAT
Found at i:15435958 original size:27 final size:27
Alignment explanation
Indices: 15435920--15436199 Score: 223
Period size: 27 Copynumber: 10.4 Consensus size: 27
15435910 TATCTGCACC
15435920 GAAATACCCCCATAGGAG-AAAATAACT
1 GAAATACCCCCATAGG-GTAAAATAACT
* *
15435947 GAAATACCCCCACAGGGTAAAATAACC
1 GAAATACCCCCATAGGGTAAAATAACT
* *
15435974 GAAATA-CCCCATAGGGTAGAATGACT
1 GAAATACCCCCATAGGGTAAAATAACT
* * *
15436000 GAAATACCTCCATAGGGTAAAATGACC
1 GAAATACCCCCATAGGGTAAAATAACT
* * * *
15436027 AAAATACCCTCATAGGGTAGAATGACT
1 GAAATACCCCCATAGGGTAAAATAACT
* *
15436054 GAAGTACCCCTAT-GGGTAAAATAA-T
1 GAAATACCCCCATAGGGTAAAATAACT
* * *
15436079 CGAAATACCCCTACAGGGTAAAATGA-T
1 -GAAATACCCCCATAGGGTAAAATAACT
* * * * *
15436106 CGAAATATCTCTATAGGGTAGAATGACT
1 -GAAATACCCCCATAGGGTAAAATAACT
* *
15436134 GAAATACCCCTATAGGGTAAAATGA-T
1 GAAATACCCCCATAGGGTAAAATAACT
* * * *
15436160 CAAAATACTCCTATAGGGTAAAATGACCT
1 -GAAATACCCCCATAGGGTAAAAT-AACT
15436189 -AAATACCCCCA
1 GAAATACCCCCA
15436200 CAGACTAGTA
Statistics
Matches: 209, Mismatches: 36, Indels: 16
0.80 0.14 0.06
Matches are distributed among these distances:
25 1 0.00
26 44 0.21
27 162 0.78
28 1 0.00
29 1 0.00
ACGTcount: A:0.41, C:0.21, G:0.17, T:0.20
Consensus pattern (27 bp):
GAAATACCCCCATAGGGTAAAATAACT
Found at i:15436062 original size:80 final size:81
Alignment explanation
Indices: 15435919--15436236 Score: 310
Period size: 80 Copynumber: 4.0 Consensus size: 81
15435909 ATATCTGCAC
* * * * * * * *
15435919 CGAAATACC-CCCATAGGAG-AAAATAACTGAAATACCCCCACAGGGTAAAATAACCGAAATACC
1 CGAAATACCTCCTATAGG-GTAAAATGACCGAAATACCCTCATAGGGTAGAATGACTGAAATACC
*
15435982 CCATAGGGTAGAATGA-
65 CCATAGGGTAAAATGAT
* *
15435998 CTGAAATACCTCC-ATAGGGTAAAATGACCAAAATACCCTCATAGGGTAGAATGACTGAAGTACC
1 C-GAAATACCTCCTATAGGGTAAAATGACCGAAATACCCTCATAGGGTAGAATGACTGAAATACC
*
15436062 CC-TATGGGTAAAATAAT
65 CCATA-GGGTAAAATGAT
* * *
15436079 CGAAATACC-CCTACAGGGTAAAATGATCGAAATA-TCTCTATAGGGTAGAATGACTGAAATACC
1 CGAAATACCTCCTATAGGGTAAAATGACCGAAATACCCTC-ATAGGGTAGAATGACTGAAATACC
15436142 CCTATAGGGTAAAATGAT
65 CC-ATAGGGTAAAATGAT
* * * * ** * *
15436160 CAAAATA-CTCCTATAGGGTAAAATGACCTAAATACCCCCACAGACTAGTATGACCGAAATACCC
1 CGAAATACCTCCTATAGGGTAAAATGACCGAAATACCCTCATAGGGTAGAATGACTGAAATACCC
*
15436224 TTATAGGGTAAAA
66 -CATAGGGTAAAA
15436237 GGACTGTTAT
Statistics
Matches: 198, Mismatches: 29, Indels: 22
0.80 0.12 0.09
Matches are distributed among these distances:
79 9 0.05
80 112 0.57
81 73 0.37
82 4 0.02
ACGTcount: A:0.41, C:0.21, G:0.18, T:0.20
Consensus pattern (81 bp):
CGAAATACCTCCTATAGGGTAAAATGACCGAAATACCCTCATAGGGTAGAATGACTGAAATACCC
CATAGGGTAAAATGAT
Found at i:15436141 original size:54 final size:54
Alignment explanation
Indices: 15435920--15436253 Score: 265
Period size: 54 Copynumber: 6.2 Consensus size: 54
15435910 TATCTGCACC
* * * * * * *
15435920 GAAATACCCCCATAGGAG-AAAATAACTGAAATACCCCCACAGGGTAAAATAACC
1 GAAATACCCCTATAGG-GTAAAATGACTGAAATACCTCTATAGGGTAAAATGACT
* * *
15435974 GAAATACCCC-ATAGGGTAGAATGACTGAAATACCTCCATAGGGTAAAATGACC
1 GAAATACCCCTATAGGGTAAAATGACTGAAATACCTCTATAGGGTAAAATGACT
* * * * *
15436027 AAAATA-CCCTCATAGGGTAGAATGACTGAAGTACCCCTAT-GGGTAAAAT-AAT
1 GAAATACCCCT-ATAGGGTAAAATGACTGAAATACCTCTATAGGGTAAAATGACT
* * *
15436079 CGAAATACCCCTACAGGGTAAAATGA-TCGAAATATCTCTATAGGGTAGAATGACT
1 -GAAATACCCCTATAGGGTAAAATGACT-GAAATACCTCTATAGGGTAAAATGACT
*
15436134 GAAATACCCCTATAGGGTAAAATGA-TCAAAATA-CTCCTATAGGGTAAAATGACCT
1 GAAATACCCCTATAGGGTAAAATGACT-GAAATACCT-CTATAGGGTAAAATGA-CT
* * ** ** * *
15436189 -AAATACCCCCACAGACTAGTATGACCGAAATACC-CTTATAGGGTAAAAGGACT
1 GAAATACCCCTATAGGGTAAAATGACTGAAATACCTC-TATAGGGTAAAATGACT
**
15436242 GTTATACCCCTA
1 GAAATACCCCTA
15436254 AGAGATGAAA
Statistics
Matches: 232, Mismatches: 34, Indels: 28
0.79 0.12 0.10
Matches are distributed among these distances:
52 6 0.03
53 82 0.35
54 139 0.60
55 5 0.02
ACGTcount: A:0.40, C:0.21, G:0.18, T:0.21
Consensus pattern (54 bp):
GAAATACCCCTATAGGGTAAAATGACTGAAATACCTCTATAGGGTAAAATGACT
Found at i:15439873 original size:27 final size:27
Alignment explanation
Indices: 15439828--15440180 Score: 322
Period size: 27 Copynumber: 13.1 Consensus size: 27
15439818 CGATATCTGC
*
15439828 ACCGACATA-CCCTACTAGGGTAAAATG
1 ACCGAAATACCCCTA-TAGGGTAAAATG
** *
15439855 ATTGAAATACCCCTATAGGGTAAAATA
1 ACCGAAATACCCCTATAGGGTAAAATG
* ** *
15439882 ACCGAAATACCCCCATAATGTAGAATG
1 ACCGAAATACCCCTATAGGGTAAAATG
* *
15439909 ATCGAAATACCCTTATAGGGTAAAATG
1 ACCGAAATACCCCTATAGGGTAAAATG
* * *
15439936 ATCGAAATA-CCCTCATAGGATAGAATG
1 ACCGAAATACCCCT-ATAGGGTAAAATG
*
15439963 ACCGAAATACCCTCT-TAGGGTAAAATA
1 ACCGAAATACCC-CTATAGGGTAAAATG
* *
15439990 ACCAAAATA-CCCTCACAGGGTAAAATG
1 ACCGAAATACCCCT-ATAGGGTAAAATG
* * *
15440017 ATCGAAATACCCCCATAGGGTAGAATG
1 ACCGAAATACCCCTATAGGGTAAAATG
*
15440044 ACCGAAATACCCCCATAGGGTAAAATG
1 ACCGAAATACCCCTATAGGGTAAAATG
* * *
15440071 ACTGAAATACCCCCATAGGGTAAAAAG
1 ACCGAAATACCCCTATAGGGTAAAATG
* * *
15440098 ACTGAAATACCCCCATAGGGTAAAACG
1 ACCGAAATACCCCTATAGGGTAAAATG
* * * **
15440125 ACCAAAATATCCCC-AAAGAGTAGTATG
1 ACCGAAATA-CCCCTATAGGGTAAAATG
*
15440152 ACCGAAATACCGCCGA-AGGGTAAAATG
1 ACCGAAATACC-CCTATAGGGTAAAATG
15440179 AC
1 AC
15440181 TGTTATACCC
Statistics
Matches: 268, Mismatches: 48, Indels: 20
0.80 0.14 0.06
Matches are distributed among these distances:
25 2 0.01
26 7 0.03
27 242 0.90
28 15 0.06
29 2 0.01
ACGTcount: A:0.41, C:0.22, G:0.18, T:0.18
Consensus pattern (27 bp):
ACCGAAATACCCCTATAGGGTAAAATG
Found at i:15439969 original size:81 final size:81
Alignment explanation
Indices: 15439843--15440179 Score: 374
Period size: 81 Copynumber: 4.2 Consensus size: 81
15439833 CATACCCTAC
* * * * *
15439843 TAGGGTAAAATGATTGAAATACCCCTATAGGGTAAAATAACCGAAATACCCCCATAATGTAGAAT
1 TAGGGTAAAATGATCGAAATACCCCCATAGGGTAAAATGACCGAAATACCCCCATAAGGTAAAAT
* **
15439908 GATCGAAATACCCTTA
66 GACCGAAATACCCCCA
* * * * * *
15439924 TAGGGTAAAATGATCGAAATACCCTCATAGGATAGAATGACCGAAATACCCTCTTAGGGTAAAAT
1 TAGGGTAAAATGATCGAAATACCCCCATAGGGTAAAATGACCGAAATACCCCCATAAGGTAAAAT
* * *
15439989 AACCAAAATACCCTCA
66 GACCGAAATACCCCCA
* * *
15440005 CAGGGTAAAATGATCGAAATACCCCCATAGGGTAGAATGACCGAAATACCCCCATAGGGTAAAAT
1 TAGGGTAAAATGATCGAAATACCCCCATAGGGTAAAATGACCGAAATACCCCCATAAGGTAAAAT
*
15440070 GACTGAAATACCCCCA
66 GACCGAAATACCCCCA
* * * * **
15440086 TAGGGTAAAAAGA-CTGAAATACCCCCATAGGGTAAAACGACCAAAATATCCCCA-AAGAGTAGT
1 TAGGGTAAAATGATC-GAAATACCCCCATAGGGTAAAATGACCGAAATACCCCCATAAG-GTAAA
*
15440149 ATGACCGAAATACCGCCGA
64 ATGACCGAAATACC-CCCA
15440168 -AGGGTAAAATGA
1 TAGGGTAAAATGA
15440180 CTGTTATACC
Statistics
Matches: 217, Mismatches: 36, Indels: 6
0.84 0.14 0.02
Matches are distributed among these distances:
80 3 0.01
81 211 0.97
82 3 0.01
ACGTcount: A:0.42, C:0.21, G:0.18, T:0.19
Consensus pattern (81 bp):
TAGGGTAAAATGATCGAAATACCCCCATAGGGTAAAATGACCGAAATACCCCCATAAGGTAAAAT
GACCGAAATACCCCCA
Found at i:15441107 original size:21 final size:21
Alignment explanation
Indices: 15441083--15441124 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
15441073 AAATAGAGAG
*
15441083 AAAACAACAAAAAATATCATT
1 AAAACAACAAAAAATAGCATT
*
15441104 AAAATAACAAAAAATAGCATT
1 AAAACAACAAAAAATAGCATT
15441125 TTTGTGCCGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.67, C:0.12, G:0.02, T:0.19
Consensus pattern (21 bp):
AAAACAACAAAAAATAGCATT
Found at i:15454117 original size:20 final size:20
Alignment explanation
Indices: 15454080--15454117 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
15454070 TTTATGGTTT
*
15454080 TAAATAATTTTTGGGTAAAA
1 TAAATAATTTTGGGGTAAAA
15454100 TAAAT-ATTTTGGGTGTAA
1 TAAATAATTTTGGG-GTAA
15454118 CTAGAATTGA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 7 0.44
20 9 0.56
ACGTcount: A:0.39, C:0.00, G:0.18, T:0.42
Consensus pattern (20 bp):
TAAATAATTTTGGGGTAAAA
Found at i:15454734 original size:20 final size:20
Alignment explanation
Indices: 15454709--15454757 Score: 89
Period size: 20 Copynumber: 2.5 Consensus size: 20
15454699 TCAACAATGG
15454709 TGAAATCCATGATTTTGAGT
1 TGAAATCCATGATTTTGAGT
15454729 TGAAATCCATGATTTTGAGT
1 TGAAATCCATGATTTTGAGT
*
15454749 TGGAATCCA
1 TGAAATCCA
15454758 ATTTTTAATG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.31, C:0.12, G:0.20, T:0.37
Consensus pattern (20 bp):
TGAAATCCATGATTTTGAGT
Found at i:15460958 original size:21 final size:21
Alignment explanation
Indices: 15460892--15460958 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 21
15460882 ACTTCAGTAT
* *
15460892 CCCTGAATTACACATACGTGC
1 CCCTGAATTATACATATGTGC
* * * *
15460913 CCCT-AGTTATACTTCTGTAC
1 CCCTGAATTATACATATGTGC
*
15460933 CCCTGAATTGTACATATGTGC
1 CCCTGAATTATACATATGTGC
15460954 CCCTG
1 CCCTG
15460959 TTTGTACTTT
Statistics
Matches: 34, Mismatches: 11, Indels: 2
0.72 0.23 0.04
Matches are distributed among these distances:
20 14 0.41
21 20 0.59
ACGTcount: A:0.22, C:0.31, G:0.15, T:0.31
Consensus pattern (21 bp):
CCCTGAATTATACATATGTGC
Found at i:15460988 original size:82 final size:82
Alignment explanation
Indices: 15460855--15461078 Score: 258
Period size: 82 Copynumber: 2.7 Consensus size: 82
15460845 AATTATTCCA
* *
15460855 TGAATTGCACATATGTG-CCCTATTTGTACTTCA-GTATCCCTGAATTACACATACGTGCCCCTA
1 TGAATTGCACATATGTGCCCCTGTTTGTACTT-AGGTACCCCTGAATTACACATACGTGCCCCTA
*
15460918 GTTATACTTCTG-TACCCC
65 GTTATAC-TCCGATACCCC
* * * * * *
15460936 TGAATTGTACATATGTGCCCCTGTTTGTACTTTGGTACCCCAT-AATTGCACATATGTGTCTCTA
1 TGAATTGCACATATGTGCCCCTGTTTGTACTTAGGTACCCC-TGAATTACACATACGTGCCCCTA
* *
15461000 TTTGTACTCCGATACCCC
65 GTTATACTCCGATACCCC
* * * *
15461018 TAAATTGCACATACGTGCCCCTGTTTGTACTTAGGTACCCTTGAATTACACATAAGTGCCC
1 TGAATTGCACATATGTGCCCCTGTTTGTACTTAGGTACCCCTGAATTACACATACGTGCCC
15461079 ATGTTTACAC
Statistics
Matches: 118, Mismatches: 20, Indels: 9
0.80 0.14 0.06
Matches are distributed among these distances:
81 20 0.17
82 97 0.82
83 1 0.01
ACGTcount: A:0.23, C:0.27, G:0.15, T:0.35
Consensus pattern (82 bp):
TGAATTGCACATATGTGCCCCTGTTTGTACTTAGGTACCCCTGAATTACACATACGTGCCCCTAG
TTATACTCCGATACCCC
Found at i:15461084 original size:41 final size:41
Alignment explanation
Indices: 15460855--15461084 Score: 216
Period size: 41 Copynumber: 5.6 Consensus size: 41
15460845 AATTATTCCA
* *
15460855 TGAATTGCACATATGTG-CCCTATTTGTACTTCA-GTATCCC
1 TGAATTGCACATATGTGCCCCTGTTTGTACTT-AGGTACCCC
* * * **
15460895 TGAATTACACATACGTGCCCCTAG-TTATACTTCTGTACCCC
1 TGAATTGCACATATGTGCCCCT-GTTTGTACTTAGGTACCCC
* *
15460936 TGAATTGTACATATGTGCCCCTGTTTGTACTTTGGTACCCC
1 TGAATTGCACATATGTGCCCCTGTTTGTACTTAGGTACCCC
* * * ** *
15460977 AT-AATTGCACATATGTGTCTCTATTTGTACTCCGATACCCC
1 -TGAATTGCACATATGTGCCCCTGTTTGTACTTAGGTACCCC
* * *
15461018 TAAATTGCACATACGTGCCCCTGTTTGTACTTAGGTACCCT
1 TGAATTGCACATATGTGCCCCTGTTTGTACTTAGGTACCCC
* * *
15461059 TGAATTACACATAAGTGCCCATGTTT
1 TGAATTGCACATATGTGCCCCTGTTT
15461085 ACACTCTGAT
Statistics
Matches: 153, Mismatches: 31, Indels: 11
0.78 0.16 0.06
Matches are distributed among these distances:
40 17 0.11
41 135 0.88
42 1 0.01
ACGTcount: A:0.23, C:0.26, G:0.15, T:0.36
Consensus pattern (41 bp):
TGAATTGCACATATGTGCCCCTGTTTGTACTTAGGTACCCC
Found at i:15461195 original size:12 final size:12
Alignment explanation
Indices: 15461178--15461203 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
15461168 GCTTATTAGT
15461178 TTTTGTGGATTG
1 TTTTGTGGATTG
15461190 TTTTGTGGATTG
1 TTTTGTGGATTG
15461202 TT
1 TT
15461204 GTTGCTGGCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.08, C:0.00, G:0.31, T:0.62
Consensus pattern (12 bp):
TTTTGTGGATTG
Found at i:15464908 original size:12 final size:12
Alignment explanation
Indices: 15464891--15464916 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
15464881 TTTAATTAAA
15464891 TTATGTGTATTT
1 TTATGTGTATTT
15464903 TTATGTGTATTT
1 TTATGTGTATTT
15464915 TT
1 TT
15464917 TGTTGTTTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.15, C:0.00, G:0.15, T:0.69
Consensus pattern (12 bp):
TTATGTGTATTT
Found at i:15470539 original size:28 final size:26
Alignment explanation
Indices: 15470487--15470540 Score: 65
Period size: 28 Copynumber: 2.0 Consensus size: 26
15470477 TATTTTATAA
*
15470487 AGTGATTTTTGATGAAAATCCAAATT
1 AGTGATTTTTGATGAAAATACAAATT
15470513 AGTGATTTATTTG-TGAAATATACAAATT
1 AGTGA-TT-TTTGATGAAA-ATACAAATT
15470541 GAGGGGTTGA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
26 5 0.21
27 7 0.29
28 12 0.50
ACGTcount: A:0.39, C:0.06, G:0.15, T:0.41
Consensus pattern (26 bp):
AGTGATTTTTGATGAAAATACAAATT
Found at i:15482779 original size:50 final size:50
Alignment explanation
Indices: 15482659--15482891 Score: 190
Period size: 49 Copynumber: 4.6 Consensus size: 50
15482649 CATACCAAAT
* * *
15482659 CCATGTCCCAGACATGGTCTTACATGGGATG-TTTCCTATAC--TGTCAATG
1 CCATGTCCCAGACATGGTCTTACATGGGA-GCTCTCATAT-CGGTGCCAATG
** * * * *
15482708 TTATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGGTGCCCATG
1 CCATGTCCCAGACATGGTCTTACATGGGAGCTCTCATATCGGTGCCAATG
* * *
15482758 CCATGTCCCAGACATGGTCTTAC--GGGAGACCTCTCATCTCGGTGCGAACG
1 CCATGTCCCAGACATGGTCTTACATGGGAG--CTCTCATATCGGTGCCAATG
* * **
15482808 CCACGT-CCAGACATGGTCTTACATGGGACCTCTCATAACCTCAATAATGCCAATG
1 CCATGTCCCAGACATGGTCTTACATGGGAGCTCTCAT-A--TC---GGTGCCAATG
15482863 CCATGTCCCAGACATGGTCTTACATGGGA
1 CCATGTCCCAGACATGGTCTTACATGGGA
15482892 TCTCATCCCC
Statistics
Matches: 145, Mismatches: 25, Indels: 21
0.76 0.13 0.11
Matches are distributed among these distances:
48 7 0.05
49 54 0.37
50 45 0.31
51 4 0.03
52 2 0.01
55 11 0.08
56 22 0.15
ACGTcount: A:0.24, C:0.27, G:0.21, T:0.27
Consensus pattern (50 bp):
CCATGTCCCAGACATGGTCTTACATGGGAGCTCTCATATCGGTGCCAATG
Found at i:15482838 original size:49 final size:50
Alignment explanation
Indices: 15482713--15482891 Score: 164
Period size: 50 Copynumber: 3.5 Consensus size: 50
15482703 CAATGTTATA
* ** * * *
15482713 TCCCAGATATGGTCTTACATGGGAGTTCTCATATCGGTGCCCATGCCATG
1 TCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTGCCAACGCCACG
* * *
15482763 TCCCAGACATGGTCTTAC-GGGAGACCTCTCATCTCGGTGCGAACGCCACG
1 TCCCAGACATGGTCTTACATGG-GACCTCTCATATCGGTGCCAACGCCACG
** * *
15482813 T-CCAGACATGGTCTTACATGGGACCTCTCATAACCTCAATAATGCCAATGCCATG
1 TCCCAGACATGGTCTTACATGGGACCTCTCAT-A--TC---GGTGCCAACGCCACG
15482868 TCCCAGACATGGTCTTACATGGGA
1 TCCCAGACATGGTCTTACATGGGA
15482892 TCTCATCCCC
Statistics
Matches: 104, Mismatches: 16, Indels: 12
0.79 0.12 0.09
Matches are distributed among these distances:
49 28 0.27
50 41 0.39
52 2 0.02
55 11 0.11
56 22 0.21
ACGTcount: A:0.23, C:0.29, G:0.22, T:0.25
Consensus pattern (50 bp):
TCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTGCCAACGCCACG
Found at i:15487346 original size:46 final size:46
Alignment explanation
Indices: 15487279--15487378 Score: 155
Period size: 46 Copynumber: 2.2 Consensus size: 46
15487269 ACTGAATTAT
* *
15487279 AATGGGCAAAAGCCCTAACTAAAACTGAAACTGAAACTATTACTGA
1 AATGGGCTAAAGCCCTAACTAAAACTAAAACTGAAACTATTACTGA
* *
15487325 AATGGGCTAAGGCCCTAACTAAAACTAAAACTGAAACTGTTACTGA
1 AATGGGCTAAAGCCCTAACTAAAACTAAAACTGAAACTATTACTGA
*
15487371 AATAGGCT
1 AATGGGCT
15487379 TAGCCCAGGC
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 49 1.00
ACGTcount: A:0.43, C:0.19, G:0.17, T:0.21
Consensus pattern (46 bp):
AATGGGCTAAAGCCCTAACTAAAACTAAAACTGAAACTATTACTGA
Found at i:15488483 original size:61 final size:61
Alignment explanation
Indices: 15488388--15488511 Score: 230
Period size: 61 Copynumber: 2.0 Consensus size: 61
15488378 TTGTTTAATT
*
15488388 ACTTCACAAAGTCTCACAGCTTTGACCGTTTTTCAAATCAGTCCCTTTTCTAAAATTAAAG
1 ACTTCACAAAGTCTCACAGCTTTGACCCTTTTTCAAATCAGTCCCTTTTCTAAAATTAAAG
*
15488449 ACTTCACAAAGTCTCACAGCTTTGACCCTTTTTCAAATCAGTCCCTTTTCTAAAATTGAAG
1 ACTTCACAAAGTCTCACAGCTTTGACCCTTTTTCAAATCAGTCCCTTTTCTAAAATTAAAG
15488510 AC
1 AC
15488512 ATTTAAAACC
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
61 61 1.00
ACGTcount: A:0.31, C:0.26, G:0.10, T:0.34
Consensus pattern (61 bp):
ACTTCACAAAGTCTCACAGCTTTGACCCTTTTTCAAATCAGTCCCTTTTCTAAAATTAAAG
Found at i:15495103 original size:12 final size:12
Alignment explanation
Indices: 15495086--15495137 Score: 50
Period size: 13 Copynumber: 4.0 Consensus size: 12
15495076 AGACCGTATA
15495086 CAATTTTTTTTT
1 CAATTTTTTTTT
15495098 CAATTTTTTTCTTTT
1 CAA--TTTTT-TTTT
*
15495113 CGATTTTTTTTT
1 CAATTTTTTTTT
*
15495125 GAATTCTTTTTTT
1 CAATT-TTTTTTT
15495138 TTGAAACTAC
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
12 10 0.30
13 12 0.36
14 5 0.15
15 6 0.18
ACGTcount: A:0.13, C:0.10, G:0.04, T:0.73
Consensus pattern (12 bp):
CAATTTTTTTTT
Found at i:15495118 original size:27 final size:27
Alignment explanation
Indices: 15495088--15495139 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
15495078 ACCGTATACA
15495088 ATTTTTTTTTCAATT-TTTTTCTTTTCG
1 ATTTTTTTTTCAATTCTTTTT-TTTTCG
*
15495115 ATTTTTTTTTGAATTCTTTTTTTTT
1 ATTTTTTTTTCAATTCTTTTTTTTT
15495140 GAAACTACAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 18 0.78
28 5 0.22
ACGTcount: A:0.12, C:0.08, G:0.04, T:0.77
Consensus pattern (27 bp):
ATTTTTTTTTCAATTCTTTTTTTTTCG
Found at i:15495119 original size:14 final size:14
Alignment explanation
Indices: 15495089--15495124 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
15495079 CCGTATACAA
15495089 TTTTTTTTTCAATT
1 TTTTTTTTTCAATT
*
15495103 TTTTTCTTTTCGATT
1 TTTTT-TTTTCAATT
15495118 TTTTTTT
1 TTTTTTT
15495125 GAATTCTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.08, C:0.08, G:0.03, T:0.81
Consensus pattern (14 bp):
TTTTTTTTTCAATT
Found at i:15498193 original size:21 final size:21
Alignment explanation
Indices: 15498164--15498204 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
15498154 TACTTCTTAC
* *
15498164 TAAGTGGATATTGTGATAACT
1 TAAGAGGATATTGCGATAACT
15498185 TAAGAGGATATTGCGATAAC
1 TAAGAGGATATTGCGATAAC
15498205 ATAGTAGGTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.37, C:0.07, G:0.24, T:0.32
Consensus pattern (21 bp):
TAAGAGGATATTGCGATAACT
Found at i:15499253 original size:26 final size:26
Alignment explanation
Indices: 15499224--15499284 Score: 81
Period size: 26 Copynumber: 2.3 Consensus size: 26
15499214 TCTCATTCCT
15499224 ATTTTACTCCC-AATAAAATTTTGA-A
1 ATTTTAC-CCCTAATAAAATTTTGACA
*
15499249 GATTTTACCCCTATTAAAATTTTGACA
1 -ATTTTACCCCTAATAAAATTTTGACA
15499276 ATTTTACCC
1 ATTTTACCC
15499285 ATGGTAAGAT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
25 3 0.09
26 28 0.88
27 1 0.03
ACGTcount: A:0.34, C:0.20, G:0.05, T:0.41
Consensus pattern (26 bp):
ATTTTACCCCTAATAAAATTTTGACA
Found at i:15499296 original size:26 final size:26
Alignment explanation
Indices: 15499237--15499301 Score: 71
Period size: 26 Copynumber: 2.5 Consensus size: 26
15499227 TTACTCCCAA
* *
15499237 TAAAATTTTGAAGATTTTACCCCTAT
1 TAAAATTTTGAAGATTTTACCCATAG
*
15499263 TAAAATTTTGACA-ATTTTACCCATGG
1 TAAAATTTTGA-AGATTTTACCCATAG
*
15499289 TAAGATTTT-AAGA
1 TAAAATTTTGAAGA
15499302 AAATATGTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
24 1 0.03
25 2 0.06
26 29 0.88
27 1 0.03
ACGTcount: A:0.37, C:0.12, G:0.11, T:0.40
Consensus pattern (26 bp):
TAAAATTTTGAAGATTTTACCCATAG
Found at i:15509933 original size:23 final size:23
Alignment explanation
Indices: 15509903--15509951 Score: 89
Period size: 23 Copynumber: 2.1 Consensus size: 23
15509893 AAACAGTAAT
*
15509903 TATTTTAAAAATTCGTCTTCTTC
1 TATTTTAAAAATTCGTCTTCTCC
15509926 TATTTTAAAAATTCGTCTTCTCC
1 TATTTTAAAAATTCGTCTTCTCC
15509949 TAT
1 TAT
15509952 CTAGCAGTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.27, C:0.18, G:0.04, T:0.51
Consensus pattern (23 bp):
TATTTTAAAAATTCGTCTTCTCC
Found at i:15510422 original size:26 final size:26
Alignment explanation
Indices: 15510383--15510437 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 26
15510373 AACACACCAA
* *
15510383 TATCATAGCAAAGCTACCAGTAATAG
1 TATCACAGCAAAGCTACCAGTAACAG
* *
15510409 TATCACAGCGAAGCTGCCAGTAACAG
1 TATCACAGCAAAGCTACCAGTAACAG
15510435 TAT
1 TAT
15510438 ATGTGGCAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.38, C:0.22, G:0.18, T:0.22
Consensus pattern (26 bp):
TATCACAGCAAAGCTACCAGTAACAG
Found at i:15510701 original size:53 final size:53
Alignment explanation
Indices: 15510634--15510735 Score: 168
Period size: 53 Copynumber: 1.9 Consensus size: 53
15510624 TAACAGTCAT
* * *
15510634 TTTACCTTATAGGGGTATTTCGGTCATTTTACCCTATTGGGGTATTTCGATAA
1 TTTACCCTATAGGGGTATTTCGGTCACTTTACCCTATGGGGGTATTTCGATAA
*
15510687 TTTACCCTATAGGGGTATTTCGGTTACTTTACCCTATGGGGGTATTTCG
1 TTTACCCTATAGGGGTATTTCGGTCACTTTACCCTATGGGGGTATTTCG
15510736 GTCATTTATT
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
53 45 1.00
ACGTcount: A:0.19, C:0.17, G:0.23, T:0.42
Consensus pattern (53 bp):
TTTACCCTATAGGGGTATTTCGGTCACTTTACCCTATGGGGGTATTTCGATAA
Found at i:15510743 original size:26 final size:27
Alignment explanation
Indices: 15510629--15510742 Score: 158
Period size: 27 Copynumber: 4.3 Consensus size: 27
15510619 AGGTATAACA
*
15510629 GTCATTTTACCTTATAGGGGTATTTCG
1 GTCATTTTACCCTATAGGGGTATTTCG
*
15510656 GTCATTTTACCCTATTGGGGTATTTCG
1 GTCATTTTACCCTATAGGGGTATTTCG
* *
15510683 AT-AATTTACCCTATAGGGGTATTTCG
1 GTCATTTTACCCTATAGGGGTATTTCG
* * *
15510709 GTTACTTTACCCTATGGGGGTATTTCG
1 GTCATTTTACCCTATAGGGGTATTTCG
15510736 GTCATTT
1 GTCATTT
15510743 ATTAACCTCT
Statistics
Matches: 76, Mismatches: 10, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
26 23 0.30
27 53 0.70
ACGTcount: A:0.18, C:0.17, G:0.22, T:0.43
Consensus pattern (27 bp):
GTCATTTTACCCTATAGGGGTATTTCG
Found at i:15510743 original size:53 final size:53
Alignment explanation
Indices: 15510629--15510743 Score: 167
Period size: 53 Copynumber: 2.2 Consensus size: 53
15510619 AGGTATAACA
* * *
15510629 GTCATTTTACCTTATAGGGGTATTTCGGTCATTTTACCCTATTGGGGTATTTCG
1 GTCA-TTTACCCTATAGGGGTATTTCGGTCACTTTACCCTATGGGGGTATTTCG
* * *
15510683 ATAATTTACCCTATAGGGGTATTTCGGTTACTTTACCCTATGGGGGTATTTCG
1 GTCATTTACCCTATAGGGGTATTTCGGTCACTTTACCCTATGGGGGTATTTCG
15510736 GTCATTTA
1 GTCATTTA
15510744 TTAACCTCTC
Statistics
Matches: 53, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
53 51 0.96
54 2 0.04
ACGTcount: A:0.19, C:0.17, G:0.22, T:0.43
Consensus pattern (53 bp):
GTCATTTACCCTATAGGGGTATTTCGGTCACTTTACCCTATGGGGGTATTTCG
Found at i:15511270 original size:56 final size:55
Alignment explanation
Indices: 15511184--15511294 Score: 177
Period size: 56 Copynumber: 2.0 Consensus size: 55
15511174 CAGATTCCTT
* * *
15511184 TCGATCCGAACACTCTTATTCTGCAAATCAATGATCTATCACACTCTTGGTTCCCA
1 TCGATACGAACACTCTTATTCCGCAAATCAATGATC-ATCACACCCTTGGTTCCCA
*
15511240 TCGATACGAACACTCTTATTCCGCAAATCAATGATCATCGCACCCTTGGTTCCCA
1 TCGATACGAACACTCTTATTCCGCAAATCAATGATCATCACACCCTTGGTTCCCA
15511295 AGCAATGTGC
Statistics
Matches: 51, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
55 17 0.33
56 34 0.67
ACGTcount: A:0.27, C:0.32, G:0.12, T:0.30
Consensus pattern (55 bp):
TCGATACGAACACTCTTATTCCGCAAATCAATGATCATCACACCCTTGGTTCCCA
Found at i:15512486 original size:20 final size:20
Alignment explanation
Indices: 15512463--15512528 Score: 50
Period size: 20 Copynumber: 3.4 Consensus size: 20
15512453 ATTTTGATGT
15512463 CCCTGTTTGCATGTGTGTGC
1 CCCTGTTTGCATGTGTGTGC
*
15512483 CCCTATTCT-CACT-TCG-GTG-
1 CCCTGTT-TGCA-TGT-GTGTGC
* *
15512502 CCCTGATTGCATGTATGTGC
1 CCCTGTTTGCATGTGTGTGC
15512522 CCCTGTT
1 CCCTGTT
15512529 CTACATCTAT
Statistics
Matches: 34, Mismatches: 5, Indels: 14
0.64 0.09 0.26
Matches are distributed among these distances:
18 2 0.06
19 11 0.32
20 18 0.53
21 3 0.09
ACGTcount: A:0.09, C:0.30, G:0.23, T:0.38
Consensus pattern (20 bp):
CCCTGTTTGCATGTGTGTGC
Found at i:15516053 original size:34 final size:32
Alignment explanation
Indices: 15516010--15516079 Score: 86
Period size: 32 Copynumber: 2.1 Consensus size: 32
15516000 AATAAATCTC
*
15516010 TAGATGCATATATATAGTATATATAACAGAACCA
1 TAGAGGCATATATAT-GT-TATATAACAGAACCA
* * *
15516044 TAGAGGCATATATCTGTTATATAATAGGACCA
1 TAGAGGCATATATATGTTATATAACAGAACCA
15516076 TAGA
1 TAGA
15516080 TGTATGTATA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
32 17 0.53
33 2 0.06
34 13 0.41
ACGTcount: A:0.43, C:0.11, G:0.16, T:0.30
Consensus pattern (32 bp):
TAGAGGCATATATATGTTATATAACAGAACCA
Found at i:15516257 original size:2 final size:2
Alignment explanation
Indices: 15516250--15516363 Score: 201
Period size: 2 Copynumber: 57.0 Consensus size: 2
15516240 TAACAATCTG
* *
15516250 CA CA CA CA CA CA CA CA TA CA CA CA CA CA CA CA CA CA CA CA TA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
*
15516292 CA CA CA CA CA CA CA CA CA TA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
15516334 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
15516364 ACAACAACAA
Statistics
Matches: 106, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 106 1.00
ACGTcount: A:0.50, C:0.47, G:0.00, T:0.03
Consensus pattern (2 bp):
CA
Found at i:15516369 original size:3 final size:3
Alignment explanation
Indices: 15516361--15516395 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
15516351 ACACACACAC
15516361 ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA AC
1 ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA AC
15516396 TGAATTTATG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.66, C:0.34, G:0.00, T:0.00
Consensus pattern (3 bp):
ACA
Found at i:15518374 original size:50 final size:50
Alignment explanation
Indices: 15518299--15518491 Score: 287
Period size: 50 Copynumber: 3.8 Consensus size: 50
15518289 ATTTGGGTAA
*
15518299 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGGTG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* *
15518349 AGAGGTCCCATGTAAGAACATGTCTGGGACATGGCATTGGCACCAAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * *
15518399 AGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** *
15518449 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
15518492 TGTTATTATT
Statistics
Matches: 127, Mismatches: 15, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
50 93 0.73
51 34 0.27
ACGTcount: A:0.26, C:0.23, G:0.31, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
Found at i:15522494 original size:9 final size:9
Alignment explanation
Indices: 15522480--15522514 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
15522470 CACATACATC
15522480 AAATTATAA
1 AAATTATAA
15522489 AAATTATAA
1 AAATTATAA
**
15522498 ACTTTATAA
1 AAATTATAA
15522507 AAATTATA
1 AAATTATA
15522515 TCCAAGCTTG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.37
Consensus pattern (9 bp):
AAATTATAA
Found at i:15531666 original size:12 final size:13
Alignment explanation
Indices: 15531645--15531678 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
15531635 ATTTTTATTA
15531645 TTTTAATTTC-AT
1 TTTTAATTTCAAT
*
15531657 TTTTAGTTTCAAT
1 TTTTAATTTCAAT
15531670 TTTTAATTT
1 TTTTAATTT
15531679 GTTTATTTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
12 9 0.47
13 10 0.53
ACGTcount: A:0.24, C:0.06, G:0.03, T:0.68
Consensus pattern (13 bp):
TTTTAATTTCAAT
Found at i:15537627 original size:43 final size:43
Alignment explanation
Indices: 15537566--15537687 Score: 199
Period size: 43 Copynumber: 2.8 Consensus size: 43
15537556 TGTGAAAAAG
* *
15537566 AACGCCGGTAAAAAACATGACCTTTAGCGGCGCTTTCCCCACA
1 AACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTCCCCACA
*
15537609 AACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTCTCCACA
1 AACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTCCCCACA
* *
15537652 AACGCTGCTAAAGAACATGACTTTTAGCGGCGCTTT
1 AACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTT
15537688 TACCAAAAAC
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
43 74 1.00
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.22
Consensus pattern (43 bp):
AACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTCCCCACA
Found at i:15537703 original size:43 final size:42
Alignment explanation
Indices: 15537574--15537708 Score: 189
Period size: 43 Copynumber: 3.1 Consensus size: 42
15537564 AGAACGCCGG
* * *
15537574 TAAAAAACATGACCTTTAGCGGCGCTTTCCCCACAAACGCCGC
1 TAAAGAACATGACCTTTAGCGGCGCTTT-TCCACAAACGCTGC
15537617 TAAAGAACATGACCTTTAGCGGCGCTTTCTCCACAAACGCTGC
1 TAAAGAACATGACCTTTAGCGGCGCTTT-TCCACAAACGCTGC
* * *
15537660 TAAAGAACATGACTTTTAGCGGCGCTTTTACCAAAAACACTGC
1 TAAAGAACATGACCTTTAGCGGCGCTTTT-CCACAAACGCTGC
15537703 TAAAGA
1 TAAAGA
15537709 TCGTAAAAAA
Statistics
Matches: 85, Mismatches: 6, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
42 1 0.01
43 84 0.99
ACGTcount: A:0.33, C:0.28, G:0.17, T:0.22
Consensus pattern (42 bp):
TAAAGAACATGACCTTTAGCGGCGCTTTTCCACAAACGCTGC
Found at i:15540381 original size:8 final size:9
Alignment explanation
Indices: 15540367--15540391 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
15540357 AAACACTTTA
15540367 AAAAAAAAG
1 AAAAAAAAG
15540376 AAAAAAAAG
1 AAAAAAAAG
15540385 AAAAAAA
1 AAAAAAA
15540392 TATATACCTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (9 bp):
AAAAAAAAG
Found at i:15540509 original size:12 final size:12
Alignment explanation
Indices: 15540492--15540519 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
15540482 ATGATTAATG
15540492 ACATTAATAGTA
1 ACATTAATAGTA
15540504 ACATTAATAGTA
1 ACATTAATAGTA
15540516 ACAT
1 ACAT
15540520 CATGGATAGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.50, C:0.11, G:0.07, T:0.32
Consensus pattern (12 bp):
ACATTAATAGTA
Found at i:15541274 original size:14 final size:14
Alignment explanation
Indices: 15541255--15541281 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
15541245 GCTGCTTTGT
15541255 GTTGGATTTTCATC
1 GTTGGATTTTCATC
15541269 GTTGGATTTTCAT
1 GTTGGATTTTCAT
15541282 ATTACGAACG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.15, C:0.11, G:0.22, T:0.52
Consensus pattern (14 bp):
GTTGGATTTTCATC
Found at i:15541519 original size:22 final size:22
Alignment explanation
Indices: 15541483--15541528 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
15541473 AATAATAGTT
**
15541483 TAATTTTTTTCATTTAAATAAA
1 TAATTTTTTAAATTTAAATAAA
* *
15541505 TAATTTTTTAAATTTTAATTAA
1 TAATTTTTTAAATTTAAATAAA
15541527 TA
1 TA
15541529 TTTAAAAGAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (22 bp):
TAATTTTTTAAATTTAAATAAA
Found at i:15541566 original size:26 final size:26
Alignment explanation
Indices: 15541537--15541592 Score: 67
Period size: 26 Copynumber: 2.2 Consensus size: 26
15541527 TATTTAAAAG
15541537 AATTAGATAAAATTCAAAATCTTGAA
1 AATTAGATAAAATTCAAAATCTTGAA
** ** *
15541563 AATTATTTAAAATTTGAAATCTTTAA
1 AATTAGATAAAATTCAAAATCTTGAA
15541589 AATT
1 AATT
15541593 TGAAATTATT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.50, C:0.05, G:0.05, T:0.39
Consensus pattern (26 bp):
AATTAGATAAAATTCAAAATCTTGAA
Found at i:15541589 original size:16 final size:16
Alignment explanation
Indices: 15541568--15541598 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
15541558 TTGAAAATTA
15541568 TTTAAAATTTGAAATC
1 TTTAAAATTTGAAATC
15541584 TTTAAAATTTGAAAT
1 TTTAAAATTTGAAAT
15541599 TATTTAATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.45, C:0.03, G:0.06, T:0.45
Consensus pattern (16 bp):
TTTAAAATTTGAAATC
Found at i:15542908 original size:15 final size:15
Alignment explanation
Indices: 15542885--15542923 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
15542875 TAAACTCCAA
*
15542885 CCCTTAACCCATAAT
1 CCCTAAACCCATAAT
15542900 CCCTAAACCCATAAT
1 CCCTAAACCCATAAT
*
15542915 CCATAAACC
1 CCCTAAACC
15542924 TTAAAATAGT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.38, C:0.41, G:0.00, T:0.21
Consensus pattern (15 bp):
CCCTAAACCCATAAT
Found at i:15542928 original size:22 final size:22
Alignment explanation
Indices: 15542883--15542928 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
15542873 CTTAAACTCC
* *
15542883 AACCCTTAACCCATAATCCCTA
1 AACCCATAACCCATAAACCCTA
* *
15542905 AACCCATAATCCATAAACCTTA
1 AACCCATAACCCATAAACCCTA
15542927 AA
1 AA
15542929 ATAGTAACTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.43, C:0.35, G:0.00, T:0.22
Consensus pattern (22 bp):
AACCCATAACCCATAAACCCTA
Found at i:15542959 original size:14 final size:14
Alignment explanation
Indices: 15542940--15542984 Score: 72
Period size: 14 Copynumber: 3.2 Consensus size: 14
15542930 TAGTAACTTT
*
15542940 TAAACCTTAAACCC
1 TAAACCATAAACCC
*
15542954 TAAACCATATACCC
1 TAAACCATAAACCC
15542968 TAAACCATAAACCC
1 TAAACCATAAACCC
15542982 TAA
1 TAA
15542985 TTTGTAATGA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 28 1.00
ACGTcount: A:0.47, C:0.33, G:0.00, T:0.20
Consensus pattern (14 bp):
TAAACCATAAACCC
Found at i:15543500 original size:39 final size:40
Alignment explanation
Indices: 15543388--15543551 Score: 204
Period size: 40 Copynumber: 4.1 Consensus size: 40
15543378 TTATGCTTAA
* ** * * * *
15543388 TTTTTCAAAAAGTGGTGCTAATGGTCAACCTATAGCGGCA
1 TTTTTCAAAAAGCGCCGCTAATGCTCGATCTATAGCGGCG
* * *
15543428 TTTTTCAAAAAGCGCCACTAAAGCTCGACCTATAGCGGCG
1 TTTTTCAAAAAGCGCCGCTAATGCTCGATCTATAGCGGCG
* *
15543468 TTTTT-AAAAAGCGCCGCTAATGCGCGATCTATAGCGACG
1 TTTTTCAAAAAGCGCCGCTAATGCTCGATCTATAGCGGCG
*
15543507 TTTTTCAAAAAGCGTCGCTAATGCTCGATCTATAGCGGCG
1 TTTTTCAAAAAGCGCCGCTAATGCTCGATCTATAGCGGCG
15543547 TTTTT
1 TTTTT
15543552 TATCCAAACA
Statistics
Matches: 107, Mismatches: 16, Indels: 2
0.86 0.13 0.02
Matches are distributed among these distances:
39 34 0.32
40 73 0.68
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.29
Consensus pattern (40 bp):
TTTTTCAAAAAGCGCCGCTAATGCTCGATCTATAGCGGCG
Found at i:15550109 original size:15 final size:15
Alignment explanation
Indices: 15550089--15550120 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
15550079 TATTTCACTA
*
15550089 TTATGTCTTTTGTAT
1 TTATGTCTTTTATAT
15550104 TTATGTCTTTTATAT
1 TTATGTCTTTTATAT
15550119 TT
1 TT
15550121 TGCATGCATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.16, C:0.06, G:0.09, T:0.69
Consensus pattern (15 bp):
TTATGTCTTTTATAT
Found at i:15552028 original size:18 final size:16
Alignment explanation
Indices: 15551992--15552025 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
15551982 ATACATATAC
*
15551992 ATATACATATATGAAA
1 ATATACATATAAGAAA
15552008 ATATACATATAAAGAAA
1 ATATACATAT-AAGAAA
15552025 A
1 A
15552026 ATAAATACAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.62, C:0.06, G:0.06, T:0.26
Consensus pattern (16 bp):
ATATACATATAAGAAA
Found at i:15559845 original size:16 final size:17
Alignment explanation
Indices: 15559813--15559846 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
15559803 TCTATCAGGA
15559813 ACCATATCTGCCACATG
1 ACCATATCTGCCACATG
*
15559830 ACCATAT-TGCCTCATG
1 ACCATATCTGCCACATG
15559846 A
1 A
15559847 ATGCTTGAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.29, C:0.32, G:0.12, T:0.26
Consensus pattern (17 bp):
ACCATATCTGCCACATG
Found at i:15564454 original size:17 final size:17
Alignment explanation
Indices: 15564417--15564454 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
15564407 AATATACACT
*
15564417 AATTAATACAATCAATC
1 AATTAATACAATCAAGC
*
15564434 AATTAATACAATCAAGG
1 AATTAATACAATCAAGC
15564451 AATT
1 AATT
15564455 CCATACACTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.53, C:0.13, G:0.05, T:0.29
Consensus pattern (17 bp):
AATTAATACAATCAAGC
Found at i:15564574 original size:18 final size:16
Alignment explanation
Indices: 15564538--15564571 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
15564528 ACATGTATAC
*
15564538 ATATACATATATGAAA
1 ATATACATATAAGAAA
15564554 ATATACATATAAAGAAA
1 ATATACATAT-AAGAAA
15564571 A
1 A
15564572 ATAAATACAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.62, C:0.06, G:0.06, T:0.26
Consensus pattern (16 bp):
ATATACATATAAGAAA
Found at i:15564829 original size:3 final size:3
Alignment explanation
Indices: 15564821--15564872 Score: 61
Period size: 3 Copynumber: 17.7 Consensus size: 3
15564811 ACCTCATATG
* * * *
15564821 AAT AAT AAT AAT GAT AAT GAT AAT AAT AAT -GT AAT AAT AAC AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
15564868 AAT AA
1 AAT AA
15564873 ACTAATTAAA
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
2 1 0.03
3 39 0.98
ACGTcount: A:0.62, C:0.02, G:0.06, T:0.31
Consensus pattern (3 bp):
AAT
Done.