Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A03
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: 105315579
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1369460 characters in sequence are not A, C, G, or T
File 98 of 325
Found at i:31600218 original size:37 final size:37
Alignment explanation
Indices: 31600168--31600246 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
31600158 TTATTACGAA
* *
31600168 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
*
31600205 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
31600242 GTCTT
1 GTCTT
31600247 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
Found at i:31600442 original size:47 final size:47
Alignment explanation
Indices: 31600364--31600743 Score: 634
Period size: 47 Copynumber: 8.1 Consensus size: 47
31600354 CCCTTCGGGA
* * * * * * *
31600364 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*** *
31600411 CCCGTCACATATATACACTTTCACATTCATCACATCGACCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
31600458 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
31600505 CTTATTACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
31600552 CTTATTACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
31600599 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
31600646 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
31600693 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
31600740 CTTA
1 CTTA
31600744 CTATCATTTC
Statistics
Matches: 314, Mismatches: 19, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 314 1.00
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:31614399 original size:18 final size:18
Alignment explanation
Indices: 31614373--31614546 Score: 133
Period size: 18 Copynumber: 9.8 Consensus size: 18
31614363 TTGTACATAG
31614373 CATA-GTTCGCATAACAA
1 CATAGGTTCGCATAACAA
* *
31614390 CATAAGTTCGCATAACAT
1 CATAGGTTCGCATAACAA
** *
31614408 CAT-GGTTTCGCAT-GTAG
1 CATAGG-TTCGCATAACAA
*
31614425 CATAGGTTCACATAACAA
1 CATAGGTTCGCATAACAA
* *
31614443 CATAGGTTGGCATAAGAA
1 CATAGGTTCGCATAACAA
* * * *
31614461 TATAAGTTCCCAT-ATAA
1 CATAGGTTCGCATAACAA
*
31614478 CATAGGTTCGCATAAGAA
1 CATAGGTTCGCATAACAA
*
31614496 CATAGGTTCGCATAACAT
1 CATAGGTTCGCATAACAA
* *
31614514 CAT-GAGTTCTCAAAACAA
1 CATAG-GTTCGCATAACAA
* *
31614532 CATGGGTTCACATAA
1 CATAGGTTCGCATAA
31614547 TGACATGAGT
Statistics
Matches: 122, Mismatches: 28, Indels: 13
0.75 0.17 0.08
Matches are distributed among these distances:
17 29 0.24
18 92 0.75
19 1 0.01
ACGTcount: A:0.37, C:0.20, G:0.17, T:0.26
Consensus pattern (18 bp):
CATAGGTTCGCATAACAA
Found at i:31614439 original size:53 final size:52
Alignment explanation
Indices: 31614369--31614522 Score: 177
Period size: 53 Copynumber: 2.9 Consensus size: 52
31614359 CAATTTGTAC
* *
31614369 ATAGCATA-GTTCGCATAACAACATAAGTTCGCATAACATCATGGTTTCGCAT
1 ATAGCATAGGTTCGCATAACAACATAGGTTCGCATAACATCATGG-TTCCCAT
* * * * *
31614421 GTAGCATAGGTTCACATAACAACATAGGTTGGCATAAGAAT-ATAAGTTCCCAT
1 ATAGCATAGGTTCGCATAACAACATAGGTTCGCATAA-CATCAT-GGTTCCCAT
* *
31614474 ATAACATAGGTTCGCATAAGAACATAGGTTCGCATAACATCATGAGTTC
1 ATAGCATAGGTTCGCATAACAACATAGGTTCGCATAACATCATG-GTTC
31614523 TCAAAACAAC
Statistics
Matches: 83, Mismatches: 14, Indels: 9
0.78 0.13 0.08
Matches are distributed among these distances:
52 9 0.11
53 71 0.86
54 3 0.04
ACGTcount: A:0.36, C:0.19, G:0.18, T:0.27
Consensus pattern (52 bp):
ATAGCATAGGTTCGCATAACAACATAGGTTCGCATAACATCATGGTTCCCAT
Found at i:31614485 original size:35 final size:35
Alignment explanation
Indices: 31614373--31614509 Score: 104
Period size: 35 Copynumber: 3.9 Consensus size: 35
31614363 TTGTACATAG
* *
31614373 CATA-GTTCGCATAACAACATAAGTTCGC--ATAA
1 CATAGGTTCGCATAAGAACATAAGTTCCCATATAA
* * * *
31614405 CATCATGGTTTCGCAT--GTAGCATAGGTTCACATAACAA
1 CAT-A-GG-TTCGCATAAG-AACATAAGTTCCCAT-ATAA
* *
31614443 CATAGGTTGGCATAAGAATATAAGTTCCCATATAA
1 CATAGGTTCGCATAAGAACATAAGTTCCCATATAA
* *
31614478 CATAGGTTCGCATAAGAACATAGGTTCGCATA
1 CATAGGTTCGCATAAGAACATAAGTTCCCATA
31614510 ACATCATGAG
Statistics
Matches: 80, Mismatches: 15, Indels: 17
0.71 0.13 0.15
Matches are distributed among these distances:
32 3 0.04
33 1 0.01
35 48 0.60
36 20 0.25
37 2 0.03
38 6 0.08
ACGTcount: A:0.36, C:0.19, G:0.18, T:0.27
Consensus pattern (35 bp):
CATAGGTTCGCATAAGAACATAAGTTCCCATATAA
Found at i:31616872 original size:93 final size:93
Alignment explanation
Indices: 31616760--31616931 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
31616750 CGCCCATAAG
* *
31616760 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
31616825 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
31616853 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
31616918 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
31616932 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:31616928 original size:46 final size:46
Alignment explanation
Indices: 31616753--31616928 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
31616743 TGTAACCCGC
* * *
31616753 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
31616799 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
31616849 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
31616892 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
31616929 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:31624454 original size:93 final size:93
Alignment explanation
Indices: 31624296--31624468 Score: 285
Period size: 93 Copynumber: 1.8 Consensus size: 93
31624286 CCGCCCAAAG
* *
31624296 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 CGAACTCGGACTCAACTCAACGAGCTCAGACGTCGCATCCATAAGTGAACTCGGACTCAACTCAA
31624361 CG-AGTTCGGATGCCTAGTTACATCTCA
66 CGAAGTTCGGATGCCTAGTTACATCTCA
* *
31624388 CGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCAGAC-GTCGCATCCATAAGTGAACTCGGACTCAACTCA
31624453 ACGACAGTTCGGATGC
65 ACGA-AGTTCGGATGC
31624469 TCAACCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
92 28 0.38
93 35 0.47
95 11 0.15
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCAGACGTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAAGTTCGGATGCCTAGTTACATCTCA
Found at i:31626217 original size:25 final size:25
Alignment explanation
Indices: 31626183--31626257 Score: 105
Period size: 25 Copynumber: 3.0 Consensus size: 25
31626173 TAGGGTTATT
*
31626183 GATTTATAGCTCGTGAGAGTATACC
1 GATTTATAGCTCGTGAGAGCATACC
* *
31626208 GATTTATAGCTCGTAAGAGCATACT
1 GATTTATAGCTCGTGAGAGCATACC
* *
31626233 GATTTATAGCCCATGAGAGCATACC
1 GATTTATAGCTCGTGAGAGCATACC
31626258 TATCTTCTGC
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 43 1.00
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (25 bp):
GATTTATAGCTCGTGAGAGCATACC
Found at i:31629132 original size:21 final size:21
Alignment explanation
Indices: 31629103--31629144 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
31629093 ATACACTAAT
31629103 ATATAATAAAG-TAATTAATAA
1 ATATAATAAAGCT-ATTAATAA
*
31629124 ATATTATAAAGCTATTAATAA
1 ATATAATAAAGCTATTAATAA
31629145 TACTCTATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 18 0.95
22 1 0.05
ACGTcount: A:0.57, C:0.02, G:0.05, T:0.36
Consensus pattern (21 bp):
ATATAATAAAGCTATTAATAA
Found at i:31629196 original size:28 final size:29
Alignment explanation
Indices: 31629151--31629227 Score: 79
Period size: 28 Copynumber: 2.6 Consensus size: 29
31629141 ATAATACTCT
31629151 ATAAT-ATAATATATATAAGCATCAAAT-AAA
1 ATAATAATAATATATA-AA-CA-CAAATAAAA
*
31629181 ATAATAATAATA-ATAAACACTAATAAAA
1 ATAATAATAATATATAAACACAAATAAAA
*
31629209 ATAATAATAACAGTATAAA
1 ATAATAATAATA-TATAAA
31629228 TGTAATAGCC
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
27 4 0.10
28 16 0.39
29 2 0.05
30 13 0.32
31 6 0.15
ACGTcount: A:0.64, C:0.06, G:0.03, T:0.27
Consensus pattern (29 bp):
ATAATAATAATATATAAACACAAATAAAA
Found at i:31629690 original size:7 final size:7
Alignment explanation
Indices: 31629666--31629708 Score: 50
Period size: 7 Copynumber: 5.7 Consensus size: 7
31629656 TTTAAAAAAA
31629666 TTTTATT
1 TTTTATT
*
31629673 TTCCTTTTT
1 TT--TTATT
31629682 TTTTATT
1 TTTTATT
31629689 TTTTATTT
1 TTTTA-TT
31629697 TTTTATT
1 TTTTATT
31629704 TTTTA
1 TTTTA
31629709 ATATATGTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
7 18 0.58
8 7 0.23
9 6 0.19
ACGTcount: A:0.12, C:0.05, G:0.00, T:0.84
Consensus pattern (7 bp):
TTTTATT
Found at i:31629697 original size:15 final size:15
Alignment explanation
Indices: 31629666--31629708 Score: 61
Period size: 15 Copynumber: 2.8 Consensus size: 15
31629656 TTTAAAAAAA
31629666 TTTTATTTTCCTT-TTT
1 TTTTATTTT--TTATTT
31629682 TTTTATTTTTTATTT
1 TTTTATTTTTTATTT
31629697 TTTTATTTTTTA
1 TTTTATTTTTTA
31629709 ATATATGTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
14 2 0.08
15 15 0.58
16 9 0.35
ACGTcount: A:0.12, C:0.05, G:0.00, T:0.84
Consensus pattern (15 bp):
TTTTATTTTTTATTT
Found at i:31630476 original size:41 final size:41
Alignment explanation
Indices: 31630413--31630497 Score: 136
Period size: 41 Copynumber: 2.1 Consensus size: 41
31630403 AGACACGTGA
31630413 CTTCAATCAATTCCACTGAACTTCAAGGAGATCTGCTGTAG
1 CTTCAATCAATTCCACTGAACTTCAAGGAGATCTGCTGTAG
* *
31630454 CTTCGATCAA-TCCACTGAAACTTCAAGGAGATCTGCTGTGG
1 CTTCAATCAATTCCACTG-AACTTCAAGGAGATCTGCTGTAG
31630495 CTT
1 CTT
31630498 AGCTGCGCTC
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
40 7 0.17
41 34 0.83
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.29
Consensus pattern (41 bp):
CTTCAATCAATTCCACTGAACTTCAAGGAGATCTGCTGTAG
Found at i:31630648 original size:42 final size:44
Alignment explanation
Indices: 31630541--31630652 Score: 122
Period size: 42 Copynumber: 2.6 Consensus size: 44
31630531 TATTTGATTT
* *
31630541 TCAACCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTGTCATCA
1 TCAACCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTGTAAACA
** * * * *
31630585 TTGATCTGTTTCCCTACTGCTTA-GGGGTTTA-GATCTGTAAAC-
1 TCAACCTGTTACCCTACTGCTTAGGGGGTTAAGGCT-TGTAAACA
31630627 TCAACCTGTTACCCTACTGCTTAGGG
1 TCAACCTGTTACCCTACTGCTTAGGG
31630653 TTAAGGTTTG
Statistics
Matches: 54, Mismatches: 12, Indels: 5
0.76 0.17 0.07
Matches are distributed among these distances:
42 21 0.39
43 14 0.26
44 19 0.35
ACGTcount: A:0.20, C:0.24, G:0.21, T:0.35
Consensus pattern (44 bp):
TCAACCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTGTAAACA
Found at i:31631169 original size:42 final size:42
Alignment explanation
Indices: 31631122--31631205 Score: 132
Period size: 42 Copynumber: 2.0 Consensus size: 42
31631112 AGGAGACGAA
* * *
31631122 ATCTGTAATTTTCAGCTATTACCCTACTGCTTAGGGGTTAAG
1 ATCTGTAAATTTAACCTATTACCCTACTGCTTAGGGGTTAAG
*
31631164 ATCTGTAAATTTAACCTGTTACCCTACTGCTTAGGGGTTAAG
1 ATCTGTAAATTTAACCTATTACCCTACTGCTTAGGGGTTAAG
31631206 GCTGGTGAAT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.25, C:0.19, G:0.19, T:0.37
Consensus pattern (42 bp):
ATCTGTAAATTTAACCTATTACCCTACTGCTTAGGGGTTAAG
Found at i:31639218 original size:9 final size:9
Alignment explanation
Indices: 31639200--31639229 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
31639190 TGCAATGCTG
31639200 ATGC-ATGA
1 ATGCGATGA
31639208 ATGCGATGA
1 ATGCGATGA
31639217 ATGCGATGA
1 ATGCGATGA
31639226 ATGC
1 ATGC
31639230 AAAAAAAAGC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 4 0.19
9 17 0.81
ACGTcount: A:0.33, C:0.13, G:0.30, T:0.23
Consensus pattern (9 bp):
ATGCGATGA
Found at i:31643131 original size:12 final size:12
Alignment explanation
Indices: 31643114--31643138 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
31643104 TACAACATGC
31643114 ATGGTATTAAAA
1 ATGGTATTAAAA
31643126 ATGGTATTAAAA
1 ATGGTATTAAAA
31643138 A
1 A
31643139 AACATAATAC
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:0.52, C:0.00, G:0.16, T:0.32
Consensus pattern (12 bp):
ATGGTATTAAAA
Found at i:31643556 original size:23 final size:25
Alignment explanation
Indices: 31643514--31643564 Score: 70
Period size: 23 Copynumber: 2.1 Consensus size: 25
31643504 AGCATCAAAT
31643514 AAAATAATAATAATAGAACACTAATA
1 AAAATAATAATAATA-AACACTAATA
*
31643540 AAAAT-ATAATAAT-AACAGTAATA
1 AAAATAATAATAATAAACACTAATA
31643563 AA
1 AA
31643565 TGTAATAGCA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
23 11 0.46
25 8 0.33
26 5 0.21
ACGTcount: A:0.67, C:0.06, G:0.04, T:0.24
Consensus pattern (25 bp):
AAAATAATAATAATAAACACTAATA
Found at i:31644962 original size:22 final size:22
Alignment explanation
Indices: 31644934--31644978 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
31644924 CAAAAGCATA
31644934 TATAGGGGACTTAGTCATTTTG
1 TATAGGGGACTTAGTCATTTTG
*
31644956 TATAGGGGACTTGGTCATTTTG
1 TATAGGGGACTTAGTCATTTTG
31644978 T
1 T
31644979 TATGTGTCAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.20, C:0.09, G:0.29, T:0.42
Consensus pattern (22 bp):
TATAGGGGACTTAGTCATTTTG
Found at i:31651869 original size:15 final size:14
Alignment explanation
Indices: 31651843--31651873 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
31651833 TATGGTTTTA
31651843 TATTAGATTATTAT
1 TATTAGATTATTAT
31651857 TATTAGCATTATTAT
1 TATTAG-ATTATTAT
31651872 TA
1 TA
31651874 AATAAATTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.38
15 10 0.62
ACGTcount: A:0.35, C:0.03, G:0.06, T:0.55
Consensus pattern (14 bp):
TATTAGATTATTAT
Found at i:31659388 original size:21 final size:20
Alignment explanation
Indices: 31659319--31659388 Score: 63
Period size: 21 Copynumber: 3.5 Consensus size: 20
31659309 TATAATGATT
*
31659319 ATTATTATGGTTTTATATTAA
1 ATTATTATTGTTTTATATT-A
**
31659340 ATTATTATAATTATTA-ATTA
1 ATTATTATTGTT-TTATATTA
*
31659360 A-CATTATTGTTTTATATTA
1 ATTATTATTGTTTTATATTA
31659379 GATTATTATT
1 -ATTATTATT
31659389 ATTATCATTA
Statistics
Matches: 39, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
18 3 0.08
19 11 0.28
20 3 0.08
21 19 0.49
22 3 0.08
ACGTcount: A:0.36, C:0.01, G:0.06, T:0.57
Consensus pattern (20 bp):
ATTATTATTGTTTTATATTA
Found at i:31664713 original size:21 final size:21
Alignment explanation
Indices: 31664688--31664728 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
31664678 GAAACGTATG
31664688 GAAGAACACAAAGAAACAAAA
1 GAAGAACACAAAGAAACAAAA
*
31664709 GAAGAACATAAAGAAACAAA
1 GAAGAACACAAAGAAACAAA
31664729 TGTGAAACAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.71, C:0.12, G:0.15, T:0.02
Consensus pattern (21 bp):
GAAGAACACAAAGAAACAAAA
Found at i:31667078 original size:43 final size:44
Alignment explanation
Indices: 31667017--31667104 Score: 151
Period size: 43 Copynumber: 2.0 Consensus size: 44
31667007 CTAGTAAAAC
*
31667017 TAGAGTTTCCAGGGTAAATAGTATAAAT-CTTAAAAGATAAAGA
1 TAGAGTTTCCAGGGTAAATAGTATAAATCCTAAAAAGATAAAGA
*
31667060 TAGAGTTTTCAGGGTAAATAGTATAAATCCTAAAAAGATAAAGA
1 TAGAGTTTCCAGGGTAAATAGTATAAATCCTAAAAAGATAAAGA
31667104 T
1 T
31667105 TGTATAGAAT
Statistics
Matches: 42, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
43 27 0.64
44 15 0.36
ACGTcount: A:0.47, C:0.07, G:0.18, T:0.28
Consensus pattern (44 bp):
TAGAGTTTCCAGGGTAAATAGTATAAATCCTAAAAAGATAAAGA
Found at i:31668333 original size:197 final size:197
Alignment explanation
Indices: 31667998--31668382 Score: 630
Period size: 197 Copynumber: 2.0 Consensus size: 197
31667988 CTGTTTTCCA
* * *
31667998 TACTTGATGCCTTTTAATGCTCAAAAATTGTTTTTCATACTTGAAGCCTTTTATGGCCTAAACTC
1 TACTTGAGGCCTTTAAATGCTCAAAAATTGTTTTCCATACTTGAAGCCTTTTATGGCCTAAACTC
* * *
31668063 ACTGCTATTGATTGGCAACCATTTTTAGATTGCATCTGTATGGAAAAGTTGTTGGTACCCTACGA
66 ACTGCTATTGATTGGCAACCATTTTCAGATTGCATCTATATGGAAAAGTTGTTGGTACCCTACAA
31668128 TATGTTTGTCTTACCAGACTAGATATTTCTTACAGTGAACAAAATAAGTCAATACATGCTATTGA
131 TATGTTTGTCTTACCAGACTAGATATTTCTTACAGTGAACAAAATAAGTCAATACATGCTATTGA
31668193 CT
196 CT
*
31668195 TACTTGAGGCCTTTAAATGCTCAAAAATTGTTTTCCATACTTGAGGCCTTTTATGGCCTAAACTC
1 TACTTGAGGCCTTTAAATGCTCAAAAATTGTTTTCCATACTTGAAGCCTTTTATGGCCTAAACTC
* * * *
31668260 TA-TGTTTTTGA-TGGTCAACTATTTTCAGATTGCATCTATATGGAAAAGTTGTTGGTACCTTAC
66 -ACTGCTATTGATTGG-CAACCATTTTCAGATTGCATCTATATGGAAAAGTTGTTGGTACCCTAC
*
31668323 AATATGTTTGTCTTACCAGACTAGATATTTCTTACAGTGAACAAAGTAAGTCAATACATG
129 AATATGTTTGTCTTACCAGACTAGATATTTCTTACAGTGAACAAAATAAGTCAATACATG
31668383 AATATTCCTT
Statistics
Matches: 174, Mismatches: 12, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
196 3 0.02
197 170 0.98
198 1 0.01
ACGTcount: A:0.29, C:0.17, G:0.16, T:0.38
Consensus pattern (197 bp):
TACTTGAGGCCTTTAAATGCTCAAAAATTGTTTTCCATACTTGAAGCCTTTTATGGCCTAAACTC
ACTGCTATTGATTGGCAACCATTTTCAGATTGCATCTATATGGAAAAGTTGTTGGTACCCTACAA
TATGTTTGTCTTACCAGACTAGATATTTCTTACAGTGAACAAAATAAGTCAATACATGCTATTGA
CT
Found at i:31678154 original size:47 final size:44
Alignment explanation
Indices: 31678042--31678214 Score: 125
Period size: 46 Copynumber: 3.8 Consensus size: 44
31678032 TCACTTGTGT
* *
31678042 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCAG-C-CATTAAGA
* * *
31678088 GAGCCAGTGTAGGACCATGTTTGGGACATGGCATCAG-CATTAAGA
1 GAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCAGCCATTAAGA
* * * **
31678133 CGAGTGCTAGTGTAAGACATGTCTAGGACACGCTTCAGCC-TCGAGA
1 -GA--GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCATTAAGA
* * *
31678179 TGTAAGCCAATATAAGACATGTCTGGGACATGCATC
1 -G--AGCTAGTGTAAGACATGTCTGGGACATGCATC
31678215 GGCTACAAGA
Statistics
Matches: 99, Mismatches: 20, Indels: 16
0.73 0.15 0.12
Matches are distributed among these distances:
45 7 0.07
46 50 0.51
47 25 0.25
48 17 0.17
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.23
Consensus pattern (44 bp):
GAGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCATTAAGA
Found at i:31678226 original size:46 final size:43
Alignment explanation
Indices: 31678145--31678263 Score: 112
Period size: 46 Copynumber: 2.6 Consensus size: 43
31678135 AGTGCTAGTG
* * * *
31678145 TAAGACATGTCTAGGACACGCTTCAGCCTCGAGATGTAAGCCAATA
1 TAAGACATGTCTAGGACATGCATC-GGCTCAAGATGT--GCCAATA
* * * *
31678191 TAAGACATGTCTGGGACATGCATCGGCTACAAGATGTGTCAGTG
1 TAAGACATGTCTAGGACATGCATCGGCT-CAAGATGTGCCAATA
31678235 TAAGACCATGTCTAGGACATGGCATCGGC
1 TAAGA-CATGTCTAGGACAT-GCATCGGC
31678264 ACAGATATGC
Statistics
Matches: 61, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
44 9 0.15
45 16 0.26
46 36 0.59
ACGTcount: A:0.29, C:0.22, G:0.26, T:0.23
Consensus pattern (43 bp):
TAAGACATGTCTAGGACATGCATCGGCTCAAGATGTGCCAATA
Found at i:31692600 original size:21 final size:22
Alignment explanation
Indices: 31692574--31692614 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
31692564 CTCTTAACAC
31692574 AGGGGC-ACACGCCCGTGTGGG
1 AGGGGCAACACGCCCGTGTGGG
*
31692595 AGGGGCAACATGCCCGTGTG
1 AGGGGCAACACGCCCGTGTG
31692615 ACATTTCAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.17, C:0.27, G:0.44, T:0.12
Consensus pattern (22 bp):
AGGGGCAACACGCCCGTGTGGG
Found at i:31703212 original size:57 final size:58
Alignment explanation
Indices: 31703116--31703259 Score: 186
Period size: 57 Copynumber: 2.5 Consensus size: 58
31703106 TATCATATTA
*
31703116 CAGGATTACCAGTCCAGGCTAAATCCTTTATGTAACATATTCTC-AGAAGAGCTTA-AT
1 CAGGATTACCAGTCCAGGCTAAATCCTTTATGTAACATATGCTCGAGAAGAG-TTATAT
* * *
31703173 TAGGATTACCAGTCCAGGCTAAATCC-TTATTGTATCATATGCTCGAGAGGAGTTATAT
1 CAGGATTACCAGTCCAGGCTAAATCCTTTA-TGTAACATATGCTCGAGAAGAGTTATAT
* **
31703231 CAGGATTACCTGTCTGGGCTAAATCCTTT
1 CAGGATTACCAGTCCAGGCTAAATCCTTT
31703260 CTATAATGAG
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
56 3 0.04
57 40 0.53
58 30 0.40
59 2 0.03
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.32
Consensus pattern (58 bp):
CAGGATTACCAGTCCAGGCTAAATCCTTTATGTAACATATGCTCGAGAAGAGTTATAT
Found at i:31725817 original size:16 final size:18
Alignment explanation
Indices: 31725791--31725828 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
31725781 TTTAATTTGA
31725791 TTTTCTCTCTCCTCCAGC
1 TTTTCTCTCTCCTCCAGC
31725809 TTTTCTCTCTCCTCCAGC
1 TTTTCTCTCTCCTCCAGC
31725827 TT
1 TT
31725829 CTATTCCTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.05, C:0.42, G:0.05, T:0.47
Consensus pattern (18 bp):
TTTTCTCTCTCCTCCAGC
Found at i:31726073 original size:11 final size:11
Alignment explanation
Indices: 31726057--31726081 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
31726047 TTATATATAC
31726057 TAATAAAATAA
1 TAATAAAATAA
31726068 TAATAAAATAA
1 TAATAAAATAA
31726079 TAA
1 TAA
31726082 AATATCATAT
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:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (11 bp):
TAATAAAATAA
Found at i:31726386 original size:31 final size:30
Alignment explanation
Indices: 31726351--31726409 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 30
31726341 CACCCTTAAA
*
31726351 ATATTTGCACTGTT-AGCCCTTCAAATTTTTC
1 ATATTTACACT-TTAAGCCC-TCAAATTTTTC
*
31726382 ATATTTACACTTTAATCCCTCAAATTTT
1 ATATTTACACTTTAAGCCCTCAAATTTT
31726410 GAGTATTTAC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 11 0.44
31 14 0.56
ACGTcount: A:0.27, C:0.22, G:0.05, T:0.46
Consensus pattern (30 bp):
ATATTTACACTTTAAGCCCTCAAATTTTTC
Found at i:31730434 original size:18 final size:18
Alignment explanation
Indices: 31730397--31730435 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
31730387 TTGGAAATCA
*
31730397 AAATTATTAAAAGATGAT
1 AAATTATTAAAAGATAAT
31730415 AAATTATTAAATAGA-AAT
1 AAATTATTAAA-AGATAAT
31730433 AAA
1 AAA
31730436 AATCATTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 16 0.84
19 3 0.16
ACGTcount: A:0.62, C:0.00, G:0.08, T:0.31
Consensus pattern (18 bp):
AAATTATTAAAAGATAAT
Found at i:31739872 original size:6 final size:6
Alignment explanation
Indices: 31739861--31740035 Score: 139
Period size: 6 Copynumber: 28.8 Consensus size: 6
31739851 AACCAAAATG
*
31739861 AGAATC AGAATC AGAATC AGTAA-C AGAATC AGAATC AGAATC A-ATATT
1 AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGA-ATC
* *
31739909 AGTAA-C AGAATC AGAATC AGAATC AGAATT AG-GTGAC AGAATC AGAATC
1 AG-AATC AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC
* * * * *
31739958 AGAATC A-ATAAC AGAATC AAAATC AGAATC AGTATT AGTAA-C AAAATC
1 AGAATC AGA-ATC AGAATC AGAATC AGAATC AGAATC AG-AATC AGAATC
*
31740006 AGAATT ACGTAA-C AGAATC AGAATC AGAAT
1 AGAATC A-G-AATC AGAATC AGAATC AGAAT
31740036 GTGAATGCAA
Statistics
Matches: 135, Mismatches: 18, Indels: 32
0.73 0.10 0.17
Matches are distributed among these distances:
5 11 0.08
6 111 0.82
7 9 0.07
8 4 0.03
ACGTcount: A:0.50, C:0.14, G:0.15, T:0.20
Consensus pattern (6 bp):
AGAATC
Found at i:31739876 original size:30 final size:30
Alignment explanation
Indices: 31739840--31740010 Score: 169
Period size: 30 Copynumber: 5.9 Consensus size: 30
31739830 AAGAAACATT
* *
31739840 ATCAGAATT-GGAACCAAAATGAGAATCAGA
1 ATCAGAATTAGGAA-CAGAATCAGAATCAGA
* *
31739870 ATCAGAATCAGTAACAGAATCAGAATCAGA
1 ATCAGAATTAGGAACAGAATCAGAATCAGA
*
31739900 ATCA-ATATTAGTAACAGAATCAGAATCAGA
1 ATCAGA-ATTAGGAACAGAATCAGAATCAGA
*
31739930 ATCAGAATTAGGTGACAGAATCAGAATCAGA
1 ATCAGAATTAGG-AACAGAATCAGAATCAGA
*
31739961 ATC--AA-T---AACAGAATCAAAATCAGA
1 ATCAGAATTAGGAACAGAATCAGAATCAGA
* * *
31739985 ATCAGTATTAGTAACAAAATCAGAAT
1 ATCAGAATTAGGAACAGAATCAGAAT
31740011 TACGTAACAG
Statistics
Matches: 119, Mismatches: 12, Indels: 20
0.79 0.08 0.13
Matches are distributed among these distances:
24 19 0.16
26 1 0.01
27 1 0.01
28 1 0.01
29 3 0.03
30 70 0.59
31 24 0.20
ACGTcount: A:0.50, C:0.14, G:0.16, T:0.20
Consensus pattern (30 bp):
ATCAGAATTAGGAACAGAATCAGAATCAGA
Found at i:31739974 original size:49 final size:49
Alignment explanation
Indices: 31739861--31740035 Score: 136
Period size: 55 Copynumber: 3.3 Consensus size: 49
31739851 AACCAAAATG
* * *
31739861 AGAATCAGAATCAGAATCAGTAACAG-AATCAGAATCAGAATCAATATTAGTAAC
1 AGAATCAGAATCAGAATCAGTATCAGTAA-CAAAATCAGAATC---A-CA-TAAC
* * * *
31739915 AGAATCAGAATCAGAATCAGAATTAGGTGACAGAATCAGAATCAGAATCAATAAC
1 AGAATCAGAATCAGAATCAGTATCA-GTAACAAAATCAGAATC---A-C-ATAAC
* * * *
31739970 AGAATCAAAATCAGAATCAGTATTAGTAACAAAATCAGAATTACGTAAC
1 AGAATCAGAATCAGAATCAGTATCAGTAACAAAATCAGAATCACATAAC
31740019 AGAATCAGAATCAGAAT
1 AGAATCAGAATCAGAAT
31740036 GTGAATGCAA
Statistics
Matches: 104, Mismatches: 14, Indels: 11
0.81 0.11 0.09
Matches are distributed among these distances:
49 20 0.19
50 1 0.01
51 1 0.01
54 36 0.35
55 44 0.42
56 2 0.02
ACGTcount: A:0.50, C:0.14, G:0.15, T:0.20
Consensus pattern (49 bp):
AGAATCAGAATCAGAATCAGTATCAGTAACAAAATCAGAATCACATAAC
Found at i:31740019 original size:19 final size:18
Alignment explanation
Indices: 31739984--31740029 Score: 65
Period size: 19 Copynumber: 2.5 Consensus size: 18
31739974 TCAAAATCAG
*
31739984 AATCAGTATTAGTAACAA
1 AATCAGAATTAGTAACAA
*
31740002 AATCAGAATTACGTAACAG
1 AATCAGAATTA-GTAACAA
31740021 AATCAGAAT
1 AATCAGAAT
31740030 CAGAATGTGA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
18 10 0.40
19 15 0.60
ACGTcount: A:0.50, C:0.13, G:0.13, T:0.24
Consensus pattern (18 bp):
AATCAGAATTAGTAACAA
Found at i:31740190 original size:27 final size:26
Alignment explanation
Indices: 31740153--31740218 Score: 87
Period size: 27 Copynumber: 2.5 Consensus size: 26
31740143 AGCATGGCTG
*
31740153 CCAGAACAGATATTGTGACAGAGTCA
1 CCAGAACAGATATTGTGACAGAGCCA
*
31740179 CCAGATACAGATATTGTGGCAGAGCCA
1 CCAGA-ACAGATATTGTGACAGAGCCA
*
31740206 CCACAATCAGATA
1 CCAGAA-CAGATA
31740219 ACGTTGCAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
26 6 0.17
27 29 0.83
ACGTcount: A:0.38, C:0.23, G:0.21, T:0.18
Consensus pattern (26 bp):
CCAGAACAGATATTGTGACAGAGCCA
Found at i:31740439 original size:22 final size:22
Alignment explanation
Indices: 31740391--31740449 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
31740381 GTAAATACGT
*
31740391 TTGGCACGAAGCCATAGTTAAG
1 TTGGCACAAAGCCATAGTTAAG
* * *
31740413 ATGGCACAAAGCCATATTTAGG
1 TTGGCACAAAGCCATAGTTAAG
* *
31740435 TTGGCATAGAGCCAT
1 TTGGCACAAAGCCAT
31740450 TAATAATGGG
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.32, C:0.19, G:0.25, T:0.24
Consensus pattern (22 bp):
TTGGCACAAAGCCATAGTTAAG
Found at i:31740616 original size:27 final size:26
Alignment explanation
Indices: 31740537--31740619 Score: 112
Period size: 27 Copynumber: 3.1 Consensus size: 26
31740527 TCGATCGGTC
* * *
31740537 AACAGATATTGTGACAGAGTCACCAA
1 AACAGATATTGTGGCAGAGCCACCAG
31740563 ATACAGATATTGTGGCAGAGCCACCAG
1 A-ACAGATATTGTGGCAGAGCCACCAG
*
31740590 AACAGATATTTGTGGCATAGCCACCAG
1 AACAGATA-TTGTGGCAGAGCCACCAG
31740617 AAC
1 AAC
31740620 GCTTCCTCCG
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
26 8 0.16
27 43 0.84
ACGTcount: A:0.37, C:0.22, G:0.22, T:0.19
Consensus pattern (26 bp):
AACAGATATTGTGGCAGAGCCACCAG
Found at i:31740866 original size:27 final size:27
Alignment explanation
Indices: 31740818--31741013 Score: 216
Period size: 27 Copynumber: 7.3 Consensus size: 27
31740808 GGGGCAAAAT
* *
31740818 GGTAATTTTA-CCTCACAAGGGT-TTCTC
1 GGTAATTCTACCCT-ACAGGGGTATT-TC
31740845 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
31740872 AGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
31740899 GATAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
31740926 GGTAATTCTATCCTATAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
31740953 AGTAATTCTACCCTATAGGTGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
31740980 GGAAATTCTATCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
31741007 AGTAATT
1 GGTAATT
31741014 TCACAATCAA
Statistics
Matches: 141, Mismatches: 26, Indels: 4
0.82 0.15 0.02
Matches are distributed among these distances:
27 136 0.96
28 5 0.04
ACGTcount: A:0.26, C:0.19, G:0.18, T:0.37
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:31741057 original size:27 final size:27
Alignment explanation
Indices: 31741018--31741505 Score: 574
Period size: 27 Copynumber: 18.1 Consensus size: 27
31741008 GTAATTTCAC
* *
31741018 AATCAAGGCTAAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTATA
* *
31741045 AATCGAGGGTAAAACGATAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTATA
* * *
31741072 AA-CTGAGGGTAAACCAGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTATA
* **
31741099 AATCAAGGGTAAAATAGTAATT-T-TA
1 AATCGAGGGTAAAACGGTAATTCTATA
31741124 CAA-CGAGGGTAAAACGGTAATTCTATA
1 -AATCGAGGGTAAAACGGTAATTCTATA
* *
31741151 AATCGAGGGTAAAACAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTATA
31741178 AA-CTGAGGGTAAAACGGTAATTCTATA
1 AATC-GAGGGTAAAACGGTAATTCTATA
31741205 AATCGAGGGTAAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTATA
** * *
31741232 AATCGAGGGTAAAATAGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTATA
* *
31741259 AATCAAAGGTAAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTATA
* *
31741286 AATCGAGGGTAAAACAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTATA
* *
31741313 AA-CTGAGGGTAAAACAGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTATA
* *
31741340 AATTGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTATA
* * *
31741367 AATCGAGGGTAAAACGATAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTATA
* *
31741394 AATCGAGGGTAAAACGATAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTATA
** * *
31741421 AATCGAGGGTAAAATAGTAATTTTAAA
1 AATCGAGGGTAAAACGGTAATTCTATA
* * *
31741448 AATTGAGGGTAAAATGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTATA
31741475 AATCGAGGGTAAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTATA
31741502 AATC
1 AATC
31741506 AGGAGTACTT
Statistics
Matches: 396, Mismatches: 55, Indels: 20
0.84 0.12 0.04
Matches are distributed among these distances:
25 18 0.05
26 9 0.02
27 367 0.93
28 2 0.01
ACGTcount: A:0.42, C:0.10, G:0.21, T:0.27
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTCTATA
Found at i:31743533 original size:6 final size:6
Alignment explanation
Indices: 31743522--31743659 Score: 126
Period size: 6 Copynumber: 22.8 Consensus size: 6
31743512 AACCAAAGTG
* *
31743522 AGAATC AGAATC AGAATC AGTAA-C AGAATC AGAATC AAAATC A-ATATT
1 AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGA-ATC
* *
31743570 AGTAA-C AGAATC AGAATT AG-GTGAC AGAATC AGAATC AGAATC AGTAA-C
1 AG-AATC AGAATC AGAATC AGAAT--C AGAATC AGAATC AGAATC AG-AATC
*
31743619 AGAATC AGAATC AGTAA-C AAAATC AGAATC AGAATC AGAAT
1 AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGAAT
31743660 TAAGTGACAG
Statistics
Matches: 110, Mismatches: 9, Indels: 26
0.76 0.06 0.18
Matches are distributed among these distances:
5 10 0.09
6 89 0.81
7 9 0.08
8 2 0.02
ACGTcount: A:0.51, C:0.14, G:0.16, T:0.19
Consensus pattern (6 bp):
AGAATC
Found at i:31743625 original size:73 final size:73
Alignment explanation
Indices: 31743522--31743684 Score: 249
Period size: 73 Copynumber: 2.2 Consensus size: 73
31743512 AACCAAAGTG
* *
31743522 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCA-AAATCAATATTAGTAA-CAGAATCAGA
1 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAAA-CAAAATCAG-AATCAGAATCAGA
*
31743585 ATTAGGTGAC
64 ATTAAGTGAC
*
31743595 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGTAACAAAATCAGAATCAGAATCAGAAT
1 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAAACAAAATCAGAATCAGAATCAGAAT
31743660 TAAGTGAC
66 TAAGTGAC
*
31743668 AGAATCAAAATCAGAAT
1 AGAATCAGAATCAGAAT
31743685 GTGAATGCAA
Statistics
Matches: 83, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
72 2 0.02
73 79 0.95
74 2 0.02
ACGTcount: A:0.51, C:0.14, G:0.16, T:0.19
Consensus pattern (73 bp):
AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAAACAAAATCAGAATCAGAATCAGAAT
TAAGTGAC
Found at i:31743680 original size:31 final size:30
Alignment explanation
Indices: 31743524--31743684 Score: 96
Period size: 30 Copynumber: 5.3 Consensus size: 30
31743514 CCAAAGTGAG
* * *
31743524 AATCAGAATCAGAATCAGTAACAGAATCAG
1 AATCAGAATCAGAATAAGTAACAAAATCAA
* * * *
31743554 AATCAAAATCA-ATATTAGTAACAGAATCAG
1 AATCAGAATCAGA-ATAAGTAACAAAATCAA
* * * * *
31743584 AATTAG-GTGACAGAATCAG-AATCAGAATCAGT
1 AATCAGAAT--CAGAATAAGTAA-CAAAATCA-A
* *
31743616 AA-CAGAATCAGAATCAGTAACAAAATCAG
1 AATCAGAATCAGAATAAGTAACAAAATCAA
* *
31743645 AATCAGAATCAGAATTAAGTGACAGAATCAA
1 AATCAGAATCAGAA-TAAGTAACAAAATCAA
31743676 AATCAGAAT
1 AATCAGAAT
31743685 GTGAATGCAA
Statistics
Matches: 106, Mismatches: 15, Indels: 19
0.76 0.11 0.14
Matches are distributed among these distances:
29 4 0.04
30 59 0.56
31 39 0.37
32 4 0.04
ACGTcount: A:0.51, C:0.14, G:0.16, T:0.19
Consensus pattern (30 bp):
AATCAGAATCAGAATAAGTAACAAAATCAA
Found at i:31743684 original size:12 final size:12
Alignment explanation
Indices: 31743594--31743684 Score: 71
Period size: 12 Copynumber: 7.5 Consensus size: 12
31743584 AATTAGGTGA
*
31743594 CAGAATCAGAAT
1 CAGAATCAAAAT
*
31743606 CAGAATCAGTAA-
1 CAGAATCA-AAAT
*
31743618 CAGAATCAGAAT
1 CAGAATCAAAAT
31743630 CAGTAA-CAAAAT
1 CAG-AATCAAAAT
*
31743642 CAGAATCAGAAT
1 CAGAATCAAAAT
* *
31743654 CAGAAT-TAAGT
1 CAGAATCAAAAT
31743665 GACAGAATCAAAAT
1 --CAGAATCAAAAT
31743679 CAGAAT
1 CAGAAT
31743685 GTGAATGCAA
Statistics
Matches: 63, Mismatches: 9, Indels: 14
0.73 0.10 0.16
Matches are distributed among these distances:
11 6 0.10
12 44 0.70
13 10 0.16
14 3 0.05
ACGTcount: A:0.52, C:0.15, G:0.15, T:0.18
Consensus pattern (12 bp):
CAGAATCAAAAT
Found at i:31743838 original size:27 final size:26
Alignment explanation
Indices: 31743802--31743867 Score: 96
Period size: 27 Copynumber: 2.5 Consensus size: 26
31743792 AGAATGGCTG
*
31743802 CCAGAACAGATATCGTGACAGAGTCA
1 CCAGAACAGATATCGTGACAGAGCCA
*
31743828 CCAGATACAGATATTGTGACAGAGCCA
1 CCAGA-ACAGATATCGTGACAGAGCCA
31743855 CCAGAATCAGATA
1 CCAGAA-CAGATA
31743868 ATGTGGCAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
26 6 0.17
27 30 0.83
ACGTcount: A:0.39, C:0.23, G:0.21, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATATCGTGACAGAGCCA
Found at i:31743882 original size:27 final size:27
Alignment explanation
Indices: 31743826--31743883 Score: 64
Period size: 27 Copynumber: 2.1 Consensus size: 27
31743816 GTGACAGAGT
* * *
31743826 CACCAGATACAGATATTGTGACAGAGC
1 CACCAGATACAGATAATGTGACAAACC
*
31743853 CACCAGA-ATCAGATAATGTGGCAAACC
1 CACCAGATA-CAGATAATGTGACAAACC
31743880 CACC
1 CACC
31743884 TAACAGAATA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
26 1 0.04
27 25 0.96
ACGTcount: A:0.38, C:0.28, G:0.19, T:0.16
Consensus pattern (27 bp):
CACCAGATACAGATAATGTGACAAACC
Found at i:31744088 original size:22 final size:22
Alignment explanation
Indices: 31744040--31744098 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
31744030 GTAAATACGT
*
31744040 TTGGCACGAAGCCATAGTCAAG
1 TTGGCACAAAGCCATAGTCAAG
* * * *
31744062 ATGGCACAAAGCCATATTTAGG
1 TTGGCACAAAGCCATAGTCAAG
*
31744084 TTGGCACAGAGCCAT
1 TTGGCACAAAGCCAT
31744099 TAATAACGGG
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.32, C:0.22, G:0.25, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAGTCAAG
Found at i:31744222 original size:27 final size:26
Alignment explanation
Indices: 31744183--31744266 Score: 96
Period size: 27 Copynumber: 3.2 Consensus size: 26
31744173 TCGATCGGTC
*
31744183 AACAGATATTGTGACAGAGTCACCAA
1 AACAGATATTGTGACAGAGCCACCAA
* *
31744209 ATACAGATATTGTGGCAGAGCCACCAG
1 A-ACAGATATTGTGACAGAGCCACCAA
* * *
31744236 AACAGATATTTGTGGCATAGCCACCAG
1 AACAGATA-TTGTGACAGAGCCACCAA
31744263 AACA
1 AACA
31744267 CTTCCTCCGT
Statistics
Matches: 52, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
26 8 0.15
27 44 0.85
ACGTcount: A:0.38, C:0.21, G:0.21, T:0.19
Consensus pattern (26 bp):
AACAGATATTGTGACAGAGCCACCAA
Found at i:31744319 original size:15 final size:16
Alignment explanation
Indices: 31744292--31744321 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
31744282 ATCCCAACCC
31744292 ATGCAACATGTCATGT
1 ATGCAACATGTCATGT
31744308 ATGCAA-ATGTCATG
1 ATGCAACATGTCATG
31744322 CCATATTTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.30
Consensus pattern (16 bp):
ATGCAACATGTCATGT
Found at i:31744492 original size:27 final size:27
Alignment explanation
Indices: 31744462--31744656 Score: 152
Period size: 27 Copynumber: 7.3 Consensus size: 27
31744452 GGGGCAAAAT
* *
31744462 GGTAATTTTACTCCACAAGGGTATCTC
1 GGTAATTCTACTCCACAAGGGTATTTC
*
31744489 GGTAATTCTAC-CCTACAGGGGTATTTC
1 GGTAATTCTACTCC-ACAAGGGTATTTC
* *
31744516 GATATTTCTA--CCACAAGGGTATTTC
1 GGTAATTCTACTCCACAAGGGTATTTC
* * * *
31744541 GATAATTCTAC-CTACAGGGGTATTTT
1 GGTAATTCTACTCCACAAGGGTATTTC
*
31744567 GGTAATTCTA-TCCTATAAGGGTATTTC
1 GGTAATTCTACTCC-ACAAGGGTATTTC
* * *
31744594 AGTAATTCTAC-CCTATAGGGGTATTTC
1 GGTAATTCTACTCC-ACAAGGGTATTTC
*
31744621 GGAAATTCTACTACC-CTACAGGGTATTTC
1 GGTAATTCTACT-CCAC-A-AGGGTATTTC
*
31744650 AGTAATT
1 GGTAATT
31744657 TCACAATCAA
Statistics
Matches: 136, Mismatches: 23, Indels: 16
0.78 0.13 0.09
Matches are distributed among these distances:
25 21 0.15
26 26 0.19
27 72 0.53
28 1 0.01
29 16 0.12
ACGTcount: A:0.27, C:0.19, G:0.18, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACTCCACAAGGGTATTTC
Found at i:31745191 original size:27 final size:27
Alignment explanation
Indices: 31744661--31745187 Score: 568
Period size: 27 Copynumber: 19.9 Consensus size: 27
31744651 GTAATTTCAC
* *
31744661 AATCAAGGGTAAAACGGTAATTCTATA
1 AATCGAGGGTAAAACAGTAATTCTATA
*
31744688 AATCGAGGGTAAAAC-GATAATTTTATA
1 AATCGAGGGTAAAACAG-TAATTCTATA
*
31744715 AA-CTGAGGGT-AAACTAGTAATTCTGTA
1 AATC-GAGGGTAAAAC-AGTAATTCTATA
* * * * *
31744742 GATCAAGGGTAAAATAGTAATTTTACA
1 AATCGAGGGTAAAACAGTAATTCTATA
*
31744769 AATCGAGGGTAAAACGGTAATTCTATA
1 AATCGAGGGTAAAACAGTAATTCTATA
31744796 AATCGAGGGTAAAACAGTAATTCTATA
1 AATCGAGGGTAAAACAGTAATTCTATA
31744823 AA-CTGAGGGTAAAAC-GATAATTCTATA
1 AATC-GAGGGTAAAACAG-TAATTCTATA
* * *
31744850 AATCGAGGGTAAAATAGTAATTTTACA
1 AATCGAGGGTAAAACAGTAATTCTATA
* * *
31744877 AATTGAGGGTAAAATAGTAATTGTATA
1 AATCGAGGGTAAAACAGTAATTCTATA
*
31744904 AATCGAGGGTAAAACAGTAATTCTGTA
1 AATCGAGGGTAAAACAGTAATTCTATA
* * *
31744931 AA-CTATGGGTAAAACGGTAATTCTGTA
1 AATCGA-GGGTAAAACAGTAATTCTATA
*
31744958 AATCGAAGGT-AAA-AGTAATT-T-TA
1 AATCGAGGGTAAAACAGTAATTCTATA
**
31744981 CAAT-GAGGGTAAAATGGTAATTCTATA
1 -AATCGAGGGTAAAACAGTAATTCTATA
*
31745008 AATCGAGGGTAAAACAGTAATTCTGTA
1 AATCGAGGGTAAAACAGTAATTCTATA
* *
31745035 AA-CTGAGGGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACAGTAATTCTATA
* * *
31745062 AATCGAGGGTAAAACGGTAATTTTACA
1 AATCGAGGGTAAAACAGTAATTCTATA
31745089 AATCGAGGGTAAAACAGTAATT-T-TA
1 AATCGAGGGTAAAACAGTAATTCTATA
*
31745114 AATCGAGGGT-AAAC-GTAATTTTA-A
1 AATCGAGGGTAAAACAGTAATTCTATA
* *
31745138 AAT-GAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACAGTAATTCTATA
31745164 AATCGAGGGTAAAACAGTAATTCT
1 AATCGAGGGTAAAACAGTAATTCT
31745188 GTAATCGGGA
Statistics
Matches: 428, Mismatches: 46, Indels: 52
0.81 0.09 0.10
Matches are distributed among these distances:
23 19 0.04
24 20 0.05
25 30 0.07
26 23 0.05
27 326 0.76
28 10 0.02
ACGTcount: A:0.42, C:0.09, G:0.21, T:0.28
Consensus pattern (27 bp):
AATCGAGGGTAAAACAGTAATTCTATA
Found at i:31748041 original size:39 final size:40
Alignment explanation
Indices: 31748005--31748135 Score: 160
Period size: 39 Copynumber: 3.3 Consensus size: 40
31747995 GCTACTCGTT
*
31748005 CAAATGCCTTCGGGACAT-AGCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATT-TAGTAACTCGCA
*
31748044 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * * * * *
31748084 CCAATGCCTTCGGG-CTTAGCCCAGAATTAGTAACTTGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
31748123 CAAATGCCTTCGG
1 CAAATGCCTTCGG
31748136 ATCTTAGTCC
Statistics
Matches: 82, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
39 50 0.61
40 30 0.37
41 2 0.02
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:31748090 original size:40 final size:40
Alignment explanation
Indices: 31748005--31748188 Score: 207
Period size: 40 Copynumber: 4.7 Consensus size: 40
31747995 GCTACTCGTT
*
31748005 CAAATGCCTTCGGGACATAG-CCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
31748044 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * *
31748084 CCAATGCCTTCGGG-CTTAGCCCAGAATTAGTAACTTGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
31748123 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
31748164 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
31748189 CATCATTCGA
Statistics
Matches: 123, Mismatches: 16, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
38 2 0.02
39 49 0.40
40 59 0.48
41 13 0.11
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:31748148 original size:79 final size:80
Alignment explanation
Indices: 31748032--31748185 Score: 197
Period size: 79 Copynumber: 1.9 Consensus size: 80
31748022 TAGCCGGTTA
* * *
31748032 TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAAC-TCGCACCAATGCCTTCG
1 TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAGTAACTTAGCA-CAAAGCCTTCG
31748096 GG-CTTAGCCCAGAAT
65 GGACTTAGCCCAGAAT
* ** * *
31748111 TAGTAACTTGCACAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCACAAAGCCTTCG
1 TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGGATATAGTAACTTAGCACAAAGCCTTCG
31748175 GGACTTAGCCC
65 GGACTTAGCCC
31748186 GGACATCATT
Statistics
Matches: 64, Mismatches: 8, Indels: 5
0.83 0.10 0.06
Matches are distributed among these distances:
78 3 0.05
79 49 0.77
80 12 0.19
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (80 bp):
TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAGTAACTTAGCACAAAGCCTTCGG
GACTTAGCCCAGAAT
Found at i:31756226 original size:38 final size:39
Alignment explanation
Indices: 31756157--31756333 Score: 122
Period size: 38 Copynumber: 4.7 Consensus size: 39
31756147 GCTACTCGTT
* * *
31756157 CAAATGCCTTCGGGA-ATAGCCCGG-TTATAGTAATCGAA
1 CAAATGCCTTCGGGACTTAGACCGGATT-TAGTAATCGCA
31756195 CAAATGCCTTCGGGACTTA-ACCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGACCGGATTTAGTAA-TCGCA
* * * * *
31756234 CCAATG-CTTCGGG-CTTAGCCCAGAATTAGTAATTGCA
1 CAAATGCCTTCGGGACTTAGACCGGATTTAGTAATCGCA
* * * * *
31756271 CAAATG-CTTC-GGATCTTAG-TCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGACCGGATTTAGT-A-ATCGCA
31756310 CAAA-GCCTTCGGGACTTAG-CCGGA
1 CAAATGCCTTCGGGACTTAGACCGGA
31756334 CATCATTCGA
Statistics
Matches: 112, Mismatches: 17, Indels: 19
0.76 0.11 0.13
Matches are distributed among these distances:
36 2 0.02
37 23 0.21
38 50 0.45
39 34 0.30
40 3 0.03
ACGTcount: A:0.28, C:0.24, G:0.23, T:0.25
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAGACCGGATTTAGTAATCGCA
Found at i:31762947 original size:27 final size:27
Alignment explanation
Indices: 31762882--31762950 Score: 120
Period size: 27 Copynumber: 2.6 Consensus size: 27
31762872 ATAGACTAGT
*
31762882 ATTACTGAAATACCCCTATAGGGTAGA
1 ATTACTGAAATGCCCCTATAGGGTAGA
*
31762909 ATTACTGAAATGCCCCTGTAGGGTAGA
1 ATTACTGAAATGCCCCTATAGGGTAGA
31762936 ATTACTGAAATGCCC
1 ATTACTGAAATGCCC
31762951 TTGGTTTACA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 40 1.00
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.26
Consensus pattern (27 bp):
ATTACTGAAATGCCCCTATAGGGTAGA
Found at i:31763147 original size:27 final size:27
Alignment explanation
Indices: 31762960--31763275 Score: 216
Period size: 27 Copynumber: 11.7 Consensus size: 27
31762950 CTTGGTTTAC
* * * *
31762960 AAAATTACCAAAATACCCCCGACTAGC
1 AAAATTACCAAAATACCCCTGATTTGT
*
31762987 AAAATTACCAAAATACCCCT-AGTTTGA
1 AAAATTACCAAAATACCCCTGA-TTTGT
* *
31763014 AAAATTATCAAAATACCCCTAATTTGT
1 AAAATTACCAAAATACCCCTGATTTGT
* * **
31763041 AAAATTATCGAAATA-CCCTCGACCTGT
1 AAAATTACCAAAATACCCCT-GATTTGT
* * *
31763068 AAAATTATCGAAATA-CCCTCGACTTGT
1 AAAATTACCAAAATACCCCT-GATTTGT
31763095 AAAATTACCAAAATA-CCCTCGATTTGT
1 AAAATTACCAAAATACCCCT-GATTTGT
** *
31763122 AAAATTACCAAAATACCCCTTTTTTGG
1 AAAATTACCAAAATACCCCTGATTTGT
* **
31763149 AAAATTA-CAGAAATACTCCTGATTTAC
1 AAAATTACCA-AAATACCCCTGATTTGT
* *
31763176 AAAATTACAAAAATACCCTTGACTTT-T
1 AAAATTACCAAAATACCCCTGA-TTTGT
* * * *
31763203 AAAAATTA-TAGAAATA-CCATTAGTTTGC
1 -AAAATTACCA-AAATACCCCTGA-TTTGT
* * *
31763231 AAAATTACCAAAATACGCTTGGTTTGT
1 AAAATTACCAAAATACCCCTGATTTGT
* *
31763258 AAATTTACCAAAACACCC
1 AAAATTACCAAAATACCC
31763276 TTGTAGGGTA
Statistics
Matches: 237, Mismatches: 40, Indels: 24
0.79 0.13 0.08
Matches are distributed among these distances:
26 7 0.03
27 206 0.87
28 24 0.10
ACGTcount: A:0.42, C:0.22, G:0.08, T:0.28
Consensus pattern (27 bp):
AAAATTACCAAAATACCCCTGATTTGT
Found at i:31763565 original size:41 final size:41
Alignment explanation
Indices: 31763516--31763638 Score: 201
Period size: 41 Copynumber: 3.0 Consensus size: 41
31763506 GAAGGAAGAA
*
31763516 ATTAAGGATTGCATGGTTGCTTGACGACCATGGATCCACCG
1 ATTAAGGATTGCATGGTTGCTTGACGACCGTGGATCCACCG
* * * *
31763557 ATTGAGGATCGCATGGTTGCTTGATGACCGTGGATCCACTG
1 ATTAAGGATTGCATGGTTGCTTGACGACCGTGGATCCACCG
31763598 ATTAAGGATTGCATGGTTGCTTGACGACCGTGGATCCACCG
1 ATTAAGGATTGCATGGTTGCTTGACGACCGTGGATCCACCG
31763639 GTGGCTTTTA
Statistics
Matches: 73, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 73 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (41 bp):
ATTAAGGATTGCATGGTTGCTTGACGACCGTGGATCCACCG
Found at i:31765278 original size:29 final size:29
Alignment explanation
Indices: 31765215--31765282 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
31765205 TAATCAACCA
31765215 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
31765244 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
31765273 CGCACACTTA
1 CGCACACTTA
31765283 CCTTTTCCGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:31765423 original size:29 final size:30
Alignment explanation
Indices: 31765384--31765462 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
31765374 CTTAATAATC
31765384 AACCGCGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
31765414 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
31765443 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
31765463 ATCTCATGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.29, C:0.30, G:0.15, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:31767195 original size:22 final size:22
Alignment explanation
Indices: 31767143--31767207 Score: 60
Period size: 22 Copynumber: 3.0 Consensus size: 22
31767133 GCCAATTATT
* **
31767143 CTGATTATGGCTTTGCACCAAC
1 CTGATTATGGCTCTGTGCCAAC
*
31767165 CT-ACATATGGCTCTGTGCCAAC
1 CTGA-TTATGGCTCTGTGCCAAC
* *
31767187 CTGATTATGGTTGTGTGCCAA
1 CTGATTATGGCTCTGTGCCAA
31767208 ACGTATTTGC
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
21 1 0.03
22 32 0.94
23 1 0.03
ACGTcount: A:0.22, C:0.25, G:0.22, T:0.32
Consensus pattern (22 bp):
CTGATTATGGCTCTGTGCCAAC
Found at i:31769446 original size:43 final size:43
Alignment explanation
Indices: 31769399--31769509 Score: 177
Period size: 43 Copynumber: 2.6 Consensus size: 43
31769389 CGGCATTACG
31769399 CCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAA
1 CCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAA
* * * *
31769442 CCTGCCAGGCACGAACGCCCGAATACACATCATCGGCACGAAG
1 CCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAA
*
31769485 CCTGCTAGGCACGAAGGCCCAAATA
1 CCTGCTAGGCACGAAGGCCCGAATA
31769510 TAATACCAGC
Statistics
Matches: 61, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 61 1.00
ACGTcount: A:0.32, C:0.35, G:0.23, T:0.10
Consensus pattern (43 bp):
CCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAA
Found at i:31769550 original size:38 final size:38
Alignment explanation
Indices: 31769507--31769703 Score: 286
Period size: 38 Copynumber: 5.1 Consensus size: 38
31769497 GAAGGCCCAA
* * *
31769507 ATATAATACCAGCACTAGGCCTGCGGGATTTATCCCGG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
*
31769545 ATATAATACCAGCACGAAGCCTGCGAGATTTAACCCGG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
** * **
31769583 ATATTTTACCAGCACGAAGCCTGTAGGTCTTTAAGCCCGG
1 ATATAATACCAGCACGAAGCCTG-CGGGATTTAA-CCCGG
31769623 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
*
31769661 ATATAATACCAGCACGAAGCCTGCAGGATTTAACCCGG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
31769699 ATATA
1 ATATA
31769704 CATCGAATAT
Statistics
Matches: 141, Mismatches: 16, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
38 102 0.72
39 13 0.09
40 26 0.18
ACGTcount: A:0.31, C:0.25, G:0.22, T:0.22
Consensus pattern (38 bp):
ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
Found at i:31769631 original size:78 final size:76
Alignment explanation
Indices: 31769507--31769703 Score: 295
Period size: 78 Copynumber: 2.6 Consensus size: 76
31769497 GAAGGCCCAA
* * * *
31769507 ATATAATACCAGCACTAGGCCTGCGGGATTTATCCCGGATATAATACCAGCACGAAGCCTGCGAG
1 ATATAATACCAGCACGAAGCCTGCAGGATTTAACCCGGATATAATACCAGCACGAAGCCTGCGAG
31769572 ATTTAACCCGG
66 ATTTAACCCGG
** * *
31769583 ATATTTTACCAGCACGAAGCCTGTAGGTCTTTAAGCCCGGATATAATACCAGCACGAAGCCTGCG
1 ATATAATACCAGCACGAAGCCTGCAGG-ATTTAA-CCCGGATATAATACCAGCACGAAGCCTGCG
*
31769648 GGATTTAACCCGG
64 AGATTTAACCCGG
31769661 ATATAATACCAGCACGAAGCCTGCAGGATTTAACCCGGATATA
1 ATATAATACCAGCACGAAGCCTGCAGGATTTAACCCGGATATA
31769704 CATCGAATAT
Statistics
Matches: 106, Mismatches: 13, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
76 31 0.29
77 9 0.08
78 66 0.62
ACGTcount: A:0.31, C:0.25, G:0.22, T:0.22
Consensus pattern (76 bp):
ATATAATACCAGCACGAAGCCTGCAGGATTTAACCCGGATATAATACCAGCACGAAGCCTGCGAG
ATTTAACCCGG
Found at i:31772335 original size:22 final size:22
Alignment explanation
Indices: 31772308--31772429 Score: 61
Period size: 22 Copynumber: 5.3 Consensus size: 22
31772298 CATGTGTATG
31772308 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* * *
31772330 TGTGATGAATG-TGAACAT-GCATATA
1 TGTGAT-AAGGCCG-A-ATGGC-CA-A
*
31772355 TGAGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* * ***
31772377 TGTGATGAATG-TGAAAGTGTATATA
1 TGTGAT-AAGGCCG-AA-TGGCCA-A
31772402 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
31772424 TGTGAT
1 TGTGAT
31772430 GGATGTGGAA
Statistics
Matches: 70, Mismatches: 18, Indels: 24
0.62 0.16 0.21
Matches are distributed among these distances:
22 21 0.30
23 17 0.24
24 17 0.24
25 15 0.21
ACGTcount: A:0.34, C:0.11, G:0.30, T:0.25
Consensus pattern (22 bp):
TGTGATAAGGCCGAATGGCCAA
Found at i:31772442 original size:47 final size:47
Alignment explanation
Indices: 31772161--31772457 Score: 445
Period size: 47 Copynumber: 6.3 Consensus size: 47
31772151 TGTACAAGTA
* *
31772161 TATATATGTGATAGGGCCGAGTGGCCAATGTGATGAATGTGAACATG
1 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATG
* *
31772208 TGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATG
1 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATG
* *
31772255 TGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATG
1 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATG
* *
31772302 TGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATG
1 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATG
* *
31772349 CATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAA-AGTG
1 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA-TG
* *
31772396 TATATATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGGAA-GTG
1 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGT-GAACATG
*
31772443 TATAAATGTGATAAG
1 TATATATGTGATAAG
31772458 TCCCGAAGGG
Statistics
Matches: 235, Mismatches: 13, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
46 1 0.00
47 231 0.98
48 3 0.01
ACGTcount: A:0.32, C:0.10, G:0.31, T:0.27
Consensus pattern (47 bp):
TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATG
Found at i:31778344 original size:44 final size:44
Alignment explanation
Indices: 31778292--31778375 Score: 123
Period size: 44 Copynumber: 1.9 Consensus size: 44
31778282 CGATATCAGT
* *
31778292 TCACCGGCATTATAGCCTACTAGGCTCGAAGGCCCGAATAGTAC
1 TCACCGGCATTATAGCCTACTAAGCTCAAAGGCCCGAATAGTAC
** *
31778336 TCACCGGCATTATAGTTTGCTAAGCTCAAAGGCCCGAATA
1 TCACCGGCATTATAGCCTACTAAGCTCAAAGGCCCGAATA
31778376 ATCAAGTCAA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 35 1.00
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (44 bp):
TCACCGGCATTATAGCCTACTAAGCTCAAAGGCCCGAATAGTAC
Found at i:31778753 original size:43 final size:43
Alignment explanation
Indices: 31778706--31778859 Score: 281
Period size: 43 Copynumber: 3.6 Consensus size: 43
31778696 CGGCATTACG
31778706 CCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAA
1 CCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAA
31778749 CCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAA
1 CCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAA
* * *
31778792 CCTGCCAGGTACGAAGGCCCGAATACACATCACCGGCACGAAG
1 CCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAA
31778835 CCTGCTAGGCACGAAGGCCCGAATA
1 CCTGCTAGGCACGAAGGCCCGAATA
31778860 TAATACCAGC
Statistics
Matches: 106, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 106 1.00
ACGTcount: A:0.31, C:0.34, G:0.25, T:0.10
Consensus pattern (43 bp):
CCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAA
Found at i:31778900 original size:38 final size:38
Alignment explanation
Indices: 31778852--31779053 Score: 287
Period size: 38 Copynumber: 5.3 Consensus size: 38
31778842 GGCACGAAGG
* * * *
31778852 CCCGAATATAATACCAGCACTAGGCCTGCGGGATTTAT
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
*
31778890 CCCGGATATAATACCAGCACGAAGCCTGCGAGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
** * **
31778928 CCCGGATATTTTACCAGCACGAAGCCTGTAGGTCTTTAA
1 CCCGGATATAATACCAGCACGAAGCCTG-CGGGATTTAA
31778967 GCCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
1 -CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
*
31779006 CCCGGATATAATACCAGCACGAAGCCTGCAGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
31779044 CCCGGATATA
1 CCCGGATATA
31779054 CATCGAATAT
Statistics
Matches: 145, Mismatches: 17, Indels: 4
0.87 0.10 0.02
Matches are distributed among these distances:
38 106 0.73
39 13 0.09
40 26 0.18
ACGTcount: A:0.31, C:0.26, G:0.22, T:0.21
Consensus pattern (38 bp):
CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
Found at i:31778981 original size:78 final size:76
Alignment explanation
Indices: 31778852--31779053 Score: 296
Period size: 78 Copynumber: 2.6 Consensus size: 76
31778842 GGCACGAAGG
* * * * *
31778852 CCCGAATATAATACCAGCACTAGGCCTGCGGGATTTATCCCGGATATAATACCAGCACGAAGCCT
1 CCCGGATATAATACCAGCACGAAGCCTGCAGGATTTAACCCGGATATAATACCAGCACGAAGCCT
31778917 GCGAGATTTAA
66 GCGAGATTTAA
** * *
31778928 CCCGGATATTTTACCAGCACGAAGCCTGTAGGTCTTTAAGCCCGGATATAATACCAGCACGAAGC
1 CCCGGATATAATACCAGCACGAAGCCTGCAGG-ATTTAA-CCCGGATATAATACCAGCACGAAGC
*
31778993 CTGCGGGATTTAA
64 CTGCGAGATTTAA
31779006 CCCGGATATAATACCAGCACGAAGCCTGCAGGATTTAACCCGGATATA
1 CCCGGATATAATACCAGCACGAAGCCTGCAGGATTTAACCCGGATATA
31779054 CATCGAATAT
Statistics
Matches: 110, Mismatches: 14, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
76 35 0.32
77 9 0.08
78 66 0.60
ACGTcount: A:0.31, C:0.26, G:0.22, T:0.21
Consensus pattern (76 bp):
CCCGGATATAATACCAGCACGAAGCCTGCAGGATTTAACCCGGATATAATACCAGCACGAAGCCT
GCGAGATTTAA
Found at i:31788612 original size:24 final size:24
Alignment explanation
Indices: 31788557--31788647 Score: 69
Period size: 26 Copynumber: 3.6 Consensus size: 24
31788547 TATATATATA
*
31788557 ATTTAT-TTATTTTTAAAAAAACT
1 ATTTATATTATTATTAAAAAAACT
* *
31788580 ATACATATATTATTATTAAAAATACT
1 AT--TTATATTATTATTAAAAAAACT
**
31788606 ATTTATATGT-TTATATAAAAAATTT
1 ATTTATAT-TATTAT-TAAAAAAACT
31788631 ATTTATCATATATTATT
1 ATTTAT-AT-TATTATT
31788648 TTCCTATATA
Statistics
Matches: 53, Mismatches: 8, Indels: 11
0.74 0.11 0.15
Matches are distributed among these distances:
23 2 0.04
24 9 0.17
25 17 0.32
26 21 0.40
27 4 0.08
ACGTcount: A:0.44, C:0.04, G:0.01, T:0.51
Consensus pattern (24 bp):
ATTTATATTATTATTAAAAAAACT
Found at i:31788678 original size:23 final size:22
Alignment explanation
Indices: 31788639--31788779 Score: 62
Period size: 23 Copynumber: 6.4 Consensus size: 22
31788629 TTATTTATCA
** *
31788639 TATATTAT-TTTCCTATATATT
1 TATATTATATTTTATATATAAT
31788660 TATATTATATTTTATTATATAACAT
1 TATATTATATTTTA-TATAT-A-AT
31788685 T-TATTATA-TTT-TATAT-AT
1 TATATTATATTTTATATATAAT
* * *
31788703 TA-CTTATATTTTATATGTTAT
1 TATATTATATTTTATATATAAT
* * *
31788724 GTATATCATATATTATTTATTACAT
1 -TATATTATATTTTATATA-TA-AT
* *
31788749 TAT-TTATGTTTTATACTATTCAT
1 TATATTATATTTTATA-TA-TAAT
31788772 TATATTAT
1 TATATTAT
31788780 TTATAATTTT
Statistics
Matches: 90, Mismatches: 16, Indels: 25
0.69 0.12 0.19
Matches are distributed among these distances:
18 8 0.09
19 3 0.03
20 4 0.04
21 15 0.17
22 5 0.06
23 31 0.34
24 20 0.22
25 4 0.04
ACGTcount: A:0.33, C:0.06, G:0.02, T:0.60
Consensus pattern (22 bp):
TATATTATATTTTATATATAAT
Found at i:31788728 original size:18 final size:17
Alignment explanation
Indices: 31788685--31788729 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 17
31788675 TATATAACAT
31788685 TTATTATATTTTATATA
1 TTATTATATTTTATATA
*
31788702 TTACTTATATTTTATATG
1 TTA-TTATATTTTATATA
31788720 TTATGTATAT
1 TTAT-TATAT
31788730 CATATATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
17 4 0.16
18 21 0.84
ACGTcount: A:0.31, C:0.02, G:0.04, T:0.62
Consensus pattern (17 bp):
TTATTATATTTTATATA
Found at i:31801298 original size:206 final size:206
Alignment explanation
Indices: 31800932--31801860 Score: 1403
Period size: 206 Copynumber: 4.5 Consensus size: 206
31800922 GCAGATCTGG
* **
31800932 CTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGTGAGTACAAGGAGCAAATCGAAGACATAGCT
1 CTGAAGC-AGATCCAAGATGGTTTGGTATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGCT
* * * * *
31800997 GATTTGG-TTTCTGCATGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTTTGTATTGTTA
65 GATTTGGCTTTC-ACGTGCTTACGTTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCA
* *
31801061 GAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGCAAACACATAGCAGATCCAACCT
129 GAGAACAAATCAAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACACATAGCAGATCCAACCT
31801126 TCAGATGTTTATA
194 TCAGATGTTTATA
* *
31801139 CTGAAGCAGACCCAAGATGGTTTGGTATCCTTGTGCTTATAAGGAGCAAATCGAAGACATAGCTG
1 CTGAAGCAGATCCAAGATGGTTTGGTATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGCTG
*
31801204 ATTTGGCTTTCACGTGCTTACGTTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAAA
66 ATTTGGCTTTCACGTGCTTACGTTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
* * *
31801269 GAACAAATCAAAGTTTGGCGTTTCCATATTCGACGGAGGGCAGGCACATAGTAGATCCAACCTTC
131 GAACAAATCAAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACACATAGCAGATCCAACCTTC
*
31801334 AGATATTTATA
196 AGATGTTTATA
* * *
31801345 CTGAAGCAGATCCAAGATGGTTTGGTATCCTTGAGCTTACAAGGAGAAAAAAT-AAAGACATAGC
1 CTGAAGCAGATCCAAGATGGTTTGGTATCCTTGTGCTTACAAGGAG--CAAATCGAAGACATAGC
31801409 TGATTTGGCTTTCACGTGCTTACGTTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCA
64 TGATTTGGCTTTCACGTGCTTACGTTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCA
* * *
31801474 GAGAGCAAATCAAAGTTTGGCGTCTCCAAATTCGACGGAGGGCAGACACATAGTAGATCCAACCT
129 GAGAACAAATCAAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACACATAGCAGATCCAACCT
31801539 TCAGATGTTTATA
194 TCAGATGTTTATA
31801552 CTGAAGCAGATCCAAGATGGTTTGGTATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGCTG
1 CTGAAGCAGATCCAAGATGGTTTGGTATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGCTG
*
31801617 ATTTGGCTTTCACGTGCTTACGTTGAAGCAAATCTAAGATAATTTGGCATCTCTGTATTGTCAGA
66 ATTTGGCTTTCACGTGCTTACGTTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
** * * * * * *
31801682 GAACAAATTGAAGTTTGGCATTTCCATATTCGACAGAGAGCAGACACATAGCAGATCTAACTTTC
131 GAACAAATCAAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACACATAGCAGATCCAACCTTC
* * *
31801747 AGACGATTAGA
196 AGATGTTTATA
* * * * * * * *
31801758 CTGAAGCAAATCCAAGATGATTTGGCATCCTTGTGGTCACAATGAGAAAATCGAAGACATAGCAG
1 CTGAAGCAGATCCAAGATGGTTTGGTATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGCTG
* *
31801823 ATTTGGCTTTCATGTGTTTACGTTGAAGCAAATCTAAG
66 ATTTGGCTTTCACGTGCTTACGTTGAAGCAAATCTAAG
31801861 CATCTATGTA
Statistics
Matches: 662, Mismatches: 56, Indels: 9
0.91 0.08 0.01
Matches are distributed among these distances:
205 4 0.01
206 451 0.68
207 203 0.31
208 4 0.01
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.28
Consensus pattern (206 bp):
CTGAAGCAGATCCAAGATGGTTTGGTATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGCTG
ATTTGGCTTTCACGTGCTTACGTTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
GAACAAATCAAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACACATAGCAGATCCAACCTTC
AGATGTTTATA
Found at i:31801699 original size:413 final size:412
Alignment explanation
Indices: 31800932--31801860 Score: 1441
Period size: 413 Copynumber: 2.2 Consensus size: 412
31800922 GCAGATCTGG
* *
31800932 CTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGTGAGTACAAGGAGCAAATCGAAGACATAGCT
1 CTGAAGC-AGATCCAAGATGGTTTGGCATCCTTGTGATTACAAGGAGAAAATCGAAGACATAGCT
* * * * *
31800997 GATTTGG-TTTCTGCATGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTTTGTATTGTTA
65 GATTTGGCTTTC-ACGTGCTTACGTTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCA
* *
31801061 GAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGCAAACACATAGCAGATCCAACCT
129 GAGAACAAATCAAAGTTTGGCGTCTCCAAATTCGACGGAGGGCAAACACATAGCAGATCCAACCT
*
31801126 TCAGATGTTTATACTGAAGCAGACCCAAGATGGTTTGGTATCCTTGTGCTTATAAGGAGCAAATC
194 TCAGATGTTTATACTGAAGCAGACCCAAGATGGTTTGGTATCCTTGTGCTTACAAGGAGCAAATC
*
31801191 GAAGACATAGCTGATTTGGCTTTCACGTGCTTACGTTGAAGCAAATCTAAGATGATTTGGCATCT
259 GAAGACATAGCTGATTTGGCTTTCACGTGCTTACGTTGAAGCAAATCTAAGATAATTTGGCATCT
* * * * *
31801256 CTGTATTGTCAAAGAACAAATCAAAGTTTGGCGTTTCCATATTCGACGGAGGGCAGGCACATAGT
324 CTGTATTGTCAAAGAACAAATCAAAGTTTGGCATTTCCATATTCGACAGAGAGCAGACACATAGC
* *
31801321 AGATCCAACCTTCAGA-TATTTATA
389 AGATCCAACCTTCAGACGA-TTAGA
* * * *
31801345 CTGAAGCAGATCCAAGATGGTTTGGTATCCTTGAGCTTACAAGGAGAAAAAAT-AAAGACATAGC
1 CTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGATTACAAGGAG--AAAATCGAAGACATAGC
31801409 TGATTTGGCTTTCACGTGCTTACGTTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCA
64 TGATTTGGCTTTCACGTGCTTACGTTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCA
* * *
31801474 GAGAGCAAATCAAAGTTTGGCGTCTCCAAATTCGACGGAGGGCAGACACATAGTAGATCCAACCT
129 GAGAACAAATCAAAGTTTGGCGTCTCCAAATTCGACGGAGGGCAAACACATAGCAGATCCAACCT
*
31801539 TCAGATGTTTATACTGAAGCAGATCCAAGATGGTTTGGTATCCTTGTGCTTACAAGGAGCAAATC
194 TCAGATGTTTATACTGAAGCAGACCCAAGATGGTTTGGTATCCTTGTGCTTACAAGGAGCAAATC
31801604 GAAGACATAGCTGATTTGGCTTTCACGTGCTTACGTTGAAGCAAATCTAAGATAATTTGGCATCT
259 GAAGACATAGCTGATTTGGCTTTCACGTGCTTACGTTGAAGCAAATCTAAGATAATTTGGCATCT
* **
31801669 CTGTATTGTCAGAGAACAAATTGAAGTTTGGCATTTCCATATTCGACAGAGAGCAGACACATAGC
324 CTGTATTGTCAAAGAACAAATCAAAGTTTGGCATTTCCATATTCGACAGAGAGCAGACACATAGC
* *
31801734 AGATCTAACTTTCAGACGATTAGA
389 AGATCCAACCTTCAGACGATTAGA
* * * * * *
31801758 CTGAAGCAAATCCAAGATGATTTGGCATCCTTGTGGTCACAATGAGAAAATCGAAGACATAGCAG
1 CTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGATTACAAGGAGAAAATCGAAGACATAGCTG
* *
31801823 ATTTGGCTTTCATGTGTTTACGTTGAAGCAAATCTAAG
66 ATTTGGCTTTCACGTGCTTACGTTGAAGCAAATCTAAG
31801861 CATCTATGTA
Statistics
Matches: 469, Mismatches: 42, Indels: 11
0.90 0.08 0.02
Matches are distributed among these distances:
411 5 0.01
412 82 0.17
413 373 0.80
414 9 0.02
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.28
Consensus pattern (412 bp):
CTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGATTACAAGGAGAAAATCGAAGACATAGCTG
ATTTGGCTTTCACGTGCTTACGTTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
GAACAAATCAAAGTTTGGCGTCTCCAAATTCGACGGAGGGCAAACACATAGCAGATCCAACCTTC
AGATGTTTATACTGAAGCAGACCCAAGATGGTTTGGTATCCTTGTGCTTACAAGGAGCAAATCGA
AGACATAGCTGATTTGGCTTTCACGTGCTTACGTTGAAGCAAATCTAAGATAATTTGGCATCTCT
GTATTGTCAAAGAACAAATCAAAGTTTGGCATTTCCATATTCGACAGAGAGCAGACACATAGCAG
ATCCAACCTTCAGACGATTAGA
Found at i:31803540 original size:23 final size:24
Alignment explanation
Indices: 31803486--31803554 Score: 59
Period size: 23 Copynumber: 2.8 Consensus size: 24
31803476 TATATATATA
* *
31803486 ATTTATTTATTTTTAAAAAAAACT
1 ATTTATATATTATTAAAAAAAACT
** *
31803510 ATACATATATTATT-AAAAATACT
1 ATTTATATATTATTAAAAAAAACT
*
31803533 ATTTATATGTTTATATAAAAAA
1 ATTTATAT-ATTAT-TAAAAAA
31803555 TTTTATTTAC
Statistics
Matches: 34, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
23 14 0.41
24 14 0.41
25 1 0.03
26 5 0.15
ACGTcount: A:0.49, C:0.04, G:0.01, T:0.45
Consensus pattern (24 bp):
ATTTATATATTATTAAAAAAAACT
Found at i:31803617 original size:22 final size:20
Alignment explanation
Indices: 31803566--31803610 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
31803556 TTTATTTACC
* *
31803566 ATATATTATTTTCCTATATAT
1 ATATATTATATT-ATATATAT
*
31803587 TTATATTATATTATATATAT
1 ATATATTATATTATATATAT
31803607 ATAT
1 ATAT
31803611 TACTTATCTT
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
20 10 0.50
21 10 0.50
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.58
Consensus pattern (20 bp):
ATATATTATATTATATATAT
Found at i:31805113 original size:23 final size:21
Alignment explanation
Indices: 31805062--31805123 Score: 61
Period size: 23 Copynumber: 2.7 Consensus size: 21
31805052 TCAAAATGTG
* *
31805062 TAATATAAGTAAAGTAATTAT
1 TAATATAAGTAAAATAAGTAT
31805083 TGACATATAAGTAAAAATAAGTAT
1 T-A-ATATAAGT-AAAATAAGTAT
31805107 ATAATATAAGTTAAAAT
1 -TAATATAAG-TAAAAT
31805124 CTTTAATAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
21 1 0.03
22 1 0.03
23 20 0.59
24 11 0.32
25 1 0.03
ACGTcount: A:0.55, C:0.02, G:0.10, T:0.34
Consensus pattern (21 bp):
TAATATAAGTAAAATAAGTAT
Found at i:31805151 original size:17 final size:16
Alignment explanation
Indices: 31805129--31805165 Score: 51
Period size: 14 Copynumber: 2.4 Consensus size: 16
31805119 AAAATCTTTA
*
31805129 ATAATAATAT-ATAG-
1 ATAAAAATATAATAGT
31805143 ATAAAAATATAATAGT
1 ATAAAAATATAATAGT
31805159 ATAAAAA
1 ATAAAAA
31805166 ATGACATAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 9 0.45
15 4 0.20
16 7 0.35
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.30
Consensus pattern (16 bp):
ATAAAAATATAATAGT
Found at i:31805261 original size:37 final size:33
Alignment explanation
Indices: 31805219--31805313 Score: 93
Period size: 37 Copynumber: 2.7 Consensus size: 33
31805209 TATATAATAT
31805219 ATATAAATAATTAATAAATATATAATACAAGTAAAA
1 ATATAAATAA-TAATAAATA-ATAATA-AAGTAAAA
**
31805255 AGTATAAATAATAATGTAAATAATAATAATTTAAAA
1 A-TATAAATAATAA--TAAATAATAATAAAGTAAAA
31805291 ATATATAATAAATAAT-AATAATA
1 ATATA-AAT-AATAATAAATAATA
31805314 TGAAATAATA
Statistics
Matches: 52, Mismatches: 2, Indels: 12
0.79 0.03 0.18
Matches are distributed among these distances:
34 7 0.13
35 5 0.10
36 14 0.27
37 20 0.38
38 6 0.12
ACGTcount: A:0.63, C:0.01, G:0.03, T:0.33
Consensus pattern (33 bp):
ATATAAATAATAATAAATAATAATAAAGTAAAA
Found at i:31805281 original size:15 final size:14
Alignment explanation
Indices: 31805261--31805323 Score: 67
Period size: 15 Copynumber: 4.3 Consensus size: 14
31805251 AAAAAGTATA
31805261 AATAATAATGTAAAT
1 AATAATAAT-TAAAT
31805276 AATAATAATTTAAA-
1 AATAATAA-TTAAAT
31805290 AATATATAA-TAAAT
1 AATA-ATAATTAAAT
31805304 AATAATAATATGAAAT
1 AATAATAAT-T-AAAT
31805320 AATA
1 AATA
31805324 TAAGGTTAAT
Statistics
Matches: 42, Mismatches: 0, Indels: 11
0.79 0.00 0.21
Matches are distributed among these distances:
13 8 0.19
14 8 0.19
15 17 0.40
16 9 0.21
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.33
Consensus pattern (14 bp):
AATAATAATTAAAT
Found at i:31805303 original size:28 final size:28
Alignment explanation
Indices: 31805209--31805312 Score: 85
Period size: 28 Copynumber: 3.8 Consensus size: 28
31805199 GGTACATATG
*
31805209 TATATAATATAT-ATAAATAA-TTAATAAA
1 TATATAATAAATAAT-AATAATTTAA-AAA
* *
31805237 TATATAATACAAGTAA-AA-AGTATAAATAA
1 TATATAATA-AA-TAATAATAATTTAAA-AA
*
31805266 TA-AT-GTAAATAATAATAATTTAAAAA
1 TATATAATAAATAATAATAATTTAAAAA
31805292 TATATAATAAATAATAATAAT
1 TATATAATAAATAATAATAAT
31805313 ATGAAATAAT
Statistics
Matches: 60, Mismatches: 7, Indels: 18
0.71 0.08 0.21
Matches are distributed among these distances:
25 3 0.05
26 8 0.13
27 10 0.17
28 27 0.45
29 10 0.17
30 1 0.02
31 1 0.02
ACGTcount: A:0.62, C:0.01, G:0.03, T:0.35
Consensus pattern (28 bp):
TATATAATAAATAATAATAATTTAAAAA
Found at i:31805471 original size:20 final size:19
Alignment explanation
Indices: 31805443--31805484 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
31805433 AAGAAGGTAT
31805443 TAAGTAAT-ATAATAAAATA
1 TAAGTAATAAT-ATAAAATA
31805462 TAAGTAAATAATATAAAATA
1 TAAGT-AATAATATAAAATA
31805482 TAA
1 TAA
31805485 TACATATATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 5 0.24
20 14 0.67
21 2 0.10
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.31
Consensus pattern (19 bp):
TAAGTAATAATATAAAATA
Found at i:31807446 original size:206 final size:203
Alignment explanation
Indices: 31807199--31807715 Score: 757
Period size: 206 Copynumber: 2.5 Consensus size: 203
31807189 CCCGTTGAAG
31807199 TGGAGATGCCAGACTTCGATTTGCTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCT
1 TGGAGATGCCAGACTTCGATTTGC-CTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCT
31807264 TCATCGTAAACACGTGAAAGCCAAATCAGCTATGTCTTCGATTTAATCCTTGTAAACACAAGGAT
65 TCATCGTAAACACGTGAAAGCCAAATCAGCTATGTCTTCGATTTAATCCTTGTAAACACAAGGAT
*
31807329 GCCAAATCATCTTGGATCTACTTCAGTATAAACATATGAAGGCCAGATCTGCTATGTGTCTGCTC
130 GCCAAACCATCTTGGATCTACTTCAGTATAAACATATGAAGGCCAGATCTGCTATGTGTCTGC-C
* *
31807394 TCTACCGAATA
194 CCCACCGAA-A
* * * *
31807405 TGGAGACGCCAAACTTCGATTTGACCTCTGACAACACAGAGATGCCAAATCATCTTAG-TTTGCC
1 TGGAGATGCCAGACTTCGATTTG-CCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCT
* ** *
31807469 TCATCGTAAGCACGTGAAAGCCAAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGA
65 TCATCGTAAACACGTGAAAGCC-AAATCAGCTATGTCTTCGATTTAATCCTTGTAAACACAAGGA
* * **** *
31807534 TGCCAAACCATCTTGGATCTACTTCAGTATAGACATCTGAAGTTTGGATCTGCTATGTTTCTGCC
129 TGCCAAACCATCTTGGATCTACTTCAGTATAAACATATGAAGGCCAGATCTGCTATGTGTCTGCC
** *
31807599 CCCATTGAAG
194 CCCACCGAAA
* *
31807609 TGGAGATGCCAGACTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTTCT
1 TGGAGATGCCAGACTTCGATTTG-CCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCT
*
31807674 TCAACGTAAACACGTGAAAGCCAAATCAGCTATGTCTTCGAT
65 TCATCGTAAACACGTGAAAGCCAAATCAGCTATGTCTTCGAT
31807716 CTACTCTCCG
Statistics
Matches: 278, Mismatches: 30, Indels: 8
0.88 0.09 0.03
Matches are distributed among these distances:
204 73 0.26
205 56 0.20
206 148 0.53
207 1 0.00
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.29
Consensus pattern (203 bp):
TGGAGATGCCAGACTTCGATTTGCCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTT
CATCGTAAACACGTGAAAGCCAAATCAGCTATGTCTTCGATTTAATCCTTGTAAACACAAGGATG
CCAAACCATCTTGGATCTACTTCAGTATAAACATATGAAGGCCAGATCTGCTATGTGTCTGCCCC
CACCGAAA
Found at i:31807994 original size:132 final size:132
Alignment explanation
Indices: 31807775--31808055 Score: 422
Period size: 132 Copynumber: 2.1 Consensus size: 132
31807765 CTTTGACAAT
* * *
31807775 ACAGAGATGCCAAATCTGCTATCTTTAACTTGTTCCCTATAAACACAGGGATACCATGCTGAAAT
1 ACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACACAAGGATACCATGCTGAAAT
* * * * *
31807840 CCTCGATCTGCTTCGCTGTAAGCACAGGAGTGTCAGATCTATTAT-TTTCGATCTGTTCCCTATA
66 CCTCCATCTGCGTCGCTGTAAGCACAGGAATGTAAGATCTACTATCTTT-GATCTGTTCCCTATA
31807904 AAC
130 AAC
*
31807907 ACAGGGATGCCAAATCTGCTATCTTCAACTTGCTT-CCTATAAACACAAGGATGCCATGCTGAAA
1 ACAGGGATGCCAAATCTGCTATCTTCAACTTG-TTCCCTATAAACACAAGGATACCATGCTGAAA
* * *
31807971 TCTTCCATCTGCGTCGCTGTAAGCATAGGAATGTAAGATCTGCTATCTTTGATCTGTTCCCTATA
65 TCCTCCATCTGCGTCGCTGTAAGCACAGGAATGTAAGATCTACTATCTTTGATCTGTTCCCTATA
31808036 AAC
130 AAC
31808039 ACAGGGATGCCAAATCT
1 ACAGGGATGCCAAATCT
31808056 TGTTTCTTTG
Statistics
Matches: 135, Mismatches: 12, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
132 130 0.96
133 5 0.04
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.30
Consensus pattern (132 bp):
ACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACACAAGGATACCATGCTGAAAT
CCTCCATCTGCGTCGCTGTAAGCACAGGAATGTAAGATCTACTATCTTTGATCTGTTCCCTATAA
AC
Found at i:31808921 original size:46 final size:46
Alignment explanation
Indices: 31808859--31808978 Score: 161
Period size: 46 Copynumber: 2.6 Consensus size: 46
31808849 TTTGACGTGA
* * * **
31808859 TGCCATAGTGTCTTTCAACTATGGTCTTACTCCTTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTA-TCCTTTTCATGTCACAT
* *
31808905 TTCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACAT
1 TGCCATGGTATCTTTCAACCATGGTCTTATCCTTTTCATGTCACAT
31808951 TGCCATGGTATCTTTCAACCATGGTCTT
1 TGCCATGGTATCTTTCAACCATGGTCTT
31808979 TGTAACACCC
Statistics
Matches: 65, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
45 7 0.11
46 58 0.89
ACGTcount: A:0.17, C:0.24, G:0.14, T:0.44
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTATCCTTTTCATGTCACAT
Found at i:31809780 original size:37 final size:37
Alignment explanation
Indices: 31809739--31809817 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
31809729 TTATTACGAA
* * *
31809739 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
31809776 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
31809813 GTCTT
1 GTCTT
31809818 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:31810014 original size:47 final size:47
Alignment explanation
Indices: 31809936--31810196 Score: 423
Period size: 47 Copynumber: 5.6 Consensus size: 47
31809926 CCCTTCGGGA
* * * * * *
31809936 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
31809983 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
31810030 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
31810077 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
31810124 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
31810171 CTTATCACATATATATACATTCACAT
1 CTTATCACATATATACACTTTCACAT
31810197 CACAATTATC
Statistics
Matches: 200, Mismatches: 14, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 200 1.00
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:31812706 original size:46 final size:46
Alignment explanation
Indices: 31812637--31812787 Score: 228
Period size: 46 Copynumber: 3.5 Consensus size: 46
31812627 GGGTGTCACA
*
31812637 GTCTTACACATCTCATATCAGGTTGCCATGGTATCTTTCAACCATG
1 GTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAACCATG
*
31812683 GCCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAACCATG
1 GTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAACCATG
31812729 GTCTT--ACA---C--A-CAGGTTGCCATGGTATCTTTCAACCATG
1 GTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAACCATG
31812767 GTCTTACACATTTCATATCAG
1 GTCTTACACATTTCATATCAG
31812788 AGAGCACACT
Statistics
Matches: 94, Mismatches: 3, Indels: 16
0.83 0.03 0.14
Matches are distributed among these distances:
38 33 0.35
39 1 0.01
40 3 0.03
41 1 0.01
43 1 0.01
44 3 0.03
45 1 0.01
46 51 0.54
ACGTcount: A:0.25, C:0.26, G:0.15, T:0.34
Consensus pattern (46 bp):
GTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAACCATG
Found at i:31812752 original size:38 final size:38
Alignment explanation
Indices: 31812701--31812776 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
31812691 CATTTCATAT
31812701 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
31812739 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
31812777 TTTCATATCA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.32
Consensus pattern (38 bp):
CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
Found at i:31814176 original size:15 final size:15
Alignment explanation
Indices: 31814158--31814271 Score: 135
Period size: 15 Copynumber: 7.7 Consensus size: 15
31814148 TTAAAAATAG
31814158 AAACCCTAAAACCCT
1 AAACCCTAAAACCCT
31814173 AAACCCTAAAACCCT
1 AAACCCTAAAACCCT
*
31814188 AAAACCCTAAACCCCT
1 -AAACCCTAAAACCCT
*
31814204 AAACCCT-AAACTCT
1 AAACCCTAAAACCCT
* *
31814218 AAACACT-AAACCAT
1 AAACCCTAAAACCCT
* *
31814232 AACCCCT-AAACCTT
1 AAACCCTAAAACCCT
31814246 AAACCCTAAAACCCT
1 AAACCCTAAAACCCT
*
31814261 AAACCCGAAAA
1 AAACCCTAAAA
31814272 AGGATGTTAT
Statistics
Matches: 85, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
14 33 0.39
15 38 0.45
16 14 0.16
ACGTcount: A:0.47, C:0.38, G:0.01, T:0.14
Consensus pattern (15 bp):
AAACCCTAAAACCCT
Found at i:31814178 original size:7 final size:7
Alignment explanation
Indices: 31814158--31814266 Score: 128
Period size: 7 Copynumber: 14.9 Consensus size: 7
31814148 TTAAAAATAG
31814158 AAACCCT
1 AAACCCT
31814165 AAAACCCT
1 -AAACCCT
31814173 AAACCCT
1 AAACCCT
31814180 AAAACCCT
1 -AAACCCT
31814188 AAAACCCT
1 -AAACCCT
31814196 AAACCCCT
1 AAA-CCCT
31814204 AAACCCT
1 AAACCCT
*
31814211 AAACTCT
1 AAACCCT
*
31814218 AAACACT
1 AAACCCT
*
31814225 AAACCAT
1 AAACCCT
*
31814232 AACCCCT
1 AAACCCT
*
31814239 AAACCTT
1 AAACCCT
31814246 AAACCCT
1 AAACCCT
31814253 AAAACCCT
1 -AAACCCT
31814261 AAACCC
1 AAACCC
31814267 GAAAAAGGAT
Statistics
Matches: 89, Mismatches: 9, Indels: 7
0.85 0.09 0.07
Matches are distributed among these distances:
7 53 0.60
8 36 0.40
ACGTcount: A:0.46, C:0.39, G:0.00, T:0.15
Consensus pattern (7 bp):
AAACCCT
Found at i:31823594 original size:14 final size:14
Alignment explanation
Indices: 31823571--31823600 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
31823561 ATTCTGGTTC
31823571 AATTTCATTTAGAA
1 AATTTCATTTAGAA
*
31823585 AATTTTATTTAGAA
1 AATTTCATTTAGAA
31823599 AA
1 AA
31823601 AGAATATCTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.47, C:0.03, G:0.07, T:0.43
Consensus pattern (14 bp):
AATTTCATTTAGAA
Found at i:31827508 original size:23 final size:21
Alignment explanation
Indices: 31827457--31827518 Score: 61
Period size: 23 Copynumber: 2.7 Consensus size: 21
31827447 TCAAAATGTG
* *
31827457 TAATATAAGTAAAGTAATTAT
1 TAATATAAGTAAAATAAGTAT
31827478 TGACATATAAGTAAAAATAAGTAT
1 T-A-ATATAAGT-AAAATAAGTAT
31827502 ATAATATAAGTTAAAAT
1 -TAATATAAG-TAAAAT
31827519 CTTTAATAAC
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
21 1 0.03
22 1 0.03
23 20 0.59
24 11 0.32
25 1 0.03
ACGTcount: A:0.55, C:0.02, G:0.10, T:0.34
Consensus pattern (21 bp):
TAATATAAGTAAAATAAGTAT
Found at i:31827659 original size:36 final size:33
Alignment explanation
Indices: 31827618--31827711 Score: 91
Period size: 36 Copynumber: 2.7 Consensus size: 33
31827608 TATATAATAT
31827618 ATATAAATAATTAATAAATATATAATACAAGTAAAA
1 ATATAAATAA-TAATAAATA-ATAATA-AAGTAAAA
* **
31827654 GTATAAATAATAATGTAAATAATAATAATTTAAAA
1 ATATAAATAATAA--TAAATAATAATAAAGTAAAA
31827689 ATATATAATAAATAAT-AATAATA
1 ATATA-AAT-AATAATAAATAATA
31827712 TGAAATAATA
Statistics
Matches: 50, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
34 7 0.14
35 14 0.28
36 18 0.36
37 11 0.22
ACGTcount: A:0.63, C:0.01, G:0.03, T:0.33
Consensus pattern (33 bp):
ATATAAATAATAATAAATAATAATAAAGTAAAA
Found at i:31827679 original size:15 final size:14
Alignment explanation
Indices: 31827659--31827721 Score: 67
Period size: 15 Copynumber: 4.3 Consensus size: 14
31827649 TAAAAGTATA
31827659 AATAATAATGTAAAT
1 AATAATAAT-TAAAT
31827674 AATAATAATTTAAA-
1 AATAATAA-TTAAAT
31827688 AATATATAA-TAAAT
1 AATA-ATAATTAAAT
31827702 AATAATAATATGAAAT
1 AATAATAAT-T-AAAT
31827718 AATA
1 AATA
31827722 TAAGGTTAAT
Statistics
Matches: 42, Mismatches: 0, Indels: 11
0.79 0.00 0.21
Matches are distributed among these distances:
13 8 0.19
14 8 0.19
15 17 0.40
16 9 0.21
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.33
Consensus pattern (14 bp):
AATAATAATTAAAT
Found at i:31827869 original size:20 final size:19
Alignment explanation
Indices: 31827841--31827882 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
31827831 AAGAAGGTAT
31827841 TAAGTAAT-ATAATAAAATA
1 TAAGTAATAAT-ATAAAATA
31827860 TAAGTAAATAATATAAAATA
1 TAAGT-AATAATATAAAATA
31827880 TAA
1 TAA
31827883 TACATATACT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 5 0.24
20 14 0.67
21 2 0.10
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.31
Consensus pattern (19 bp):
TAAGTAATAATATAAAATA
Found at i:31828834 original size:40 final size:40
Alignment explanation
Indices: 31828603--31828827 Score: 287
Period size: 40 Copynumber: 5.7 Consensus size: 40
31828593 TCGAATGATG
* * * *
31828603 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
31828643 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
31828683 TCCGGGCTAAG-CCCGAAGGCATTGGTGCAAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
31828722 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
31828762 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
31828803 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
31828828 AACGAGTAGC
Statistics
Matches: 163, Mismatches: 17, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
39 33 0.20
40 120 0.74
41 10 0.06
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:31828849 original size:119 final size:119
Alignment explanation
Indices: 31828603--31828860 Score: 283
Period size: 119 Copynumber: 2.2 Consensus size: 119
31828593 TCGAATGATG
* *
31828603 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
* **
31828668 GTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCAAGTTACTAAA
66 GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACAAGTTACTAAA
* * * **
31828722 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
* * * * *
31828785 TTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATA
64 TTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACAAGTTA-CTAAA
* *
31828842 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
31828861 TACGTGATTT
Statistics
Matches: 117, Mismatches: 17, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
118 3 0.03
119 84 0.72
120 30 0.26
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (119 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACAAGTTACTAAA
Found at i:31832515 original size:27 final size:27
Alignment explanation
Indices: 31832485--31832640 Score: 145
Period size: 27 Copynumber: 5.7 Consensus size: 27
31832475 TGCTATTCAC
* *
31832485 TCAACTCGCACACTTAGTGCCACGTAA
1 TCAATTCGCACACTTAGTGCCACATAA
* * * *
31832512 TCAAATCGCACCCTTAGTGCTACATAG
1 TCAATTCGCACACTTAGTGCCACATAA
* * **
31832539 TTAGATTCGCACACTTAGTGCCGCATGG
1 TCA-ATTCGCACACTTAGTGCCACATAA
*
31832567 TCAATTCGCACACTTAGTG-CATCATAT
1 TCAATTCGCACACTTAGTGCCA-CATAA
** *
31832594 TCTTTTCGCACACTTAGTGCAACATAA
1 TCAATTCGCACACTTAGTGCCACATAA
31832621 TCGAA-TCGCACACTTAGTGC
1 TC-AATTCGCACACTTAGTGC
31832641 TGTACAATTT
Statistics
Matches: 104, Mismatches: 21, Indels: 8
0.78 0.16 0.06
Matches are distributed among these distances:
26 1 0.01
27 81 0.78
28 22 0.21
ACGTcount: A:0.28, C:0.28, G:0.16, T:0.28
Consensus pattern (27 bp):
TCAATTCGCACACTTAGTGCCACATAA
Found at i:31832556 original size:55 final size:55
Alignment explanation
Indices: 31832490--31832641 Score: 182
Period size: 54 Copynumber: 2.8 Consensus size: 55
31832480 TTCACTCAAC
* *
31832490 TCGCACACTTAGTGCCACGTAATCAAATCGCACCCTTAGTGCTA-CATAGTTAGAT
1 TCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCTATCATA-TTAGAT
* ** * ***
31832545 TCGCACACTTAGTGCCGCATGGTCAATTCGCACACTTAGTGC-ATCATATTCTTT
1 TCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCTATCATATTAGAT
* *
31832599 TCGCACACTTAGTGCAACATAATCGAATCGCACACTTAGTGCT
1 TCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCT
31832642 GTACAATTTA
Statistics
Matches: 80, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
54 40 0.50
55 40 0.50
ACGTcount: A:0.27, C:0.28, G:0.16, T:0.29
Consensus pattern (55 bp):
TCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCTATCATATTAGAT
Found at i:31838642 original size:56 final size:56
Alignment explanation
Indices: 31838577--31838696 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
31838567 ACAAGGGATG
31838577 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
*
31838633 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
31838689 ATGGGCAA
1 ATGGGCAA
31838697 TAAACTAATA
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.45, C:0.09, G:0.23, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
Found at i:31840008 original size:118 final size:119
Alignment explanation
Indices: 31839821--31840042 Score: 299
Period size: 118 Copynumber: 1.9 Consensus size: 119
31839811 TCGAATGATG
*
31839821 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
*
31839886 GTGCGAGATACTA-ATTCCGGGCTAAG-CCCGAAGGCATTGGTGCAGTTACTAAA
66 GTGCGAGATACTATA-ACCGGGCTAAGTCCCGAAGGCATTGGTGCAGTTACTAAA
* * * * **
31839939 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
* *
31840002 TTGTGCGAGTTACTATAACCGGGCTATGTCCCGAAGGCATT
64 TTGTGCGAGATACTATAACCGGGCTAAGTCCCGAAGGCATT
31840043 TGAACGAGTA
Statistics
Matches: 90, Mismatches: 10, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
117 1 0.01
118 69 0.77
119 20 0.22
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (119 bp):
TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGATACTATAACCGGGCTAAGTCCCGAAGGCATTGGTGCAGTTACTAAA
Found at i:31840051 original size:40 final size:40
Alignment explanation
Indices: 31839821--31840044 Score: 287
Period size: 40 Copynumber: 5.7 Consensus size: 40
31839811 TCGAATGATG
* * * *
31839821 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
31839861 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
31839901 TCCGGGCTAAG-CCCGAAGGCATTGGTGC-AGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
31839939 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
31839979 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
31840020 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
31840045 AACGAGTAGC
Statistics
Matches: 163, Mismatches: 15, Indels: 12
0.86 0.08 0.06
Matches are distributed among these distances:
38 18 0.11
39 31 0.19
40 104 0.64
41 10 0.06
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:31846946 original size:12 final size:13
Alignment explanation
Indices: 31846924--31846955 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
31846914 TTCATTAAGT
31846924 AATTATTATTTAA
1 AATTATTATTTAA
31846937 AATT-TTATTTAA
1 AATTATTATTTAA
31846949 AA-TATTA
1 AATTATTA
31846956 GTATTTTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 1 0.06
12 13 0.72
13 4 0.22
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (13 bp):
AATTATTATTTAA
Found at i:31850740 original size:15 final size:15
Alignment explanation
Indices: 31850720--31850750 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
31850710 ATTCAAAGAA
31850720 ACAAATTAGTTCTCT
1 ACAAATTAGTTCTCT
31850735 ACAAATTAGTTCTCT
1 ACAAATTAGTTCTCT
31850750 A
1 A
31850751 AGTCATCTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.35, C:0.19, G:0.06, T:0.39
Consensus pattern (15 bp):
ACAAATTAGTTCTCT
Found at i:31852241 original size:64 final size:68
Alignment explanation
Indices: 31852163--31852325 Score: 190
Period size: 71 Copynumber: 2.4 Consensus size: 68
31852153 TACATGATAC
* * ** *
31852163 ATACTTTAACATTTCATGCAAATATAATATAGAAAATGAT-AA-ATAACGACATAAATTAC-ATA
1 ATACATTAACATTTCATGCAAATATAACATAGAAAACAATGAATATAACAACATAAATTACAATA
31852225 -AT
66 TAT
* *
31852227 ATACATTAACATTTCATGCAAAATACAACATAGAAAACAATGAATATAACAATATAAATTACATA
1 ATACATTAACATTTCATGC-AAATATAACATAGAAAACAATGAATATAACAACATAAATTAC--A
31852292 ATATAT
63 ATATAT
* *
31852298 ATACAATAATATTTCATGCAAATATAAC
1 ATACATTAACATTTCATGCAAATATAAC
31852326 TTAAAATAAC
Statistics
Matches: 82, Mismatches: 10, Indels: 8
0.82 0.10 0.08
Matches are distributed among these distances:
64 18 0.22
65 17 0.21
66 2 0.02
67 15 0.18
70 11 0.13
71 19 0.23
ACGTcount: A:0.53, C:0.12, G:0.05, T:0.30
Consensus pattern (68 bp):
ATACATTAACATTTCATGCAAATATAACATAGAAAACAATGAATATAACAACATAAATTACAATA
TAT
Found at i:31852772 original size:26 final size:26
Alignment explanation
Indices: 31852739--31852846 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
31852729 TGATACAAAT
31852739 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* * *
31852765 TGACAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
31852791 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
31852817 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
31852843 TGAT
1 TGAT
31852847 GTGAATTTCA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.32, C:0.08, G:0.24, T:0.35
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:31855901 original size:5 final size:5
Alignment explanation
Indices: 31855885--31856010 Score: 62
Period size: 5 Copynumber: 25.0 Consensus size: 5
31855875 AATAATAAAT
* * * * *
31855885 AATAA AAT-- AATAA AATAA TATAA TATAT GATAA AATAAA AATAA TATAA
1 AATAA AATAA AATAA AATAA AATAA AATAA AATAA AAT-AA AATAA AATAA
* * * * * *
31855934 TAATAA TAATAT AATAA AATGA TATAA TATAT AATAA AAT-A TAT-A AATAA
1 -AATAA -AATAA AATAA AATAA AATAA AATAA AATAA AATAA AATAA AATAA
* *
31855984 ATATAT AATAA AATATA AATAA TATAA
1 A-ATAA AATAA AATA-A AATAA AATAA
31856011 TAAATAATAC
Statistics
Matches: 94, Mismatches: 20, Indels: 14
0.73 0.16 0.11
Matches are distributed among these distances:
3 3 0.03
4 6 0.06
5 62 0.66
6 23 0.24
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.32
Consensus pattern (5 bp):
AATAA
Found at i:31855919 original size:53 final size:52
Alignment explanation
Indices: 31855862--31856036 Score: 182
Period size: 53 Copynumber: 3.4 Consensus size: 52
31855852 TACAAATTTT
* *
31855862 TAAAATTATACATAATAATAAATAATAAAATAATAAAATAATATAATATATGA
1 TAAAA-TATAAATAATAATAAATAATAAAATAATAAAATAATATAATATATAA
* * *
31855915 TAAAATAAAAATAAT-ATAATAATAATAATATAATAAAATGATATAATATATAA
1 TAAAATATAAATAATAAT-A-AATAATAAAATAATAAAATAATATAATATATAA
* * *
31855968 TAAAATATATA-AATAAATATATAATAAAAT-AT-AAATAATATAATAAATAA
1 TAAAATATAAATAAT-AATAAATAATAAAATAATAAAATAATATAATATATAA
31856018 TACATAA-ATAAA-AATAATA
1 TA-A-AATATAAATAATAATA
31856037 TGTATAATAA
Statistics
Matches: 104, Mismatches: 12, Indels: 15
0.79 0.09 0.11
Matches are distributed among these distances:
50 22 0.21
51 12 0.12
52 23 0.22
53 45 0.43
54 2 0.02
ACGTcount: A:0.66, C:0.01, G:0.01, T:0.31
Consensus pattern (52 bp):
TAAAATATAAATAATAATAAATAATAAAATAATAAAATAATATAATATATAA
Found at i:31855936 original size:34 final size:34
Alignment explanation
Indices: 31855873--31856037 Score: 130
Period size: 33 Copynumber: 4.8 Consensus size: 34
31855863 AAAATTATAC
* *
31855873 ATAATA-ATAA-ATAAT-AAAATAATAAAATAAT
1 ATAATATATAATAAAATAAAAATAATATAATAAT
*
31855904 ATAATATATGATAAAATAAAAATAATATAAT-A-
1 ATAATATATAATAAAATAAAAATAATATAATAAT
* *
31855936 ATAATAATATAATAAAAT-GATATAATAT-ATAAT
1 ATAAT-ATATAATAAAATAAAAATAATATAATAAT
*
31855969 AAAATATATAAATAAATATATAATAA-AATATAAATAAT
1 ATAATATAT-AATAAA-ATA-AA-AATAATAT-AATAAT
*
31856007 ATAATAAATAATACATAAATAAAAATAATAT
1 ATAATATATAAT--A-AAATAAAAATAATAT
31856038 GTATAATAAT
Statistics
Matches: 106, Mismatches: 11, Indels: 27
0.74 0.08 0.19
Matches are distributed among these distances:
31 8 0.08
32 21 0.20
33 26 0.25
34 14 0.13
36 6 0.06
37 6 0.06
38 19 0.18
39 4 0.04
40 2 0.02
ACGTcount: A:0.67, C:0.01, G:0.01, T:0.32
Consensus pattern (34 bp):
ATAATATATAATAAAATAAAAATAATATAATAAT
Found at i:31856007 original size:77 final size:74
Alignment explanation
Indices: 31855891--31856030 Score: 203
Period size: 77 Copynumber: 1.9 Consensus size: 74
31855881 AAATAATAAA
*
31855891 ATAATAAAATAATATAATATATGATAAAATAAAAATAATATAAT-AATAATA-ATATAATAAAAT
1 ATAATAAAATAATATAATATATAATAAAATAAAAATAATATAATAAATAATACATA-AATAAAAT
31855954 GATATAATAT
65 GATATAATAT
*
31855964 ATAATAAAATATATAAATAAATATATAATAAAATATAAATAATATAATAAATAATACATAAATAA
1 ATAATAAAATA-AT--AT-AATATATAATAAAATAAAAATAATATAATAAATAATACATAAATAA
31856029 AA
62 AA
31856031 ATAATATGTA
Statistics
Matches: 59, Mismatches: 2, Indels: 7
0.87 0.03 0.10
Matches are distributed among these distances:
73 11 0.19
74 2 0.03
76 2 0.03
77 27 0.46
78 14 0.24
79 3 0.05
ACGTcount: A:0.66, C:0.01, G:0.01, T:0.31
Consensus pattern (74 bp):
ATAATAAAATAATATAATATATAATAAAATAAAAATAATATAATAAATAATACATAAATAAAATG
ATATAATAT
Found at i:31856047 original size:3 final size:3
Alignment explanation
Indices: 31855873--31856036 Score: 109
Period size: 3 Copynumber: 55.0 Consensus size: 3
31855863 AAAATTATAC
*
31855873 ATA ATA ATAA ATA ATA A-A ATA ATA A-A ATA AT- ATA ATA TATG ATA
1 ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA
* *
31855917 A-A ATA AAA ATA AT- ATA ATA ATA ATA AT- ATA ATA A-A ATG AT- ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
31855960 ATA TATA ATA A-A ATA TATAA ATAA ATA TATA ATA A-A AT- ATAA ATA
1 ATA -ATA ATA ATA ATA -AT-A AT-A ATA -ATA ATA ATA ATA AT-A ATA
*
31856005 AT- ATA ATAA ATA ATA CATAA ATA AAA ATA ATA
1 ATA ATA AT-A ATA ATA -AT-A ATA ATA ATA ATA
31856037 TGTATAATAA
Statistics
Matches: 132, Mismatches: 7, Indels: 44
0.72 0.04 0.24
Matches are distributed among these distances:
2 24 0.18
3 78 0.59
4 28 0.21
5 2 0.02
ACGTcount: A:0.67, C:0.01, G:0.01, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:31856131 original size:29 final size:27
Alignment explanation
Indices: 31856076--31856136 Score: 95
Period size: 29 Copynumber: 2.2 Consensus size: 27
31856066 ATGTTTATAG
31856076 TAAAAAAATAATAATATATAAAAAATT
1 TAAAAAAATAATAATATATAAAAAATT
*
31856103 TAAAATAAATAAATTATATATAAAAAATT
1 TAAAA-AAAT-AATAATATATAAAAAATT
31856132 TAAAA
1 TAAAA
31856137 GGGGTTAAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
27 5 0.16
28 4 0.13
29 22 0.71
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (27 bp):
TAAAAAAATAATAATATATAAAAAATT
Found at i:31856328 original size:30 final size:30
Alignment explanation
Indices: 31856294--31856351 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
31856284 ATAATGGCCA
*
31856294 TTAGGACTAAATTGA-AACAAAAATAAAAGG
1 TTAGGACCAAATT-ATAACAAAAATAAAAGG
* *
31856324 TTAGGGCCAAATTATAATAAAAATAAAA
1 TTAGGACCAAATTATAACAAAAATAAAA
31856352 TAAAATTATA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 1 0.04
30 23 0.96
ACGTcount: A:0.57, C:0.07, G:0.14, T:0.22
Consensus pattern (30 bp):
TTAGGACCAAATTATAACAAAAATAAAAGG
Found at i:31857675 original size:45 final size:45
Alignment explanation
Indices: 31857550--31857676 Score: 121
Period size: 45 Copynumber: 2.8 Consensus size: 45
31857540 AATATCCTTG
* * * *
31857550 ATCTGCTCCCCGTCAAATACAGAGACACCAAATCTGCTATCTTCG
1 ATCTGCTCCCCATCTAATACAGAGACACCAAATCTGTTATCTTCA
* * * * * * * *
31857595 ATCTGCT-TCGATGTAATCACACAAATATCAGATCTGTTATCTTCA
1 ATCTGCTCCCCATCTAAT-ACAGAGACACCAAATCTGTTATCTTCA
*
31857640 ATCTGCTCCCCATCTAATACAGAGACGCCAAATCTGT
1 ATCTGCTCCCCATCTAATACAGAGACACCAAATCTGT
31857677 AGTTTTTGAT
Statistics
Matches: 59, Mismatches: 21, Indels: 4
0.70 0.25 0.05
Matches are distributed among these distances:
44 5 0.08
45 47 0.80
46 7 0.12
ACGTcount: A:0.30, C:0.29, G:0.13, T:0.28
Consensus pattern (45 bp):
ATCTGCTCCCCATCTAATACAGAGACACCAAATCTGTTATCTTCA
Found at i:31857728 original size:90 final size:90
Alignment explanation
Indices: 31857550--31857717 Score: 241
Period size: 90 Copynumber: 1.9 Consensus size: 90
31857540 AATATCCTTG
*
31857550 ATCTGCTCCCCGTCAAATACAGAGACACCAAATCTGCTATCTTCGATCTGCTTCGATGTAATCAC
1 ATCTGCTCCCCATCAAATACAGAGACACCAAATCTGCTATCTTCGATCTGCTTCGATGTAATCAC
31857615 ACAAATATCAGATCTGTTATCTTCA
66 ACAAATATCAGATCTGTTATCTTCA
* * * * *
31857640 ATCTGCTCCCCATCTAATACAGAGACGCCAAATCTG-TAGTTTTTGATCTGCTTTGATGTAAAT-
1 ATCTGCTCCCCATCAAATACAGAGACACCAAATCTGCTA-TCTTCGATCTGCTTCGATGT-AATC
*
31857703 ACACAAATGTCAGAT
64 ACACAAATATCAGAT
31857718 TTTCTATCTT
Statistics
Matches: 69, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
89 2 0.03
90 64 0.93
91 3 0.04
ACGTcount: A:0.30, C:0.25, G:0.14, T:0.31
Consensus pattern (90 bp):
ATCTGCTCCCCATCAAATACAGAGACACCAAATCTGCTATCTTCGATCTGCTTCGATGTAATCAC
ACAAATATCAGATCTGTTATCTTCA
Found at i:31861233 original size:33 final size:32
Alignment explanation
Indices: 31861171--31861233 Score: 74
Period size: 33 Copynumber: 1.9 Consensus size: 32
31861161 ATATAATCCA
*
31861171 ACATATATATTTAAACATACAAATGATGCATG
1 ACATATATATTTAAACATACAAATAATGCATG
* *
31861203 ACATATA-ATTCTAATACATATATATAATGCA
1 ACATATATATT-TAA-ACATACAAATAATGCA
31861234 GTTGTAAATA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
31 3 0.12
32 10 0.38
33 13 0.50
ACGTcount: A:0.48, C:0.13, G:0.06, T:0.33
Consensus pattern (32 bp):
ACATATATATTTAAACATACAAATAATGCATG
Done.