Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A01
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: 104050246
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4660000 characters in sequence are not A, C, G, or T
File 67 of 316
Found at i:19841704 original size:20 final size:20
Alignment explanation
Indices: 19841679--19841716 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
19841669 GCCCCACGGG
19841679 CAGGCCACACGGGCATGTCC
1 CAGGCCACACGGGCATGTCC
*
19841699 CAGGCCATACGGGCATGT
1 CAGGCCACACGGGCATGT
19841717 GCCCCTATTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.21, C:0.34, G:0.32, T:0.13
Consensus pattern (20 bp):
CAGGCCACACGGGCATGTCC
Found at i:19844860 original size:43 final size:43
Alignment explanation
Indices: 19844795--19844885 Score: 148
Period size: 43 Copynumber: 2.1 Consensus size: 43
19844785 TTCGTGAGAT
*
19844795 ATGTG-GCATCCGAGCTCGTTGAGTGGTCCGAGTTCATTATGG
1 ATGTGAGCATCCGAGCTCATTGAGTGGTCCGAGTTCATTATGG
* *
19844837 GTGTGAGCATCCGAGCTCATTGAGTGGTCCGAGTTCATTGTGG
1 ATGTGAGCATCCGAGCTCATTGAGTGGTCCGAGTTCATTATGG
19844880 ATGTGA
1 ATGTGA
19844886 TGCCTGTGAC
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
42 4 0.09
43 40 0.91
ACGTcount: A:0.18, C:0.18, G:0.34, T:0.31
Consensus pattern (43 bp):
ATGTGAGCATCCGAGCTCATTGAGTGGTCCGAGTTCATTATGG
Found at i:19845445 original size:12 final size:12
Alignment explanation
Indices: 19845428--19845460 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
19845418 AAAATTATGG
19845428 AAATTGAATTAT
1 AAATTGAATTAT
19845440 AAATTGAATTAT
1 AAATTGAATTAT
19845452 AAATTGAAT
1 AAATTGAAT
19845461 AAGATATGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.52, C:0.00, G:0.09, T:0.39
Consensus pattern (12 bp):
AAATTGAATTAT
Found at i:19848182 original size:21 final size:22
Alignment explanation
Indices: 19848156--19848212 Score: 71
Period size: 21 Copynumber: 2.6 Consensus size: 22
19848146 CCGGGCATAT
19848156 GTCTTGAGAGATGATAAGC-AA
1 GTCTTGAGAGATGATAAGCAAA
* * *
19848177 GTCTTGAGACATGGTAGGCAAA
1 GTCTTGAGAGATGATAAGCAAA
*
19848199 GTCTCGAGAGATGA
1 GTCTTGAGAGATGA
19848213 CATTAGAGTC
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
21 16 0.55
22 13 0.45
ACGTcount: A:0.33, C:0.12, G:0.32, T:0.23
Consensus pattern (22 bp):
GTCTTGAGAGATGATAAGCAAA
Found at i:19856836 original size:33 final size:34
Alignment explanation
Indices: 19856785--19856849 Score: 105
Period size: 33 Copynumber: 1.9 Consensus size: 34
19856775 CCACACCGTA
*
19856785 ACTATATAGGGCTAAGGCCCAGACTA-TACTGTT
1 ACTAAATAGGGCTAAGGCCCAGACTATTACTGTT
*
19856818 ACTAAATAGGGCTTAGGCCCAGACTATTACTG
1 ACTAAATAGGGCTAAGGCCCAGACTATTACTG
19856850 CATGCATTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
33 24 0.83
34 5 0.17
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.26
Consensus pattern (34 bp):
ACTAAATAGGGCTAAGGCCCAGACTATTACTGTT
Found at i:19857837 original size:29 final size:31
Alignment explanation
Indices: 19857795--19857860 Score: 93
Period size: 29 Copynumber: 2.2 Consensus size: 31
19857785 GTGAAAATGT
*
19857795 AAAT-TATGGATTAAATTGTGAAAT-ATGAA
1 AAATATATGGATTAAAATGTGAAATAATGAA
19857824 AAATATATGG-TTAAAATGTGAAATAAATGAA
1 AAATATATGGATTAAAATGTGAAAT-AATGAA
19857855 AAATAT
1 AAATAT
19857861 GGGCTGATAT
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
29 17 0.52
30 5 0.15
31 11 0.33
ACGTcount: A:0.53, C:0.00, G:0.15, T:0.32
Consensus pattern (31 bp):
AAATATATGGATTAAAATGTGAAATAATGAA
Found at i:19857861 original size:29 final size:30
Alignment explanation
Indices: 19857789--19857862 Score: 82
Period size: 29 Copynumber: 2.5 Consensus size: 30
19857779 TTTTTAGTGA
* * *
19857789 AAATGTAAATTATGGATTAAATTGTGAAAT
1 AAATGAAAAATATGGATTAAAATGTGAAAT
19857819 --ATGAAAAATATATGG-TTAAAATGTGAAAT
1 AAATG-AAAA-ATATGGATTAAAATGTGAAAT
19857848 AAATGAAAAATATGG
1 AAATGAAAAATATGG
19857863 GCTGATATGA
Statistics
Matches: 37, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
28 3 0.08
29 22 0.59
30 9 0.24
31 3 0.08
ACGTcount: A:0.51, C:0.00, G:0.18, T:0.31
Consensus pattern (30 bp):
AAATGAAAAATATGGATTAAAATGTGAAAT
Found at i:19860437 original size:17 final size:17
Alignment explanation
Indices: 19860398--19860440 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
19860388 ACAAAAATGG
*
19860398 ATAGAAATGGAAAAGTT
1 ATAGAAATGGAAAAATT
*
19860415 AAAGAAATGGAGAAAATT
1 ATAGAAATGGA-AAAATT
19860433 -TAGAAATG
1 ATAGAAATG
19860441 AATGTGGTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
17 17 0.77
18 5 0.23
ACGTcount: A:0.56, C:0.00, G:0.23, T:0.21
Consensus pattern (17 bp):
ATAGAAATGGAAAAATT
Found at i:19860753 original size:54 final size:54
Alignment explanation
Indices: 19860689--19860798 Score: 202
Period size: 54 Copynumber: 2.0 Consensus size: 54
19860679 TATTTGGGAA
*
19860689 ATAGAAAAATAAATATTGGGTTGGATCGAATTATAAAGTACTAGTTAAAAGTCC
1 ATAGAAAAATAAATATCGGGTTGGATCGAATTATAAAGTACTAGTTAAAAGTCC
*
19860743 ATAGAAAAATAAATATCGGGTTGGATCGAATTATGAAGTACTAGTTAAAAGTCC
1 ATAGAAAAATAAATATCGGGTTGGATCGAATTATAAAGTACTAGTTAAAAGTCC
19860797 AT
1 AT
19860799 GAAGTACTTG
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 54 1.00
ACGTcount: A:0.44, C:0.08, G:0.19, T:0.29
Consensus pattern (54 bp):
ATAGAAAAATAAATATCGGGTTGGATCGAATTATAAAGTACTAGTTAAAAGTCC
Found at i:19862221 original size:19 final size:19
Alignment explanation
Indices: 19862193--19862229 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
19862183 ACAAAACCCG
19862193 ATAAACGATAATGCCTGAA
1 ATAAACGATAATGCCTGAA
* *
19862212 ATAAATGATAATGTCTGA
1 ATAAACGATAATGCCTGA
19862230 TAGATGATAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.46, C:0.11, G:0.16, T:0.27
Consensus pattern (19 bp):
ATAAACGATAATGCCTGAA
Found at i:19874743 original size:17 final size:19
Alignment explanation
Indices: 19874721--19874758 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
19874711 TTTCTGTTGG
19874721 TGACATT-TC-CAACTCTT
1 TGACATTGTCACAACTCTT
19874738 TGACATTGGTCACAACTCTT
1 TGACATT-GTCACAACTCTT
19874758 T
1 T
19874759 ATATATGCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 7 0.39
19 2 0.11
20 9 0.50
ACGTcount: A:0.24, C:0.26, G:0.11, T:0.39
Consensus pattern (19 bp):
TGACATTGTCACAACTCTT
Found at i:19885770 original size:46 final size:46
Alignment explanation
Indices: 19885705--19886069 Score: 491
Period size: 46 Copynumber: 8.0 Consensus size: 46
19885695 TTATCTTTGA
* * * * * *
19885705 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATAT
* * ***
19885751 CATGCTGCCATTGTATCTTTCAACCATGGTCTTGTTCATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
*
19885797 CACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
* *
19885843 CATGTTGCCATGGTATCTTTCAACCATGGTCTTGCATATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
* * * ** *
19885889 TAGGTTGCCATGGTATCTTTCAACCGTGGTCTTATTC-TTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
* *
19885934 CACGTTTCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
* *
19885980 CATGTTGCCATGGTATCTTTCAACCATGGTCGTGCACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
19886026 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
19886070 TTCAGAGAGC
Statistics
Matches: 280, Mismatches: 37, Indels: 4
0.87 0.12 0.01
Matches are distributed among these distances:
45 42 0.15
46 238 0.85
ACGTcount: A:0.21, C:0.24, G:0.15, T:0.41
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
Found at i:19885863 original size:25 final size:25
Alignment explanation
Indices: 19885835--19885910 Score: 61
Period size: 25 Copynumber: 3.2 Consensus size: 25
19885825 GTCTTACACA
19885835 TTTCATATCATGTTGCCATGGTATC
1 TTTCATATCATGTTGCCATGGTATC
* * * * *
19885860 TTTCA-ACCATG--GTC-TTGCATA
1 TTTCATATCATGTTGCCATGGTATC
* *
19885881 TTTCATATTAGGTTGCCATGGTATC
1 TTTCATATCATGTTGCCATGGTATC
19885906 TTTCA
1 TTTCA
19885911 ACCGTGGTCT
Statistics
Matches: 35, Mismatches: 12, Indels: 8
0.64 0.22 0.15
Matches are distributed among these distances:
21 9 0.26
22 5 0.14
24 7 0.20
25 14 0.40
ACGTcount: A:0.21, C:0.20, G:0.16, T:0.43
Consensus pattern (25 bp):
TTTCATATCATGTTGCCATGGTATC
Found at i:19885976 original size:137 final size:138
Alignment explanation
Indices: 19885756--19886069 Score: 522
Period size: 137 Copynumber: 2.3 Consensus size: 138
19885746 TCTGTCATGC
* *
19885756 TGCCATTGTATCTTTCAACCATGGTCTTGTTCATTTCATATCACGTTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCACGTTGCCATGGTATCTTTCAAC
* *
19885821 CATGGTCTTACACATTTCATATCATGTTGCCATGGTATCTTTCAACCATGGTCTTGCATATTTCA
66 CATGGTCTTACACATTTCATATCATGTTGCCATGGTATCTTTCAACCATGGTCGTGCACATTTCA
*
19885886 TATTAGGT
131 TATCAGGT
* * *
19885894 TGCCATGGTATCTTTCAACCGTGGTCTTATTC-TTTCATGTCACGTTTCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCACGTTGCCATGGTATCTTTCAAC
19885958 CATGGTCTTACACATTTCATATCATGTTGCCATGGTATCTTTCAACCATGGTCGTGCACATTTCA
66 CATGGTCTTACACATTTCATATCATGTTGCCATGGTATCTTTCAACCATGGTCGTGCACATTTCA
*
19886023 TATCATGT
131 TATCAGGT
**
19886031 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
1 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCAT
19886070 TTCAGAGAGC
Statistics
Matches: 163, Mismatches: 12, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
137 128 0.79
138 35 0.21
ACGTcount: A:0.21, C:0.24, G:0.15, T:0.40
Consensus pattern (138 bp):
TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCACGTTGCCATGGTATCTTTCAAC
CATGGTCTTACACATTTCATATCATGTTGCCATGGTATCTTTCAACCATGGTCGTGCACATTTCA
TATCAGGT
Found at i:19888193 original size:3 final size:3
Alignment explanation
Indices: 19888179--19888227 Score: 52
Period size: 3 Copynumber: 17.3 Consensus size: 3
19888169 TTTTATACTA
*
19888179 AAT AATT AAT AAT AA- AAT AAT AAT GA- AAT AAT AAT AA- AAT AAT
1 AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
19888222 AA- AAT A
1 AAT AAT A
19888228 TCTCATTAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
2 7 0.18
3 29 0.74
4 3 0.08
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:19888201 original size:11 final size:11
Alignment explanation
Indices: 19888185--19888223 Score: 69
Period size: 11 Copynumber: 3.5 Consensus size: 11
19888175 ACTAAATAAT
19888185 TAATAATAAAA
1 TAATAATAAAA
*
19888196 TAATAATGAAA
1 TAATAATAAAA
19888207 TAATAATAAAA
1 TAATAATAAAA
19888218 TAATAA
1 TAATAA
19888224 AATATCTCAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (11 bp):
TAATAATAAAA
Found at i:19888210 original size:19 final size:19
Alignment explanation
Indices: 19888186--19888227 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
19888176 CTAAATAATT
*
19888186 AATAATAAAATAATAATGA
1 AATAATAAAATAATAATAA
19888205 AATAATAATAA-AATAATAA
1 AATAATAA-AATAATAATAA
19888224 AATA
1 AATA
19888228 TCTCATTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 19 0.90
20 2 0.10
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.26
Consensus pattern (19 bp):
AATAATAAAATAATAATAA
Found at i:19888250 original size:20 final size:21
Alignment explanation
Indices: 19888197--19888272 Score: 68
Period size: 20 Copynumber: 3.7 Consensus size: 21
19888187 ATAATAAAAT
* *
19888197 AATAATGAAATA-ATAA-TAA
1 AATAATAAAATATCTAATTAA
*
19888216 AATAATAAAATATCTCATTAA
1 AATAATAAAATATCTAATTAA
*
19888237 AATAAT-ATATATCTAATTAAA
1 AATAATAAAATATCTAATT-AA
*
19888258 TAATCATAAAATATC
1 -AATAATAAAATATC
19888273 ATCAACATCA
Statistics
Matches: 45, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
19 11 0.24
20 12 0.27
21 11 0.24
22 5 0.11
23 6 0.13
ACGTcount: A:0.59, C:0.07, G:0.01, T:0.33
Consensus pattern (21 bp):
AATAATAAAATATCTAATTAA
Found at i:19894782 original size:42 final size:42
Alignment explanation
Indices: 19894735--19894823 Score: 133
Period size: 42 Copynumber: 2.1 Consensus size: 42
19894725 GACGTCGAGA
* * *
19894735 GAGCACCAGCATCGTTAACACTCACGACGTCTACTTTTTATG
1 GAGCACCAGCATCGTCAACACTCACGACGCCTACTTTCTATG
* *
19894777 GAGCACCAGCGTTGTCAACACTCACGACGCCTACTTTCTATG
1 GAGCACCAGCATCGTCAACACTCACGACGCCTACTTTCTATG
19894819 GAGCA
1 GAGCA
19894824 TGGTGAACGG
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.26, C:0.30, G:0.19, T:0.25
Consensus pattern (42 bp):
GAGCACCAGCATCGTCAACACTCACGACGCCTACTTTCTATG
Found at i:19896553 original size:14 final size:14
Alignment explanation
Indices: 19896534--19896563 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
19896524 TTCTTAAAAA
19896534 ATATATATATACAT
1 ATATATATATACAT
19896548 ATATATATATACAT
1 ATATATATATACAT
19896562 AT
1 AT
19896564 TAGTAGTAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (14 bp):
ATATATATATACAT
Found at i:19896804 original size:8 final size:8
Alignment explanation
Indices: 19896791--19896833 Score: 50
Period size: 8 Copynumber: 5.4 Consensus size: 8
19896781 AGTGGTGGAG
19896791 ATACATGT
1 ATACATGT
*
19896799 ATACATAT
1 ATACATGT
*
19896807 ATACATAT
1 ATACATGT
*
19896815 ATATATGT
1 ATACATGT
*
19896823 ATATATGT
1 ATACATGT
19896831 ATA
1 ATA
19896834 TATATACATA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 32 1.00
ACGTcount: A:0.44, C:0.07, G:0.07, T:0.42
Consensus pattern (8 bp):
ATACATGT
Found at i:19896812 original size:16 final size:15
Alignment explanation
Indices: 19896791--19896842 Score: 52
Period size: 16 Copynumber: 3.4 Consensus size: 15
19896781 AGTGGTGGAG
19896791 ATACATGTATACATAT
1 ATACATGTATA-ATAT
* *
19896807 ATACATATATATATGT
1 ATACATGTATA-ATAT
*
19896823 ATATATGTAT-ATAT
1 ATACATGTATAATAT
19896837 ATACAT
1 ATACAT
19896843 ATTAGTAGTA
Statistics
Matches: 29, Mismatches: 7, Indels: 2
0.76 0.18 0.05
Matches are distributed among these distances:
14 8 0.28
16 21 0.72
ACGTcount: A:0.44, C:0.08, G:0.06, T:0.42
Consensus pattern (15 bp):
ATACATGTATAATAT
Found at i:19897052 original size:281 final size:281
Alignment explanation
Indices: 19896534--19897073 Score: 1053
Period size: 281 Copynumber: 1.9 Consensus size: 281
19896524 TTCTTAAAAA
19896534 ATATATATATACATATATATATATACATATTAGTAGTAGTGATCTTCTGAGCTAAAGAAGTTAAA
1 ATATATATATACATATATATATATACATATTAGTAGTAGTGATCTTCTGAGCTAAAGAAGTTAAA
19896599 TTCCATTTTTTGAAAAAAAGCTCTGTTGTATGCAATTGATGACTAGTCATTTTTCTAGTTAGGTA
66 TTCCATTTTTTGAAAAAAAGCTCTGTTGTATGCAATTGATGACTAGTCATTTTTCTAGTTAGGTA
19896664 ATTTTTCAATTCAATCTCGATTCTAACCCTTCCTATTAGCTTGTGACCATAACCTCTAACCAAAG
131 ATTTTTCAATTCAATCTCGATTCTAACCCTTCCTATTAGCTTGTGACCATAACCTCTAACCAAAG
19896729 CCACATTACAACCCTCTAAAGACATTTTGATTGATGTTTCATCTCAATTTATAGTGGTGGAGATA
196 CCACATTACAACCCTCTAAAGACATTTTGATTGATGTTTCATCTCAATTTATAGTGGTGGAGATA
19896794 CATGTATACATATATACATAT
261 CATGTATACATATATACATAT
* * *
19896815 ATATATGTATATATGTATATATATACATATTAGTAGTAGTGATCTTCTGAGCTAAAGAAGTTAAA
1 ATATATATATACATATATATATATACATATTAGTAGTAGTGATCTTCTGAGCTAAAGAAGTTAAA
19896880 TTCCATTTTTTGAAAAAAAGCTCTGTTGTATGCAATTGATGACTAGTCATTTTTCTAGTTAGGTA
66 TTCCATTTTTTGAAAAAAAGCTCTGTTGTATGCAATTGATGACTAGTCATTTTTCTAGTTAGGTA
19896945 ATTTTTCAATTCAATCTCGATTCTAACCCTTCCTATTAGCTTGTGACCATAACCTCTAACCAAAG
131 ATTTTTCAATTCAATCTCGATTCTAACCCTTCCTATTAGCTTGTGACCATAACCTCTAACCAAAG
19897010 CCACATTACAACCCTCTAAAGACATTTTGATTGATGTTTCATCTCAATTTATAGTGGTGGAGAT
196 CCACATTACAACCCTCTAAAGACATTTTGATTGATGTTTCATCTCAATTTATAGTGGTGGAGAT
19897074 TTGATTTTCA
Statistics
Matches: 256, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
281 256 1.00
ACGTcount: A:0.33, C:0.16, G:0.13, T:0.38
Consensus pattern (281 bp):
ATATATATATACATATATATATATACATATTAGTAGTAGTGATCTTCTGAGCTAAAGAAGTTAAA
TTCCATTTTTTGAAAAAAAGCTCTGTTGTATGCAATTGATGACTAGTCATTTTTCTAGTTAGGTA
ATTTTTCAATTCAATCTCGATTCTAACCCTTCCTATTAGCTTGTGACCATAACCTCTAACCAAAG
CCACATTACAACCCTCTAAAGACATTTTGATTGATGTTTCATCTCAATTTATAGTGGTGGAGATA
CATGTATACATATATACATAT
Found at i:19904469 original size:26 final size:27
Alignment explanation
Indices: 19904418--19904474 Score: 89
Period size: 26 Copynumber: 2.1 Consensus size: 27
19904408 AGGTCGTTAT
*
19904418 ATGACCGTAATGCCCCTGTAGAGTAAA
1 ATGACAGTAATGCCCCTGTAGAGTAAA
*
19904445 ATGACAGTAATG-CCCTGTAGGGTAAA
1 ATGACAGTAATGCCCCTGTAGAGTAAA
19904471 ATGA
1 ATGA
19904475 TCGAGTAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
26 17 0.61
27 11 0.39
ACGTcount: A:0.35, C:0.18, G:0.25, T:0.23
Consensus pattern (27 bp):
ATGACAGTAATGCCCCTGTAGAGTAAA
Found at i:19904494 original size:39 final size:40
Alignment explanation
Indices: 19904438--19904514 Score: 120
Period size: 39 Copynumber: 1.9 Consensus size: 40
19904428 TGCCCCTGTA
* *
19904438 GAGTAAAATGACAGTAATG-CCCTGTAGGGTAAAATGATC
1 GAGTAAAATAACAGTAATGTCCCAGTAGGGTAAAATGATC
*
19904477 GAGTAAAATAACTGTAATGTCCCAGTAGGGTAAAATGA
1 GAGTAAAATAACAGTAATGTCCCAGTAGGGTAAAATGA
19904515 CCATAACGCC
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
39 17 0.50
40 17 0.50
ACGTcount: A:0.40, C:0.12, G:0.25, T:0.23
Consensus pattern (40 bp):
GAGTAAAATAACAGTAATGTCCCAGTAGGGTAAAATGATC
Found at i:19904560 original size:26 final size:27
Alignment explanation
Indices: 19904479--19904567 Score: 110
Period size: 27 Copynumber: 3.3 Consensus size: 27
19904469 AAATGATCGA
* * * *
19904479 GTAAAATAACTGTAATGTCCCAGTAGG
1 GTAAAATGACAGTAATGCCCCTGTAGG
*
19904506 GTAAAATGACCA-TAACGCCCCTGTAGG
1 GTAAAATGA-CAGTAATGCCCCTGTAGG
19904533 GTAAAATGACAGTAATG-CCCTGTAGG
1 GTAAAATGACAGTAATGCCCCTGTAGG
19904559 GTAAAATGA
1 GTAAAATGA
19904568 TCGAGTGAAA
Statistics
Matches: 54, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
26 20 0.37
27 33 0.61
28 1 0.02
ACGTcount: A:0.37, C:0.17, G:0.24, T:0.22
Consensus pattern (27 bp):
GTAAAATGACAGTAATGCCCCTGTAGG
Found at i:19904579 original size:93 final size:93
Alignment explanation
Indices: 19904418--19904661 Score: 391
Period size: 93 Copynumber: 2.6 Consensus size: 93
19904408 AGGTCGTTAT
* * *
19904418 ATGACCGTAATGCCCCTGTAGAGTAAAATGACAGTAATGCCCTGTAGGGTAAAATGATCGAGTAA
1 ATGACCATAACGCCCCTGTAGGGTAAAATGACAGTAATGCCCTGTAGGGTAAAATGATCGAGTAA
19904483 AATAACTGTAATGTCCCAGTAGGGTAAA
66 AATAACTGTAATGTCCCAGTAGGGTAAA
*
19904511 ATGACCATAACGCCCCTGTAGGGTAAAATGACAGTAATGCCCTGTAGGGTAAAATGATCGAGTGA
1 ATGACCATAACGCCCCTGTAGGGTAAAATGACAGTAATGCCCTGTAGGGTAAAATGATCGAGTAA
*
19904576 AATAACTGTAATGTCCCTGTAGGGTAAA
66 AATAACTGTAATGTCCCAGTAGGGTAAA
* **
19904604 ATGACCATAACGCCCCTGTAGGGTAAAATGACCA-TAATACCCCTGTACAGTAAAATGA
1 ATGACCATAACGCCCCTGTAGGGTAAAATGA-CAGTAAT-GCCCTGTAGGGTAAAATGA
19904662 CTATTATGCC
Statistics
Matches: 141, Mismatches: 8, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
93 123 0.87
94 18 0.13
ACGTcount: A:0.36, C:0.18, G:0.23, T:0.23
Consensus pattern (93 bp):
ATGACCATAACGCCCCTGTAGGGTAAAATGACAGTAATGCCCTGTAGGGTAAAATGATCGAGTAA
AATAACTGTAATGTCCCAGTAGGGTAAA
Found at i:19904620 original size:27 final size:27
Alignment explanation
Indices: 19904590--19904662 Score: 110
Period size: 27 Copynumber: 2.7 Consensus size: 27
19904580 ACTGTAATGT
*
19904590 CCCTGTAGGGTAAAATGACCATAACGC
1 CCCTGTAGGGTAAAATGACCATAACAC
*
19904617 CCCTGTAGGGTAAAATGACCATAATAC
1 CCCTGTAGGGTAAAATGACCATAACAC
**
19904644 CCCTGTACAGTAAAATGAC
1 CCCTGTAGGGTAAAATGAC
19904663 TATTATGCCC
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 42 1.00
ACGTcount: A:0.36, C:0.25, G:0.19, T:0.21
Consensus pattern (27 bp):
CCCTGTAGGGTAAAATGACCATAACAC
Found at i:19911641 original size:26 final size:26
Alignment explanation
Indices: 19911612--19911693 Score: 146
Period size: 26 Copynumber: 3.2 Consensus size: 26
19911602 TGGTACAAAT
19911612 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
19911638 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
19911664 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
19911690 TGAT
1 TGAT
19911694 GGGCATTTCA
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 52 1.00
ACGTcount: A:0.33, C:0.07, G:0.24, T:0.35
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:19921289 original size:51 final size:50
Alignment explanation
Indices: 19921218--19921377 Score: 212
Period size: 51 Copynumber: 3.2 Consensus size: 50
19921208 CTGATCACAT
* *
19921218 TTATCACTTGTCACTGATCAGGTAAGTGTAGCTAAAGCTCCCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCT-AAGCTACCACTTATCAC
* * *
19921269 TTATCACTTGTCACTGATCAGATAAGAGTAGCTGAGCTACCACTTATCAT
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAGCTACCACTTATCAC
* * * *
19921319 TTGTCACTTATCATTGATCAGATAAGTGTAGCTGAGGCTACCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCT-AAGCTACCACTTATCAC
*
19921370 TTGTCACT
1 TTATCACT
19921378 GATCAGAAGT
Statistics
Matches: 96, Mismatches: 12, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
50 43 0.45
51 53 0.55
ACGTcount: A:0.28, C:0.23, G:0.16, T:0.33
Consensus pattern (50 bp):
TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAGCTACCACTTATCAC
Found at i:19929046 original size:51 final size:50
Alignment explanation
Indices: 19928970--19929129 Score: 221
Period size: 51 Copynumber: 3.2 Consensus size: 50
19928960 CTGATCACAT
*
19928970 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATTAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCT-AAGCTACCACTTATCAC
* * *
19929021 TTATCACTTGTCACTGATCAGATAAGAGTAGCTGAGCTACCACTTATCAT
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAGCTACCACTTATCAC
* * * *
19929071 TTGTCACTTATCATTGATCAGATAAGTGTAGCTGAGGCTACCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCT-AAGCTACCACTTATCAC
*
19929122 TTGTCACT
1 TTATCACT
19929130 GATCAGAAGT
Statistics
Matches: 97, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
50 43 0.44
51 54 0.56
ACGTcount: A:0.29, C:0.22, G:0.16, T:0.34
Consensus pattern (50 bp):
TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAGCTACCACTTATCAC
Found at i:19931979 original size:36 final size:37
Alignment explanation
Indices: 19931930--19932018 Score: 117
Period size: 36 Copynumber: 2.4 Consensus size: 37
19931920 TATTTACATA
* * * *
19931930 TCACTTTTTAATATATTAAGTAAATATCATTT-CATG
1 TCACGTTTCAATATATCAAGTAAATATCATTTCCAAG
* *
19931966 TCATGTTTCAATATATCAAGTAAATATCTTTTCCAAG
1 TCACGTTTCAATATATCAAGTAAATATCATTTCCAAG
19932003 TCACGTTTCAATATAT
1 TCACGTTTCAATATAT
19932019 ATACTGGTAA
Statistics
Matches: 45, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
36 27 0.60
37 18 0.40
ACGTcount: A:0.35, C:0.15, G:0.07, T:0.44
Consensus pattern (37 bp):
TCACGTTTCAATATATCAAGTAAATATCATTTCCAAG
Found at i:19933780 original size:17 final size:17
Alignment explanation
Indices: 19933754--19933786 Score: 50
Period size: 16 Copynumber: 1.9 Consensus size: 17
19933744 CTTCTTTCTC
19933754 TTTTTCCTTTGCTTTTTA
1 TTTTTCCTTT-CTTTTTA
19933772 TTTTT-CTTTCTTTTT
1 TTTTTCCTTTCTTTTT
19933787 CGTTTGGTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 4 0.27
18 5 0.33
ACGTcount: A:0.03, C:0.15, G:0.03, T:0.79
Consensus pattern (17 bp):
TTTTTCCTTTCTTTTTA
Found at i:19933787 original size:28 final size:28
Alignment explanation
Indices: 19933752--19933812 Score: 79
Period size: 28 Copynumber: 2.2 Consensus size: 28
19933742 TTCTTCTTTC
19933752 TCTTTTTCCTTTGCTTTT-TATTTTTCTT
1 TCTTTTTCCTTTGCTTTTCTA-TTTTCTT
* * *
19933780 TCTTTTTCGTTTGGTTTTCTATTTTGTT
1 TCTTTTTCCTTTGCTTTTCTATTTTCTT
19933808 TCTTT
1 TCTTT
19933813 CTTTATTTGT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
28 27 0.93
29 2 0.07
ACGTcount: A:0.03, C:0.15, G:0.08, T:0.74
Consensus pattern (28 bp):
TCTTTTTCCTTTGCTTTTCTATTTTCTT
Found at i:19933851 original size:7 final size:7
Alignment explanation
Indices: 19933841--19933866 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
19933831 TTATTATATA
19933841 ATATAAT
1 ATATAAT
19933848 ATATAAT
1 ATATAAT
19933855 ATATAAT
1 ATATAAT
19933862 ATATA
1 ATATA
19933867 TTTATGCTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (7 bp):
ATATAAT
Found at i:19933906 original size:12 final size:12
Alignment explanation
Indices: 19933889--19933913 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
19933879 CAGTAAGAAT
19933889 ATATATATAATA
1 ATATATATAATA
19933901 ATATATATAATA
1 ATATATATAATA
19933913 A
1 A
19933914 AATAATAAAT
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:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (12 bp):
ATATATATAATA
Found at i:19933924 original size:12 final size:15
Alignment explanation
Indices: 19933886--19933917 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
19933876 AAACAGTAAG
19933886 AATATATAT-ATAAT
1 AATATATATAATAAT
19933900 AATATATATAATAA-
1 AATATATATAATAAT
19933914 AATA
1 AATA
19933918 ATAAATATCT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 13 0.76
15 4 0.24
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (15 bp):
AATATATATAATAAT
Found at i:19937851 original size:18 final size:18
Alignment explanation
Indices: 19937828--19937913 Score: 91
Period size: 18 Copynumber: 4.7 Consensus size: 18
19937818 GAACGATTAT
* *
19937828 TTATTCAGTAACAGTCAG
1 TTATTCAGTAACAATCAA
* *
19937846 TTATTCGGTAAAAATCAA
1 TTATTCAGTAACAATCAA
* * *
19937864 TTATTCAATAATAATCAG
1 TTATTCAGTAACAATCAA
*
19937882 TTATTCAGTAACAATTAAA
1 TTATTCAGTAACAA-TCAA
19937901 TTATTCAGTAACA
1 TTATTCAGTAACA
19937914 GTCGATCTTT
Statistics
Matches: 55, Mismatches: 12, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
18 40 0.73
19 15 0.27
ACGTcount: A:0.42, C:0.13, G:0.09, T:0.36
Consensus pattern (18 bp):
TTATTCAGTAACAATCAA
Found at i:19937869 original size:36 final size:37
Alignment explanation
Indices: 19937828--19937916 Score: 117
Period size: 36 Copynumber: 2.4 Consensus size: 37
19937818 GAACGATTAT
* *
19937828 TTATTCAGTAACAGTCAGTTATTCGGTAA-AAATCAA
1 TTATTCAGTAACAGTCAGTTATTCAGTAACAAATAAA
* * * *
19937864 TTATTCAATAATAATCAGTTATTCAGTAACAATTAAA
1 TTATTCAGTAACAGTCAGTTATTCAGTAACAAATAAA
19937901 TTATTCAGTAACAGTC
1 TTATTCAGTAACAGTC
19937917 GATCTTTCCA
Statistics
Matches: 43, Mismatches: 9, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
36 25 0.58
37 18 0.42
ACGTcount: A:0.40, C:0.13, G:0.10, T:0.36
Consensus pattern (37 bp):
TTATTCAGTAACAGTCAGTTATTCAGTAACAAATAAA
Found at i:19938121 original size:47 final size:47
Alignment explanation
Indices: 19938052--19938157 Score: 187
Period size: 47 Copynumber: 2.3 Consensus size: 47
19938042 ACAATAGCAA
*
19938052 TACGGTACACAGAGTACCTCATCGGAACAAATCCGGAACAGTAACAG
1 TACGGTACACAGAGTACCTCATCGGAACAAATCCGAAACAGTAACAG
19938099 TACGGTACACAGAGTACCTCATCGGAACAAATCCGAAACAGTAACAG
1 TACGGTACACAGAGTACCTCATCGGAACAAATCCGAAACAGTAACAG
19938146 TAACGGTA-ACAG
1 T-ACGGTACACAG
19938158 TAACAATATC
Statistics
Matches: 57, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
47 51 0.89
48 6 0.11
ACGTcount: A:0.40, C:0.25, G:0.21, T:0.15
Consensus pattern (47 bp):
TACGGTACACAGAGTACCTCATCGGAACAAATCCGAAACAGTAACAG
Found at i:19938146 original size:53 final size:52
Alignment explanation
Indices: 19938035--19938149 Score: 159
Period size: 47 Copynumber: 2.3 Consensus size: 52
19938025 CCAAAACAGT
* *
19938035 AACAGTAACAATAGCAATACGGTACACAGAGTACCTCATCGGAACAAATCCG
1 AACAGTAACAGTAACAATACGGTACACAGAGTACCTCATCGGAACAAATCCG
*
19938087 ----G-AACAGTAACAGTACGGTACACAGAGTACCTCATCGGAACAAATCCG
1 AACAGTAACAGTAACAATACGGTACACAGAGTACCTCATCGGAACAAATCCG
19938134 AAACAGTAACAGTAAC
1 -AACAGTAACAGTAAC
19938150 GGTAACAGTA
Statistics
Matches: 54, Mismatches: 3, Indels: 11
0.79 0.04 0.16
Matches are distributed among these distances:
47 43 0.80
48 1 0.02
52 1 0.02
53 9 0.17
ACGTcount: A:0.43, C:0.24, G:0.18, T:0.15
Consensus pattern (52 bp):
AACAGTAACAGTAACAATACGGTACACAGAGTACCTCATCGGAACAAATCCG
Found at i:19940000 original size:31 final size:32
Alignment explanation
Indices: 19939944--19940006 Score: 85
Period size: 31 Copynumber: 2.0 Consensus size: 32
19939934 CACACTTGTC
*
19939944 ATAATTTAATATATTTATTACATAAAAATCTT
1 ATAATATAATATATTTATTACATAAAAATCTT
*
19939976 ATAATATAA-ATATTTAATTA-ATAAATATCTT
1 ATAATATAATATATTT-ATTACATAAAAATCTT
19940007 TTATAAATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
31 16 0.57
32 12 0.43
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (32 bp):
ATAATATAATATATTTATTACATAAAAATCTT
Found at i:19944766 original size:18 final size:18
Alignment explanation
Indices: 19944743--19944828 Score: 91
Period size: 18 Copynumber: 4.7 Consensus size: 18
19944733 GAACGATTAT
* *
19944743 TTATTCAGTAACAGTCAG
1 TTATTCAGTAACAATCAA
*
19944761 TTATTCGGTAACAATCAA
1 TTATTCAGTAACAATCAA
** * *
19944779 TTATTCAAAAATAATCAG
1 TTATTCAGTAACAATCAA
*
19944797 TTATTCAGTAACAATTAAA
1 TTATTCAGTAACAA-TCAA
19944816 TTATTCAGTAACA
1 TTATTCAGTAACA
19944829 GTCGATCTTT
Statistics
Matches: 54, Mismatches: 13, Indels: 1
0.79 0.19 0.01
Matches are distributed among these distances:
18 39 0.72
19 15 0.28
ACGTcount: A:0.42, C:0.14, G:0.09, T:0.35
Consensus pattern (18 bp):
TTATTCAGTAACAATCAA
Found at i:19944784 original size:36 final size:37
Alignment explanation
Indices: 19944743--19944831 Score: 117
Period size: 36 Copynumber: 2.4 Consensus size: 37
19944733 GAACGATTAT
* *
19944743 TTATTCAGTAACAGTCAGTTATTCGGTAACAA-TCAA
1 TTATTCAGTAACAGTCAGTTATTCAGTAACAATTAAA
** * *
19944779 TTATTCAAAAATAATCAGTTATTCAGTAACAATTAAA
1 TTATTCAGTAACAGTCAGTTATTCAGTAACAATTAAA
19944816 TTATTCAGTAACAGTC
1 TTATTCAGTAACAGTC
19944832 GATCTTTCCA
Statistics
Matches: 42, Mismatches: 10, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
36 27 0.64
37 15 0.36
ACGTcount: A:0.40, C:0.15, G:0.10, T:0.35
Consensus pattern (37 bp):
TTATTCAGTAACAGTCAGTTATTCAGTAACAATTAAA
Found at i:19949430 original size:21 final size:20
Alignment explanation
Indices: 19949385--19949430 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
19949375 TTGTTGGAAT
19949385 GGTT-AATTTAATCAATTTA
1 GGTTGAATTTAATCAATTTA
*
19949404 GCTTGAATTTAATTC-ATGTTA
1 GGTTGAATTTAA-TCAAT-TTA
19949425 GGTTGA
1 GGTTGA
19949431 TTGCATTTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 3 0.14
20 9 0.41
21 10 0.45
ACGTcount: A:0.30, C:0.07, G:0.17, T:0.46
Consensus pattern (20 bp):
GGTTGAATTTAATCAATTTA
Found at i:19955430 original size:22 final size:22
Alignment explanation
Indices: 19955405--19955449 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
19955395 TTTATATGTA
19955405 TTAATTCATAATATAA-TTAATT
1 TTAATTCAT-ATATAATTTAATT
* *
19955427 TTAATTTATATCTAATTTAATT
1 TTAATTCATATATAATTTAATT
19955449 T
1 T
19955450 GGGTTAATAG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 5 0.25
22 15 0.75
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (22 bp):
TTAATTCATATATAATTTAATT
Found at i:19957259 original size:68 final size:64
Alignment explanation
Indices: 19957173--19957394 Score: 223
Period size: 67 Copynumber: 3.4 Consensus size: 64
19957163 TAATACGGGA
* *
19957173 TGTATACCATGTGTACAAGAGAGCTACGAGACATTATGAGGTAGCTAGGTCGCATGGGTGATACT
1 TGTACACCATGTGTACAAGAGAGCTACGAG--A-TA-GAAGTAGCTAGGTCGCATGGGTGATACT
19957238 ATG
62 ATG
* * * * * * *
19957241 TGTACACCATGTAG-ACAAGAGAGCTACGAGATAGATGTAGCTAGGTTGCATGTGCGGTTCCAGG
1 TGTACACCATGT-GTACAAGAGAGCTACGAGATAGAAGTAGCTAGGTCGCATGGGTGATACTA--
19957305 TG
63 TG
* * ** * *
19957307 AAGGACACCATGTAAACAAGAGAGCTACGAGATA-AAGTGGCTAGGTCACATGGGTGATACTATG
1 -TGTACACCATGTGTACAAGAGAGCTACGAGATAGAAGTAGCTAGGTCGCATGGGTGATACTATG
19957371 TGTACACCATGTGTACAAGAGAGC
1 TGTACACCATGTGTACAAGAGAGC
19957395 CAAAATTATG
Statistics
Matches: 125, Mismatches: 24, Indels: 15
0.76 0.15 0.09
Matches are distributed among these distances:
63 20 0.16
64 24 0.19
65 2 0.02
66 22 0.18
67 29 0.23
68 27 0.22
69 1 0.01
ACGTcount: A:0.32, C:0.16, G:0.29, T:0.23
Consensus pattern (64 bp):
TGTACACCATGTGTACAAGAGAGCTACGAGATAGAAGTAGCTAGGTCGCATGGGTGATACTATG
Found at i:19963606 original size:22 final size:22
Alignment explanation
Indices: 19963581--19963623 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
19963571 TTCAAATGTA
*
19963581 GTGTTATTCAAGCTTATTGCCG
1 GTGTTATTCAAGCTTAGTGCCG
19963603 GTGTTATTCAAGCTTAGTGCC
1 GTGTTATTCAAGCTTAGTGCC
19963624 TAGCAGGATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.19, C:0.19, G:0.23, T:0.40
Consensus pattern (22 bp):
GTGTTATTCAAGCTTAGTGCCG
Found at i:19963621 original size:38 final size:38
Alignment explanation
Indices: 19963592--19963709 Score: 148
Period size: 38 Copynumber: 3.1 Consensus size: 38
19963582 TGTTATTCAA
* * *
19963592 GCTTATTGCCGGTGTTATTCAAGCTTAGTGCCTAGCAG
1 GCTTAGTGCCGGTGTTATTCAGGCTTAGTGCCTATCAG
* *
19963630 GATTAGTGCCGGTTTTATTCAGGCTTAGTGCCTAGT-AG
1 GCTTAGTGCCGGTGTTATTCAGGCTTAGTGCCTA-TCAG
* * *
19963668 GCTTAGTGTCGGTGTTATTCAGGCTTAGTGCTTAGCAG
1 GCTTAGTGCCGGTGTTATTCAGGCTTAGTGCCTATCAG
19963706 GCTT
1 GCTT
19963710 TGAGCTTGTG
Statistics
Matches: 68, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
38 68 1.00
ACGTcount: A:0.17, C:0.18, G:0.29, T:0.36
Consensus pattern (38 bp):
GCTTAGTGCCGGTGTTATTCAGGCTTAGTGCCTATCAG
Found at i:19963657 original size:22 final size:21
Alignment explanation
Indices: 19963584--19963698 Score: 70
Period size: 22 Copynumber: 5.8 Consensus size: 21
19963574 AAATGTAGTG
* *
19963584 TTATTCAAGCTTATTGCCGGT
1 TTATTCAGGCTTAGTGCCGGT
*
19963605 GTTATTCAAGCTTAGTGCC---
1 -TTATTCAGGCTTAGTGCCGGT
* *
19963624 -TA-GCAGGATTAGTGCCGGTT
1 TTATTCAGGCTTAGTGCCGG-T
19963644 TTATTCAGGCTTAGTGCC---
1 TTATTCAGGCTTAGTGCCGGT
* *
19963662 -TAGT-AGGCTTAGTGTCGGT
1 TTATTCAGGCTTAGTGCCGGT
19963681 GTTATTCAGGCTTAGTGC
1 -TTATTCAGGCTTAGTGC
19963699 TTAGCAGGCT
Statistics
Matches: 71, Mismatches: 10, Indels: 24
0.68 0.10 0.23
Matches are distributed among these distances:
16 22 0.31
17 5 0.07
21 5 0.07
22 39 0.55
ACGTcount: A:0.18, C:0.17, G:0.27, T:0.37
Consensus pattern (21 bp):
TTATTCAGGCTTAGTGCCGGT
Found at i:19971855 original size:46 final size:47
Alignment explanation
Indices: 19971790--19972109 Score: 350
Period size: 46 Copynumber: 7.0 Consensus size: 47
19971780 TTATCTTTGA
* * * * * *
19971790 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATAT
** *
19971836 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCA-TTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATAT
* * *** ***
19971882 CACGCTGCCATGGTATCTTTCAACCATGGTCTTATTTA-TTTCCCGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATAT
* * *
19971928 CATGTTGCCATGGAATCTTTCAACCATGGCCTTACAC-GTTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATAT
* *
19971974 CA-GGTGCCATGGTATCTTTCAACCATGGTCTTACAC-GTTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATAT
* * *
19972019 CAGGCTGCCATGGTATTTTTCAACCATGGTCTTACACA-TTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATAT
*
19972065 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATA
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATA
19972110 CCAGAGAGCA
Statistics
Matches: 243, Mismatches: 27, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
45 46 0.19
46 197 0.81
ACGTcount: A:0.22, C:0.24, G:0.16, T:0.38
Consensus pattern (47 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATAT
Found at i:19972026 original size:137 final size:137
Alignment explanation
Indices: 19971805--19972109 Score: 396
Period size: 137 Copynumber: 2.2 Consensus size: 137
19971795 TGCCATAGTG
* * * * *
19971805 TCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGTTGCCATGGTATCTTTCAACCATGGTCTT
1 TCTTTCAACCATGGCCTTACACA-TTTCATATCA-GGTGCCATGGTATCTTTCAACCATGGTCTT
** * *** * * *
19971869 ATTCATTTCATGTCACGCTGCCATGGTATCTTTCAACCATGGTCTTATTTATTTCCCGTCATGTT
64 ACACATTTCATATCACGCTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCACATCAGGTT
19971934 GCCATGGAA
129 GCCATGGAA
*
19971943 TCTTTCAACCATGGCCTTACACGTTTCATATCAGGTGCCATGGTATCTTTCAACCATGGTCTTAC
1 TCTTTCAACCATGGCCTTACACATTTCATATCAGGTGCCATGGTATCTTTCAACCATGGTCTTAC
* * * *
19972008 ACGTTTCATATCAGGCTGCCATGGTATTTTTCAACCATGGTCTTACACATTTCATATCAGGTTGC
66 ACATTTCATATCACGCTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCACATCAGGTTGC
*
19972073 CATGGTA
131 CATGGAA
*
19972080 TCTTTCAACCATGGTCTTACACATTTCATA
1 TCTTTCAACCATGGCCTTACACATTTCATA
19972110 CCAGAGAGCA
Statistics
Matches: 144, Mismatches: 22, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
137 121 0.84
138 23 0.16
ACGTcount: A:0.21, C:0.25, G:0.15, T:0.39
Consensus pattern (137 bp):
TCTTTCAACCATGGCCTTACACATTTCATATCAGGTGCCATGGTATCTTTCAACCATGGTCTTAC
ACATTTCATATCACGCTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCACATCAGGTTGC
CATGGAA
Found at i:19974295 original size:18 final size:20
Alignment explanation
Indices: 19974280--19974316 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
19974270 TCATAATAAA
*
19974280 ATATCTCATTAAAATAATAT
1 ATATCTAATTAAAATAATAT
19974300 ATATCTAATT-AAATAAT
1 ATATCTAATTAAAATAAT
19974317 CATAAAATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 7 0.44
20 9 0.56
ACGTcount: A:0.51, C:0.08, G:0.00, T:0.41
Consensus pattern (20 bp):
ATATCTAATTAAAATAATAT
Found at i:19976704 original size:50 final size:50
Alignment explanation
Indices: 19976645--19976794 Score: 234
Period size: 50 Copynumber: 3.1 Consensus size: 50
19976635 CAAATGATGT
19976645 GTGAAAGATTGTTAAGCTATAAGTGGAAATTATGATTACTCATAAATAAC
1 GTGAAAGATTGTTAAGCTATAAGTGGAAATTATGATTACTCATAAATAAC
** * **
19976695 GTGAAAGATTGTTAAGCTATAAGTGGAAATTATGATT-CAAAT-GAT-GT
1 GTGAAAGATTGTTAAGCTATAAGTGGAAATTATGATTACTCATAAATAAC
19976742 GTGAAAGATTGTTAAGCTATAAGTGGAAATTATGATTACTCATAAATAAC
1 GTGAAAGATTGTTAAGCTATAAGTGGAAATTATGATTACTCATAAATAAC
19976792 GTG
1 GTG
19976795 CATGTTGTTA
Statistics
Matches: 87, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
47 37 0.43
48 5 0.06
49 5 0.06
50 40 0.46
ACGTcount: A:0.40, C:0.07, G:0.21, T:0.33
Consensus pattern (50 bp):
GTGAAAGATTGTTAAGCTATAAGTGGAAATTATGATTACTCATAAATAAC
Found at i:19976731 original size:27 final size:27
Alignment explanation
Indices: 19976651--19976731 Score: 64
Period size: 27 Copynumber: 3.1 Consensus size: 27
19976641 ATGTGTGAAA
19976651 GATTGTTAAGCTATAAGTGGAAATTAT
1 GATTGTTAAGCTATAAGTGGAAATTAT
** * ***
19976678 GATTACTCATAAATAACGT-G-AA--A-
1 GATTGTTAAGCTATAA-GTGGAAATTAT
19976701 GATTGTTAAGCTATAAGTGGAAATTAT
1 GATTGTTAAGCTATAAGTGGAAATTAT
19976728 GATT
1 GATT
19976732 CAAATGATGT
Statistics
Matches: 36, Mismatches: 12, Indels: 12
0.60 0.20 0.20
Matches are distributed among these distances:
22 2 0.06
23 11 0.31
24 3 0.08
26 3 0.08
27 15 0.42
28 2 0.06
ACGTcount: A:0.40, C:0.06, G:0.20, T:0.35
Consensus pattern (27 bp):
GATTGTTAAGCTATAAGTGGAAATTAT
Found at i:19976764 original size:47 final size:47
Alignment explanation
Indices: 19976630--19976778 Score: 226
Period size: 47 Copynumber: 3.1 Consensus size: 47
19976620 ACTTAAGCTG
19976630 TGATTCAAATGATGTGTGAAAGATTGTTAAGCTATAAGTGGAAATTA
1 TGATTCAAATGATGTGTGAAAGATTGTTAAGCTATAAGTGGAAATTA
** * **
19976677 TGATTACTCATAAATAACGTGAAAGATTGTTAAGCTATAAGTGGAAATTA
1 TGATT-CAAAT-GAT-GTGTGAAAGATTGTTAAGCTATAAGTGGAAATTA
19976727 TGATTCAAATGATGTGTGAAAGATTGTTAAGCTATAAGTGGAAATTA
1 TGATTCAAATGATGTGTGAAAGATTGTTAAGCTATAAGTGGAAATTA
19976774 TGATT
1 TGATT
19976779 ACTCATAAAT
Statistics
Matches: 89, Mismatches: 10, Indels: 6
0.85 0.10 0.06
Matches are distributed among these distances:
47 42 0.47
48 5 0.06
49 5 0.06
50 37 0.42
ACGTcount: A:0.39, C:0.05, G:0.21, T:0.34
Consensus pattern (47 bp):
TGATTCAAATGATGTGTGAAAGATTGTTAAGCTATAAGTGGAAATTA
Found at i:19986858 original size:5 final size:5
Alignment explanation
Indices: 19986844--19986920 Score: 147
Period size: 5 Copynumber: 15.6 Consensus size: 5
19986834 TAATTCCAAC
19986844 TATA- TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
19986893 TATAT TATAT TATAT TATAT TATAT TAT
1 TATAT TATAT TATAT TATAT TATAT TAT
19986921 TATCATTATC
Statistics
Matches: 72, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
4 4 0.06
5 68 0.94
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TATAT
Found at i:19993019 original size:20 final size:20
Alignment explanation
Indices: 19992991--19993029 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
19992981 AATTTAATGG
*
19992991 TACTGATACTATCATACTAA
1 TACTAATACTATCATACTAA
19993011 TACTAATACTATCATACTA
1 TACTAATACTATCATACTA
19993030 TTCCACATAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.41, C:0.21, G:0.03, T:0.36
Consensus pattern (20 bp):
TACTAATACTATCATACTAA
Found at i:20002099 original size:121 final size:122
Alignment explanation
Indices: 20001944--20002169 Score: 303
Period size: 124 Copynumber: 1.9 Consensus size: 122
20001934 GTAAAAAAAA
* *
20001944 TTTGGTTCTGGCTTCTTACGGCCGGCACCAGAGACTTTTTTCGTGTCCCAATGC-A-TTTTTTTT
1 TTTGGTTCTGCCTTCTAACGGCCGGCACCAGAGACTTTTTTCGTGTCCCAATGCAATTTTTTTTT
* * * * * *
20002007 ATTTTTCTACATTGATTGTCGGCACCAGACCAGTAATTTTTAAAAACAATTTTTTTT
66 ACTTTTCTACACTGATGGCCGACACCAAACCAGTAATTTTTAAAAACAATTTTTTTT
* * * *
20002064 TTTGGTTCTAGCCTTCTAATGGCTGGTACCAGAGACTTTTTTCGTGTCCTAATGCAATTTTTTTT
1 TTTGGTTCT-GCCTTCTAACGGCCGGCACCAGAGACTTTTTTCGTGTCCCAATGCAA-TTTTTTT
*
20002129 TTACTTTTCTACACTGATGGCCTACACCAAACCAGTAATTT
64 TTACTTTTCTACACTGATGGCCGACACCAAACCAGTAATTT
20002170 AAAAAAATTA
Statistics
Matches: 89, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
120 9 0.10
121 39 0.44
122 1 0.01
124 40 0.45
ACGTcount: A:0.21, C:0.21, G:0.15, T:0.42
Consensus pattern (122 bp):
TTTGGTTCTGCCTTCTAACGGCCGGCACCAGAGACTTTTTTCGTGTCCCAATGCAATTTTTTTTT
ACTTTTCTACACTGATGGCCGACACCAAACCAGTAATTTTTAAAAACAATTTTTTTT
Found at i:20002228 original size:45 final size:45
Alignment explanation
Indices: 20002177--20002268 Score: 141
Period size: 45 Copynumber: 2.0 Consensus size: 45
20002167 TTTAAAAAAA
* *
20002177 TTACTAGTGTATTGCCGGCCATTAGAAGGTCAGAA-CTATTTTTTT
1 TTACTAGTGTAGTGCCGGCCATTAGAAGGCCAGAATC-ATTTTTTT
*
20002222 TTACTAGTGTGGTGCCGGCCATTAGAAGGCCAGAATCATTTTTTT
1 TTACTAGTGTAGTGCCGGCCATTAGAAGGCCAGAATCATTTTTTT
20002267 TT
1 TT
20002269 TATTTTTTTC
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
45 42 0.98
46 1 0.02
ACGTcount: A:0.23, C:0.16, G:0.22, T:0.39
Consensus pattern (45 bp):
TTACTAGTGTAGTGCCGGCCATTAGAAGGCCAGAATCATTTTTTT
Found at i:20004245 original size:3 final size:3
Alignment explanation
Indices: 20004237--20004262 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
20004227 TCTTAATCTA
20004237 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
20004263 AAGAACCCAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:20004479 original size:23 final size:24
Alignment explanation
Indices: 20004435--20004480 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 24
20004425 AGATATAATC
* **
20004435 AAAATCTATAATAAAATTGTTAAA
1 AAAATCTAAAATAAAAAGGTTAAA
20004459 AAAAT-TAAAATAAAAAGGTTAA
1 AAAATCTAAAATAAAAAGGTTAA
20004481 TTGTACAATT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 14 0.74
24 5 0.26
ACGTcount: A:0.63, C:0.02, G:0.07, T:0.28
Consensus pattern (24 bp):
AAAATCTAAAATAAAAAGGTTAAA
Found at i:20009976 original size:14 final size:15
Alignment explanation
Indices: 20009957--20009993 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
20009947 ATAATTTAAA
20009957 ATATAATAATAAT-G
1 ATATAATAATAATAG
20009971 ATATAAT-ATAATAG
1 ATATAATAATAATAG
*
20009985 TTATAATAA
1 ATATAATAA
20009994 ATAAAAGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
13 5 0.25
14 14 0.70
15 1 0.05
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.38
Consensus pattern (15 bp):
ATATAATAATAATAG
Found at i:20010084 original size:4 final size:4
Alignment explanation
Indices: 20010047--20010077 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
20010037 CGAACAGAAC
20010047 AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAA
1 AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAA
20010078 AAGAAAGGTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:20013602 original size:44 final size:45
Alignment explanation
Indices: 20013507--20013639 Score: 142
Period size: 44 Copynumber: 2.9 Consensus size: 45
20013497 ACAGGACAGA
* *
20013507 ACAGAAATGAGTCATGTAAGTCCATATTAGAAATATGGCTTTGAAG
1 ACAGGAATGAGTCATGTAAGTCCATATTA-AAATATGGCATTGAAG
* * * *
20013553 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGTCATGTAAGTCCATATTAAAATATGGCATTGAAG
* * * * *
20013597 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTG
1 ACAGGAATGAGTCATGTAAGTCCATATTAAA-ATATGGCATTG
20013640 GCAGGATATT
Statistics
Matches: 71, Mismatches: 14, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
44 35 0.49
45 1 0.01
46 35 0.49
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.28
Consensus pattern (45 bp):
ACAGGAATGAGTCATGTAAGTCCATATTAAAATATGGCATTGAAG
Found at i:20020932 original size:46 final size:44
Alignment explanation
Indices: 20020873--20020987 Score: 140
Period size: 44 Copynumber: 2.6 Consensus size: 44
20020863 ACAGGACAGA
* *
20020873 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAG
* * *
20020919 GCAGGATTGAGCCATGTAAGTCCATATTATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
* **
20020963 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
20020988 GTCAAAGACA
Statistics
Matches: 59, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
44 34 0.58
46 25 0.42
ACGTcount: A:0.35, C:0.14, G:0.23, T:0.28
Consensus pattern (44 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
Found at i:20020968 original size:44 final size:45
Alignment explanation
Indices: 20020873--20021006 Score: 144
Period size: 46 Copynumber: 3.0 Consensus size: 45
20020863 ACAGGACAGA
* *
20020873 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* * *
20020919 GCAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * * *
20020963 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
20021007 CAGGATATTG
Statistics
Matches: 72, Mismatches: 14, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
44 35 0.49
45 1 0.01
46 36 0.50
ACGTcount: A:0.34, C:0.14, G:0.25, T:0.27
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:20040118 original size:13 final size:13
Alignment explanation
Indices: 20040100--20040128 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
20040090 GTTAGTCTGT
20040100 TACTGTTTTGTTA
1 TACTGTTTTGTTA
20040113 TACTGTTTTGTTA
1 TACTGTTTTGTTA
20040126 TAC
1 TAC
20040129 AGGCTAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.17, C:0.10, G:0.14, T:0.59
Consensus pattern (13 bp):
TACTGTTTTGTTA
Found at i:20044018 original size:32 final size:31
Alignment explanation
Indices: 20043923--20044064 Score: 108
Period size: 32 Copynumber: 4.5 Consensus size: 31
20043913 TGGGAGACCT
* * *
20043923 ATTAAAATTTTCAAAAATTTTAGGA-GTTTT
1 ATTAAAATTTTCAAAAATTTTAGAAGGTATA
* **
20043953 ATGAAAATTTTCAAAAATTTTA-AGAGAACATA
1 ATTAAAATTTTCAAAAATTTTAGA-AG-GTATA
*
20043985 ATTAAAATTTTCAAAAAGTATTAGAAGGTATA
1 ATTAAAATTTTCAAAAA-TTTTAGAAGGTATA
* * * * * *
20044017 ATTAGACTTTTAAAAAATTTGAGAGGGTCTA
1 ATTAAAATTTTCAAAAATTTTAGAAGGTATA
*
20044048 ATTAAAACTTTTTAAAA
1 ATTAAAA-TTTTCAAAA
20044065 GCCTTAAAGG
Statistics
Matches: 86, Mismatches: 20, Indels: 10
0.74 0.17 0.09
Matches are distributed among these distances:
30 22 0.26
31 15 0.17
32 42 0.49
33 6 0.07
34 1 0.01
ACGTcount: A:0.46, C:0.05, G:0.11, T:0.37
Consensus pattern (31 bp):
ATTAAAATTTTCAAAAATTTTAGAAGGTATA
Found at i:20049419 original size:24 final size:24
Alignment explanation
Indices: 20049392--20049443 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
20049382 TTAGTAAGTC
*
20049392 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
20049416 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
20049440 AAAT
1 AAAT
20049444 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:20051389 original size:24 final size:24
Alignment explanation
Indices: 20051362--20051413 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
20051352 TTAGTAAGTC
*
20051362 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
20051386 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
20051410 AAAT
1 AAAT
20051414 TTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:20064806 original size:21 final size:20
Alignment explanation
Indices: 20064782--20064845 Score: 69
Period size: 21 Copynumber: 3.2 Consensus size: 20
20064772 TAGCCTTCGG
20064782 GCTTCCGTCTAGCACTTATGT
1 GCTTCCGT-TAGCACTTATGT
* * *
20064803 GCTTCAGTTAGC-CTT-CGG
1 GCTTCCGTTAGCACTTATGT
20064821 GCTTCCGTTTAGCACTTATGT
1 GCTTCCG-TTAGCACTTATGT
20064842 GCTT
1 GCTT
20064846 GAGCTAGACT
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
18 7 0.21
19 8 0.24
20 7 0.21
21 12 0.35
ACGTcount: A:0.12, C:0.27, G:0.22, T:0.39
Consensus pattern (20 bp):
GCTTCCGTTAGCACTTATGT
Found at i:20064807 original size:39 final size:39
Alignment explanation
Indices: 20064764--20064864 Score: 166
Period size: 39 Copynumber: 2.6 Consensus size: 39
20064754 ACTCTGGTGA
20064764 GCTTCAGTTAGCCTTCGGGCTTCCGTCTAGCACTTATGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTCTAGCACTTATGT
*
20064803 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTCTAGCACTTATGT
* * *
20064842 GCTTGAGCTAGACTTCGGGCTTC
1 GCTTCAGTTAGCCTTCGGGCTTC
20064865 AGATCACGAT
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 58 1.00
ACGTcount: A:0.13, C:0.27, G:0.25, T:0.36
Consensus pattern (39 bp):
GCTTCAGTTAGCCTTCGGGCTTCCGTCTAGCACTTATGT
Found at i:20071674 original size:9 final size:9
Alignment explanation
Indices: 20071657--20071691 Score: 54
Period size: 9 Copynumber: 3.9 Consensus size: 9
20071647 GAATTTCGAG
20071657 TTCGAATAA
1 TTCGAATAA
20071666 CTT-GAATAA
1 -TTCGAATAA
20071675 TTCGAATAA
1 TTCGAATAA
20071684 TTCGAATA
1 TTCGAATA
20071692 TCAAACTATA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
8 2 0.08
9 20 0.83
10 2 0.08
ACGTcount: A:0.43, C:0.11, G:0.11, T:0.34
Consensus pattern (9 bp):
TTCGAATAA
Found at i:20072590 original size:5 final size:5
Alignment explanation
Indices: 20072580--20072605 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
20072570 AAACAAATAT
20072580 ATTCG ATTCG ATTCG ATTCG ATTCG A
1 ATTCG ATTCG ATTCG ATTCG ATTCG A
20072606 ATTCCATCTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.23, C:0.19, G:0.19, T:0.38
Consensus pattern (5 bp):
ATTCG
Found at i:20073072 original size:33 final size:33
Alignment explanation
Indices: 20073005--20073072 Score: 100
Period size: 33 Copynumber: 2.1 Consensus size: 33
20072995 TCAAGGCCGC
* *
20073005 CATCATAGTCTCAATGGCATCAGCCTTACCAGT
1 CATCATAGCCTCAATGGCATCAGCCCTACCAGT
* *
20073038 CATCATAGCCTCAATGGCATCATCCCTACTAGT
1 CATCATAGCCTCAATGGCATCAGCCCTACCAGT
20073071 CA
1 CA
20073073 GCTTTTCAAC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.28, C:0.32, G:0.13, T:0.26
Consensus pattern (33 bp):
CATCATAGCCTCAATGGCATCAGCCCTACCAGT
Found at i:20073726 original size:22 final size:24
Alignment explanation
Indices: 20073696--20073739 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
20073686 CTATCTAGAT
20073696 ATCAAATC-TCT-AAGATTACAGA
1 ATCAAATCTTCTAAAGATTACAGA
*
20073718 ATCATATCTTCTAAAGATTACA
1 ATCAAATCTTCTAAAGATTACA
20073740 TTTAATGTCT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 7 0.37
23 3 0.16
24 9 0.47
ACGTcount: A:0.43, C:0.18, G:0.07, T:0.32
Consensus pattern (24 bp):
ATCAAATCTTCTAAAGATTACAGA
Found at i:20081100 original size:31 final size:31
Alignment explanation
Indices: 20081057--20081118 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 31
20081047 TGTATTGATG
*
20081057 TATTAAATTATTTAAATATATTTTATCATTA
1 TATTAAATTATTTAAATATAATTTATCATTA
*
20081088 TATT-AATGTATTTAAATATAATTTATTATTA
1 TATTAAAT-TATTTAAATATAATTTATCATTA
20081119 GATTTAAGTT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 3 0.11
31 25 0.89
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.55
Consensus pattern (31 bp):
TATTAAATTATTTAAATATAATTTATCATTA
Found at i:20081791 original size:31 final size:30
Alignment explanation
Indices: 20081749--20081859 Score: 84
Period size: 31 Copynumber: 3.6 Consensus size: 30
20081739 AGTGGAAAAG
*
20081749 TTTGAGTAAAAATATAAATTTAAAAATTAGA
1 TTTGAGAAAAAATA-AAATTTAAAAATTAGA
* **
20081780 TTTGAGAAAAAA-AAAGCTCGTTTAGAAAACGAG-
1 TTTGAGAAAAAATAAA----ATTTA-AAAATTAGA
* *
20081813 TTTGAGCAAAAATAAAAACTTAAAAATTAGA
1 TTTGAGAAAAAAT-AAAATTTAAAAATTAGA
20081844 TTTGAGAAAAAA-AAAA
1 TTTGAGAAAAAATAAAA
20081860 GCTCGTTTAG
Statistics
Matches: 62, Mismatches: 10, Indels: 18
0.69 0.11 0.20
Matches are distributed among these distances:
29 6 0.10
30 7 0.11
31 25 0.40
33 15 0.24
34 6 0.10
35 3 0.05
ACGTcount: A:0.56, C:0.05, G:0.14, T:0.26
Consensus pattern (30 bp):
TTTGAGAAAAAATAAAATTTAAAAATTAGA
Found at i:20081848 original size:64 final size:65
Alignment explanation
Indices: 20081747--20081885 Score: 237
Period size: 64 Copynumber: 2.2 Consensus size: 65
20081737 AAAGTGGAAA
* * *
20081747 AGTTTGAGTAAAAATATAAATTTAAAAATTAGATTTGAG-AAAAAAAAAGCTCGTTTAGAAAACG
1 AGTTTGAGCAAAAATAAAAACTTAAAAATTAGATTTGAGAAAAAAAAAAGCTCGTTTAGAAAACG
20081811 AGTTTGAGCAAAAATAAAAACTTAAAAATTAGATTTGAGAAAAAAAAAAGCTCGTTTAGAAAACG
1 AGTTTGAGCAAAAATAAAAACTTAAAAATTAGATTTGAGAAAAAAAAAAGCTCGTTTAGAAAACG
20081876 AGTTTG-GCAA
1 AGTTTGAGCAA
20081886 TATATTTTTA
Statistics
Matches: 71, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
64 40 0.56
65 31 0.44
ACGTcount: A:0.51, C:0.06, G:0.17, T:0.26
Consensus pattern (65 bp):
AGTTTGAGCAAAAATAAAAACTTAAAAATTAGATTTGAGAAAAAAAAAAGCTCGTTTAGAAAACG
Found at i:20091570 original size:2 final size:2
Alignment explanation
Indices: 20091563--20091601 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
20091553 AGTCATGTGA
20091563 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
20091602 AGTGGGTTTG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:20094718 original size:14 final size:14
Alignment explanation
Indices: 20094699--20094732 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
20094689 GACATTTTTT
*
20094699 TTCTAATGATATTA
1 TTCTAATGATACTA
20094713 TTCTAATGATACTA
1 TTCTAATGATACTA
20094727 TTCTAA
1 TTCTAA
20094733 CATGTAATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.35, C:0.12, G:0.06, T:0.47
Consensus pattern (14 bp):
TTCTAATGATACTA
Found at i:20095954 original size:14 final size:14
Alignment explanation
Indices: 20095935--20095963 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
20095925 TGGAACAAAC
20095935 TTTGTAATATAAAT
1 TTTGTAATATAAAT
20095949 TTTGTAATATAAAT
1 TTTGTAATATAAAT
20095963 T
1 T
20095964 AAATACATTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (14 bp):
TTTGTAATATAAAT
Found at i:20096001 original size:62 final size:62
Alignment explanation
Indices: 20095844--20096012 Score: 218
Period size: 62 Copynumber: 2.7 Consensus size: 62
20095834 AATTAGATTA
** *
20095844 ATTACAACATTAAAACTTGGAACAAACTTTGTTGTCATAAATTAATTAATTGCAACATTATAAC
1 ATTACAACATTAAAACTTGGAACAAACTTTGTAAT-ATAAATTAATTAATT-CAACATTAAAAC
*
20095908 ATTACAACATTAAAACTTGGAACAAACTTTGTAATATAAATT-TTGTAATAT-AA-ATTAAATAC
1 ATTACAACATTAAAACTTGGAACAAACTTTGTAATATAAATTAAT-TAAT-TCAACATTAAA-AC
* *
20095970 ATTGCAACATTAAAACTTGGAACGAACTTTGTAATATAAATTA
1 ATTACAACATTAAAACTTGGAACAAACTTTGTAATATAAATTA
20096013 GGTACGTTGG
Statistics
Matches: 95, Mismatches: 6, Indels: 9
0.86 0.05 0.08
Matches are distributed among these distances:
61 5 0.05
62 45 0.47
63 11 0.12
64 34 0.36
ACGTcount: A:0.46, C:0.12, G:0.08, T:0.34
Consensus pattern (62 bp):
ATTACAACATTAAAACTTGGAACAAACTTTGTAATATAAATTAATTAATTCAACATTAAAAC
Found at i:20100322 original size:19 final size:19
Alignment explanation
Indices: 20100282--20100323 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
20100272 CATAATTTAA
*
20100282 AATGAAAATTTTAAGAAAT
1 AATGAAAATTGTAAGAAAT
*
20100301 AATGAAAGTTGTAA-AAATT
1 AATGAAAATTGTAAGAAA-T
20100320 AATG
1 AATG
20100324 TTTTAAAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 3 0.15
19 17 0.85
ACGTcount: A:0.55, C:0.00, G:0.14, T:0.31
Consensus pattern (19 bp):
AATGAAAATTGTAAGAAAT
Found at i:20100539 original size:21 final size:21
Alignment explanation
Indices: 20100491--20100539 Score: 89
Period size: 21 Copynumber: 2.3 Consensus size: 21
20100481 AACAGTTTTA
*
20100491 ATAACGAAAGGACTTGATGAT
1 ATAACGTAAGGACTTGATGAT
20100512 ATAACGTAAGGACTTGATGAT
1 ATAACGTAAGGACTTGATGAT
20100533 ATAACGT
1 ATAACGT
20100540 CAATAGTTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.41, C:0.10, G:0.22, T:0.27
Consensus pattern (21 bp):
ATAACGTAAGGACTTGATGAT
Found at i:20105259 original size:20 final size:19
Alignment explanation
Indices: 20105231--20105305 Score: 80
Period size: 20 Copynumber: 3.8 Consensus size: 19
20105221 TTTTAAAATA
*
20105231 AAGTGAAAATGATTTTAACC
1 AAGTCAAAATGATTTTAA-C
*
20105251 AAGTCAAAATGATTTTCATC
1 AAGTCAAAATGATTTT-AAC
* *
20105271 AAGTTAAAATCATTTTAAC
1 AAGTCAAAATGATTTTAAC
20105290 ATA-TCAAAATGATTTT
1 A-AGTCAAAATGATTTT
20105306 CAAAAAAGTT
Statistics
Matches: 46, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
19 14 0.30
20 31 0.67
21 1 0.02
ACGTcount: A:0.44, C:0.11, G:0.09, T:0.36
Consensus pattern (19 bp):
AAGTCAAAATGATTTTAAC
Found at i:20105305 original size:39 final size:40
Alignment explanation
Indices: 20105231--20105307 Score: 113
Period size: 39 Copynumber: 1.9 Consensus size: 40
20105221 TTTTAAAATA
*
20105231 AAGTGAAAATGATTTTAACCAAGTCAAAATGATTTTCATC
1 AAGTGAAAATCATTTTAACCAAGTCAAAATGATTTTCATC
*
20105271 AAGTTAAAATCATTTTAA-CATA-TCAAAATGATTTTCA
1 AAGTGAAAATCATTTTAACCA-AGTCAAAATGATTTTCA
20105308 AAAAAGTTAG
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
39 17 0.50
40 17 0.50
ACGTcount: A:0.44, C:0.12, G:0.09, T:0.35
Consensus pattern (40 bp):
AAGTGAAAATCATTTTAACCAAGTCAAAATGATTTTCATC
Found at i:20105315 original size:40 final size:41
Alignment explanation
Indices: 20105220--20105316 Score: 110
Period size: 40 Copynumber: 2.4 Consensus size: 41
20105210 TATTGAAACA
* * *
20105220 ATTTTAAAATAAAGTGAAAATGATTTTAACCAAGTCAAAATG
1 ATTTTCAAA-AAAGTTAAAATCATTTTAACCAAGTCAAAATG
**
20105262 ATTTTC-ATCAAGTTAAAATCATTTTAA-CATA-TCAAAATG
1 ATTTTCAAAAAAGTTAAAATCATTTTAACCA-AGTCAAAATG
20105301 ATTTTCAAAAAAGTTA
1 ATTTTCAAAAAAGTTA
20105317 GAATTGCTCT
Statistics
Matches: 46, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
39 16 0.35
40 24 0.52
41 1 0.02
42 5 0.11
ACGTcount: A:0.47, C:0.09, G:0.08, T:0.35
Consensus pattern (41 bp):
ATTTTCAAAAAAGTTAAAATCATTTTAACCAAGTCAAAATG
Found at i:20105483 original size:20 final size:22
Alignment explanation
Indices: 20105460--20105499 Score: 66
Period size: 20 Copynumber: 1.9 Consensus size: 22
20105450 TTTTACCGAT
20105460 ATCGATA-CTTTC-TAAAAATA
1 ATCGATACCTTTCTTAAAAATA
20105480 ATCGATACCTTTCTTAAAAA
1 ATCGATACCTTTCTTAAAAA
20105500 CGATACGAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 7 0.39
21 5 0.28
22 6 0.33
ACGTcount: A:0.42, C:0.17, G:0.05, T:0.35
Consensus pattern (22 bp):
ATCGATACCTTTCTTAAAAATA
Found at i:20109483 original size:47 final size:49
Alignment explanation
Indices: 20109401--20109536 Score: 176
Period size: 46 Copynumber: 2.9 Consensus size: 49
20109391 CAGGTGTTCG
*
20109401 CATCCATAAGTGAACTCGGACTCAACTCAAAGAGTTCGGATGCCTAGTTA
1 CATCCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCC-AGTTA
* * * *
20109451 CAT-C-TCA-TGAACTCGGATTCAACTCAACGAGTTCGGA---CATTTG
1 CATCCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCAGTTA
20109494 CATCCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGC
1 CATCCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGC
20109537 TCAACCATCC
Statistics
Matches: 73, Mismatches: 7, Indels: 13
0.78 0.08 0.14
Matches are distributed among these distances:
43 6 0.08
44 2 0.03
45 2 0.03
46 29 0.40
47 28 0.38
48 2 0.03
49 1 0.01
50 3 0.04
ACGTcount: A:0.30, C:0.26, G:0.20, T:0.24
Consensus pattern (49 bp):
CATCCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCAGTTA
Found at i:20109522 original size:46 final size:46
Alignment explanation
Indices: 20109361--20109533 Score: 174
Period size: 46 Copynumber: 3.7 Consensus size: 46
20109351 TAACCCGCCC
* * * ** *
20109361 TAAGTGAACTCGGACTGAAATCAACGAGCTCAGG-TGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTC-GGACATTTGCATCCA
* * *
20109407 TAAGTGAACTCGGACTCAACTCAAAGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCATCCA
* *
20109455 TCA-TGAACTCGGATTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
20109500 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
20109534 TGCTCAACCA
Statistics
Matches: 103, Mismatches: 16, Indels: 16
0.76 0.12 0.12
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 4 0.04
46 56 0.54
47 28 0.27
48 2 0.02
49 1 0.01
50 4 0.04
ACGTcount: A:0.31, C:0.24, G:0.21, T:0.24
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
Found at i:20109552 original size:46 final size:45
Alignment explanation
Indices: 20109409--20109552 Score: 127
Period size: 46 Copynumber: 3.1 Consensus size: 45
20109399 CGCATCCATA
*
20109409 AGTGAACTCGGACTCAACTCAAAGAGTTCGGATGC-CTAGTTA-CATCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACCATCT
* * * *
20109456 CA-TGAACTCGGATTCAACTCAACGAGTTCGGACAT-TTGCATCCAT-A
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGCT-CAACCATCT
20109502 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCAT-CT
20109548 AGTGA
1 AGTGA
20109553 CATGTCACTT
Statistics
Matches: 78, Mismatches: 9, Indels: 20
0.73 0.08 0.19
Matches are distributed among these distances:
44 8 0.10
45 2 0.03
46 33 0.42
47 30 0.38
48 1 0.01
49 3 0.04
50 1 0.01
ACGTcount: A:0.30, C:0.26, G:0.20, T:0.24
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCT
Found at i:20109989 original size:30 final size:30
Alignment explanation
Indices: 20109955--20110014 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
20109945 ATTTAATACG
20109955 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * * *
20109985 AACTTTTGCATAATTACGCTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
20110015 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.28, C:0.25, G:0.10, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:20117000 original size:91 final size:91
Alignment explanation
Indices: 20116891--20117058 Score: 302
Period size: 91 Copynumber: 1.8 Consensus size: 91
20116881 CGCCCTAAGT
*
20116891 GAACTCGGACTCAACTCAACGAGCTCGG-CGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATT-GCATCCATAAGTGAACTCGGACTCAACTCAA
20116955 CGAGTTCGGATGCCTAGTTACATTCAC
65 CGAGTTCGGATGCCTAGTTACATTCAC
*
20116982 GAACTCGGACTCAACTCAACGAGTTCGGACATTGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTGCATCCATAAGTGAACTCGGACTCAACTCAAC
20117047 GAGTTCGGATGC
66 GAGTTCGGATGC
20117059 TCAACCATCC
Statistics
Matches: 74, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
91 71 0.96
92 3 0.04
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (91 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTGCATCCATAAGTGAACTCGGACTCAACTCAAC
GAGTTCGGATGCCTAGTTACATTCAC
Found at i:20117055 original size:45 final size:45
Alignment explanation
Indices: 20116886--20117055 Score: 211
Period size: 45 Copynumber: 3.8 Consensus size: 45
20116876 TAACCCGCCC
* *
20116886 TAAGTGAACTCGGACTCAACTCAACGAGCTCGG-CGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATT-GCATCCA
* * * *
20116931 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAG-TTACA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA--CATTGCATCCA
* *
20116977 TTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTGCATCCA
1 -TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTGCATCCA
20117022 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
20117056 TGCTCAACCA
Statistics
Matches: 106, Mismatches: 13, Indels: 12
0.81 0.10 0.09
Matches are distributed among these distances:
44 5 0.05
45 64 0.60
46 32 0.30
47 3 0.03
48 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (45 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTGCATCCA
Found at i:20123902 original size:44 final size:43
Alignment explanation
Indices: 20123753--20123919 Score: 158
Period size: 44 Copynumber: 3.8 Consensus size: 43
20123743 TAACCCCCCC
* * *
20123753 TAAGTGAACTCGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGACTCAACTCAACGAGTTCGGACATT--CATCCA
* * ***
20123798 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGCCTAGT
1 TAAGTGAACTC-GACTCAACTCAACGAGTTCGGACATTCATCCA
* * *
20123840 TACATTTCACAGTCGACTCAACTCAACGAGTTCGGACATTCATCCA
1 TA-A-GTGA-ACTCGACTCAACTCAACGAGTTCGGACATTCATCCA
20123886 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTC-GACTCAACTCAACGAGTTCGGA
20123920 TGCTCAACCA
Statistics
Matches: 97, Mismatches: 18, Indels: 15
0.75 0.14 0.12
Matches are distributed among these distances:
42 4 0.04
43 4 0.04
44 48 0.49
45 15 0.15
46 26 0.27
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (43 bp):
TAAGTGAACTCGACTCAACTCAACGAGTTCGGACATTCATCCA
Found at i:20159450 original size:18 final size:19
Alignment explanation
Indices: 20159423--20159458 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
20159413 ATCAATACCG
20159423 TTTTAAAAA-TATTGATAA
1 TTTTAAAAATTATTGATAA
*
20159441 TTTTATAAATTATTGATA
1 TTTTAAAAATTATTGATA
20159459 CTTATGAGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (19 bp):
TTTTAAAAATTATTGATAA
Found at i:20159456 original size:19 final size:18
Alignment explanation
Indices: 20159423--20159458 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
20159413 ATCAATACCG
20159423 TTTTAAAAATATTGATAA
1 TTTTAAAAATATTGATAA
*
20159441 TTTTATAAATTATTGATA
1 TTTTA-AAAATATTGATA
20159459 CTTATGAGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (18 bp):
TTTTAAAAATATTGATAA
Found at i:20160480 original size:22 final size:22
Alignment explanation
Indices: 20160455--20160527 Score: 119
Period size: 22 Copynumber: 3.3 Consensus size: 22
20160445 TAGCAATAAG
* *
20160455 GTGCTATATAGAGAGCACGAAT
1 GTGCTAAACAGAGAGCACGAAT
20160477 GTGCTAAACAGAGAGCACGAAT
1 GTGCTAAACAGAGAGCACGAAT
*
20160499 GTGCTAAACAGAGAGCACTAAT
1 GTGCTAAACAGAGAGCACGAAT
20160521 GTGCTAA
1 GTGCTAA
20160528 TAATCAGATA
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 48 1.00
ACGTcount: A:0.38, C:0.16, G:0.26, T:0.19
Consensus pattern (22 bp):
GTGCTAAACAGAGAGCACGAAT
Found at i:20164005 original size:20 final size:19
Alignment explanation
Indices: 20163982--20164051 Score: 68
Period size: 20 Copynumber: 3.5 Consensus size: 19
20163972 CAAGTGAAAA
20163982 TCAACCAAGTCAAAATGATT
1 TCAA-CAAGTCAAAATGATT
* *
20164002 TCAATCAAGTTAAAATCATT
1 TCAA-CAAGTCAAAATGATT
* *
20164022 TTAACACGTCAAAATGATTT
1 TCAACAAGTCAAAATGA-TT
20164042 TCAAACAAGT
1 TC-AACAAGT
20164052 TAGAATTGCT
Statistics
Matches: 39, Mismatches: 9, Indels: 3
0.76 0.18 0.06
Matches are distributed among these distances:
19 10 0.26
20 23 0.59
21 6 0.15
ACGTcount: A:0.44, C:0.17, G:0.09, T:0.30
Consensus pattern (19 bp):
TCAACAAGTCAAAATGATT
Found at i:20164041 original size:19 final size:20
Alignment explanation
Indices: 20163987--20164042 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 20
20163977 GAAAATCAAC
*
20163987 CAAGTCAAAATGATTTCAAT
1 CAAGTCAAAATGATTTTAAT
* *
20164007 CAAGTTAAAATCATTTTAA-
1 CAAGTCAAAATGATTTTAAT
*
20164026 CACGTCAAAATGATTTT
1 CAAGTCAAAATGATTTT
20164043 CAAACAAGTT
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
19 14 0.47
20 16 0.53
ACGTcount: A:0.43, C:0.14, G:0.09, T:0.34
Consensus pattern (20 bp):
CAAGTCAAAATGATTTTAAT
Found at i:20167479 original size:16 final size:16
Alignment explanation
Indices: 20167458--20167493 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 16
20167448 TAGTAGACAT
20167458 TATAATAT-AGTTAACA
1 TATAATATCA-TTAACA
20167474 TATAATATCATTAACA
1 TATAATATCATTAACA
20167490 TATA
1 TATA
20167494 TGAAATTACA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 18 0.95
17 1 0.05
ACGTcount: A:0.50, C:0.08, G:0.03, T:0.39
Consensus pattern (16 bp):
TATAATATCATTAACA
Found at i:20170602 original size:57 final size:57
Alignment explanation
Indices: 20170481--20170600 Score: 163
Period size: 57 Copynumber: 2.1 Consensus size: 57
20170471 TTCTCATTTT
*
20170481 CATTTTCATTTCCATTTTGGAGAAAACCACATTCATTTCCAAATGATTTTATTTCTC
1 CATTTTCATTTCCATTTTGGAGAAAACCACAATCATTTCCAAATGATTTTATTTCTC
* **
20170538 CATTTTCATTTTCC-TTTTGGAGATAACCTTAATCATTTCCAAATG-TTTCATATTTCTC
1 CATTTTCA-TTTCCATTTTGGAGAAAACCACAATCATTTCCAAATGATTT--TATTTCTC
20170596 CATTT
1 CATTT
20170601 CACCATTTCT
Statistics
Matches: 56, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
56 3 0.05
57 35 0.62
58 18 0.32
ACGTcount: A:0.26, C:0.21, G:0.07, T:0.47
Consensus pattern (57 bp):
CATTTTCATTTCCATTTTGGAGAAAACCACAATCATTTCCAAATGATTTTATTTCTC
Found at i:20176421 original size:29 final size:29
Alignment explanation
Indices: 20176367--20176464 Score: 117
Period size: 29 Copynumber: 3.4 Consensus size: 29
20176357 CCTGTATCTA
* * *
20176367 GCCCATTAAGCCC-AATCATATTCATATG
1 GCCCATTAGGCCCAAATCACATGCATATG
* * *
20176395 GCCCATTAGGTCTAAATCACCTGCATATG
1 GCCCATTAGGCCCAAATCACATGCATATG
**
20176424 GCCCATTAGGCCCAAATCACATTTATATG
1 GCCCATTAGGCCCAAATCACATGCATATG
20176453 GCCCATTAGGCC
1 GCCCATTAGGCC
20176465 TAGTCACATT
Statistics
Matches: 58, Mismatches: 11, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
28 10 0.17
29 48 0.83
ACGTcount: A:0.29, C:0.30, G:0.15, T:0.27
Consensus pattern (29 bp):
GCCCATTAGGCCCAAATCACATGCATATG
Found at i:20177816 original size:16 final size:16
Alignment explanation
Indices: 20177789--20177838 Score: 64
Period size: 16 Copynumber: 3.1 Consensus size: 16
20177779 AAAAATTCAA
*
20177789 GATTTCGGGATTTTTG
1 GATTTCGAGATTTTTG
*
20177805 GATTTTGAGATTTTTG
1 GATTTCGAGATTTTTG
* *
20177821 GGTTTCGGGATTTTTG
1 GATTTCGAGATTTTTG
20177837 GA
1 GA
20177839 GCATTACATA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
16 28 1.00
ACGTcount: A:0.14, C:0.04, G:0.32, T:0.50
Consensus pattern (16 bp):
GATTTCGAGATTTTTG
Found at i:20179221 original size:30 final size:30
Alignment explanation
Indices: 20179181--20179237 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
20179171 AGACTAATTA
* *
20179181 CACACGGGCTGAG-CACACGCCCGTGTGAGG
1 CACACAGGCTG-GCCACACGCCCATGTGAGG
20179211 CACACAGGCTGGCCACACGCCCATGTG
1 CACACAGGCTGGCCACACGCCCATGTG
20179238 GCAGCCCGTG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 1 0.04
30 23 0.96
ACGTcount: A:0.21, C:0.37, G:0.32, T:0.11
Consensus pattern (30 bp):
CACACAGGCTGGCCACACGCCCATGTGAGG
Found at i:20181812 original size:166 final size:167
Alignment explanation
Indices: 20181529--20181862 Score: 474
Period size: 166 Copynumber: 2.0 Consensus size: 167
20181519 CTTCACATAG
** * * * *
20181529 ACACTACGAGTTTCTAGCAATGTTGTTTGGGCTAACCAATGCCCAATCCACTTTTATGGATTTGA
1 ACACTACGAGTTTCTAGCAATGTCATTTGGACTAAACAACGCCCAATCCACTTTTATGGATCTGA
** * * * *
20181594 TGAACATAATTTTTCATTTGTATTTTTATAGATTTTTTGTTGTGTTCATAGATTATATATTTATC
66 TGAACATAATTTTTCATTTGTATTTGGATAAATTTGTTGTTGTGTTCATAGATGATATATTAATC
20181659 TACTC-AAAAAATAAAAATGATCATGATCAGCATCTA
131 TACTCAAAAAAATAAAAATGATCATGATCAGCATCTA
* * *
20181695 ACACTAGGGGTTTCTAGTAATGTCATTTGGACTAAACAACGCCCAATCCACTTTTATGGATCTGA
1 ACACTACGAGTTTCTAGCAATGTCATTTGGACTAAACAACGCCCAATCCACTTTTATGGATCTGA
*
20181760 TGAACATAATTTTTCATGTT-TATTTGGATAAATTTGTTGTTGTTTTCATAGATGATATATTAAT
66 TGAACATAATTTTTCAT-TTGTATTTGGATAAATTTGTTGTTGTGTTCATAGATGATATATTAAT
* * *
20181824 CTACTCAAAAAAATGAAAATGATCATGATTAGTATCTA
130 CTACTCAAAAAAATAAAAATGATCATGATCAGCATCTA
20181862 A
1 A
20181863 GAGTTTTACT
Statistics
Matches: 147, Mismatches: 19, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
166 116 0.79
167 31 0.21
ACGTcount: A:0.33, C:0.14, G:0.14, T:0.40
Consensus pattern (167 bp):
ACACTACGAGTTTCTAGCAATGTCATTTGGACTAAACAACGCCCAATCCACTTTTATGGATCTGA
TGAACATAATTTTTCATTTGTATTTGGATAAATTTGTTGTTGTGTTCATAGATGATATATTAATC
TACTCAAAAAAATAAAAATGATCATGATCAGCATCTA
Found at i:20182050 original size:162 final size:163
Alignment explanation
Indices: 20181782--20182111 Score: 617
Period size: 162 Copynumber: 2.0 Consensus size: 163
20181772 TTCATGTTTA
20181782 TTTGGATAAATTTGTTGTTGTTTTCATAGATGATATATTAATCTACTCAAAAAAATGAAAATGAT
1 TTTGGATAAATTTGTTGTTGTTTTCATAGATGATATATTAATCTACTCAAAAAAATGAAAATGAT
*
20181847 CATGATTAGTATCTAAGAGTTTTACTACAAACCTTGCAAGAAAAATAATTGTTTTCAAAAGTCTA
66 CATGATTAGTATCTAAGAGTTTTACAACAAACCTTGCAAGAAAAATAATTGTTTTCAAAAGTCTA
20181912 CAAATGTGAGTTCTGGCTACGAGAAGTGAGATT
131 CAAATGTGAGTTCTGGCTACGAGAAGTGAGATT
20181945 TTTGGATAAATTTGTTGTTGTTTTCATAGATGATATATTAATCTACTC-AAAAAATGAAAATGAT
1 TTTGGATAAATTTGTTGTTGTTTTCATAGATGATATATTAATCTACTCAAAAAAATGAAAATGAT
*
20182009 CATGATTAGTATCTAATAGTTTTACAACAAACCTTGCAAGAAAAATAATTGTTTTCAAAAGTCTA
66 CATGATTAGTATCTAAGAGTTTTACAACAAACCTTGCAAGAAAAATAATTGTTTTCAAAAGTCTA
* *
20182074 CAAATGTGAGTTTTGGCTACGAGAAGTGGGATT
131 CAAATGTGAGTTCTGGCTACGAGAAGTGAGATT
20182107 TTTGG
1 TTTGG
20182112 GTTACCTAAT
Statistics
Matches: 163, Mismatches: 4, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
162 115 0.71
163 48 0.29
ACGTcount: A:0.37, C:0.10, G:0.17, T:0.36
Consensus pattern (163 bp):
TTTGGATAAATTTGTTGTTGTTTTCATAGATGATATATTAATCTACTCAAAAAAATGAAAATGAT
CATGATTAGTATCTAAGAGTTTTACAACAAACCTTGCAAGAAAAATAATTGTTTTCAAAAGTCTA
CAAATGTGAGTTCTGGCTACGAGAAGTGAGATT
Found at i:20184638 original size:14 final size:15
Alignment explanation
Indices: 20184601--20184652 Score: 63
Period size: 15 Copynumber: 3.5 Consensus size: 15
20184591 TGATTAAGAT
20184601 TAATTAATTATAGTT-
1 TAATTAATTA-AGTTA
20184616 TAAATTAATTAA-TTA
1 T-AATTAATTAAGTTA
*
20184631 TGATTAATTAAGTTA
1 TAATTAATTAAGTTA
20184646 TAATTAA
1 TAATTAA
20184653 AGTATATAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
14 11 0.34
15 12 0.38
16 9 0.28
ACGTcount: A:0.46, C:0.00, G:0.06, T:0.48
Consensus pattern (15 bp):
TAATTAATTAAGTTA
Found at i:20185741 original size:19 final size:19
Alignment explanation
Indices: 20185717--20185753 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
20185707 TCTATAAATA
20185717 TCAGCTTGTGTGAGCAATG
1 TCAGCTTGTGTGAGCAATG
20185736 TCAGCTTGTGTGAGCAAT
1 TCAGCTTGTGTGAGCAAT
20185754 ATAGTCTCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.22, C:0.16, G:0.30, T:0.32
Consensus pattern (19 bp):
TCAGCTTGTGTGAGCAATG
Found at i:20196188 original size:12 final size:12
Alignment explanation
Indices: 20196173--20196199 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
20196163 GTCACACACA
20196173 GCCTACCACATG
1 GCCTACCACATG
20196185 GCCTACCACATG
1 GCCTACCACATG
20196197 GCC
1 GCC
20196200 GTGTGGTGTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.22, C:0.44, G:0.19, T:0.15
Consensus pattern (12 bp):
GCCTACCACATG
Found at i:20206913 original size:23 final size:23
Alignment explanation
Indices: 20206887--20206984 Score: 153
Period size: 23 Copynumber: 4.3 Consensus size: 23
20206877 ATAAGTGCCA
20206887 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
20206910 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
20206933 CACTG-GATGTAGCCAAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
20206955 CACTGAAATGTAGCCGAAGCTGC
1 CACTGATATGTAGCCGAAGCTAC
20206978 CACTGAT
1 CACTGAT
20206985 CAATAACACT
Statistics
Matches: 68, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
22 20 0.29
23 48 0.71
ACGTcount: A:0.31, C:0.27, G:0.22, T:0.20
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:20206952 original size:45 final size:45
Alignment explanation
Indices: 20206894--20206982 Score: 151
Period size: 45 Copynumber: 2.0 Consensus size: 45
20206884 CCACACTGAT
* *
20206894 ATGTAGCCGAAGCTACCACTGATATGTAGCCGAAGCTACCACTGG
1 ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTGG
*
20206939 ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTGCCACTG
1 ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTG
20206983 ATCAATAACA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.30, C:0.27, G:0.24, T:0.19
Consensus pattern (45 bp):
ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTGG
Found at i:20208510 original size:20 final size:20
Alignment explanation
Indices: 20208472--20208512 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
20208462 CATGAACAAT
**
20208472 TTTGTGCCTACTAACACTAA
1 TTTGTGCCTAAAAACACTAA
*
20208492 TTTGTGCCTAAAAAGACTAA
1 TTTGTGCCTAAAAACACTAA
20208512 T
1 T
20208513 GGCTGATGCA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.34, C:0.20, G:0.12, T:0.34
Consensus pattern (20 bp):
TTTGTGCCTAAAAACACTAA
Found at i:20213402 original size:28 final size:29
Alignment explanation
Indices: 20213349--20213430 Score: 114
Period size: 29 Copynumber: 2.8 Consensus size: 29
20213339 CACGGCCAGG
*
20213349 TACATGGGCATGTG-GCTAGGCCGTGTGAGC
1 TACACGGGCATGTGAG--AGGCCGTGTGAGC
20213379 TACA-GGGCATGTGAGAGGCCGTGTGAGC
1 TACACGGGCATGTGAGAGGCCGTGTGAGC
*
20213407 CACACGGGCATGTGAGAGGCCGTG
1 TACACGGGCATGTGAGAGGCCGTG
20213431 CGACTGGCCG
Statistics
Matches: 49, Mismatches: 1, Indels: 5
0.89 0.02 0.09
Matches are distributed among these distances:
28 16 0.33
29 28 0.57
30 5 0.10
ACGTcount: A:0.20, C:0.21, G:0.41, T:0.18
Consensus pattern (29 bp):
TACACGGGCATGTGAGAGGCCGTGTGAGC
Found at i:20225948 original size:43 final size:44
Alignment explanation
Indices: 20225611--20226311 Score: 303
Period size: 44 Copynumber: 15.6 Consensus size: 44
20225601 CTTTGATTTA
* * * *
20225611 CTCCACTGCAACTTCAGGGAGATAAGAATCGTAACTTCAACCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTTAATCTG
* * * * ** *
20225655 CTCTACTACAACTTTAGGGAGATGAGGTTTGTGACTTTAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTTAATCTG
* * * *
20225699 CTCCATTGCAACTTCAGGGAGATAAAATTTGCCATGGTAGA-TTTGATCTG
1 CTCCACTGCAACTTCAGGGAGAT--AA---GAC-TTGTA-ACTTTAATCTG
* * * * * ** * *
20225749 AC-CTACTACGACTTCAGAGG-TATAGGGTTTGTAGCTTTAATCTA
1 -CTCCACTGCAACTTCAG-GGAGATAAGACTTGTAACTTTAATCTG
* * * * ** *
20225793 CTCTATTGCAACTTCAGAGAGATAAGATTTGCTATTTTTAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTG-TAACTTTAATCTG
* * *
20225838 TTCCGCTGCAACTTCAGGGAGATAAGACTTGTAACTTCAA-CTTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTTAATC-TG
* * *
20225882 CTCCACTGCATCTTCAGGAAGATAGGACTTGT-ACTTTAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTTAATCTG
* * * *
20225925 CTCCACTGTAACTTTAGGGAGATAAGATTCGCCATGGTAGA-TTTGATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGA-----C-TTGTA-ACTTTAATCTG
* ** * * ** * * *
20225975 AC-CTACTGCGGCTTCAGAGG-TATAGGGTTTATAGCTTTAATCTA
1 -CTCCACTGCAACTTCAG-GGAGATAAGACTTGTAACTTTAATCTG
* * * * * * * *
20226019 CTCTACTACAACCTGAGAGAGATAAGATTTGCT-ATTTTCAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTG-TAACTTT-AATCTG
* * * * * *
20226064 TTTCACTGCAACTTCAGGGAGATAAAACTTGTAACTTCAACCCG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTTAATCTG
* * * *
20226108 CTCCACTGCATCTTCAAGGAGATAGGACTTGT-ACTTTAACCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTTAATCTG
* * ** * **
20226151 CCCCACTGCAACTTCAGGGGGATAAGGTTTGCTATCTTCGATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTG-TAACTTTAATCTG
* * * * *
20226196 TTCCACTGCAACTTCAGGAATATAAGA-TCTGTGACTTCAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACT-TGTAACTTTAATCTG
* * * *
20226240 CTCCGCTGCAACTTCAGAGAGACAAGA-TT-TACGACTTAAAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGTA--ACTT-TAATCTG
20226285 CTCCACTGCAACTTCAGGGAGATAAGA
1 CTCCACTGCAACTTCAGGGAGATAAGA
20226312 TTCACTATGG
Statistics
Matches: 473, Mismatches: 147, Indels: 73
0.68 0.21 0.11
Matches are distributed among these distances:
42 1 0.00
43 69 0.15
44 217 0.46
45 125 0.26
46 1 0.00
48 2 0.00
49 4 0.01
50 46 0.10
51 8 0.02
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.31
Consensus pattern (44 bp):
CTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTTAATCTG
Found at i:20226012 original size:226 final size:225
Alignment explanation
Indices: 20225612--20226176 Score: 826
Period size: 226 Copynumber: 2.5 Consensus size: 225
20225602 TTTGATTTAC
* * * * * *
20225612 TCCACTGCAACTTCAGGGAGATAAGAATCGTAACTTCAACCTGCTCTACTACAACTTTAGGGAGA
1 TCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAACCTGCTCCACTGCATCTTCA-GGAGA
* * * *
20225677 TGAGG-TTTGTGACTTTAATCTGCTCCATTGCAACTTCAGGGAGATAAAATTTGCCATGGTAGAT
65 T-AGGACTTGT-ACTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCCATGGTAGAT
* * * *
20225741 TTGATCTGACCTACTACGACTTCAGAGGTATAGGGTTTGTAGCTTTAATCTACTCTATTGCAACT
128 TTGATCTGACCTACTACGACTTCAGAGGTATAGGGTTTATAGCTTTAATCTACTCTACTACAACC
*
20225806 TCAGAGAGATAAGATTTGCTATTTTTAGTCTGT
193 TCAGAGAGATAAGATTTGCTATTTTCAGTCTGT
* *
20225839 TCCGCTGCAACTTCAGGGAGATAAGACTTGTAACTTCAACTTGCTCCACTGCATCTTCAGGAAGA
1 TCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAACCTGCTCCACTGCATCTTCAGG-AGA
* *
20225904 TAGGACTTGTACTTTAATCTGCTCCACTGTAACTTTAGGGAGATAAGATTCGCCATGGTAGATTT
65 TAGGACTTGTACTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCCATGGTAGATTT
* * *
20225969 GATCTGACCTACTGCGGCTTCAGAGGTATAGGGTTTATAGCTTTAATCTACTCTACTACAACCTG
130 GATCTGACCTACTACGACTTCAGAGGTATAGGGTTTATAGCTTTAATCTACTCTACTACAACCTC
20226034 AGAGAGATAAGATTTGCTATTTTCAGTCTGT
195 AGAGAGATAAGATTTGCTATTTTCAGTCTGT
* * *
20226065 TTCACTGCAACTTCAGGGAGATAAAACTTGTAACTTCAACCCGCTCCACTGCATCTTCAAGGAGA
1 TCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAACCTGCTCCACTGCATCTTC-AGGAGA
* * *
20226130 TAGGACTTGTACTTTAACCTGCCCCACTGCAACTTCAGGGGGATAAG
65 TAGGACTTGTACTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAG
20226177 GTTTGCTATC
Statistics
Matches: 303, Mismatches: 32, Indels: 7
0.89 0.09 0.02
Matches are distributed among these distances:
226 241 0.80
227 62 0.20
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.31
Consensus pattern (225 bp):
TCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAACCTGCTCCACTGCATCTTCAGGAGAT
AGGACTTGTACTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCCATGGTAGATTTG
ATCTGACCTACTACGACTTCAGAGGTATAGGGTTTATAGCTTTAATCTACTCTACTACAACCTCA
GAGAGATAAGATTTGCTATTTTCAGTCTGT
Found at i:20226313 original size:45 final size:43
Alignment explanation
Indices: 20226067--20226313 Score: 196
Period size: 45 Copynumber: 5.6 Consensus size: 43
20226057 CAGTCTGTTT
* * *
20226067 CACTGCAACTTCAGGGAGATAAAACTTGTA-ACTTCAACCCGCTC
1 CACTGCAACTTCAGGGAGATAAGA-TT-TAGACTTCAATCTGCTC
* * * * * * *
20226111 CACTGCATCTTCAAGGAGATAGGACTT-GTACTTTAACCTGCCC
1 CACTGCAACTTCAGGGAGATAAGATTTAG-ACTTCAATCTGCTC
* * * *
20226154 CACTGCAACTTCAGGGGGATAAGGTTT-GCTATCTTCGATCTGTTC
1 CACTGCAACTTCAGGGAGATAAGATTTAG--A-CTTCAATCTGCTC
* *
20226199 CACTGCAACTTCAGGAATATAAGATCTGT-GACTTCAATCTGCTC
1 CACTGCAACTTCAGGGAGATAAGAT-T-TAGACTTCAATCTGCTC
* * * *
20226243 CGCTGCAACTTCAGAGAGACAAGATTTACGACTTAAAATCTGCTC
1 CACTGCAACTTCAGGGAGATAAGATTTA-GACTT-CAATCTGCTC
20226288 CACTGCAACTTCAGGGAGATAAGATT
1 CACTGCAACTTCAGGGAGATAAGATT
20226314 CACTATGGTG
Statistics
Matches: 160, Mismatches: 34, Indels: 17
0.76 0.16 0.08
Matches are distributed among these distances:
42 2 0.01
43 35 0.22
44 58 0.36
45 62 0.39
46 1 0.01
47 2 0.01
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.27
Consensus pattern (43 bp):
CACTGCAACTTCAGGGAGATAAGATTTAGACTTCAATCTGCTC
Found at i:20237888 original size:25 final size:26
Alignment explanation
Indices: 20237853--20237909 Score: 80
Period size: 25 Copynumber: 2.2 Consensus size: 26
20237843 TTTATTTTAT
*
20237853 TTTGGGTTTTATTTTTGTTTTATTGG
1 TTTGGGTTTTATTTTTGGTTTATTGG
*
20237879 TTTGGG-TTTATTTTTGGTTTGTTGG
1 TTTGGGTTTTATTTTTGGTTTATTGG
*
20237904 TCTGGG
1 TTTGGG
20237910 CCAAAATTGG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
25 22 0.79
26 6 0.21
ACGTcount: A:0.05, C:0.02, G:0.30, T:0.63
Consensus pattern (26 bp):
TTTGGGTTTTATTTTTGGTTTATTGG
Done.