Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007981.1 Hibiscus syriacus cultivar Beakdansim tig00110422_pilon, whole genome shotgun sequence
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: 1405786
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 7 of 8
Found at i:1138127 original size:43 final size:41
Alignment explanation
Indices: 1138036--1138161 Score: 110
Period size: 43 Copynumber: 3.0 Consensus size: 41
1138026 GTTTGTAAGT
* * **
1138036 AAAACGTCGCTAAATC-TCAACACCTACTGCGACGTTTGTAGGG
1 AAAACGTCGCTAAA-CATCAACACCTATTGCGGC-TTT-TTTGG
*
1138079 AAAACGTCGCTAAACATCAACACCTATTGCGGCATTTTTTTG
1 AAAACGTCGCTAAACATCAACACCTATTGCGGC-TTTTTTGG
* * * * *
1138121 ACAAACGCCGCTAAATAACAAAACCTATTGTGGCTTTTTTG
1 A-AAACGTCGCTAAACATCAACACCTATTGCGGCTTTTTTG
1138162 TTAGAAAACG
Statistics
Matches: 69, Mismatches: 12, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
42 10 0.14
43 59 0.86
ACGTcount: A:0.32, C:0.24, G:0.17, T:0.28
Consensus pattern (41 bp):
AAAACGTCGCTAAACATCAACACCTATTGCGGCTTTTTTGG
Found at i:1138131 original size:129 final size:128
Alignment explanation
Indices: 1137914--1138146 Score: 288
Period size: 129 Copynumber: 1.8 Consensus size: 128
1137904 ATACAAACAC
* * * *
1137914 CGCTAAATCTGAAAACCTAGTGCGACGTTTGTGGGAAAAATACCGCTAAACATCATCACATTTTG
1 CGCTAAATCTCAAAACCTACTGCGACGTTTGTGGGAAAAATA-CGCTAAACATCAACACATATTG
* * *
1137979 CGACGTTTGTGGGAAAAATGCCGCAAAATATCAAAACCTTCTACGGCGTTTGTAAGTAAAACGT
65 CGACATTTGTGGGAAAAACGCCGCAAAATAACAAAACCTTCTACGGCGTTTGTAAGTAAAACGT
* * *
1138043 CGCTAAATCTCAACACCTACTGCGACGTTTGTAGGGAAAACGT-CGCTAAACATCAACACCTATT
1 CGCTAAATCTCAAAACCTACTGCGACGTTTGT-GGGAAAA-ATACGCTAAACATCAACACATATT
* * ** * *
1138107 GCGGCATTTTTTTGACAAACGCCGCTAAATAACAAAACCT
64 GCGACATTTGTGGGAAAAACGCCGCAAAATAACAAAACCT
1138147 ATTGTGGCTT
Statistics
Matches: 86, Mismatches: 16, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
129 78 0.91
130 7 0.08
131 1 0.01
ACGTcount: A:0.34, C:0.23, G:0.18, T:0.25
Consensus pattern (128 bp):
CGCTAAATCTCAAAACCTACTGCGACGTTTGTGGGAAAAATACGCTAAACATCAACACATATTGC
GACATTTGTGGGAAAAACGCCGCAAAATAACAAAACCTTCTACGGCGTTTGTAAGTAAAACGT
Found at i:1143030 original size:26 final size:27
Alignment explanation
Indices: 1143001--1143061 Score: 70
Period size: 26 Copynumber: 2.3 Consensus size: 27
1142991 CGTTTGCAAT
*
1143001 TTTTTTGGAAATTTTGT-CTTTTTTTG
1 TTTTTTGCAAATTTTGTGCTTTTTTTG
** *
1143027 TTTTTTGCATTTTTTGTGTTTTTTTTG
1 TTTTTTGCAAATTTTGTGCTTTTTTTG
1143054 TGTTTTTG
1 T-TTTTTG
1143062 AAAAAAATAG
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
26 14 0.48
27 9 0.31
28 6 0.21
ACGTcount: A:0.07, C:0.03, G:0.16, T:0.74
Consensus pattern (27 bp):
TTTTTTGCAAATTTTGTGCTTTTTTTG
Found at i:1143050 original size:11 final size:11
Alignment explanation
Indices: 1143036--1143060 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
1143026 GTTTTTTGCA
1143036 TTTTTTGTGTT
1 TTTTTTGTGTT
1143047 TTTTTTGTGTT
1 TTTTTTGTGTT
1143058 TTT
1 TTT
1143061 GAAAAAAATA
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:0.00, C:0.00, G:0.16, T:0.84
Consensus pattern (11 bp):
TTTTTTGTGTT
Found at i:1144697 original size:15 final size:16
Alignment explanation
Indices: 1144677--1144706 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
1144667 AATATATATT
1144677 TTAAAATAT-TTTAAC
1 TTAAAATATATTTAAC
1144692 TTAAAATATATTTAA
1 TTAAAATATATTTAA
1144707 ATATTTTATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (16 bp):
TTAAAATATATTTAAC
Found at i:1144744 original size:28 final size:29
Alignment explanation
Indices: 1144707--1144772 Score: 89
Period size: 28 Copynumber: 2.3 Consensus size: 29
1144697 ATATATTTAA
** *
1144707 ATATTTTATTCTTATTTTTACTT-AAAAT
1 ATATTTTATTCTTATTTCAAATTAAAAAT
*
1144735 ATATTTTATTTTTATTTCAAATTAAAAAT
1 ATATTTTATTCTTATTTCAAATTAAAAAT
1144764 ATATTTTAT
1 ATATTTTAT
1144773 CATTATCTAA
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
28 19 0.58
29 14 0.42
ACGTcount: A:0.36, C:0.05, G:0.00, T:0.59
Consensus pattern (29 bp):
ATATTTTATTCTTATTTCAAATTAAAAAT
Found at i:1144997 original size:58 final size:58
Alignment explanation
Indices: 1144934--1145059 Score: 168
Period size: 59 Copynumber: 2.2 Consensus size: 58
1144924 AAATATTTAA
* * *
1144934 ATATATTTTAAGTTAAGGTATTTTTTCAAATA-A-A-TTTAATTGATGATAAAGATAAAAT
1 ATATATTTTAAGTTAA---ATATTTTAAAATATATATTTTAAGTGATGATAAAGATAAAAT
1144992 ATATATTTTAAGTTAAATATTTTAAAATATATATTTTTAAGTGATGATAAAGATAAAAT
1 ATATATTTTAAGTTAAATATTTTAAAATATATA-TTTTAAGTGATGATAAAGATAAAAT
1145051 ATATATTTT
1 ATATATTTT
1145060 TATATTAAAA
Statistics
Matches: 61, Mismatches: 3, Indels: 7
0.86 0.04 0.10
Matches are distributed among these distances:
55 11 0.18
56 1 0.02
57 1 0.02
58 16 0.26
59 32 0.52
ACGTcount: A:0.45, C:0.01, G:0.09, T:0.45
Consensus pattern (58 bp):
ATATATTTTAAGTTAAATATTTTAAAATATATATTTTAAGTGATGATAAAGATAAAAT
Found at i:1145025 original size:14 final size:14
Alignment explanation
Indices: 1144986--1145028 Score: 59
Period size: 14 Copynumber: 3.1 Consensus size: 14
1144976 ATGATAAAGA
1144986 TAAAATATATATTT
1 TAAAATATATATTT
** *
1145000 TAAGTTAAATATTT
1 TAAAATATATATTT
1145014 TAAAATATATATTT
1 TAAAATATATATTT
1145028 T
1 T
1145029 TAAGTGATGA
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (14 bp):
TAAAATATATATTT
Found at i:1145052 original size:29 final size:30
Alignment explanation
Indices: 1144968--1145059 Score: 107
Period size: 30 Copynumber: 3.1 Consensus size: 30
1144958 TTCAAATAAA
*
1144968 TTTAATTGATGATAAAGATAAAATATATAT
1 TTTAAGTGATGATAAAGATAAAATATATAT
* * ***
1144998 TTTAAGTTA-AAT-ATTTTAAAATATATATT
1 TTTAAGTGATGATAAAGATAAAATATATA-T
1145027 TTTAAGTGATGATAAAGATAAAATATATAT
1 TTTAAGTGATGATAAAGATAAAATATATAT
1145057 TTT
1 TTT
1145060 TATATTAAAA
Statistics
Matches: 48, Mismatches: 11, Indels: 6
0.74 0.17 0.09
Matches are distributed among these distances:
28 12 0.25
29 11 0.23
30 13 0.27
31 12 0.25
ACGTcount: A:0.47, C:0.00, G:0.09, T:0.45
Consensus pattern (30 bp):
TTTAAGTGATGATAAAGATAAAATATATAT
Found at i:1145073 original size:31 final size:31
Alignment explanation
Indices: 1144979--1145073 Score: 99
Period size: 31 Copynumber: 3.2 Consensus size: 31
1144969 TTAATTGATG
1144979 ATAAAGATAAAATATATA-TTTTAAGTT-AA
1 ATAAAGATAAAATATATATTTTTAAGTTAAA
*** * **
1145008 AT-ATTTTAAAATATATATTTTTAAGTGATG
1 ATAAAGATAAAATATATATTTTTAAGTTAAA
1145038 ATAAAGATAAAATATATATTTTTATA-TTAAA
1 ATAAAGATAAAATATATATTTTTA-AGTTAAA
1145069 ATAAA
1 ATAAA
1145074 AGTGAATATT
Statistics
Matches: 50, Mismatches: 12, Indels: 6
0.74 0.18 0.09
Matches are distributed among these distances:
28 12 0.24
29 10 0.20
30 2 0.04
31 25 0.50
32 1 0.02
ACGTcount: A:0.52, C:0.00, G:0.06, T:0.42
Consensus pattern (31 bp):
ATAAAGATAAAATATATATTTTTAAGTTAAA
Found at i:1145405 original size:11 final size:11
Alignment explanation
Indices: 1145389--1145417 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
1145379 ATAAATCTAT
1145389 TAAATTTAAAA
1 TAAATTTAAAA
1145400 TAAA-TTAAAA
1 TAAATTTAAAA
1145410 TAAATTTA
1 TAAATTTA
1145418 TTCATCCAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
10 10 0.59
11 7 0.41
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (11 bp):
TAAATTTAAAA
Found at i:1145467 original size:16 final size:16
Alignment explanation
Indices: 1145446--1145504 Score: 72
Period size: 16 Copynumber: 3.9 Consensus size: 16
1145436 GACACGTGTC
*
1145446 ATGACAGGTGTCACCA
1 ATGACACGTGTCACCA
1145462 ATGACACGTGT---C-
1 ATGACACGTGTCACCA
*
1145474 ATGACAGGTGTCACCA
1 ATGACACGTGTCACCA
1145490 ATGACACGTGTCACC
1 ATGACACGTGTCACC
1145505 TCCAGATTCG
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
12 10 0.28
13 1 0.03
15 1 0.03
16 24 0.67
ACGTcount: A:0.29, C:0.27, G:0.24, T:0.20
Consensus pattern (16 bp):
ATGACACGTGTCACCA
Found at i:1145468 original size:28 final size:28
Alignment explanation
Indices: 1145436--1145502 Score: 134
Period size: 28 Copynumber: 2.4 Consensus size: 28
1145426 ATCGAATAAA
1145436 GACACGTGTCATGACAGGTGTCACCAAT
1 GACACGTGTCATGACAGGTGTCACCAAT
1145464 GACACGTGTCATGACAGGTGTCACCAAT
1 GACACGTGTCATGACAGGTGTCACCAAT
1145492 GACACGTGTCA
1 GACACGTGTCA
1145503 CCTCCAGATT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.28, C:0.25, G:0.25, T:0.21
Consensus pattern (28 bp):
GACACGTGTCATGACAGGTGTCACCAAT
Found at i:1147058 original size:22 final size:21
Alignment explanation
Indices: 1147032--1147088 Score: 66
Period size: 22 Copynumber: 2.7 Consensus size: 21
1147022 CAATAAAGAA
1147032 TATAAGATAATT-TTTTTATATT
1 TATAA-ATAATTATTTTTA-ATT
1147054 TAT-AA-AATTATTTTTAATT
1 TATAAATAATTATTTTTAATT
1147073 TATAAAATAATTATTT
1 TAT-AAATAATTATTT
1147089 GCAAATAACA
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
19 10 0.32
20 7 0.23
21 3 0.10
22 11 0.35
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (21 bp):
TATAAATAATTATTTTTAATT
Found at i:1147067 original size:19 final size:19
Alignment explanation
Indices: 1147040--1147080 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
1147030 AATATAAGAT
1147040 AATT-TTTTTATATTTATAA
1 AATTATTTTTA-ATTTATAA
1147059 AATTATTTTTAATTTATAA
1 AATTATTTTTAATTTATAA
1147078 AAT
1 AAT
1147081 AATTATTTGC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 15 0.71
20 6 0.29
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (19 bp):
AATTATTTTTAATTTATAA
Found at i:1147874 original size:3 final size:3
Alignment explanation
Indices: 1147866--1147939 Score: 125
Period size: 3 Copynumber: 25.3 Consensus size: 3
1147856 TATGATAATG
1147866 TAA TAA TAA TAA TAA TAA T-A TAA TAA TAA TAA TAA TAA T-A TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
1147912 TAC TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1147940 TGTTTGTGGA
Statistics
Matches: 67, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
2 4 0.06
3 63 0.94
ACGTcount: A:0.64, C:0.01, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:1147889 original size:20 final size:20
Alignment explanation
Indices: 1147860--1147939 Score: 133
Period size: 20 Copynumber: 4.0 Consensus size: 20
1147850 AGTGTTTATG
*
1147860 ATAATGTAATAATAATAATA
1 ATAATATAATAATAATAATA
1147880 ATAATATAATAATAATAATA
1 ATAATATAATAATAATAATA
*
1147900 ATAATATAATAATACTAATA
1 ATAATATAATAATAATAATA
1147920 ATAATAATAATAATAATAAT
1 ATAAT-ATAATAATAATAAT
1147940 TGTTTGTGGA
Statistics
Matches: 56, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
20 43 0.77
21 13 0.23
ACGTcount: A:0.62, C:0.01, G:0.01, T:0.35
Consensus pattern (20 bp):
ATAATATAATAATAATAATA
Found at i:1150465 original size:2 final size:2
Alignment explanation
Indices: 1150458--1150487 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
1150448 CATATTAAGA
1150458 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1150488 GGATAAGATC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1150521 original size:23 final size:23
Alignment explanation
Indices: 1150489--1150538 Score: 84
Period size: 23 Copynumber: 2.2 Consensus size: 23
1150479 TATATATATG
*
1150489 GATAAGATCTTATTACACAATGT
1 GATAAAATCTTATTACACAATGT
1150512 GATAAAATCTTATTACACAATGT
1 GATAAAATCTTATTACACAATGT
1150535 -ATAA
1 GATAA
1150539 CTCTTTTAGT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
22 4 0.15
23 22 0.85
ACGTcount: A:0.44, C:0.12, G:0.10, T:0.34
Consensus pattern (23 bp):
GATAAAATCTTATTACACAATGT
Found at i:1156635 original size:23 final size:23
Alignment explanation
Indices: 1156609--1156681 Score: 76
Period size: 23 Copynumber: 3.2 Consensus size: 23
1156599 AGCTCGTATA
* * *
1156609 AAATACACTGAAGTGCCACGTAG
1 AAATGCACCGAAGTGCCACATAG
* *
1156632 AAATGCACCGAGGTGCCGCATAG
1 AAATGCACCGAAGTGCCACATAG
* *
1156655 AAATGCACCGAAGTACCATATA-
1 AAATGCACCGAAGTGCCACATAG
1156677 AAATG
1 AAATG
1156682 TCTAGAAAGG
Statistics
Matches: 41, Mismatches: 9, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
22 5 0.12
23 36 0.88
ACGTcount: A:0.40, C:0.22, G:0.22, T:0.16
Consensus pattern (23 bp):
AAATGCACCGAAGTGCCACATAG
Found at i:1158149 original size:19 final size:19
Alignment explanation
Indices: 1158125--1158170 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
1158115 GTTCCGGAAC
*
1158125 AATCAACGAATTAAGATCG
1 AATCAAAGAATTAAGATCG
* *
1158144 AATCAAAGCATTAGGATCG
1 AATCAAAGAATTAAGATCG
1158163 AATCAAAG
1 AATCAAAG
1158171 TAAGGCTAAG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.48, C:0.15, G:0.17, T:0.20
Consensus pattern (19 bp):
AATCAAAGAATTAAGATCG
Found at i:1159430 original size:19 final size:19
Alignment explanation
Indices: 1159392--1159430 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
1159382 GGTATCAGTA
*
1159392 CCCTTAGTATCGATACTCC
1 CCCTTAGTATCAATACTCC
1159411 CCCTTAGGTATCAATA-TCC
1 CCCTTA-GTATCAATACTCC
1159430 C
1 C
1159431 ATGAAGATGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.23, C:0.36, G:0.10, T:0.31
Consensus pattern (19 bp):
CCCTTAGTATCAATACTCC
Found at i:1167635 original size:37 final size:37
Alignment explanation
Indices: 1167585--1167682 Score: 169
Period size: 37 Copynumber: 2.6 Consensus size: 37
1167575 GAGTCGAGGG
1167585 TTACCTATGTTCTTCGGGACATATGGACAATTACAGA
1 TTACCTATGTTCTTCGGGACATATGGACAATTACAGA
* *
1167622 TTACCTATGTTCTTCGGGACATATGGACATTTATAGA
1 TTACCTATGTTCTTCGGGACATATGGACAATTACAGA
*
1167659 TTACCTATGTTCTTTGGGACATAT
1 TTACCTATGTTCTTCGGGACATAT
1167683 TGACTGATTA
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 58 1.00
ACGTcount: A:0.27, C:0.17, G:0.18, T:0.38
Consensus pattern (37 bp):
TTACCTATGTTCTTCGGGACATATGGACAATTACAGA
Found at i:1168458 original size:21 final size:21
Alignment explanation
Indices: 1168432--1168473 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
1168422 GGCCGGAATT
1168432 ACTGTAGCAAGGTATCGATAC
1 ACTGTAGCAAGGTATCGATAC
** *
1168453 ACTGTATTAGGGTATCGATAC
1 ACTGTAGCAAGGTATCGATAC
1168474 CCCTATAGCA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.29
Consensus pattern (21 bp):
ACTGTAGCAAGGTATCGATAC
Found at i:1174231 original size:22 final size:22
Alignment explanation
Indices: 1174173--1174233 Score: 72
Period size: 21 Copynumber: 2.9 Consensus size: 22
1174163 TTGGTGCAGA
*
1174173 GGGAATCGATATCCCCTTGAAG
1 GGGAATCGATATCCCCCTGAAG
* * *
1174195 GAGAACCGAT-TCCCCCTGTAG
1 GGGAATCGATATCCCCCTGAAG
1174216 GGGAATCGATA-CCCCCTG
1 GGGAATCGATATCCCCCTG
1174234 GAGGTTCTGT
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
21 24 0.75
22 8 0.25
ACGTcount: A:0.25, C:0.30, G:0.26, T:0.20
Consensus pattern (22 bp):
GGGAATCGATATCCCCCTGAAG
Found at i:1181508 original size:37 final size:37
Alignment explanation
Indices: 1181410--1181510 Score: 148
Period size: 37 Copynumber: 2.7 Consensus size: 37
1181400 AGTCGAGGGT
* * * *
1181410 TACCTATGTTCTTCGGGACATATGAACAGTTACATAT
1 TACCTATGTTCTTCGGGACATATGGACAATTACAGAC
* *
1181447 TACCTATGTTCTTCAGGACATATGGACAATTATAGAC
1 TACCTATGTTCTTCGGGACATATGGACAATTACAGAC
1181484 TACCTATGTTCTTCGGGACATATGGAC
1 TACCTATGTTCTTCGGGACATATGGAC
1181511 TCATTACCTA
Statistics
Matches: 57, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 57 1.00
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.34
Consensus pattern (37 bp):
TACCTATGTTCTTCGGGACATATGGACAATTACAGAC
Found at i:1184977 original size:65 final size:63
Alignment explanation
Indices: 1184842--1185050 Score: 203
Period size: 65 Copynumber: 3.3 Consensus size: 63
1184832 TTTTTCAAAG
* *
1184842 TGATGCACCGATGCACCAATCCATGCA-TGATGCAC-CATGA-ATTAAATTG-AACATCGAATGC
1 TGATGCATCGATGCA-CAA-CCATGCACTGATGCACTCAGGATATT---TTGAAACATCGAATGC
1184903 ATT
61 ATT
* * *
1184906 TCATGCATCGATGCACATACCATGCACTGATGCACTGAGGAT-TTTATGAAAACATAGAATGCAT
1 TGATGCATCGATGCACA-ACCATGCACTGATGCACTCAGGATATTT-TG-AAACATCGAATGCAT
1184970 T
63 T
* * * * *
1184971 TGATGCATCGATGCACCAGCCATGCATTGATGCACTCTGGCTATTTTGAAACATCGAATGCACT
1 TGATGCATCGATGCA-CAACCATGCACTGATGCACTCAGGATATTTTGAAACATCGAATGCATT
*
1185035 TGATGCATCGGTGCAC
1 TGATGCATCGATGCAC
1185051 TCTTAGTGCA
Statistics
Matches: 122, Mismatches: 14, Indels: 19
0.79 0.09 0.12
Matches are distributed among these distances:
62 1 0.01
63 12 0.10
64 50 0.41
65 54 0.44
66 5 0.04
ACGTcount: A:0.31, C:0.23, G:0.20, T:0.27
Consensus pattern (63 bp):
TGATGCATCGATGCACAACCATGCACTGATGCACTCAGGATATTTTGAAACATCGAATGCATT
Found at i:1192328 original size:21 final size:21
Alignment explanation
Indices: 1192286--1192329 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
1192276 ACTCCTGGAG
* *
1192286 CTAGTTCCTCACGAGCTGCTC
1 CTAGCTCCTCACGAGCTCCTC
* *
1192307 CTAGCTCCTCTCGTGCTCCTC
1 CTAGCTCCTCACGAGCTCCTC
1192328 CT
1 CT
1192330 CTCCAGCTCC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.09, C:0.43, G:0.16, T:0.32
Consensus pattern (21 bp):
CTAGCTCCTCACGAGCTCCTC
Found at i:1193537 original size:64 final size:65
Alignment explanation
Indices: 1193375--1193517 Score: 184
Period size: 65 Copynumber: 2.2 Consensus size: 65
1193365 TAAATTGAAC
* * *
1193375 ATGCATCGATGCA-CATACCATGCACCGATGCACTGAGGATTTTATGAAAACATCGAATGCATTT
1 ATGCATCGATGCACCA-ACGATGCACCGATGCACTCAGGATTTTATGAAAACATCGAATGCACTT
1193439 G
65 G
* * *
1193440 ATGCATCGATGCACCAACGATGCATCGATGCACTCTGGCTATTT-TG-AAACATCGAATGCACTT
1 ATGCATCGATGCACCAACGATGCACCGATGCACTCAGGAT-TTTATGAAAACATCGAATGCACTT
1193503 G
65 G
*
1193504 ATGTATCGATGCAC
1 ATGCATCGATGCAC
1193518 TCTTAGTGCA
Statistics
Matches: 69, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
64 30 0.43
65 34 0.49
66 5 0.07
ACGTcount: A:0.30, C:0.23, G:0.20, T:0.27
Consensus pattern (65 bp):
ATGCATCGATGCACCAACGATGCACCGATGCACTCAGGATTTTATGAAAACATCGAATGCACTTG
Found at i:1204445 original size:12 final size:12
Alignment explanation
Indices: 1204428--1204452 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1204418 ACAAAGCACC
1204428 ATTTGGTGCCTA
1 ATTTGGTGCCTA
1204440 ATTTGGTGCCTA
1 ATTTGGTGCCTA
1204452 A
1 A
1204453 ATTATTTGAC
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:0.20, C:0.16, G:0.24, T:0.40
Consensus pattern (12 bp):
ATTTGGTGCCTA
Found at i:1211380 original size:41 final size:38
Alignment explanation
Indices: 1211319--1211395 Score: 91
Period size: 41 Copynumber: 1.9 Consensus size: 38
1211309 TCGTACCAAG
* * *
1211319 GTATAGCGCTGAGCAGGGGCGGCGTTATATCCCTACGTGGC
1 GTATAGCGCGGAACAGGGGC-GCGCTATA-CCC-ACGTGGC
*
1211360 GTATAGCGCGGAACATGGGCGCGCTATACCCACGTG
1 GTATAGCGCGGAACAGGGGCGCGCTATACCCACGTG
1211396 TAAGTCATGT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
38 5 0.16
39 3 0.09
40 7 0.22
41 17 0.53
ACGTcount: A:0.19, C:0.26, G:0.35, T:0.19
Consensus pattern (38 bp):
GTATAGCGCGGAACAGGGGCGCGCTATACCCACGTGGC
Found at i:1211460 original size:51 final size:50
Alignment explanation
Indices: 1211361--1211466 Score: 115
Period size: 51 Copynumber: 2.1 Consensus size: 50
1211351 CTACGTGGCG
* * ** *
1211361 TATAGCGCGGAACATGGGCGCGCTATACCCACGTGTAAGTCATGTCAGCT
1 TATAGCGCGGAACAGGGGCGCGCTATACCCACGTGTAAGCCAAATCAGCA
* * *
1211411 TATAGCGCGGTACAGGGGACGCGCTATACTTCACGTG-ACGCCAAATCAGCA
1 TATAGCGCGGAACAGGGG-CGCGCTATAC-CCACGTGTAAGCCAAATCAGCA
1211462 TATAG
1 TATAG
1211467 TGTGAGGCGG
Statistics
Matches: 46, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
50 16 0.35
51 24 0.52
52 6 0.13
ACGTcount: A:0.26, C:0.25, G:0.27, T:0.21
Consensus pattern (50 bp):
TATAGCGCGGAACAGGGGCGCGCTATACCCACGTGTAAGCCAAATCAGCA
Found at i:1212003 original size:23 final size:23
Alignment explanation
Indices: 1211977--1212026 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
1211967 ATCAAGCACA
1211977 ATAACAT-ATCAGGTAGCGCTTAT
1 ATAACATAAT-AGGTAGCGCTTAT
** *
1212000 ATAATGTAATATGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
1212023 ATAA
1 ATAA
1212027 TAAAATATGC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
23 21 0.91
24 2 0.09
ACGTcount: A:0.38, C:0.12, G:0.16, T:0.34
Consensus pattern (23 bp):
ATAACATAATAGGTAGCGCTTAT
Found at i:1212033 original size:23 final size:23
Alignment explanation
Indices: 1211989--1212035 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
1211979 AACATATCAG
**
1211989 GTAGCGCTTATATAATGTAATAT
1 GTAGCGCTTATATAATAAAATAT
1212012 GTAGCGCTTATATAATAAAATAT
1 GTAGCGCTTATATAATAAAATAT
1212035 G
1 G
1212036 CATTTAATCG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.38, C:0.09, G:0.17, T:0.36
Consensus pattern (23 bp):
GTAGCGCTTATATAATAAAATAT
Found at i:1212471 original size:198 final size:195
Alignment explanation
Indices: 1212041--1212743 Score: 684
Period size: 198 Copynumber: 3.5 Consensus size: 195
1212031 ATATGCATTT
* * *
1212041 AATCGGTATATTTATACCGG-TAGCATTGCAAATTTACCTATTACATTATAATTATTGGTCTT-G
1 AATCGGTATATTTAAACCGGTTA-CATTGTAAATTTACCTATTACATTATAATTATTTGT-TTCG
* * * *
1212104 TTATTTTTTGGATCGATACAATTTTTAATGTATCGACACTTTATGCTTGCACCTCGTTGGGCATT
64 ATGTTTTTGGGATCGATACAATTTTAAATGTATCGACACTTTATGCTTGCACCTCGTTGGGCATT
* * * *
1212169 CCTAATTCATTCTGGAAAAAAGAATCGACACAAACTATAAAGGTGTCGATACATTATTTAGACTT
129 -C--ATT-A---TGGAAAAAAGTATCGACACAAA-T-TAAAAGTGTCGATACTTTATTT-GACAT
1212234 ATTTTCTCATAA
184 ATTTTCTCATAA
* * * * * *
1212246 AATTGGTATATTTATACCGGGTACATTGTAAATTTACTTATAACATTGTAATT-TTTGTTTCGAT
1 AATCGGTATATTTAAACCGGTTACATTGTAAATTTACCTATTACATTATAATTATTTGTTTCGAT
* * *
1212310 GTTTTTGGGATCAATACAATTTTAAATGTATCGACACGTTATTCTTGCACCTCGTTGGGCATTCA
66 GTTTTTGGGATCGATACAATTTTAAATGTATCGACACTTTATGCTTGCACCTCGTTGGGCATTCA
* *
1212375 TTATGGACAAAATGTATCGACACAAATTACACAAGTGTCGATACTTTATTATGACCTATTTTCTC
131 TTATGGA-AAAAAGTATCGACACAAATTA-A-AAGTGTCGATACTTTATT-TGACATATTTTCTC
1212440 ATAA
192 ATAA
* * * * *
1212444 AATCGGTAAATTTAAATCGGTTACATTGTAAATTGACCTATTACATTATAATTA-TCGATTTTGA
1 AATCGGTATATTTAAACCGGTTACATTGTAAATTTACCTATTACATTATAATTATTTG-TTTCGA
* * * * * *
1212508 TGTTTTTGTGATCGATACAATTTTAAATGTATCCACACTTTATGCGTGAACCT-GTTTGTGCTTT
65 TGTTTTTGGGATCGATACAATTTTAAATGTATCGACACTTTATGCTTGCACCTCG-TTGGGCATT
* * * * *
1212572 C-TTTTGAAAAAAAAGTGTCGACACAAACTTAAAAAGTGTCGATACTTTATGTTGACATGTTTTA
129 CATTATG-GAAAAAAGTATCGACACAAA-TT-AAAAGTGTCGATACTTTAT-TTGACATATTTTC
* *
1212636 TAAT-T
190 TCATAA
* * * * **
1212641 AACCGGTATATATATAA-TGGTTACATTGTTAATTTAAATATTACATTATAATTATTTGTTTCGA
1 AATCGGTATATTTA-AACCGGTTACATTGTAAATTTACCTATTACATTATAATTATTTGTTTCGA
* ***
1212705 TGTTTTTGGGGTCGATATTTTTTTAAAATGTATCGACAC
65 TGTTTTTGGGATCGATACAATTTT-AAATGTATCGACAC
1212744 ATTCTTACAT
Statistics
Matches: 419, Mismatches: 63, Indels: 39
0.80 0.12 0.07
Matches are distributed among these distances:
196 2 0.00
197 73 0.17
198 161 0.38
199 65 0.16
200 2 0.00
201 3 0.01
203 3 0.01
204 63 0.15
205 45 0.11
206 2 0.00
ACGTcount: A:0.31, C:0.14, G:0.15, T:0.41
Consensus pattern (195 bp):
AATCGGTATATTTAAACCGGTTACATTGTAAATTTACCTATTACATTATAATTATTTGTTTCGAT
GTTTTTGGGATCGATACAATTTTAAATGTATCGACACTTTATGCTTGCACCTCGTTGGGCATTCA
TTATGGAAAAAAGTATCGACACAAATTAAAAGTGTCGATACTTTATTTGACATATTTTCTCATAA
Found at i:1214557 original size:199 final size:199
Alignment explanation
Indices: 1214148--1214902 Score: 1041
Period size: 199 Copynumber: 3.8 Consensus size: 199
1214138 AGACATTTGG
* * *
1214148 TTATAATTATGTTTTTCGATGTTTTTGGGATCGACAATTGTTATAAATGTATCGAAAATTTGTT-
1 TTATAATTATGTTTTTCGATGTTTTTGGGATCGACACTTGTTATAAATGTATCGACACTTT-TTA
* * * * * * *
1214212 GTGCACTTGGTTTTTAAAATATAGTCTGGACAAAAATGTATCAAAACTTGATGTATTTGTGTTGA
65 GTGCACTTGG-TTTTGAAATACAGTCTGGACAAAAA-GTATCGACACTTGTTATATTTGTGTCGA
** * * * *
1214277 TACTTCATGTATACCTGTTTTCTCATAAATCGGTACATTTAGACCGGTTACATTGTTAATTTACC
128 TACTTTTTGTACACCTGTTTTCTCAAAAATCGGTATATTTAGACCGGTTACATTGATAATTTACC
1214342 TATTACA
193 TATTACA
*
1214349 TTATAATTATAG-TTTTCGATGTTTTTGGGATCGACACTTGTTATAAATATATCGACACTTTTTA
1 TTATAATTAT-GTTTTTCGATGTTTTTGGGATCGACACTTGTTATAAATGTATCGACACTTTTTA
* * *
1214413 GTGCACTTGGTTTTGAAATACATTCTGGAGAAAAAATATCGACACTTGTTATATTTGTGTCGATA
65 GTGCACTTGGTTTTGAAATACAGTCTGGACAAAAAGTATCGACACTTGTTATATTTGTGTCGATA
* * **
1214478 CTTTTTGTACACCTCTTTTCTCAAAAATCGATATATTTAGACCATTTACA-TGAATAATTTACCT
130 CTTTTTGTACACCTGTTTTCTCAAAAATCGGTATATTTAGACCGGTTACATTG-ATAATTTACCT
1214542 ATTACA
194 ATTACA
* * *
1214548 TTATAATTATGTTTTTCGATGTTTTCGGGATCGACATTTGTTTTAAATGTATCGACAC-TTTTAT
1 TTATAATTATGTTTTTCGATGTTTTTGGGATCGACACTTGTTATAAATGTATCGACACTTTTTA-
* * * *
1214612 GTGCACTTGGTTCTGAAATACATTCTGGACCAAAAGTATCGACACTTGTTCTATTTGTGTCGATA
65 GTGCACTTGGTTTTGAAATACAGTCTGGACAAAAAGTATCGACACTTGTTATATTTGTGTCGATA
* * * *
1214677 CTGTTTGTACACCTGTTTTCTCAAAAACCGGTATATTTAGACCGGTTATATTGCTAATTTACCTA
130 CTTTTTGTACACCTGTTTTCTCAAAAATCGGTATATTTAGACCGGTTACATTGATAATTTACCTA
*
1214742 TTTCA
195 TTACA
* * *
1214747 TTATAATTATGGTTTTCGATGTTTTTGGGATCGACACTTATTATATATGTATCGACACTTTTTAG
1 TTATAATTATGTTTTTCGATGTTTTTGGGATCGACACTTGTTATAAATGTATCGACACTTTTTAG
* * *
1214812 TGCACTTGGTTTTGAAATACAGTCTGGAGAAAAAGTATCGACATTTGTTAGATTTGTGTCGATAC
66 TGCACTTGGTTTTGAAATACAGTCTGGACAAAAAGTATCGACACTTGTTATATTTGTGTCGATAC
*
1214877 TTTTTGTACACTTGTTTTCTCAAAAA
131 TTTTTGTACACCTGTTTTCTCAAAAA
1214903 ACCGGTATTG
Statistics
Matches: 490, Mismatches: 57, Indels: 16
0.87 0.10 0.03
Matches are distributed among these distances:
198 8 0.02
199 386 0.79
200 30 0.06
201 65 0.13
202 1 0.00
ACGTcount: A:0.28, C:0.14, G:0.16, T:0.42
Consensus pattern (199 bp):
TTATAATTATGTTTTTCGATGTTTTTGGGATCGACACTTGTTATAAATGTATCGACACTTTTTAG
TGCACTTGGTTTTGAAATACAGTCTGGACAAAAAGTATCGACACTTGTTATATTTGTGTCGATAC
TTTTTGTACACCTGTTTTCTCAAAAATCGGTATATTTAGACCGGTTACATTGATAATTTACCTAT
TACA
Found at i:1214886 original size:398 final size:400
Alignment explanation
Indices: 1214148--1214902 Score: 1167
Period size: 398 Copynumber: 1.9 Consensus size: 400
1214138 AGACATTTGG
*
1214148 TTATAATTATGTTTTTCGATGTTTTTGGGATCGACAATTGTTATAAATGTATCGAAAATTTGTTG
1 TTATAATTATGTTTTTCGATGTTTTCGGGATCGACAATTGTTATAAATGTATCGAAAATTTGTTG
* * * *
1214213 TGCACTTGGTTTTTAAAATATAGTCTGGACAAAAATGTATCAAAACTTGATGTATTTGTGTTGAT
66 TGCACTTGGTTTCTAAAATACAGTCTGGACAAAAATGTATCAAAACTTGATCTATTTGTGTCGAT
* * * *
1214278 ACTTCATGTATACCTGTTTTCTCATAAATCGGTACATTTAGACCGGTTACATTGTTAATTTACCT
131 ACTTCATGTACACCTGTTTTCTCAAAAACCGGTACATTTAGACCGGTTACATTGCTAATTTACCT
*
1214343 ATTACATTATAATTATAGTTTTCGATGTTTTTGGGATCGACACTTGTTATAAATATATCGACACT
196 ATTACATTATAATTATAGTTTTCGATGTTTTTGGGATCGACACTTATTATAAATATATCGACACT
* *
1214408 TTTTAGTGCACTTGGTTTTGAAATACATTCTGGAGAAAAAATATCGACACTTGTTATATTTGTGT
261 TTTTAGTGCACTTGGTTTTGAAATACAGTCTGGAGAAAAAATATCGACACTTGTTAGATTTGTGT
1214473 CGATACTTTTTGTACACCTCTTTTCTCAAAAATCGATATATTTAGACCATTTACATGAATAATTT
326 CGATACTTTTTGTACACCTCTTTTCTCAAAAATCGATATATTTAGACCATTTACATGAATAATTT
1214538 ACCTATTACA
391 ACCTATTACA
* * * *
1214548 TTATAATTATGTTTTTCGATGTTTTCGGGATCGACATTTGTTTTAAATGTATCGACACTTT-TAT
1 TTATAATTATGTTTTTCGATGTTTTCGGGATCGACAATTGTTATAAATGTATCGAAAATTTGT-T
* * * * * *
1214612 GTGCACTTGG-TTCTGAAATACATTCTGGACCAAAA-GTATCGACACTTGTTCTATTTGTGTCGA
65 GTGCACTTGGTTTCTAAAATACAGTCTGGACAAAAATGTATCAAAACTTGATCTATTTGTGTCGA
* * *
1214675 TACTGT-TTGTACACCTGTTTTCTCAAAAACCGGTATATTTAGACCGGTTATATTGCTAATTTAC
130 TACT-TCATGTACACCTGTTTTCTCAAAAACCGGTACATTTAGACCGGTTACATTGCTAATTTAC
* * * *
1214739 CTATTTCATTATAATTATGGTTTTCGATGTTTTTGGGATCGACACTTATTATATATGTATCGACA
194 CTATTACATTATAATTATAGTTTTCGATGTTTTTGGGATCGACACTTATTATAAATATATCGACA
* *
1214804 CTTTTTAGTGCACTTGGTTTTGAAATACAGTCTGGAGAAAAAGTATCGACATTTGTTAGATTTGT
259 CTTTTTAGTGCACTTGGTTTTGAAATACAGTCTGGAGAAAAAATATCGACACTTGTTAGATTTGT
* *
1214869 GTCGATACTTTTTGTACACTTGTTTTCTCAAAAA
324 GTCGATACTTTTTGTACACCTCTTTTCTCAAAAA
1214903 ACCGGTATTG
Statistics
Matches: 320, Mismatches: 33, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
398 231 0.72
399 22 0.07
400 67 0.21
ACGTcount: A:0.28, C:0.14, G:0.16, T:0.42
Consensus pattern (400 bp):
TTATAATTATGTTTTTCGATGTTTTCGGGATCGACAATTGTTATAAATGTATCGAAAATTTGTTG
TGCACTTGGTTTCTAAAATACAGTCTGGACAAAAATGTATCAAAACTTGATCTATTTGTGTCGAT
ACTTCATGTACACCTGTTTTCTCAAAAACCGGTACATTTAGACCGGTTACATTGCTAATTTACCT
ATTACATTATAATTATAGTTTTCGATGTTTTTGGGATCGACACTTATTATAAATATATCGACACT
TTTTAGTGCACTTGGTTTTGAAATACAGTCTGGAGAAAAAATATCGACACTTGTTAGATTTGTGT
CGATACTTTTTGTACACCTCTTTTCTCAAAAATCGATATATTTAGACCATTTACATGAATAATTT
ACCTATTACA
Found at i:1215569 original size:30 final size:30
Alignment explanation
Indices: 1215533--1215616 Score: 96
Period size: 30 Copynumber: 2.8 Consensus size: 30
1215523 CCCGAAGGAC
* *
1215533 CTATCCAGAGGTCACAAGGAACCTCGGTAA
1 CTATCCAGAGGTCACAAAGAACCTCGGCAA
* *
1215563 CTATCCAGAGGTCATAAAGATCCTCGGCAA
1 CTATCCAGAGGTCACAAAGAACCTCGGCAA
* * * *
1215593 CTGTCCATAGGTCCCGAAGAACCT
1 CTATCCAGAGGTCACAAAGAACCT
1215617 AGGTATACTG
Statistics
Matches: 44, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
30 44 1.00
ACGTcount: A:0.31, C:0.29, G:0.21, T:0.19
Consensus pattern (30 bp):
CTATCCAGAGGTCACAAAGAACCTCGGCAA
Found at i:1215627 original size:31 final size:31
Alignment explanation
Indices: 1215592--1215715 Score: 126
Period size: 31 Copynumber: 4.0 Consensus size: 31
1215582 ATCCTCGGCA
* *
1215592 ACTGTCCATAGGTCCCGAAGAACCTAGGTAT
1 ACTGTCCATATGTCCCGAAGAACATAGGTAT
* ** *
1215623 ACTGTCCATATGTTCCTTATAACATAGGTAT
1 ACTGTCCATATGTCCCGAAGAACATAGGTAT
*
1215654 ACTATCCATATGTCCCGAA-AGACATAGGTAATT
1 ACTGTCCATATGTCCCGAAGA-ACATAGGT-A-T
* *
1215687 A-TGTCCATATGTTCCGTAGAACATAGGTA
1 ACTGTCCATATGTCCCGAAGAACATAGGTA
1215716 AACCCTCGAC
Statistics
Matches: 76, Mismatches: 13, Indels: 8
0.78 0.13 0.08
Matches are distributed among these distances:
30 1 0.01
31 49 0.64
32 23 0.30
33 3 0.04
ACGTcount: A:0.31, C:0.21, G:0.18, T:0.30
Consensus pattern (31 bp):
ACTGTCCATATGTCCCGAAGAACATAGGTAT
Found at i:1215711 original size:63 final size:62
Alignment explanation
Indices: 1215596--1215715 Score: 163
Period size: 63 Copynumber: 1.9 Consensus size: 62
1215586 TCGGCAACTG
* * *
1215596 TCCATAGGTCCCGAAGAACCTAGGTATACTGTCCATATGTTCCTTATAACATAGGTATACTA
1 TCCATAGGTCCCGAAGAACATAGGTATACTGTCCATATGTTCCGTAGAACATAGGTATACTA
*
1215658 TCCATATGTCCCGAA-AGACATAGGTAATTA-TGTCCATATGTTCCGTAGAACATAGGTA
1 TCCATAGGTCCCGAAGA-ACATAGGT-A-TACTGTCCATATGTTCCGTAGAACATAGGTA
1215716 AACCCTCGAC
Statistics
Matches: 51, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
61 1 0.02
62 21 0.41
63 27 0.53
64 2 0.04
ACGTcount: A:0.32, C:0.21, G:0.17, T:0.30
Consensus pattern (62 bp):
TCCATAGGTCCCGAAGAACATAGGTATACTGTCCATATGTTCCGTAGAACATAGGTATACTA
Found at i:1220893 original size:182 final size:180
Alignment explanation
Indices: 1220654--1221992 Score: 1594
Period size: 181 Copynumber: 7.5 Consensus size: 180
1220644 TAATTCTAGA
* * * *
1220654 TCAACATATCCGGTATCTATTTACCGGTTTTGTCA-TTTTGAGACCGGTTTTATCATATTTTTAC
1 TCAACATATCCGGTAACT-TTTTCCAGTTTTGTCATTTTTGAGACCAGTTTTATCATATTTTTAC
* *
1220718 CTGTTATATTGTTCTGGATCGATACATTTTCATAAAGTGTCGACACTTTTTAAGCGTTATAACTT
65 CTGTTATATTGTTATGGATCGATACATTTTCATAAAGTGTCGACACTTTTTAAGCGCTATAACTT
*
1220783 CTTCTCTTTTAAATTCATAAAGTGTCGATACTTATATTAAATTATCGACACTT
130 CTTCTCTTTTAAATTC--AAAGTGTCGATACTAATATTAAATTATCGACACTT
* * * *
1220836 TCAACATATCCGGTAACTTTTTCCAGTTTTGTCATTTTTTAGACCTGTTTAATCATATTTTTACT
1 TCAACATATCCGGTAACTTTTTCCAGTTTTGTCATTTTTGAGACCAGTTTTATCATATTTTTACC
* *
1220901 TGTTATATTGGTAAT-GATCGATACATTTTAATAAAGTGTCGACACTTTTTAAGCGCTATAACTT
66 TGTTATATT-GTTATGGATCGATACATTTTCATAAAGTGTCGACACTTTTTAAGCGCTATAACTT
*
1220965 CTTCTCTTTTAAATTCAAAGTGTCGATACTAATATTAAATTATCGGCACTT
130 CTTCTCTTTTAAATTCAAAGTGTCGATACTAATATTAAATTATCGACACTT
* * *
1221016 TCAATATATCCGGTAACTTTTTCTAGTTTTGTCATTTTTGAGACCAGTTTTATAATATTTTTACC
1 TCAACATATCCGGTAACTTTTTCCAGTTTTGTCATTTTTGAGACCAGTTTTATCATATTTTTACC
* *
1221081 TGTTATATTATTATGGATCGATACATTTTCATAAAGTGTCGACACTTTTT-A--G-TTTAA----
66 TGTTATATTGTTATGGATCGATACATTTTCATAAAGTGTCGACACTTTTTAAGCGCTATAACTTC
* *
1221138 -----TTTT--A--GAAAGTGTCGATACTTATATTAAATTATCGACACTT
131 TTCTCTTTTAAATTCAAAGTGTCGATACTAATATTAAATTATCGACACTT
* * * ** * * **
1221179 TCAACATATTCGGTATCGTTTTACTGGTTTTGTCAATTTTGGGACTTGTTTTATCATATTTTTAC
1 TCAACATATCCGGTAAC-TTTTTCCAGTTTTGTCATTTTTGAGACCAGTTTTATCATATTTTTAC
* * ** * * *
1221244 CTGTTATATTGTTGTGGATCGATA-TTTTTTTTAAAGTATCGACACTTTATAGGCGCTATAACTT
65 CTGTTATATTGTTATGGATCGATACATTTTCATAAAGTGTCGACACTTTTTAAGCGCTATAACTT
* *
1221308 CTTCTCTTTTAAATTCAGAAAGTTTCGATACTTATATTAAATTATCGACACTT
130 CTTCTCTTTTAAATTC--AAAGTGTCGATACTAATATTAAATTATCGACACTT
* * * ** *
1221361 TCAATATATCCGGTAGCATTTTACTTGTTTTGTCAATTTTGAGACCAGTTTTATCATATTTTTAC
1 TCAACATATCCGGTAAC-TTTTTCCAGTTTTGTCATTTTTGAGACCAGTTTTATCATATTTTTAC
* *
1221426 CTGTTATATTGTTATGGATCGATACATTTTCATAAAGTGTCGACACTTTTTAAGCGCAATAATTT
65 CTGTTATATTGTTATGGATCGATACATTTTCATAAAGTGTCGACACTTTTTAAGCGCTATAACTT
* * * *
1221491 TTTCTCTTTTAAATTCAGAAATTGTCAATACTTATATTAAATTATCGACACTT
130 CTTCTCTTTTAAATTC--AAAGTGTCGATACTAATATTAAATTATCGACACTT
* * * * * *
1221544 TTAACATATTCGATAACTTTTTCCGGTTTTGTTATTTTT-AGACCTGTTTTATCATATTTTTACC
1 TCAACATATCCGGTAACTTTTTCCAGTTTTGTCATTTTTGAGACCAGTTTTATCATATTTTTACC
* * * *
1221608 TATTATATTGGTAAGGATCGATACATTTTCATAAAGTGTCGACACTTTTTAGGCGCTATAACTTC
66 TGTTATATTGTTATGGATCGATACATTTTCATAAAGTGTCGACACTTTTTAAGCGCTATAACTTC
1221673 TTCTCTTTTAAATTCAGAAAGTGTCGATACTAATATTAAATTATCGACACTT
131 TTCTCTTTTAAATTC--AAAGTGTCGATACTAATATTAAATTATCGACACTT
* *
1221725 TCAATATATCCGGTAACTTTTTCCGGTTTTGTCATTTTTGAGACCAGTTTTATCATATTTTTACC
1 TCAACATATCCGGTAACTTTTTCCAGTTTTGTCATTTTTGAGACCAGTTTTATCATATTTTTACC
* * ** ** * *
1221790 TGTTATATTGTTTTGGATCGATA-TTTTTTTTAAAGTACCGACACTTTATAGGCGCTATAACTTC
66 TGTTATATTGTTATGGATCGATACATTTTCATAAAGTGTCGACACTTTTTAAGCGCTATAACTTC
* *
1221854 TTCTCTTTTAAATTCAGAAAGTTTCGATACTTATATTAAATTATCGACAC-T
131 TTCTCTTTTAAATTC--AAAGTGTCGATACTAATATTAAATTATCGACACTT
* * * * * * *
1221905 TGACACATATCCGGTAGCGTTTTACCGGTTTTGTCA-TTTTGGGACC-GATTTTGTCATATTTGT
1 TCA-ACATATCCGGTAAC-TTTTTCCAGTTTTGTCATTTTTGAGACCAG-TTTTATCATATTTTT
* * * *
1221968 ACATGTAATATTGCTATGGAGCGAT
63 ACCTGTTATATTGTTATGGATCGAT
1221993 CTATTTTTCA
Statistics
Matches: 1009, Mismatches: 120, Indels: 57
0.85 0.10 0.05
Matches are distributed among these distances:
163 68 0.07
164 62 0.06
165 1 0.00
166 1 0.00
167 8 0.01
176 8 0.01
177 1 0.00
178 1 0.00
179 4 0.00
180 138 0.14
181 316 0.31
182 305 0.30
183 96 0.10
ACGTcount: A:0.27, C:0.15, G:0.13, T:0.45
Consensus pattern (180 bp):
TCAACATATCCGGTAACTTTTTCCAGTTTTGTCATTTTTGAGACCAGTTTTATCATATTTTTACC
TGTTATATTGTTATGGATCGATACATTTTCATAAAGTGTCGACACTTTTTAAGCGCTATAACTTC
TTCTCTTTTAAATTCAAAGTGTCGATACTAATATTAAATTATCGACACTT
Found at i:1221288 original size:163 final size:163
Alignment explanation
Indices: 1220981--1221291 Score: 444
Period size: 163 Copynumber: 1.9 Consensus size: 163
1220971 TTTTAAATTC
* * *
1220981 AAAGTGTCGATACTAATATTAAATTATCGGCACTTTCAATATATCCGGTAACTTTTTCTAGTTTT
1 AAAGTGTCGATACTAATATTAAATTATCGACACTTTCAACATATCCGGTAACTTTTACTAGTTTT
*
1221046 GTCATTTTTGAGACCAGTTTTATAATATTTTTACCTGTTATATTATTATGGATCGATACATTTTC
66 GTCAATTTTGAGACCAGTTTTATAATATTTTTACCTGTTATATTATTATGGATCGATACATTTTC
*
1221111 ATAAAGTGTCGACACTTTTTAGTTTAATTTTAG
131 ATAAAGTATCGACACTTTTTAGTTTAATTTTAG
* * * *
1221144 AAAGTGTCGATACTTATATTAAATTATCGACACTTTCAACATATTCGGTATCGTTTTACTGGTTT
1 AAAGTGTCGATACTAATATTAAATTATCGACACTTTCAACATATCCGGTAAC-TTTTACTAGTTT
* ** * * * *
1221209 TGTCAATTTTGGGACTTGTTTTATCATATTTTTACCTGTTATATTGTTGTGGATCGATA-TTTTT
65 TGTCAATTTTGAGACCAGTTTTATAATATTTTTACCTGTTATATTATTATGGATCGATACATTTT
**
1221273 TTTAAAGTATCGACACTTT
130 CATAAAGTATCGACACTTT
1221292 ATAGGCGCTA
Statistics
Matches: 129, Mismatches: 18, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
163 67 0.52
164 62 0.48
ACGTcount: A:0.27, C:0.13, G:0.14, T:0.46
Consensus pattern (163 bp):
AAAGTGTCGATACTAATATTAAATTATCGACACTTTCAACATATCCGGTAACTTTTACTAGTTTT
GTCAATTTTGAGACCAGTTTTATAATATTTTTACCTGTTATATTATTATGGATCGATACATTTTC
ATAAAGTATCGACACTTTTTAGTTTAATTTTAG
Found at i:1221956 original size:20 final size:21
Alignment explanation
Indices: 1221928--1221966 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
1221918 GTAGCGTTTT
*
1221928 ACCGGTTTTGTCAT-TTTGGG
1 ACCGATTTTGTCATATTTGGG
1221948 ACCGATTTTGTCATATTTG
1 ACCGATTTTGTCATATTTG
1221967 TACATGTAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.15, C:0.15, G:0.23, T:0.46
Consensus pattern (21 bp):
ACCGATTTTGTCATATTTGGG
Found at i:1223696 original size:24 final size:24
Alignment explanation
Indices: 1223669--1223724 Score: 103
Period size: 24 Copynumber: 2.3 Consensus size: 24
1223659 CTATTCTTTC
1223669 GCTTCAATTAAGCTCAAATTTTAG
1 GCTTCAATTAAGCTCAAATTTTAG
*
1223693 GCTTCAATTGAGCTCAAATTTTAG
1 GCTTCAATTAAGCTCAAATTTTAG
1223717 GCTTCAAT
1 GCTTCAAT
1223725 CGAACTTCTA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.30, C:0.18, G:0.14, T:0.38
Consensus pattern (24 bp):
GCTTCAATTAAGCTCAAATTTTAG
Found at i:1223981 original size:11 final size:11
Alignment explanation
Indices: 1223957--1224012 Score: 52
Period size: 9 Copynumber: 5.5 Consensus size: 11
1223947 GCAGTTCAAA
1223957 CCGGTTTT--G
1 CCGGTTTTCAG
1223966 CCGGTTTTCAG
1 CCGGTTTTCAG
*
1223977 CCGG--TTCAC
1 CCGGTTTTCAG
1223986 CTCGGTTTTC--
1 C-CGGTTTTCAG
1223996 CCGGTTTTCAG
1 CCGGTTTTCAG
1224007 CCGGTT
1 CCGGTT
1224013 CTTCCGGTTC
Statistics
Matches: 39, Mismatches: 1, Indels: 12
0.75 0.02 0.23
Matches are distributed among these distances:
9 21 0.54
10 4 0.10
11 11 0.28
12 3 0.08
ACGTcount: A:0.05, C:0.30, G:0.27, T:0.38
Consensus pattern (11 bp):
CCGGTTTTCAG
Found at i:1224019 original size:20 final size:20
Alignment explanation
Indices: 1223996--1224034 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
1223986 CTCGGTTTTC
1223996 CCGGTT-TTCAGCCGGTTCTT
1 CCGGTTCTTCA-CCGGTTCTT
*
1224016 CCGGTTCTTTACCGGTTCT
1 CCGGTTCTTCACCGGTTCT
1224035 ATGTTAATTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 14 0.82
21 3 0.18
ACGTcount: A:0.05, C:0.31, G:0.23, T:0.41
Consensus pattern (20 bp):
CCGGTTCTTCACCGGTTCTT
Found at i:1248886 original size:21 final size:24
Alignment explanation
Indices: 1248856--1248911 Score: 64
Period size: 21 Copynumber: 2.5 Consensus size: 24
1248846 ATATATATAT
*
1248856 ATAATATAATAACG-AAAA-AA-A
1 ATAATATAATAAAGTAAAATAATA
*
1248877 ATAATTTAATAAAGTAAAATAATA
1 ATAATATAATAAAGTAAAATAATA
*
1248901 ATAATGTAATA
1 ATAATATAATA
1248912 TAATATAAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
21 12 0.41
22 4 0.14
23 2 0.07
24 11 0.38
ACGTcount: A:0.64, C:0.02, G:0.05, T:0.29
Consensus pattern (24 bp):
ATAATATAATAAAGTAAAATAATA
Found at i:1248904 original size:16 final size:16
Alignment explanation
Indices: 1248883--1248920 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
1248873 AAAAATAATT
1248883 TAATAAAGTAAAATAA
1 TAATAAAGTAAAATAA
* *
1248899 TAATAATGTAATATAA
1 TAATAAAGTAAAATAA
1248915 T-ATAAA
1 TAATAAA
1248921 TACATGAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
15 4 0.21
16 15 0.79
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.32
Consensus pattern (16 bp):
TAATAAAGTAAAATAA
Found at i:1249024 original size:17 final size:18
Alignment explanation
Indices: 1249002--1249041 Score: 64
Period size: 17 Copynumber: 2.3 Consensus size: 18
1248992 AAAAAGTAAA
1249002 AATAAAATATAAAAT-AT
1 AATAAAATATAAAATGAT
*
1249019 AATAAAATATATAATGAT
1 AATAAAATATAAAATGAT
1249037 AATAA
1 AATAA
1249042 TAGTAGCAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
17 14 0.67
18 7 0.33
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.30
Consensus pattern (18 bp):
AATAAAATATAAAATGAT
Found at i:1249662 original size:228 final size:230
Alignment explanation
Indices: 1249260--1249718 Score: 904
Period size: 228 Copynumber: 2.0 Consensus size: 230
1249250 GCGGCAAACC
1249260 TCGAAAAAAAATTAATTTTTAAAAGCCTTTTCTTCCCTCGTTTTAAATATTCTAGTATTTTTCCA
1 TCGAAAAAAAATTAATTTTTAAAAGCCTTTTCTTCCCTCGTTTTAAATATTCTAGTATTTTTCCA
1249325 AAACGGTCTCGGGGTTGTGTAGATCTAAAAGAAAAGTTTCGAACGACAACCCCTTTTCCTCGGCC
66 AAACGGTCTCGGGGTTGTGTAGATCTAAAAGAAAAGTTTCGAACGACAACCCCTTTTCCTCGGCC
1249390 AAAACTGTTTTTTTCAAGCACAAAGACGAATAACAACACATGCAAGTGAAGAAAAGAATGCGAAA
131 AAAACTGTTTTTTTCAAGCACAAAGACGAATAACAACACATGCAAGTGAAGAAAAGAATGCGAAA
1249455 GGTAAAAGCTTTCACCTTTTATTGCTCCTGAATTG
196 GGTAAAAGCTTTCACCTTTTATTGCTCCTGAATTG
1249490 TCGAAAAAAAATTAATTTTTAAAAGCCTTTTCTTCCCTCGTTTTAAATATTCTAGTATTTTTCCA
1 TCGAAAAAAAATTAATTTTTAAAAGCCTTTTCTTCCCTCGTTTTAAATATTCTAGTATTTTTCCA
1249555 AAACGGTCTC-GGGTTGTGTAGATCTAAAAG-AAAGTTTCGAACGACAACCCCTTTTCCTCGGCC
66 AAACGGTCTCGGGGTTGTGTAGATCTAAAAGAAAAGTTTCGAACGACAACCCCTTTTCCTCGGCC
1249618 AAAACTGTTTTTTTCAAGCACAAAGACGAATAACAACACATGCAAGTGAAGAAAAGAATGCGAAA
131 AAAACTGTTTTTTTCAAGCACAAAGACGAATAACAACACATGCAAGTGAAGAAAAGAATGCGAAA
1249683 GGTAAAAGCTTTCACCTTTTATTGCTCCTGAATTG
196 GGTAAAAGCTTTCACCTTTTATTGCTCCTGAATTG
1249718 T
1 T
1249719 TTACAATAAC
Statistics
Matches: 229, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
228 134 0.59
229 20 0.09
230 75 0.33
ACGTcount: A:0.34, C:0.19, G:0.15, T:0.31
Consensus pattern (230 bp):
TCGAAAAAAAATTAATTTTTAAAAGCCTTTTCTTCCCTCGTTTTAAATATTCTAGTATTTTTCCA
AAACGGTCTCGGGGTTGTGTAGATCTAAAAGAAAAGTTTCGAACGACAACCCCTTTTCCTCGGCC
AAAACTGTTTTTTTCAAGCACAAAGACGAATAACAACACATGCAAGTGAAGAAAAGAATGCGAAA
GGTAAAAGCTTTCACCTTTTATTGCTCCTGAATTG
Found at i:1249879 original size:37 final size:36
Alignment explanation
Indices: 1249829--1249966 Score: 172
Period size: 37 Copynumber: 3.8 Consensus size: 36
1249819 GTGCTTGTGG
* * * * *
1249829 ATCCTATCTTTAGGAATTTAAATCTTAGTAGAACTCT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTA-AAATCT
* *
1249866 ATCCTATTTTTAGGAGTTTGAATCCTAGCAAAATGTT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTAAAAT-CT
*
1249903 ATCCTATTTTTAGGAGTTTGAATCCTA--AAATTCT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTAAAATCT
1249937 ATCCTATTTTTAGGAGTTTGAATCCTAGTA
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTA
1249967 GGACGAAAAA
Statistics
Matches: 89, Mismatches: 9, Indels: 7
0.85 0.09 0.07
Matches are distributed among these distances:
34 28 0.31
35 4 0.04
36 4 0.04
37 53 0.60
ACGTcount: A:0.30, C:0.14, G:0.14, T:0.42
Consensus pattern (36 bp):
ATCCTATTTTTAGGAGTTTGAATCCTAGTAAAATCT
Found at i:1249940 original size:34 final size:35
Alignment explanation
Indices: 1249863--1249963 Score: 161
Period size: 34 Copynumber: 2.9 Consensus size: 35
1249853 TTAGTAGAAC
1249863 TCTATCCTATTTTTAGGAGTTTGAATCCTAGCAAAATG
1 TCTATCCTATTTTTAGGAGTTTGAATCCT---AAAATG
1249901 T-TATCCTATTTTTAGGAGTTTGAATCCTAAAAT-
1 TCTATCCTATTTTTAGGAGTTTGAATCCTAAAATG
1249934 TCTATCCTATTTTTAGGAGTTTGAATCCTA
1 TCTATCCTATTTTTAGGAGTTTGAATCCTA
1249964 GTAGGACGAA
Statistics
Matches: 62, Mismatches: 0, Indels: 6
0.91 0.00 0.09
Matches are distributed among these distances:
33 1 0.02
34 33 0.53
37 27 0.44
38 1 0.02
ACGTcount: A:0.28, C:0.15, G:0.14, T:0.44
Consensus pattern (35 bp):
TCTATCCTATTTTTAGGAGTTTGAATCCTAAAATG
Found at i:1250911 original size:105 final size:105
Alignment explanation
Indices: 1250512--1251167 Score: 904
Period size: 105 Copynumber: 6.3 Consensus size: 105
1250502 CATTGTTCCA
* * *
1250512 AGTCCAATATCCTCCGTCGTGAAGTTGAAATTGGCTCTG-GAACTGGGATA-TTGTTTGTTGACA
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAG-ATTGGGA-AGTTG-TTGTTGACA
* * * * *
1250575 ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCG
63 AGCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
** *
1250618 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGAATCTGA-A-T--GAAATT-TTGTTGACAAGC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAGC
*
1250678 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGG
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
1250718 AGTCC-ATATCCTTCGTTGTGAAGTTGAAA-TGGCTCTGAGATTGGGAAGTTGTTGTTGACAAGC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAGC
*
1250781 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGG
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
*
1250821 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTATTGACAAGC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAGC
* *
1250886 AGCGATCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGA
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* *
1250926 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAA---GTTGTTGACAAGC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAGC
*
1250988 TGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * *
1251028 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTG-TTGTTGACAAG
* * * *
1251093 CAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCG
65 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * *
1251134 AGTGCCACGATATCCTCCGTCGTGGAGTTGAAAT
1 AGT-CCA--ATATCCTTCGTTGTGAAGTTGAAAT
1251168 CGCGGATGGC
Statistics
Matches: 502, Mismatches: 32, Indels: 29
0.89 0.06 0.05
Matches are distributed among these distances:
98 7 0.01
99 25 0.05
100 52 0.10
101 1 0.00
102 107 0.21
103 57 0.11
104 25 0.05
105 119 0.24
106 84 0.17
107 3 0.01
109 22 0.04
ACGTcount: A:0.22, C:0.18, G:0.26, T:0.34
Consensus pattern (105 bp):
AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAGC
AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
Found at i:1251026 original size:207 final size:205
Alignment explanation
Indices: 1250511--1251167 Score: 887
Period size: 207 Copynumber: 3.2 Consensus size: 205
1250501 GCATTGTTCC
* *
1250511 AAGTCCAATATCCTCCGTCGTGAAGTTGAAATTGGCTCTGGAACTGGGATATTGTTTGTTGACAA
1 AAGTCCAATATCCTCCGTCGTGAAGTTGAAATTGGCTCTGAAATTGGGA-A-TG-TTGTTGACAA
* * * * *
1250576 CCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTCCAATATCCTTCGTTGTGAA
63 GCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAA
** *
1250641 GTTGAAATTGAATCTGAA-T-GAAATT-TTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGA
128 GTTGAAATTGGCTCTGAATTGGAAGTTGTTGTTGACAAGCAGC-GTCCCTTCGTCGTGAAGTTGA
*
1250703 ACTTGCATTGTCTG
192 ACTTGCGTTGTCTG
* * * *
1250717 GAGTCC-ATATCCTTCGTTGTGAAGTTGAAA-TGGCTCTGAGATTGGGAAGTTGTTGTTGACAAG
1 AAGTCCAATATCCTCCGTCGTGAAGTTGAAATTGGCTCTGAAATTGGGAA--TGTTGTTGACAAG
*
1250780 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGGAGTCCAATATCCTTCGTTGTGAAG
64 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAG
*
1250845 TTGAAATTGGCTCTGAGATTGGGAAGTTGTTATTGACAAGCAGCGATCCCTTCGTCGTGAAGTTG
129 TTGAAATTGGCTCTGA-ATT-GGAAGTTGTTGTTGACAAGCAGCG-TCCCTTCGTCGTGAAGTTG
1250910 AACTTGCGTTGTCTG
191 AACTTGCGTTGTCTG
* * * *
1250925 AAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAA-GTTGTTGACAAGCT
1 AAGTCCAATATCCTCCGTCGTGAAGTTGAAATTGGCTCTGAAATTGGGAATGTTGTTGACAAGCA
1250989 GCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTT
66 GCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTT
* *
1251054 GAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGA
131 GAAATTGGCTCTG-AATTG-GAAGTTG-TTGTTGACAAGCAG-CGTCCCTTCGTCGTGAAGTTGA
*
1251119 ACTTGTGTTGTCTCG
192 ACTTGCGTTGTCT-G
*
1251134 -AGTGCCACGATATCCTCCGTCGTGGAGTTGAAAT
1 AAGT-CCA--ATATCCTCCGTCGTGAAGTTGAAAT
1251168 CGCGGATGGC
Statistics
Matches: 405, Mismatches: 29, Indels: 29
0.87 0.06 0.06
Matches are distributed among these distances:
203 85 0.21
204 18 0.04
205 23 0.06
206 6 0.01
207 106 0.26
208 99 0.24
209 30 0.07
210 16 0.04
211 22 0.05
ACGTcount: A:0.22, C:0.18, G:0.26, T:0.33
Consensus pattern (205 bp):
AAGTCCAATATCCTCCGTCGTGAAGTTGAAATTGGCTCTGAAATTGGGAATGTTGTTGACAAGCA
GCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTT
GAAATTGGCTCTGAATTGGAAGTTGTTGTTGACAAGCAGCGTCCCTTCGTCGTGAAGTTGAACTT
GCGTTGTCTG
Found at i:1251891 original size:36 final size:35
Alignment explanation
Indices: 1251842--1252116 Score: 192
Period size: 36 Copynumber: 7.9 Consensus size: 35
1251832 GATTTTGTGT
* *
1251842 TTCAAGAGCAACTGTCTCAAGATAGACGAAAATTGA
1 TTCAAGAGAAACTGTCTCAAGAGAGAC-AAAATTGA
1251878 TTCAAGAGAAACTGTCTCAAGAGAGACAAAACTT-A
1 TTCAAGAGAAACTGTCTCAAGAGAGACAAAA-TTGA
* * * *
1251913 GTTCCAAAAGAAACTGTCTCAAGGGAGACGAAATTTGT
1 -TT-CAAGAGAAACTGTCTCAAGAGAGAC-AAAATTGA
* * ** *
1251951 TTCAA-AGAAAACATAT-TC---A-A-A-TATTTTGT
1 TTCAAGAG-AAAC-TGTCTCAAGAGAGACAAAATTGA
* * * *
1251980 TTCAAGGGAAACTGTCTCAAGATAGACGAAATTTGT
1 TTCAAGAGAAACTGTCTCAAGAGAGAC-AAAATTGA
*
1252016 TTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTA
1 TTCAAGAGAAACTGTCTCAAGAGAGACAAAATTGA
* *
1252051 TTTCAAGGGAAACTGTCTCAAGAGAGACAAAATT-C
1 -TTCAAGAGAAACTGTCTCAAGAGAGACAAAATTGA
* * * *
1252086 TTCTAGTGAAAACGGTCTCAAGCGAGACAAA
1 TTCAAGAG-AAACTGTCTCAAGAGAGACAAA
1252117 TCTTGTTTTA
Statistics
Matches: 196, Mismatches: 25, Indels: 37
0.76 0.10 0.14
Matches are distributed among these distances:
28 2 0.01
29 17 0.09
30 1 0.01
31 1 0.01
32 2 0.01
33 1 0.01
34 7 0.04
35 32 0.16
36 101 0.52
37 29 0.15
38 3 0.02
ACGTcount: A:0.41, C:0.16, G:0.19, T:0.24
Consensus pattern (35 bp):
TTCAAGAGAAACTGTCTCAAGAGAGACAAAATTGA
Found at i:1252132 original size:35 final size:35
Alignment explanation
Indices: 1251975--1252132 Score: 151
Period size: 36 Copynumber: 4.4 Consensus size: 35
1251965 ATTCAAATAT
* * *
1251975 TTTGTTTCAAGGGAAACTGTCTCAAGATAGACGAAA
1 TTTGTTTCAA-GAAAACTGTCTCAAGAGAGACAAAA
1252011 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
1 TTTGTTTCAAGA-AAACTGTCTCAAGAGAGACAAAA
* *
1252047 TTTATTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
1 TTTGTTTCAA-GAAAACTGTCTCAAGAGAGACAAAA
* * * *
1252083 -TT-CTTCTAGTGAAAACGGTCTCAAGCGAGAC-AAA
1 TTTGTTTC-A-AGAAAACTGTCTCAAGAGAGACAAAA
*
1252117 TCTTGTTTTAAGAAAA
1 T-TTGTTTCAAGAAAA
1252133 GCAATCATGA
Statistics
Matches: 102, Mismatches: 13, Indels: 15
0.78 0.10 0.12
Matches are distributed among these distances:
34 6 0.06
35 27 0.26
36 66 0.65
37 3 0.03
ACGTcount: A:0.39, C:0.15, G:0.20, T:0.27
Consensus pattern (35 bp):
TTTGTTTCAAGAAAACTGTCTCAAGAGAGACAAAA
Found at i:1252258 original size:72 final size:72
Alignment explanation
Indices: 1252094--1252228 Score: 168
Period size: 72 Copynumber: 1.9 Consensus size: 72
1252084 TCTTCTAGTG
* * *
1252094 AAAACGGTCTCAAGCGAGACAAATCTTGTTTTAAGAAAAGCAATCATGAGTGAAATAAATCTTCT
1 AAAACAGTCTCAAGCGAGACAAATCTTGTTTTAAGAAAAGCAATCATAAGTGAAATAAATCATCT
*
1252159 TTCGAGT
66 TGCGAGT
* * * *
1252166 AAAACAGTCCCAAGTGAGACAAAGTC-TGTTTTAA-AAAAGCAATCTTAAGTGAGAT-AATCATC
1 AAAACAGTCTCAAGCGAGACAAA-TCTTGTTTTAAGAAAAGCAATCATAAGTGAAATAAATCATC
1252228 T
65 T
1252229 GCATTAAATG
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
70 7 0.13
71 18 0.33
72 28 0.51
73 2 0.04
ACGTcount: A:0.41, C:0.16, G:0.17, T:0.27
Consensus pattern (72 bp):
AAAACAGTCTCAAGCGAGACAAATCTTGTTTTAAGAAAAGCAATCATAAGTGAAATAAATCATCT
TGCGAGT
Found at i:1252589 original size:18 final size:18
Alignment explanation
Indices: 1252562--1252597 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
1252552 TGATGAATCC
* *
1252562 CCAAAGATGCCTCAATAT
1 CCAAAAATGCCCCAATAT
1252580 CCAAAAATGCCCCAATAT
1 CCAAAAATGCCCCAATAT
1252598 TTGATGTTGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.42, C:0.31, G:0.08, T:0.19
Consensus pattern (18 bp):
CCAAAAATGCCCCAATAT
Found at i:1258553 original size:16 final size:16
Alignment explanation
Indices: 1258532--1258569 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
1258522 AAAAATAATT
1258532 TAATAAAGTAAAATAA
1 TAATAAAGTAAAATAA
* *
1258548 TAATAATGTAATATAA
1 TAATAAAGTAAAATAA
1258564 T-ATAAA
1 TAATAAA
1258570 TACATGAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
15 4 0.21
16 15 0.79
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.32
Consensus pattern (16 bp):
TAATAAAGTAAAATAA
Found at i:1259302 original size:37 final size:36
Alignment explanation
Indices: 1259252--1259389 Score: 172
Period size: 37 Copynumber: 3.8 Consensus size: 36
1259242 GTGCTTGTGG
* * * * *
1259252 ATCCTATCTTTAGGAATTTAAATCTTAGTAGAACTCT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTA-AAATCT
* *
1259289 ATCCTATTTTTAGGAGTTTGAATCCTAGCAAAATGTT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTAAAAT-CT
*
1259326 ATCCTATTTTTAGGAGTTTGAATCCTA--AAATTCT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTAAAATCT
1259360 ATCCTATTTTTAGGAGTTTGAATCCTAGTA
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTA
1259390 GGACGAAAAA
Statistics
Matches: 89, Mismatches: 9, Indels: 7
0.85 0.09 0.07
Matches are distributed among these distances:
34 28 0.31
35 4 0.04
36 4 0.04
37 53 0.60
ACGTcount: A:0.30, C:0.14, G:0.14, T:0.42
Consensus pattern (36 bp):
ATCCTATTTTTAGGAGTTTGAATCCTAGTAAAATCT
Found at i:1259363 original size:34 final size:35
Alignment explanation
Indices: 1259286--1259386 Score: 161
Period size: 34 Copynumber: 2.9 Consensus size: 35
1259276 TTAGTAGAAC
1259286 TCTATCCTATTTTTAGGAGTTTGAATCCTAGCAAAATG
1 TCTATCCTATTTTTAGGAGTTTGAATCCT---AAAATG
1259324 T-TATCCTATTTTTAGGAGTTTGAATCCTAAAAT-
1 TCTATCCTATTTTTAGGAGTTTGAATCCTAAAATG
1259357 TCTATCCTATTTTTAGGAGTTTGAATCCTA
1 TCTATCCTATTTTTAGGAGTTTGAATCCTA
1259387 GTAGGACGAA
Statistics
Matches: 62, Mismatches: 0, Indels: 6
0.91 0.00 0.09
Matches are distributed among these distances:
33 1 0.02
34 33 0.53
37 27 0.44
38 1 0.02
ACGTcount: A:0.28, C:0.15, G:0.14, T:0.44
Consensus pattern (35 bp):
TCTATCCTATTTTTAGGAGTTTGAATCCTAAAATG
Found at i:1268767 original size:29 final size:28
Alignment explanation
Indices: 1268725--1268798 Score: 85
Period size: 29 Copynumber: 2.5 Consensus size: 28
1268715 GTCAAACATT
*
1268725 TTACACAAATAGCACCCTTTTTAAAATAA
1 TTAC-CAAATAGCACCCTTTTCAAAATAA
* *
1268754 TTACCAATATAGCACCCTTTTCGAATTAA
1 TTACCAA-ATAGCACCCTTTTCAAAATAA
*
1268783 TTCCCAAAATAGCACC
1 TTACC-AAATAGCACC
1268799 AAAACCAAAT
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
28 3 0.08
29 34 0.87
30 2 0.05
ACGTcount: A:0.39, C:0.26, G:0.05, T:0.30
Consensus pattern (28 bp):
TTACCAAATAGCACCCTTTTCAAAATAA
Found at i:1268858 original size:18 final size:18
Alignment explanation
Indices: 1268835--1268876 Score: 75
Period size: 18 Copynumber: 2.3 Consensus size: 18
1268825 ACCGATCAAC
1268835 GGGTCGGGTCAACGGGTA
1 GGGTCGGGTCAACGGGTA
*
1268853 GGGTCGGGTCAACGGGTC
1 GGGTCGGGTCAACGGGTA
1268871 GGGTCG
1 GGGTCG
1268877 TGACCGGTCA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.12, C:0.19, G:0.52, T:0.17
Consensus pattern (18 bp):
GGGTCGGGTCAACGGGTA
Found at i:1275997 original size:29 final size:28
Alignment explanation
Indices: 1275955--1276029 Score: 78
Period size: 29 Copynumber: 2.6 Consensus size: 28
1275945 GTCAAACATT
* *
1275955 TTACACAAATAGCACCCTTTTTAAAATAA
1 TTAC-CAAATAGCACCATTTTCAAAATAA
* *
1275984 TTACCAATATAGCACCATTTTCGAATTAA
1 TTACCAA-ATAGCACCATTTTCAAAATAA
*
1276013 TTCCCAAAATAGCACCA
1 TTACC-AAATAGCACCA
1276030 AAACCAAATT
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
28 3 0.08
29 34 0.87
30 2 0.05
ACGTcount: A:0.41, C:0.24, G:0.05, T:0.29
Consensus pattern (28 bp):
TTACCAAATAGCACCATTTTCAAAATAA
Found at i:1276105 original size:18 final size:18
Alignment explanation
Indices: 1276064--1276123 Score: 104
Period size: 18 Copynumber: 3.4 Consensus size: 18
1276054 CACCGGTTAA
1276064 CGGGTCGGGTCAAC-GGT
1 CGGGTCGGGTCAACGGGT
1276081 CGGGTCGGGTCAACGGGT
1 CGGGTCGGGTCAACGGGT
*
1276099 AGGGTCGGGTCAACGGGT
1 CGGGTCGGGTCAACGGGT
1276117 CGGGTCG
1 CGGGTCG
1276124 TGACCGGTCA
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
17 14 0.35
18 26 0.65
ACGTcount: A:0.12, C:0.22, G:0.50, T:0.17
Consensus pattern (18 bp):
CGGGTCGGGTCAACGGGT
Found at i:1276146 original size:10 final size:10
Alignment explanation
Indices: 1276126--1276177 Score: 63
Period size: 9 Copynumber: 5.3 Consensus size: 10
1276116 TCGGGTCGTG
1276126 ACCGGTC-AA
1 ACCGGTCAAA
1276135 ACCGGTCAAA
1 ACCGGTCAAA
*
1276145 ACCGATTCAAA
1 ACCG-GTCAAA
*
1276156 ACCGGT-TAA
1 ACCGGTCAAA
1276165 ACCGGTCAAA
1 ACCGGTCAAA
1276175 ACC
1 ACC
1276178 AGTTTCCAGC
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
9 15 0.42
10 12 0.33
11 9 0.25
ACGTcount: A:0.38, C:0.31, G:0.17, T:0.13
Consensus pattern (10 bp):
ACCGGTCAAA
Found at i:1279474 original size:17 final size:18
Alignment explanation
Indices: 1279452--1279485 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
1279442 TCAGCCGGTC
1279452 CGGTTC-GAACGGTTCAT
1 CGGTTCAGAACGGTTCAT
*
1279469 CGGTTCAGACCGGTTCA
1 CGGTTCAGAACGGTTCA
1279486 CTAGCAACGG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.18, C:0.26, G:0.29, T:0.26
Consensus pattern (18 bp):
CGGTTCAGAACGGTTCAT
Found at i:1282675 original size:7 final size:7
Alignment explanation
Indices: 1282663--1282687 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
1282653 AATTCCCCTG
1282663 CCCCTTC
1 CCCCTTC
1282670 CCCCTTC
1 CCCCTTC
1282677 CCCCTTC
1 CCCCTTC
1282684 CCCC
1 CCCC
1282688 GCCTCCCCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.00, C:0.76, G:0.00, T:0.24
Consensus pattern (7 bp):
CCCCTTC
Found at i:1284756 original size:23 final size:24
Alignment explanation
Indices: 1284707--1284795 Score: 96
Period size: 23 Copynumber: 3.8 Consensus size: 24
1284697 CACCACAGCT
* ** *
1284707 CGTATAAATGCACCAAAGT-GCCA
1 CGTAGAAATGCACCGTAGTAGCCG
1284730 CGTA-AAATTGCACCGTAGTAG-CG
1 CGTAGAAA-TGCACCGTAGTAGCCG
1284753 CGTAGAAATGCACCGTAGT-GCCG
1 CGTAGAAATGCACCGTAGTAGCCG
*
1284776 CGTAGAAATGCACCGAAGTA
1 CGTAGAAATGCACCGTAGTA
1284796 CTATATAAGG
Statistics
Matches: 57, Mismatches: 4, Indels: 9
0.81 0.06 0.13
Matches are distributed among these distances:
22 4 0.07
23 49 0.86
24 4 0.07
ACGTcount: A:0.34, C:0.24, G:0.25, T:0.18
Consensus pattern (24 bp):
CGTAGAAATGCACCGTAGTAGCCG
Found at i:1284788 original size:46 final size:46
Alignment explanation
Indices: 1284707--1284795 Score: 117
Period size: 46 Copynumber: 1.9 Consensus size: 46
1284697 CACCACAGCT
* *
1284707 CGTATAAATGCACCAAAGTGCCACGTAAAATTGCACCGTAGTAGCG
1 CGTAGAAATGCACCAAAGTGCCACGTAAAATTGCACCGAAGTAGCG
** *
1284753 CGTAGAAATGCACCGTAGTGCCGCGTAGAAA-TGCACCGAAGTA
1 CGTAGAAATGCACCAAAGTGCCACGTA-AAATTGCACCGAAGTA
1284796 CTATATAAGG
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
46 34 0.92
47 3 0.08
ACGTcount: A:0.34, C:0.24, G:0.25, T:0.18
Consensus pattern (46 bp):
CGTAGAAATGCACCAAAGTGCCACGTAAAATTGCACCGAAGTAGCG
Found at i:1285847 original size:2 final size:2
Alignment explanation
Indices: 1285842--1285891 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
1285832 ACACACACAC
1285842 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1285884 AT AT AT AT
1 AT AT AT AT
1285892 CAATGATTCA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1286083 original size:19 final size:18
Alignment explanation
Indices: 1286046--1286095 Score: 55
Period size: 19 Copynumber: 2.7 Consensus size: 18
1286036 TTAGTCATGC
* *
1286046 ATACATACAATTAATATA
1 ATACATATAATCAATATA
1286064 ATACATATAATCACATATA
1 ATACATATAATCA-ATATA
* *
1286083 ACATATATAATCA
1 ATACATATAATCA
1286096 TAACAAACAC
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
18 11 0.41
19 16 0.59
ACGTcount: A:0.54, C:0.14, G:0.00, T:0.32
Consensus pattern (18 bp):
ATACATATAATCAATATA
Found at i:1290555 original size:24 final size:22
Alignment explanation
Indices: 1290512--1290564 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 22
1290502 CATAGTTCTT
1290512 TCACATAGCTCATTGTCATATTAA
1 TCACATA-CTCATTGTCATA-TAA
1290536 TCACATA-TCATATGTACATATAA
1 TCACATACTCAT-TGT-CATATAA
*
1290559 ACACAT
1 TCACAT
1290565 GGTTCATTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
22 4 0.15
23 11 0.42
24 11 0.42
ACGTcount: A:0.40, C:0.21, G:0.06, T:0.34
Consensus pattern (22 bp):
TCACATACTCATTGTCATATAA
Found at i:1291306 original size:2 final size:2
Alignment explanation
Indices: 1291299--1291330 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
1291289 TCTTATGTTC
1291299 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1291331 CAATGATTCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1291533 original size:19 final size:17
Alignment explanation
Indices: 1291509--1291551 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 17
1291499 TGTAATACAT
*
1291509 ATAATCACATATAACACAC
1 ATAATCACA-ACAA-ACAC
*
1291528 ATAATCATAACAAACAC
1 ATAATCACAACAAACAC
1291545 ATAATCA
1 ATAATCA
1291552 TGTTCATGAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 11 0.50
18 3 0.14
19 8 0.36
ACGTcount: A:0.56, C:0.23, G:0.00, T:0.21
Consensus pattern (17 bp):
ATAATCACAACAAACAC
Found at i:1291539 original size:15 final size:16
Alignment explanation
Indices: 1291519--1291552 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
1291509 ATAATCACAT
1291519 ATAAC-ACACATAATC
1 ATAACAACACATAATC
1291534 ATAACAAACACATAATC
1 ATAAC-AACACATAATC
1291551 AT
1 AT
1291553 GTTCATGACT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.29
17 12 0.71
ACGTcount: A:0.56, C:0.24, G:0.00, T:0.21
Consensus pattern (16 bp):
ATAACAACACATAATC
Found at i:1298984 original size:18 final size:18
Alignment explanation
Indices: 1298961--1299011 Score: 84
Period size: 18 Copynumber: 2.8 Consensus size: 18
1298951 TGAATATTTG
*
1298961 TCCCGAAGGATCACTATA
1 TCCCGAAGGACCACTATA
*
1298979 TCCCGAAGGACCACTATG
1 TCCCGAAGGACCACTATA
1298997 TCCCGAAGGACCACT
1 TCCCGAAGGACCACT
1299012 GATAGTCCCT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.29, C:0.33, G:0.20, T:0.18
Consensus pattern (18 bp):
TCCCGAAGGACCACTATA
Found at i:1302149 original size:22 final size:22
Alignment explanation
Indices: 1302121--1302172 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 22
1302111 TCTCAAATGA
* * * *
1302121 CCACATAGGTTTCATCGAGGTG
1 CCACATAAGTTGCACCGAAGTG
1302143 CCACATAAAGTTGCACCGAAGTG
1 CCACAT-AAGTTGCACCGAAGTG
1302166 CCACATA
1 CCACATA
1302173 TTTGTCCTGG
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
22 7 0.28
23 18 0.72
ACGTcount: A:0.31, C:0.27, G:0.21, T:0.21
Consensus pattern (22 bp):
CCACATAAGTTGCACCGAAGTG
Found at i:1302817 original size:55 final size:55
Alignment explanation
Indices: 1302724--1302922 Score: 231
Period size: 55 Copynumber: 3.6 Consensus size: 55
1302714 TCATAATTGG
* *
1302724 GGGTATCGATACACTCCTCAGTGTACCGAA-ACATAAATAGTACTCGATGTTTTGA
1 GGGTATCGATACACTCCTCAGTGTACC-AATACACAAATAGCACTCGATGTTTTGA
* *
1302779 GAGTATCGATACACTCCTCAGTGTACCAATACACAAATAACACTCGATGTTTTGA
1 GGGTATCGATACACTCCTCAGTGTACCAATACACAAATAGCACTCGATGTTTTGA
* * * * * * * **
1302834 GGGTATCAATATACTCCTTAGTGTACCGATACACATATGGCATTTAATGTTTTGA
1 GGGTATCGATACACTCCTCAGTGTACCAATACACAAATAGCACTCGATGTTTTGA
* * *
1302889 GGGT-TTGATACACTCCTCAATGTACCGATACACA
1 GGGTATCGATACACTCCTCAGTGTACCAATACACA
1302923 CTCATATAAA
Statistics
Matches: 123, Mismatches: 20, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
54 27 0.22
55 96 0.78
ACGTcount: A:0.31, C:0.21, G:0.18, T:0.30
Consensus pattern (55 bp):
GGGTATCGATACACTCCTCAGTGTACCAATACACAAATAGCACTCGATGTTTTGA
Found at i:1309267 original size:13 final size:13
Alignment explanation
Indices: 1309249--1309274 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1309239 CAATTGGAAA
1309249 TTAAATAAAACAT
1 TTAAATAAAACAT
1309262 TTAAATAAAACAT
1 TTAAATAAAACAT
1309275 AAAATAAATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.08, G:0.00, T:0.31
Consensus pattern (13 bp):
TTAAATAAAACAT
Found at i:1309616 original size:55 final size:55
Alignment explanation
Indices: 1309551--1309695 Score: 182
Period size: 55 Copynumber: 2.6 Consensus size: 55
1309541 TCATACTTAG
* *
1309551 GGGTATCGATACAATCCTCAGTGTACCGATACACAAATAACACTCGATATTTTGT
1 GGGTATCGATACACTCCTCAGTGTACCGATACACAAATAACACTCGATATTTTGA
* * * ** * * *
1309606 GGGTATCGATATACTCCTCAGTGTACCAATACATAAATGGCATTTGATGTTTTGA
1 GGGTATCGATACACTCCTCAGTGTACCGATACACAAATAACACTCGATATTTTGA
* *
1309661 GGTTATTGATACACTCCTCAGTGTACCGATACACA
1 GGGTATCGATACACTCCTCAGTGTACCGATACACA
1309696 CTCATACAAA
Statistics
Matches: 75, Mismatches: 15, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
55 75 1.00
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.31
Consensus pattern (55 bp):
GGGTATCGATACACTCCTCAGTGTACCGATACACAAATAACACTCGATATTTTGA
Found at i:1310013 original size:17 final size:17
Alignment explanation
Indices: 1309991--1310034 Score: 79
Period size: 17 Copynumber: 2.6 Consensus size: 17
1309981 CCCTTAACTG
1309991 AGGTATCGATACCCACT
1 AGGTATCGATACCCACT
*
1310008 AGGTATCGGTACCCACT
1 AGGTATCGATACCCACT
1310025 AGGTATCGAT
1 AGGTATCGAT
1310035 GCCCTAATTG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.27, C:0.25, G:0.23, T:0.25
Consensus pattern (17 bp):
AGGTATCGATACCCACT
Found at i:1313793 original size:81 final size:80
Alignment explanation
Indices: 1313653--1313860 Score: 251
Period size: 81 Copynumber: 2.6 Consensus size: 80
1313643 ACTCAATGGT
* * *
1313653 ATCTAACTGGCATAATTGGTACA-TTTCTACCAATTCCAGAGTTAGGTCGTTATTATTTTACTCA
1 ATCTAACTGGCATAATT-G-ACACTTTCTGCCAATTCCACAGTTAGGTCATTATTATTTTACTCA
*
1313717 ACGGTACTTAACCGTTC
64 ACGATACTTAACCGTTC
* * *
1313734 ATCTAACTGACATAATTGACATCTTTCTGCCAATTGCACAGTTA-GTCTATTATTCTTTTACTCA
1 ATCTAACTGGCATAATTGACA-CTTTCTGCCAATTCCACAGTTAGGTC-ATTATTATTTTACTCA
*
1313798 ACGATACTTAACTGTTC
64 ACGATACTTAACCGTTC
* *
1313815 ATCTAACTGGCATAATTGACACCTTTCTGTC-ATATACACAGTTAGG
1 ATCTAACTGGCATAATTGACA-CTTTCTGCCAAT-TCCACAGTTAGG
1313861 CCTAAAAGAC
Statistics
Matches: 110, Mismatches: 12, Indels: 9
0.84 0.09 0.07
Matches are distributed among these distances:
79 3 0.03
80 6 0.05
81 100 0.91
82 1 0.01
ACGTcount: A:0.28, C:0.22, G:0.13, T:0.37
Consensus pattern (80 bp):
ATCTAACTGGCATAATTGACACTTTCTGCCAATTCCACAGTTAGGTCATTATTATTTTACTCAAC
GATACTTAACCGTTC
Found at i:1313912 original size:31 final size:31
Alignment explanation
Indices: 1313812--1313915 Score: 93
Period size: 31 Copynumber: 3.2 Consensus size: 31
1313802 TACTTAACTG
*
1313812 TTCATCTAACTGGCATAATTGACACCTTTCT
1 TTCATCTAACTGGCATAAATGACACCTTTCT
* * * *
1313843 GTCATATACACAGTTAGGCCTAAAAGACA-CTTAGTCT
1 TTCATCTA-AC---T-GGCATAAATGACACCTT--TCT
1313880 TTCATCTAACTGGCATAAATGACACCTTTCT
1 TTCATCTAACTGGCATAAATGACACCTTTCT
1313911 TTCAT
1 TTCAT
1313916 ATGCACAGTT
Statistics
Matches: 56, Mismatches: 9, Indels: 16
0.69 0.11 0.20
Matches are distributed among these distances:
31 14 0.25
32 13 0.23
33 4 0.07
35 4 0.07
36 12 0.21
37 9 0.16
ACGTcount: A:0.30, C:0.24, G:0.12, T:0.35
Consensus pattern (31 bp):
TTCATCTAACTGGCATAAATGACACCTTTCT
Found at i:1313916 original size:68 final size:68
Alignment explanation
Indices: 1313812--1314136 Score: 506
Period size: 68 Copynumber: 4.8 Consensus size: 68
1313802 TACTTAACTG
* * *
1313812 TTCATCTAACTGGCATAATTGACACCTTTCTGTCATATACACAGTTAGGCCTAAAAGACACTTAG
1 TTCATCTAACTGGCATAAATGACACCTTTCTGTCATATGCACAGTTAGGCCTCAAAGACACTTAG
1313877 TCT
66 TCT
* *
1313880 TTCATCTAACTGGCATAAATGACACCTTTCTTTCATATGCACAGTTAGGCCCCAAAGACACTTAG
1 TTCATCTAACTGGCATAAATGACACCTTTCTGTCATATGCACAGTTAGGCCTCAAAGACACTTAG
*
1313945 TAT
66 TCT
* * * *
1313948 TTCATCTAACTGGTACAAATGACACATTTCTATCATATGCACAGTTAGGCCTCAAAGACACTTAG
1 TTCATCTAACTGGCATAAATGACACCTTTCTGTCATATGCACAGTTAGGCCTCAAAGACACTTAG
*
1314013 TTT
66 TCT
* * * *
1314016 TTCATCTAACTGGTACAAATGACACCTTTCTGTCATATGCACGGTTAGGCCTGAAAGACACTTAG
1 TTCATCTAACTGGCATAAATGACACCTTTCTGTCATATGCACAGTTAGGCCTCAAAGACACTTAG
1314081 TCT
66 TCT
*
1314084 TTCATCTAACTGGCATAAATGAAACCTTTCTGTCATATGCACAGTTAGGCCTC
1 TTCATCTAACTGGCATAAATGACACCTTTCTGTCATATGCACAGTTAGGCCTC
1314137 TTGATCTTTT
Statistics
Matches: 235, Mismatches: 22, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
68 235 1.00
ACGTcount: A:0.30, C:0.24, G:0.14, T:0.32
Consensus pattern (68 bp):
TTCATCTAACTGGCATAAATGACACCTTTCTGTCATATGCACAGTTAGGCCTCAAAGACACTTAG
TCT
Found at i:1314548 original size:58 final size:58
Alignment explanation
Indices: 1314483--1314649 Score: 199
Period size: 59 Copynumber: 2.9 Consensus size: 58
1314473 TACCATAAGA
* * *
1314483 AAATTCATACACTTAGTATAAATTTCTTATCCTTTAGCACACAAGGTGCCCAATATAG
1 AAATTCATACACTTAGTATAAATTTCTTATCATTTAGCACACAAAGTGCCCAATACAG
* * * * * *
1314541 AAATTCATACACTTAGTATGAATTTTTTATTATGTTAGCACACAAAGTGACCTATACGG
1 AAATTCATACACTTAGTATAAATTTCTTATCAT-TTAGCACACAAAGTGCCCAATACAG
* * * * *
1314600 AAATTCATACACCTACTATCAATTTCTTAACATTTTGCACACAAAGTGCC
1 AAATTCATACACTTAGTATAAATTTCTTATCATTTAGCACACAAAGTGCC
1314650 ATTTGGTAAT
Statistics
Matches: 91, Mismatches: 17, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
58 44 0.48
59 47 0.52
ACGTcount: A:0.36, C:0.20, G:0.10, T:0.34
Consensus pattern (58 bp):
AAATTCATACACTTAGTATAAATTTCTTATCATTTAGCACACAAAGTGCCCAATACAG
Found at i:1315123 original size:21 final size:21
Alignment explanation
Indices: 1315097--1315139 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
1315087 GTATCGATAT
*
1315097 TGATTGAATCAGTACCGGTAC
1 TGATTGAATCAGTACCAGTAC
1315118 TGATTGAATCAGTACCAGTAC
1 TGATTGAATCAGTACCAGTAC
1315139 T
1 T
1315140 ACTCATCTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.30
Consensus pattern (21 bp):
TGATTGAATCAGTACCAGTAC
Found at i:1319296 original size:81 final size:81
Alignment explanation
Indices: 1319161--1319383 Score: 288
Period size: 81 Copynumber: 2.7 Consensus size: 81
1319151 TAACCTTTCG
* ** *
1319161 TCTTTTACTCAATGGTA-TCTAACCGTTCATCTAACTGGCATAATTGGTACCTTTCTGCCAATTT
1 TCTTTTACTCAATGGTACT-TAACCGTTCATCTAACTGACATAATTGACACCTTTCTGCCAATTC
1319225 CACAGTTAGACCATTAT
65 CACAGTTAGACCATTAT
* *
1319242 TCTTTTACTCAACGGTACTTAACCGTTCATCTAACTGACATAATTGACACCTTTCTTCCAATTCC
1 TCTTTTACTCAATGGTACTTAACCGTTCATCTAACTGACATAATTGACACCTTTCTGCCAATTCC
* * *
1319307 ATAGTTAGGCTATTAT
66 ACAGTTAGACCATTAT
*
1319323 TCTTTTACTCAATTGTACTTAACCAACCGTTCATCTAACT-AGCATAATTGACACCTTTCTG
1 TCTTTTACTCAATGGTACTT----AACCGTTCATCTAACTGA-CATAATTGACACCTTTCTG
1319384 TCATATGCAC
Statistics
Matches: 124, Mismatches: 12, Indels: 8
0.86 0.08 0.06
Matches are distributed among these distances:
81 88 0.71
82 1 0.01
84 1 0.01
85 34 0.27
ACGTcount: A:0.27, C:0.25, G:0.10, T:0.38
Consensus pattern (81 bp):
TCTTTTACTCAATGGTACTTAACCGTTCATCTAACTGACATAATTGACACCTTTCTGCCAATTCC
ACAGTTAGACCATTAT
Found at i:1319443 original size:68 final size:68
Alignment explanation
Indices: 1319352--1319744 Score: 624
Period size: 68 Copynumber: 5.8 Consensus size: 68
1319342 TAACCAACCG
* * *
1319352 TTCATCTAACTAGCATAATTGACACCTTTCTGTCATATGCACAGTTAGGCCTCAAAGACACTTAA
1 TTCATCTAACTGGCATAAATGACACCTTTCTGTCATATGCACAGTTAGGCCTCAAAGACACTTAG
*
1319417 TCC
66 TCT
* * *
1319420 TTCATCTAACTGGCATAAATGACACATTTCTGTCATATGAATAGTTAGGCCTCAAAGACACTTAG
1 TTCATCTAACTGGCATAAATGACACCTTTCTGTCATATGCACAGTTAGGCCTCAAAGACACTTAG
1319485 TCT
66 TCT
* *
1319488 TTCATCTAACTGGCATAAATGACACCTTTCTGTCATATACACAGTTAGGCCTAAAAGACACTTAG
1 TTCATCTAACTGGCATAAATGACACCTTTCTGTCATATGCACAGTTAGGCCTCAAAGACACTTAG
1319553 TCT
66 TCT
* * * * *
1319556 TTCATCTATCTGGAACAAATGACACATTTCTTTCATATGCACAGTTAGGCCTCAAAGACACTTAG
1 TTCATCTAACTGGCATAAATGACACCTTTCTGTCATATGCACAGTTAGGCCTCAAAGACACTTAG
1319621 TCT
66 TCT
* * *
1319624 TTCATCTAACTGGCATAAATGACACCTTTCTGTCATATGTACATTTAGGCCTCAAAGATACTTAG
1 TTCATCTAACTGGCATAAATGACACCTTTCTGTCATATGCACAGTTAGGCCTCAAAGACACTTAG
1319689 TCT
66 TCT
*
1319692 TTCATCTAACTGGCATAAATGACACCTTTCTGTCATATGCACAGTTAGTCCTC
1 TTCATCTAACTGGCATAAATGACACCTTTCTGTCATATGCACAGTTAGGCCTC
1319745 TTGATCTTTT
Statistics
Matches: 295, Mismatches: 30, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
68 295 1.00
ACGTcount: A:0.31, C:0.24, G:0.13, T:0.33
Consensus pattern (68 bp):
TTCATCTAACTGGCATAAATGACACCTTTCTGTCATATGCACAGTTAGGCCTCAAAGACACTTAG
TCT
Found at i:1321489 original size:32 final size:31
Alignment explanation
Indices: 1321439--1321554 Score: 146
Period size: 32 Copynumber: 3.7 Consensus size: 31
1321429 TCCTTAGAAT
1321439 ATAGGTATACTGTCCATATGTCTCGAAAGAC
1 ATAGGTATACTGTCCATATGTCTCGAAAGAC
* *
1321470 ATAGGTAATTCTGTCCATATGT-TCCG-TAGAAC
1 ATAGGT-ATACTGTCCATATGTCT-CGAAAG-AC
*
1321502 ATAGGTATACTGTCCATATGTCTCGAAAAAC
1 ATAGGTATACTGTCCATATGTCTCGAAAGAC
*
1321533 ATAGGTAATTCTGTCCATATGT
1 ATAGGT-ATACTGTCCATATGT
1321555 TCCGTAGAAC
Statistics
Matches: 73, Mismatches: 6, Indels: 11
0.81 0.07 0.12
Matches are distributed among these distances:
31 33 0.45
32 40 0.55
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.33
Consensus pattern (31 bp):
ATAGGTATACTGTCCATATGTCTCGAAAGAC
Found at i:1321492 original size:63 final size:63
Alignment explanation
Indices: 1321409--1321574 Score: 289
Period size: 63 Copynumber: 2.7 Consensus size: 63
1321399 CCGATGAACC
* * * *
1321409 TAGGTAA-ACTGTCCATATGTTCCTTAGAATATAGGTATACTGTCCATATGTCTCGAAAGACA
1 TAGGTAATTCTGTCCATATGTTCCGTAGAACATAGGTATACTGTCCATATGTCTCGAAAAACA
1321471 TAGGTAATTCTGTCCATATGTTCCGTAGAACATAGGTATACTGTCCATATGTCTCGAAAAACA
1 TAGGTAATTCTGTCCATATGTTCCGTAGAACATAGGTATACTGTCCATATGTCTCGAAAAACA
1321534 TAGGTAATTCTGTCCATATGTTCCGTAGAACATAGGTATAC
1 TAGGTAATTCTGTCCATATGTTCCGTAGAACATAGGTATAC
1321575 CCTCGACTCT
Statistics
Matches: 99, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
62 7 0.07
63 92 0.93
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.33
Consensus pattern (63 bp):
TAGGTAATTCTGTCCATATGTTCCGTAGAACATAGGTATACTGTCCATATGTCTCGAAAAACA
Found at i:1321566 original size:32 final size:32
Alignment explanation
Indices: 1321385--1321571 Score: 199
Period size: 31 Copynumber: 5.9 Consensus size: 32
1321375 ATCCTCGGTA
* * *
1321385 ACTGTCTATAGGTTCCG-ATGAACCTAGGTAA-
1 ACTGTCCATATGTTCCGTA-GAACATAGGTAAT
* *
1321416 ACTGTCCATATGTTCCTTAGAATATAGGT-AT
1 ACTGTCCATATGTTCCGTAGAACATAGGTAAT
*
1321447 ACTGTCCATATG-TCTCG-AAAGACATAGGTAAT
1 ACTGTCCATATGTTC-CGTAGA-ACATAGGTAAT
*
1321479 TCTGTCCATATGTTCCGTAGAACATAGGT-AT
1 ACTGTCCATATGTTCCGTAGAACATAGGTAAT
* *
1321510 ACTGTCCATATG-TCTCGAAAAACATAGGTAAT
1 ACTGTCCATATGTTC-CGTAGAACATAGGTAAT
*
1321542 TCTGTCCATATGTTCCGTAGAACATAGGTA
1 ACTGTCCATATGTTCCGTAGAACATAGGTA
1321572 TACCCTCGAC
Statistics
Matches: 130, Mismatches: 16, Indels: 19
0.79 0.10 0.12
Matches are distributed among these distances:
30 7 0.05
31 67 0.52
32 50 0.38
33 6 0.05
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.32
Consensus pattern (32 bp):
ACTGTCCATATGTTCCGTAGAACATAGGTAAT
Found at i:1326186 original size:31 final size:31
Alignment explanation
Indices: 1326116--1326309 Score: 182
Period size: 31 Copynumber: 6.2 Consensus size: 31
1326106 AAAGATCCTC
* * *
1326116 GGTA-ACTGTCTATAGGTTCCG-ATGAACCTA
1 GGTATACTGTCCATATGTTCCGTA-GAACATA
* *
1326146 GGTAAACTGTCCATATGTTCCTTAGAACATA
1 GGTATACTGTCCATATGTTCCGTAGAACATA
* *
1326177 GATATACTGTCCATATG-TCTCG-AAAGACATA
1 GGTATACTGTCCATATGTTC-CGTAGA-ACATA
* *
1326208 TGTAATTCTGTCCATATGTTCCGTAGAACATA
1 GGT-ATACTGTCCATATGTTCCGTAGAACATA
* *
1326240 GGTATACTGTCCATATG-TCTCGAAAAACATA
1 GGTATACTGTCCATATGTTC-CGTAGAACATA
* *
1326271 GGTAATTCTATCCATATGTTCCGTAGAACATA
1 GGT-ATACTGTCCATATGTTCCGTAGAACATA
1326303 GGTATAC
1 GGTATAC
1326310 CCTCGACTCT
Statistics
Matches: 133, Mismatches: 21, Indels: 19
0.77 0.12 0.11
Matches are distributed among these distances:
30 10 0.08
31 70 0.53
32 47 0.35
33 6 0.05
ACGTcount: A:0.31, C:0.19, G:0.18, T:0.32
Consensus pattern (31 bp):
GGTATACTGTCCATATGTTCCGTAGAACATA
Found at i:1326224 original size:32 final size:32
Alignment explanation
Indices: 1326183--1326289 Score: 130
Period size: 32 Copynumber: 3.4 Consensus size: 32
1326173 CATAGATATA
*
1326183 CTGTCCATATGTCTCGAAAGACATATGTAATT
1 CTGTCCATATGTCTCGAAAGACATAGGTAATT
* *
1326215 CTGTCCATATGT-TCCG-TAGAACATAGGT-ATA
1 CTGTCCATATGTCT-CGAAAG-ACATAGGTAATT
*
1326246 CTGTCCATATGTCTCGAAAAACATAGGTAATT
1 CTGTCCATATGTCTCGAAAGACATAGGTAATT
*
1326278 CTATCCATATGT
1 CTGTCCATATGT
1326290 TCCGTAGAAC
Statistics
Matches: 63, Mismatches: 7, Indels: 10
0.79 0.09 0.12
Matches are distributed among these distances:
31 27 0.43
32 36 0.57
ACGTcount: A:0.31, C:0.20, G:0.16, T:0.34
Consensus pattern (32 bp):
CTGTCCATATGTCTCGAAAGACATAGGTAATT
Found at i:1326229 original size:63 final size:63
Alignment explanation
Indices: 1326144--1326309 Score: 271
Period size: 63 Copynumber: 2.7 Consensus size: 63
1326134 CCGATGAACC
* * * *
1326144 TAGGTAA-ACTGTCCATATGTTCCTTAGAACATAGATATACTGTCCATATGTCTCGAAAGACA
1 TAGGTAATTCTGTCCATATGTTCCGTAGAACATAGGTATACTGTCCATATGTCTCGAAAAACA
*
1326206 TATGTAATTCTGTCCATATGTTCCGTAGAACATAGGTATACTGTCCATATGTCTCGAAAAACA
1 TAGGTAATTCTGTCCATATGTTCCGTAGAACATAGGTATACTGTCCATATGTCTCGAAAAACA
*
1326269 TAGGTAATTCTATCCATATGTTCCGTAGAACATAGGTATAC
1 TAGGTAATTCTGTCCATATGTTCCGTAGAACATAGGTATAC
1326310 CCTCGACTCT
Statistics
Matches: 96, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
62 6 0.06
63 90 0.94
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.33
Consensus pattern (63 bp):
TAGGTAATTCTGTCCATATGTTCCGTAGAACATAGGTATACTGTCCATATGTCTCGAAAAACA
Found at i:1327231 original size:64 final size:64
Alignment explanation
Indices: 1327077--1327233 Score: 151
Period size: 64 Copynumber: 2.5 Consensus size: 64
1327067 CAATGAAAGT
* * * ** *
1327077 ATGCATCGATGCACTA-CTGATGCATCGGTGCATAAAATGCATTCGATGTTGTATTATCACGGGG
1 ATGCATCGATGCACTACCTG-TGCATCGATGCATAAAATGCATTCGATGTTCTATTATAAAAGAG
* * * * *
1327141 ATGCATCGATGCA-TGCCTTATACATCGATGCACT-AATTGCATTCGATGTTTCTATTTTAAAAG
1 ATGCATCGATGCACTACC-TGTGCATCGATGCA-TAAAATGCATTCGATG-TTCTATTATAAAAG
1327204 AG
63 AG
1327206 -TGCATCGATGCACTACCTGTGCATCGAT
1 ATGCATCGATGCACTACCTGTGCATCGAT
1327234 ATACCTTCAA
Statistics
Matches: 74, Mismatches: 14, Indels: 10
0.76 0.14 0.10
Matches are distributed among these distances:
63 1 0.01
64 58 0.78
65 15 0.20
ACGTcount: A:0.27, C:0.20, G:0.21, T:0.32
Consensus pattern (64 bp):
ATGCATCGATGCACTACCTGTGCATCGATGCATAAAATGCATTCGATGTTCTATTATAAAAGAG
Found at i:1329694 original size:3 final size:3
Alignment explanation
Indices: 1329686--1329730 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
1329676 TTCTATCCAA
1329686 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1329731 GGGTATTGTT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:1330289 original size:31 final size:30
Alignment explanation
Indices: 1330254--1330329 Score: 100
Period size: 30 Copynumber: 2.5 Consensus size: 30
1330244 GTTAATCTTT
*
1330254 AGTGACCACATCTTAATTAAAACGAAACGAA
1 AGTGACCAAATCTT-ATTAAAACGAAACGAA
** *
1330285 AGTGATAAAATCTTATTAAAATGAAACGAA
1 AGTGACCAAATCTTATTAAAACGAAACGAA
1330315 AGTGACCAAAT-TTAT
1 AGTGACCAAATCTTAT
1330330 GTTTTTTAAA
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
29 4 0.10
30 24 0.62
31 11 0.28
ACGTcount: A:0.49, C:0.13, G:0.13, T:0.25
Consensus pattern (30 bp):
AGTGACCAAATCTTATTAAAACGAAACGAA
Found at i:1330826 original size:21 final size:21
Alignment explanation
Indices: 1330784--1330825 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
1330774 TAAATGATTT
*
1330784 ATTTTAATTCTTAAATATAAA
1 ATTTTAATTATTAAATATAAA
*
1330805 ATTTTAATTATTATAT-TAAA
1 ATTTTAATTATTAAATATAAA
1330825 A
1 A
1330826 AATTAAACGG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (21 bp):
ATTTTAATTATTAAATATAAA
Found at i:1331055 original size:34 final size:32
Alignment explanation
Indices: 1331012--1331098 Score: 129
Period size: 34 Copynumber: 2.7 Consensus size: 32
1331002 TAAAATTTTA
*
1331012 GGTACTAAAATGAAACAAAAAAAGTTAACAATGG
1 GGTACTAAAATGAAACAAAAAAA-TAAACAAT-G
*
1331046 GGTACTAAAATGAAACAAAAAAATAAATAATG
1 GGTACTAAAATGAAACAAAAAAATAAACAATG
*
1331078 GATACTAAAATGAAACAAAAA
1 GGTACTAAAATGAAACAAAAA
1331099 GTAAATATTA
Statistics
Matches: 50, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
32 21 0.42
33 6 0.12
34 23 0.46
ACGTcount: A:0.61, C:0.08, G:0.14, T:0.17
Consensus pattern (32 bp):
GGTACTAAAATGAAACAAAAAAATAAACAATG
Found at i:1331084 original size:32 final size:34
Alignment explanation
Indices: 1331014--1331098 Score: 129
Period size: 32 Copynumber: 2.6 Consensus size: 34
1331004 AAATTTTAGG
* *
1331014 TACTAAAATGAAACAAAAAAAGTTAACAATGGGG
1 TACTAAAATGAAACAAAAAAAGTAAACAATGGGA
*
1331048 TACTAAAATGAAACAAAAAAA-TAAATAAT-GGA
1 TACTAAAATGAAACAAAAAAAGTAAACAATGGGA
1331080 TACTAAAATGAAACAAAAA
1 TACTAAAATGAAACAAAAA
1331099 GTAAATATTA
Statistics
Matches: 48, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
32 21 0.44
33 6 0.12
34 21 0.44
ACGTcount: A:0.62, C:0.08, G:0.12, T:0.18
Consensus pattern (34 bp):
TACTAAAATGAAACAAAAAAAGTAAACAATGGGA
Found at i:1335855 original size:31 final size:31
Alignment explanation
Indices: 1335802--1335860 Score: 73
Period size: 31 Copynumber: 1.9 Consensus size: 31
1335792 AGGGTAAACC
* * *
1335802 ACATATTAGTACCTAAAGTTTCACTTTTGAT
1 ACATATTAATACCTAAACTTTCAATTTTGAT
* *
1335833 ACATTTTAATACCTAGACTTTCAATTTT
1 ACATATTAATACCTAAACTTTCAATTTT
1335861 TACAAAATCA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
31 23 1.00
ACGTcount: A:0.32, C:0.17, G:0.07, T:0.44
Consensus pattern (31 bp):
ACATATTAATACCTAAACTTTCAATTTTGAT
Found at i:1337737 original size:40 final size:40
Alignment explanation
Indices: 1337693--1337884 Score: 244
Period size: 40 Copynumber: 4.8 Consensus size: 40
1337683 ATATTCGCCT
*
1337693 CGCCTCGACTTGATTATAATAAATTAATTTATATTCAACC
1 CGCCTCGACTTGATTAGAATAAATTAATTTATATTCAACC
* *
1337733 CGCCTCGACTTGATTAGGATAAATTAATTTATATTCGACC
1 CGCCTCGACTTGATTAGAATAAATTAATTTATATTCAACC
* *
1337773 CGCCTCGACTTGATTCA-AATAAATTAATTTATATTCGACA
1 CGCCTCGACTTGATT-AGAATAAATTAATTTATATTCAACC
* * *
1337813 TGCCTTGACTTGATTCGAATAAATTAATTTATATTCGAA-C
1 CGCCTCGACTTGATTAGAATAAATTAATTTATATTC-AACC
* * **
1337853 TGCCTCAACTTGATTCTAATAAATTAATTTAT
1 CGCCTCGACTTGATTAGAATAAATTAATTTAT
1337885 TTGAATCAAG
Statistics
Matches: 136, Mismatches: 13, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
40 134 0.99
41 2 0.01
ACGTcount: A:0.33, C:0.18, G:0.10, T:0.38
Consensus pattern (40 bp):
CGCCTCGACTTGATTAGAATAAATTAATTTATATTCAACC
Found at i:1337823 original size:80 final size:80
Alignment explanation
Indices: 1337682--1337884 Score: 284
Period size: 80 Copynumber: 2.5 Consensus size: 80
1337672 TTTTTTAAAA
*
1337682 TATATTCG-CCTCGCCTCGACTTGATT-ATAATAAATTAATTTATATTCAACCCGCCTCGACTTG
1 TATATTCGACC-CGCCTCGACTTGATTCA-AATAAATTAATTTATATTCAACACGCCTCGACTTG
*
1337745 ATTAGGATAAATTAATT
64 ATTAGAATAAATTAATT
* * *
1337762 TATATTCGACCCGCCTCGACTTGATTCAAATAAATTAATTTATATTCGACATGCCTTGACTTGAT
1 TATATTCGACCCGCCTCGACTTGATTCAAATAAATTAATTTATATTCAACACGCCTCGACTTGAT
*
1337827 TCGAATAAATTAATT
66 TAGAATAAATTAATT
* * * *
1337842 TATATTCGAACTGCCTCAACTTGATTCTAATAAATTAATTTAT
1 TATATTCGACCCGCCTCGACTTGATTCAAATAAATTAATTTAT
1337885 TTGAATCAAG
Statistics
Matches: 111, Mismatches: 10, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
80 108 0.97
81 3 0.03
ACGTcount: A:0.33, C:0.19, G:0.10, T:0.38
Consensus pattern (80 bp):
TATATTCGACCCGCCTCGACTTGATTCAAATAAATTAATTTATATTCAACACGCCTCGACTTGAT
TAGAATAAATTAATT
Found at i:1337848 original size:20 final size:20
Alignment explanation
Indices: 1337785--1337851 Score: 55
Period size: 20 Copynumber: 3.4 Consensus size: 20
1337775 CCTCGACTTG
*
1337785 ATTCAAATAAATTAATTTAT
1 ATTCGAATAAATTAATTTAT
*** * * *
1337805 ATTCGACATGCCTTGACTT-G
1 ATTCGA-ATAAATTAATTTAT
1337825 ATTCGAATAAATTAATTTAT
1 ATTCGAATAAATTAATTTAT
1337845 ATTCGAA
1 ATTCGAA
1337852 CTGCCTCAAC
Statistics
Matches: 32, Mismatches: 13, Indels: 4
0.65 0.27 0.08
Matches are distributed among these distances:
19 7 0.22
20 18 0.56
21 7 0.22
ACGTcount: A:0.39, C:0.12, G:0.09, T:0.40
Consensus pattern (20 bp):
ATTCGAATAAATTAATTTAT
Found at i:1343669 original size:21 final size:20
Alignment explanation
Indices: 1343645--1343683 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
1343635 TCTAAATTTA
1343645 AAATAT-AAAATATTAAAAAAC
1 AAATATCAAAA-A-TAAAAAAC
1343666 AAATATCAAAAATAAAAA
1 AAATATCAAAAATAAAAA
1343684 TTAAATTACT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 6 0.35
21 7 0.41
22 4 0.24
ACGTcount: A:0.74, C:0.05, G:0.00, T:0.21
Consensus pattern (20 bp):
AAATATCAAAAATAAAAAAC
Found at i:1348758 original size:670 final size:664
Alignment explanation
Indices: 1347435--1348769 Score: 2490
Period size: 670 Copynumber: 2.0 Consensus size: 664
1347425 AGCAAGTGTT
1347435 TGATTAGTTTTAAATCTCACTCTTAATTCACTCCAAATATTAATGTTAGTCATATGCTCAATACT
1 TGATTAGTTTTAAATCTCACTCTTAATTCACTCCAAATATTAATGTTAGTCATATGCTCAATACT
*
1347500 ATTTTCATGTTGTTCGAGTCTCTCACTAAGATGCTTCCAATCATTTAATCCATCATTGCTAAATA
66 ATTTTCATATTGTTCGAGTCTCTCACTAAGATGCTTCCAATCATTTAATCCATCATTGCTAAATA
* *
1347565 ACTCTTATTGTTTGCTTTGTAACAATTTTACAACAAACAATAATAAACTTTTTCCACATGTTTAG
131 ACTCTTATTGTTTGCTTTGTAACAATTTTACAACAAAAAACAATAAACTTTTTCCACATGTTTAG
1347630 AATAGACCAACCATTTTCTATCACTAATCTCTCCATTAATCAATTTTCTAGAAAAATAAGCATAT
196 AATAGACCAACCATTTTCTATCACTAATCTCTCCATTAATCAATTTTCTAGAAAAATAAGCATAT
1347695 GAAAAATGCCTAGAATTATTGGCTAAGGGAAATTTCAAATTCAATTTCTTATAGGCTCATTTTCA
261 GAAAAATGCCTAGAATTATTGGCTAAGGGAAATTTCAAATTCAATTTCTTATAGGCTCATTTTCA
1347760 ACTAAAATATCTCCAGATTTATTATCAAGATTATCCCAATTTCTAGGATCATAAATGTCCCAGTA
326 ACTAAAATATCTCCAGATTTATTATCAAGATTATCCCAATTTCTAGGATCATAAATGTCCCAGTA
*
1347825 GGGACTAAGTATTGATTAATCCCAACATCTTCAACATTAGACTCATTTTGTGCATGATTATGGAC
391 GGGACTAAGTATTGATCAATCCCAACATCTTCAACATTAGACTCATTTTGTGCATGATTATGGAC
1347890 ATTTAAATTAGAAATGTCACCATCTATATGATTTAGGATATCATGGTAATTGCATCAGTAGCACT
456 ATTTAAATTAGAAATGTCACCATCTATATGATTTAGGATATCATGGTAATTGCATCAGTAGCACT
* *
1347955 TAGATTGGTACAATTTGAAGAACTATCAAAATTATTTAAATTCCCAACTATATCATTTAAATTTT
521 TAGATTGGTACAATTTGAAGAACTATCAAAATTATTTAAATTCCCAACGATATCATTGAAATTTT
1348020 TATTAGAAGGCTCTCCTACTCCACCTTTAAAGAATTTATCAAGAACTCCCTTTTGTGATTCTATT
586 TATTAGAAGGCTCTCCTACTCCACCTTTAAAGAATTTATCAAGAACTCCCTTTTGTGATTCTATT
1348085 AAATCATCTCTTTG
651 AAATCATCTCTTTG
* *
1348099 TGATTAGTTTTTAATCTCACTCTTAATTCACTCCAAATATTCATGTTAGTCATATGCTCAATACT
1 TGATTAGTTTTAAATCTCACTCTTAATTCACTCCAAATATTAATGTTAGTCATATGCTCAATACT
*
1348164 ATTTTCATATTGTTCGAGTCTCTCACTATGATGCTTCCAATCATTTAATCCATCATTTGCTAAAT
66 ATTTTCATATTGTTCGAGTCTCTCACTAAGATGCTTCCAATCATTTAATCCATCA-TTGCTAAAT
1348229 AACTCTTATTGTTTTGCTTTGTAAACAATTTTACAACAAAAAACAATAAACTTTTTCCACATGTT
130 AACTCTTATTG-TTTGCTTTGT-AACAATTTTACAACAAAAAACAATAAACTTTTTCCACATGTT
1348294 TAGAATAGACCAACCATTTTCTATCACTAATCTCTCCATTAATCAATTTTCTAGAAAAATAAGCA
193 TAGAATAGACCAACCATTTTCTATCACTAATCTCTCCATTAATCAATTTTCTAGAAAAATAAGCA
1348359 TATGAAAAATGCCTAGAATTATTGGCTAAGGGAAATTTCAAATTCAATTATCTTATAGGCTCATT
258 TATGAAAAATGCCTAGAATTATTGGCTAAGGGAAATTTCAAATTCAATT-TCTTATAGGCTCATT
*
1348424 TTCAATTAAAATATCTCCAGATTTATTATCAAGATTATCCCAATTTCTAGGATCATAAATGTCCA
322 TTCAACTAAAATATCTCCAGATTTATTATCAAGATTATCCCAATTTCTAGGATCATAAATGTCC-
1348489 CAGTAGGGACTAAGTATTGATCAATCCCAACATCTTCAACATTAGACTCATTTTGTGCATGATTA
386 CAGTAGGGACTAAGTATTGATCAATCCCAACATCTTCAACATTAGACTCATTTTGTGCATGATTA
1348554 TGGACATTTAAATTAGAAATGTCACCATCTATATGATTTAGGATATCATGGTAATTTGCATCAGT
451 TGGACATTTAAATTAGAAATGTCACCATCTATATGATTTAGGATATCATGGTAA-TTGCATCAGT
* * *
1348619 AGTACTTAGATTGGTACAATTTGAAGAACTATCAAGATTATTTAAATTCCCAGCGATATCATTGA
515 AGCACTTAGATTGGTACAATTTGAAGAACTATCAAAATTATTTAAATTCCCAACGATATCATTGA
*
1348684 AATTTTTATTAGGAGGCTCTCCTACTCCACCTTTAAAGAATTTATCAAGAACTCCCTTTTGTGAT
580 AATTTTTATTAGAAGGCTCTCCTACTCCACCTTTAAAGAATTTATCAAGAACTCCCTTTTGTGAT
1348749 TCTATTAAATCATCTCTTTG
645 TCTATTAAATCATCTCTTTG
1348769 T
1 T
1348770 TTCTTTTTTT
Statistics
Matches: 651, Mismatches: 14, Indels: 6
0.97 0.02 0.01
Matches are distributed among these distances:
664 116 0.18
665 20 0.03
666 10 0.02
667 154 0.24
668 78 0.12
669 118 0.18
670 155 0.24
ACGTcount: A:0.34, C:0.18, G:0.11, T:0.38
Consensus pattern (664 bp):
TGATTAGTTTTAAATCTCACTCTTAATTCACTCCAAATATTAATGTTAGTCATATGCTCAATACT
ATTTTCATATTGTTCGAGTCTCTCACTAAGATGCTTCCAATCATTTAATCCATCATTGCTAAATA
ACTCTTATTGTTTGCTTTGTAACAATTTTACAACAAAAAACAATAAACTTTTTCCACATGTTTAG
AATAGACCAACCATTTTCTATCACTAATCTCTCCATTAATCAATTTTCTAGAAAAATAAGCATAT
GAAAAATGCCTAGAATTATTGGCTAAGGGAAATTTCAAATTCAATTTCTTATAGGCTCATTTTCA
ACTAAAATATCTCCAGATTTATTATCAAGATTATCCCAATTTCTAGGATCATAAATGTCCCAGTA
GGGACTAAGTATTGATCAATCCCAACATCTTCAACATTAGACTCATTTTGTGCATGATTATGGAC
ATTTAAATTAGAAATGTCACCATCTATATGATTTAGGATATCATGGTAATTGCATCAGTAGCACT
TAGATTGGTACAATTTGAAGAACTATCAAAATTATTTAAATTCCCAACGATATCATTGAAATTTT
TATTAGAAGGCTCTCCTACTCCACCTTTAAAGAATTTATCAAGAACTCCCTTTTGTGATTCTATT
AAATCATCTCTTTG
Found at i:1350302 original size:29 final size:29
Alignment explanation
Indices: 1350260--1350351 Score: 157
Period size: 29 Copynumber: 3.2 Consensus size: 29
1350250 CTTATTCCAT
1350260 CTCCAGCGCATCGTTGGAGTGGCATTCAC
1 CTCCAGCGCATCGTTGGAGTGGCATTCAC
1350289 CTCCAGCGCATCGTTGGAGTGGCATTCAC
1 CTCCAGCGCATCGTTGGAGTGGCATTCAC
* * *
1350318 CTCCAACGCATCGCTGGAGTGGCATTCAT
1 CTCCAGCGCATCGTTGGAGTGGCATTCAC
1350347 CTCCA
1 CTCCA
1350352 CTTTGGAGAT
Statistics
Matches: 60, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 60 1.00
ACGTcount: A:0.18, C:0.33, G:0.25, T:0.24
Consensus pattern (29 bp):
CTCCAGCGCATCGTTGGAGTGGCATTCAC
Found at i:1350578 original size:15 final size:17
Alignment explanation
Indices: 1350558--1350589 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
1350548 TATAATATAA
1350558 TAAATT-CAAG-TAGAT
1 TAAATTGCAAGATAGAT
1350573 TAAATTGCAAGATAGAT
1 TAAATTGCAAGATAGAT
1350590 AAAAATACAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.40
16 4 0.27
17 5 0.33
ACGTcount: A:0.47, C:0.06, G:0.16, T:0.31
Consensus pattern (17 bp):
TAAATTGCAAGATAGAT
Found at i:1352452 original size:25 final size:25
Alignment explanation
Indices: 1352419--1352470 Score: 86
Period size: 25 Copynumber: 2.1 Consensus size: 25
1352409 TGTTTTATGC
*
1352419 ATTACGTATTTATTTTACATATATT
1 ATTACGTATTTATTTTACATACATT
*
1352444 ATTATGTATTTATTTTACATACATT
1 ATTACGTATTTATTTTACATACATT
1352469 AT
1 AT
1352471 GTTATGATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.33, C:0.08, G:0.04, T:0.56
Consensus pattern (25 bp):
ATTACGTATTTATTTTACATACATT
Found at i:1353573 original size:22 final size:20
Alignment explanation
Indices: 1353538--1353581 Score: 52
Period size: 22 Copynumber: 2.1 Consensus size: 20
1353528 GAGAATTCGA
1353538 TTTTATTTAATTCACGATTCTT
1 TTTTATTTAATTCA--ATTCTT
**
1353560 TTTTATTTCTTTCAATTCTT
1 TTTTATTTAATTCAATTCTT
1353580 TT
1 TT
1353582 ATTCTTTTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 8 0.40
22 12 0.60
ACGTcount: A:0.18, C:0.14, G:0.02, T:0.66
Consensus pattern (20 bp):
TTTTATTTAATTCAATTCTT
Found at i:1357302 original size:21 final size:23
Alignment explanation
Indices: 1357267--1357310 Score: 65
Period size: 21 Copynumber: 2.0 Consensus size: 23
1357257 CTTATATTCA
*
1357267 CATATACATGTTCTCATATAATT
1 CATATACATGTTCTCATACAATT
1357290 CATAT-CAT-TTCTCATACAATT
1 CATATACATGTTCTCATACAATT
1357311 ACTTCATTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 12 0.60
22 3 0.15
23 5 0.25
ACGTcount: A:0.34, C:0.20, G:0.02, T:0.43
Consensus pattern (23 bp):
CATATACATGTTCTCATACAATT
Found at i:1361603 original size:21 final size:21
Alignment explanation
Indices: 1361567--1361618 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 21
1361557 CATATATTCA
*
1361567 CATATACATGTTCTCATATAATT
1 CATAT-CAT-TTCTCATACAATT
1361590 CATATCATTTCTCATACAATT
1 CATATCATTTCTCATACAATT
*
1361611 AAT-TCATT
1 CATATCATT
1361619 CAATTATAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
20 5 0.19
21 14 0.52
22 3 0.11
23 5 0.19
ACGTcount: A:0.35, C:0.19, G:0.02, T:0.44
Consensus pattern (21 bp):
CATATCATTTCTCATACAATT
Found at i:1362212 original size:22 final size:21
Alignment explanation
Indices: 1362186--1362242 Score: 57
Period size: 22 Copynumber: 2.8 Consensus size: 21
1362176 GTACAACCCT
1362186 TAGGGTATCGATACCTCTAAAC
1 TAGGGTATCGATACCTCT-AAC
*
1362208 TAGGGTA-CTGATACC-CTATC
1 TAGGGTATC-GATACCTCTAAC
*
1362228 TA-GGTATTGATACCT
1 TAGGGTATCGATACCT
1362243 ATATTAGCTT
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
19 10 0.33
20 4 0.13
21 3 0.10
22 13 0.43
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.32
Consensus pattern (21 bp):
TAGGGTATCGATACCTCTAAC
Found at i:1362291 original size:21 final size:23
Alignment explanation
Indices: 1362265--1362306 Score: 70
Period size: 21 Copynumber: 1.9 Consensus size: 23
1362255 AAGTTCACCC
1362265 TGTATCGATACC-C-TCCATATA
1 TGTATCGATACCTCATCCATATA
1362286 TGTATCGATACCTCATCCATA
1 TGTATCGATACCTCATCCATA
1362307 GGTTATCGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 12 0.63
22 1 0.05
23 6 0.32
ACGTcount: A:0.29, C:0.29, G:0.10, T:0.33
Consensus pattern (23 bp):
TGTATCGATACCTCATCCATATA
Found at i:1365966 original size:51 final size:51
Alignment explanation
Indices: 1365871--1365993 Score: 160
Period size: 51 Copynumber: 2.4 Consensus size: 51
1365861 TTTCTTTCAG
* ** *
1365871 AACAAATTTTGTCTCTCTTGAAACCAAAATCTTTGAATTTGTTTCCCTTGT
1 AACAAATTTTGTCTCCCTTGAAACCAAAATCTTTGAATACGTTTCCCTTGA
*
1365922 AACAAAGTTTTGTCTCCCTTGAAA-CATAAA-CTTTGAATACGTTTCTCTTGA
1 AACAAA-TTTTGTCTCCCTTGAAACCA-AAATCTTTGAATACGTTTCCCTTGA
*
1365973 AACAAATTTCGTCTCCCTTGA
1 AACAAATTTTGTCTCCCTTGA
1365994 GACAGTTTCC
Statistics
Matches: 64, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
50 14 0.22
51 31 0.48
52 19 0.30
ACGTcount: A:0.29, C:0.21, G:0.11, T:0.39
Consensus pattern (51 bp):
AACAAATTTTGTCTCCCTTGAAACCAAAATCTTTGAATACGTTTCCCTTGA
Found at i:1368711 original size:13 final size:13
Alignment explanation
Indices: 1368695--1368723 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
1368685 TATTAAAAGT
1368695 AAATAAAGAAAAA
1 AAATAAAGAAAAA
1368708 AAATAAAGAAAAA
1 AAATAAAGAAAAA
1368721 AAA
1 AAA
1368724 CAAACAAAAT
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:0.86, C:0.00, G:0.07, T:0.07
Consensus pattern (13 bp):
AAATAAAGAAAAA
Found at i:1372783 original size:36 final size:36
Alignment explanation
Indices: 1372675--1372897 Score: 218
Period size: 36 Copynumber: 6.2 Consensus size: 36
1372665 AGAGTTATCA
**
1372675 CCTTGAAACAAATTTCATCTCCCTTGAGACAGTTTC
1 CCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTC
* * * * * *
1372711 TCTGGAAATAAAGTTTTGCCT-CTTTAGAGATAGTTTC
1 CCTTGAAACAAA-TTTTGTCTCCCTT-GAGACAGTTTC
** *
1372748 CCTTGAAGTAAATTTCGTCTCCCTTGAGACAGTTT-
1 CCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTC
* * *
1372783 CCTTGAAACAAATTTTATCTCCCTTTAGATAGTTTC
1 CCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTC
* * *
1372819 CCTTAAAACAAAGTTTTGTCTCTCTTGAGATAGTTTC
1 CCTTGAAACAAA-TTTTGTCTCCCTTGAGACAGTTTC
*
1372856 CCTTGAAACAAATTTTGTCTCCCATT-AGACAGTCTC
1 CCTTGAAACAAATTTTGTCTCCC-TTGAGACAGTTTC
*
1372892 TCTTGA
1 CCTTGA
1372898 GATAGTTTCC
Statistics
Matches: 151, Mismatches: 30, Indels: 12
0.78 0.16 0.06
Matches are distributed among these distances:
35 29 0.19
36 61 0.40
37 61 0.40
ACGTcount: A:0.26, C:0.22, G:0.13, T:0.38
Consensus pattern (36 bp):
CCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTC
Found at i:1372809 original size:73 final size:72
Alignment explanation
Indices: 1372675--1372884 Score: 237
Period size: 73 Copynumber: 2.9 Consensus size: 72
1372665 AGAGTTATCA
* * * * *
1372675 CCTTGAAACAAATTTCATCTCCCTTGAGACAGTTTCTCTGGAAATAAAGTTTTGC-CTCTTTAGA
1 CCTTGAAACAAATTTCGTCTCCCTTGAGACAGTTTC-CTTGAAACAAA-TTTTTCTCCCTTTAGA
1372739 GATAGTTTC
64 GATAGTTTC
**
1372748 CCTTGAAGTAAATTTCGTCTCCCTTGAGACAGTTTCCTTGAAACAAATTTTATCTCCCTTT--AG
1 CCTTGAAACAAATTTCGTCTCCCTTGAGACAGTTTCCTTGAAACAAATTTT-TCTCCCTTTAGAG
1372811 ATAGTTTC
65 ATAGTTTC
* * * * *
1372819 CCTTAAAACAAAGTTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAATTTTGTCTCCCATTAG
1 CCTTGAAACAAA-TTTCGTCTCCCTTGAGACAGTTT-CCTTGAAACAAATTTT-TCTCCCTTTAG
1372884 A
63 A
1372885 CAGTCTCTCT
Statistics
Matches: 116, Mismatches: 15, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
71 23 0.20
72 30 0.26
73 62 0.53
75 1 0.01
ACGTcount: A:0.27, C:0.21, G:0.13, T:0.38
Consensus pattern (72 bp):
CCTTGAAACAAATTTCGTCTCCCTTGAGACAGTTTCCTTGAAACAAATTTTTCTCCCTTTAGAGA
TAGTTTC
Found at i:1372852 original size:37 final size:36
Alignment explanation
Indices: 1372675--1372878 Score: 223
Period size: 37 Copynumber: 5.6 Consensus size: 36
1372665 AGAGTTATCA
** *
1372675 CCTTGAAACAAATTTCATCTCCCTTGAGACAGTTTC
1 CCTTGAAACAAATTTTGTCTCCCTTGAGATAGTTTC
* * * * *
1372711 TCTGGAAATAAAGTTTTGCCT-CTTTAGAGATAGTTTC
1 CCTTGAAACAAA-TTTTGTCTCCCTT-GAGATAGTTTC
** * *
1372748 CCTTGAAGTAAATTTCGTCTCCCTTGAGACAGTTT-
1 CCTTGAAACAAATTTTGTCTCCCTTGAGATAGTTTC
* *
1372783 CCTTGAAACAAATTTTATCTCCCTTTAGATAGTTTC
1 CCTTGAAACAAATTTTGTCTCCCTTGAGATAGTTTC
* *
1372819 CCTTAAAACAAAGTTTTGTCTCTCTTGAGATAGTTTC
1 CCTTGAAACAAA-TTTTGTCTCCCTTGAGATAGTTTC
1372856 CCTTGAAACAAATTTTGTCTCCC
1 CCTTGAAACAAATTTTGTCTCCC
1372879 ATTAGACAGT
Statistics
Matches: 136, Mismatches: 27, Indels: 10
0.79 0.16 0.06
Matches are distributed among these distances:
35 29 0.21
36 48 0.35
37 59 0.43
ACGTcount: A:0.26, C:0.22, G:0.13, T:0.38
Consensus pattern (36 bp):
CCTTGAAACAAATTTTGTCTCCCTTGAGATAGTTTC
Done.