Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007816.1 Hibiscus syriacus cultivar Beakdansim tig00110151_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: 3994936
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 14
Found at i:1138686 original size:203 final size:204
Alignment explanation
Indices: 1138473--1138843 Score: 503
Period size: 203 Copynumber: 1.8 Consensus size: 204
1138463 AGACAAAATT
* * *
1138473 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTAGTTCCAAAAGAAACTGTCTCAAGGGAG
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTACTTCCAAAAGAAACTATCTCAAGAGAG
* * * *
1138538 ATGAAATTTGTTTCAAATAAAACATATTCAAATAATT-TGTTTCAAGGGAAAATGTCTCAAGAGA
66 ATAAAATTCGTTTCAAAGAAAACATATTC-AATAATTATGTTTCAAGAGAAAATGTCTCAAGAGA
*
1138602 GACAA-AATTTGTTTCAAGGGAAACTGTCTCAAGAGAGACGAAATTTATTTCAAGGGAAATGTTT
130 GACAATAATTTGTTTCAAGGGAAACTATCTCAAGAGAGACGAAATTTATTTCAAGGGAAATGTTT
1138666 TCAATGTTTA
195 TCAATGTTTA
* * * * **
1138676 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTCCTTTCAAGGGAAACTATCTCAAGAGAG
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTACTTCCAAAAGAAACTATCTCAAGAGAG
* * ** * ** *
1138741 ATAAAATTCGTTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGAGAG
66 ATAAAATTCGTTTCAAAGAAAACATATTCAATAATTATGTTTCAAGAGAAAATGTCTCAAGAGAG
* *
1138806 ACAATATTTTGTTTCAAGGGAAACTATCTCAAGCGAGA
131 ACAATAATTTGTTTCAAGGGAAACTATCTCAAGAGAGA
1138844 TAAAATATTC
Statistics
Matches: 142, Mismatches: 24, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
202 5 0.04
203 107 0.75
204 30 0.21
ACGTcount: A:0.38, C:0.13, G:0.19, T:0.29
Consensus pattern (204 bp):
TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTACTTCCAAAAGAAACTATCTCAAGAGAG
ATAAAATTCGTTTCAAAGAAAACATATTCAATAATTATGTTTCAAGAGAAAATGTCTCAAGAGAG
ACAATAATTTGTTTCAAGGGAAACTATCTCAAGAGAGACGAAATTTATTTCAAGGGAAATGTTTT
CAATGTTTA
Found at i:1138728 original size:37 final size:36
Alignment explanation
Indices: 1138678--1138762 Score: 116
Period size: 37 Copynumber: 2.3 Consensus size: 36
1138668 AATGTTTATG
* * *
1138678 TTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTCC
1 TTTCAAGGGAAACTATCTCAAGAGAGACAAAA-TTCC
* *
1138715 TTTCAAGGGAAACTATCTCAAGAGAGATAAAATTCG
1 TTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCC
1138751 TTTCAAGGGAAA
1 TTTCAAGGGAAA
1138763 TGTTTTCAAT
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
36 15 0.35
37 28 0.65
ACGTcount: A:0.40, C:0.15, G:0.20, T:0.25
Consensus pattern (36 bp):
TTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCC
Found at i:1138755 original size:102 final size:101
Alignment explanation
Indices: 1138473--1138849 Score: 477
Period size: 102 Copynumber: 3.7 Consensus size: 101
1138463 AGACAAAATT
* * ** * *
1138473 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTAGTTCCAAAAGAAACTGTCTCAAGGGAG
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA-TTTGTTTCAAGGGAAACTATCTCAAGAGAG
* *** ** * **
1138538 ATGAAATTTGTTTCAAATAAAACATATTCAAATAATT-
65 ATAAAATTTGTTTCAAGGGAAATGTTTTC-AATGTTTA
* * *
1138575 TGTTTCAAGGGAAAATGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACTGTCTCAAGAGAGA
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACTATCTCAAGAGAGA
** *
1138640 CGAAATTTATTTCAAGGGAAATGTTTTCAATGTTTA
66 TAAAATTTGTTTCAAGGGAAATGTTTTCAATGTTTA
* *
1138676 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTCCTTTCAAGGGAAACTATCTCAAGAGAG
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTT-GTTTCAAGGGAAACTATCTCAAGAGAG
*
1138741 ATAAAATTCGTTTCAAGGGAAATGTTTTCAATGTTTA
65 ATAAAATTTGTTTCAAGGGAAATGTTTTCAATGTTTA
* *
1138778 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAATATTTTGTTTCAAGGGAAACTATCTCAAGCGAG
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAA-AATTTGTTTCAAGGGAAACTATCTCAAGAGAG
1138843 ATAAAAT
65 ATAAAAT
1138850 ATTCTTTTTA
Statistics
Matches: 242, Mismatches: 30, Indels: 6
0.87 0.11 0.02
Matches are distributed among these distances:
100 5 0.02
101 80 0.33
102 153 0.63
103 4 0.02
ACGTcount: A:0.39, C:0.13, G:0.19, T:0.29
Consensus pattern (101 bp):
TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACTATCTCAAGAGAGA
TAAAATTTGTTTCAAGGGAAATGTTTTCAATGTTTA
Found at i:1138829 original size:37 final size:38
Alignment explanation
Indices: 1138769--1138843 Score: 107
Period size: 37 Copynumber: 2.0 Consensus size: 38
1138759 GAAATGTTTT
* *
1138769 CAATGTTTATGTTTCAAGAGAAACTGTCTCAAGAGAGA
1 CAATATTTATGTTTCAAGAGAAACTATCTCAAGAGAGA
* *
1138807 CAATATTT-TGTTTCAAGGGAAACTATCTCAAGCGAGA
1 CAATATTTATGTTTCAAGAGAAACTATCTCAAGAGAGA
1138844 TAAAATATTC
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
37 26 0.79
38 7 0.21
ACGTcount: A:0.36, C:0.15, G:0.20, T:0.29
Consensus pattern (38 bp):
CAATATTTATGTTTCAAGAGAAACTATCTCAAGAGAGA
Found at i:1140544 original size:13 final size:13
Alignment explanation
Indices: 1140503--1140545 Score: 54
Period size: 13 Copynumber: 3.3 Consensus size: 13
1140493 TTTTCTTCAA
1140503 TTTTC-CTTTGTT
1 TTTTCTCTTTGTT
1140515 TTTTCTCTTT-TT
1 TTTTCTCTTTGTT
1140527 ATTTTCTCTTTGCTT
1 -TTTTCTCTTTG-TT
1140542 TTTT
1 TTTT
1140546 TTCCCTTTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
12 7 0.26
13 14 0.52
14 4 0.15
15 2 0.07
ACGTcount: A:0.02, C:0.16, G:0.05, T:0.77
Consensus pattern (13 bp):
TTTTCTCTTTGTT
Found at i:1141798 original size:7 final size:7
Alignment explanation
Indices: 1141782--1141814 Score: 57
Period size: 7 Copynumber: 4.7 Consensus size: 7
1141772 TGAAATGTAG
1141782 ATGCAAA
1 ATGCAAA
*
1141789 ATGAAAA
1 ATGCAAA
1141796 ATGCAAA
1 ATGCAAA
1141803 ATGCAAA
1 ATGCAAA
1141810 ATGCA
1 ATGCA
1141815 TGAAATGTTC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.58, C:0.12, G:0.15, T:0.15
Consensus pattern (7 bp):
ATGCAAA
Found at i:1143932 original size:8 final size:8
Alignment explanation
Indices: 1143914--1143975 Score: 52
Period size: 9 Copynumber: 7.1 Consensus size: 8
1143904 GATATTAAGA
1143914 AAAAAATAT
1 AAAAAA-AT
1143923 AAAAAAAT
1 AAAAAAAT
1143931 AAAATAAAGT
1 AAAA-AAA-T
*
1143941 AAAAATAT
1 AAAAAAAT
*
1143949 AATATAAAT
1 AA-AAAAAT
*
1143958 AAATAAAT
1 AAAAAAAT
1143966 AAATAAAAT
1 AAA-AAAAT
1143975 A
1 A
1143976 TAATATAATA
Statistics
Matches: 45, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
8 18 0.40
9 22 0.49
10 5 0.11
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.23
Consensus pattern (8 bp):
AAAAAAAT
Found at i:1143943 original size:18 final size:17
Alignment explanation
Indices: 1143921--1143972 Score: 61
Period size: 18 Copynumber: 3.1 Consensus size: 17
1143911 AGAAAAAAAT
1143921 ATAAAAAAATAAAATAA
1 ATAAAAAAATAAAATAA
* *
1143938 AGTAAAAATATAATATAA
1 A-TAAAAAAATAAAATAA
*
1143956 ATAAATAAAT-AAATAA
1 ATAAAAAAATAAAATAA
1143972 A
1 A
1143973 ATATAATATA
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
16 6 0.21
17 8 0.28
18 15 0.52
ACGTcount: A:0.75, C:0.00, G:0.02, T:0.23
Consensus pattern (17 bp):
ATAAAAAAATAAAATAA
Found at i:1143961 original size:4 final size:4
Alignment explanation
Indices: 1143921--1143972 Score: 52
Period size: 4 Copynumber: 12.2 Consensus size: 4
1143911 AGAAAAAAAT
*
1143921 ATAA AAAA ATAAA ATAA AGTAA A-AA TATAA TATAA ATAA ATAA ATAA
1 ATAA ATAA AT-AA ATAA A-TAA ATAA -ATAA -ATAA ATAA ATAA ATAA
1143968 ATAA A
1 ATAA A
1143973 ATATAATATA
Statistics
Matches: 42, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
3 2 0.05
4 25 0.60
5 15 0.36
ACGTcount: A:0.75, C:0.00, G:0.02, T:0.23
Consensus pattern (4 bp):
ATAA
Found at i:1143967 original size:35 final size:33
Alignment explanation
Indices: 1143921--1144007 Score: 93
Period size: 33 Copynumber: 2.5 Consensus size: 33
1143911 AGAAAAAAAT
*
1143921 ATAAAAAAATAAAATAAAGTAAAAATATAATATAA
1 ATAAAAAAAT-AAATAAAAT-AAAATATAATATAA
* * *
1143956 ATAAATAAATAAATAAAATATAATATAATATTA
1 ATAAAAAAATAAATAAAATAAAATATAATATAA
* *
1143989 AGAAAAAATATATATAAAA
1 ATAAAAAA-ATAAATAAAA
1144008 ACGTATAAAA
Statistics
Matches: 44, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
33 18 0.41
34 17 0.39
35 9 0.20
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.26
Consensus pattern (33 bp):
ATAAAAAAATAAATAAAATAAAATATAATATAA
Found at i:1143980 original size:18 final size:17
Alignment explanation
Indices: 1143921--1143985 Score: 58
Period size: 18 Copynumber: 3.4 Consensus size: 17
1143911 AGAAAAAAAT
*
1143921 ATAAAAAAATAAAATAA
1 ATAAATAAATAAAATAA
1143938 AGTAAAAATATAATATAAATAA
1 A-T--AAATA-AATA-AAATAA
1143960 ATAAATAAATAAAATATA
1 ATAAATAAATAAAATA-A
1143978 ATATAATA
1 ATA-AATA
1143986 TTAAGAAAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 12
0.75 0.02 0.23
Matches are distributed among these distances:
17 6 0.15
18 9 0.22
19 9 0.22
20 4 0.10
21 5 0.12
22 7 0.17
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.26
Consensus pattern (17 bp):
ATAAATAAATAAAATAA
Found at i:1143985 original size:23 final size:23
Alignment explanation
Indices: 1143943--1144025 Score: 66
Period size: 23 Copynumber: 3.7 Consensus size: 23
1143933 AATAAAGTAA
*
1143943 AAATATAATATAA-ATAAATAAAT
1 AAATAAAATATAATAT-AATAAAT
*
1143966 AAATAAAATATAATATAAT-ATT
1 AAATAAAATATAATATAATAAAT
* *
1143988 AAGAAAAAATAT-ATATAA-AAAC
1 AA-ATAAAATATAATATAATAAAT
**
1144010 GTATAAAATATAATAT
1 AAATAAAATATAATAT
1144026 TAAGAAAAAA
Statistics
Matches: 48, Mismatches: 8, Indels: 9
0.74 0.12 0.14
Matches are distributed among these distances:
21 8 0.17
22 15 0.31
23 23 0.48
24 2 0.04
ACGTcount: A:0.66, C:0.01, G:0.02, T:0.30
Consensus pattern (23 bp):
AAATAAAATATAATATAATAAAT
Found at i:1143997 original size:28 final size:28
Alignment explanation
Indices: 1143918--1143998 Score: 83
Period size: 28 Copynumber: 2.8 Consensus size: 28
1143908 TTAAGAAAAA
* *
1143918 AATATAAAAAAATAAAATAAAGTAAAAATAT
1 AATATAAATAAA-GAAATAAA-T-AAAATAT
*
1143949 AATATAAATAAATAAATAAATAAAATAT
1 AATATAAATAAAGAAATAAATAAAATAT
*
1143977 AATATAATATTAAGAAA-AAATA
1 AATATAA-ATAAAGAAATAAATA
1143999 TATATAAAAA
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
28 19 0.42
29 8 0.18
30 7 0.16
31 11 0.24
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.26
Consensus pattern (28 bp):
AATATAAATAAAGAAATAAATAAAATAT
Found at i:1144078 original size:2 final size:2
Alignment explanation
Indices: 1144071--1144128 Score: 54
Period size: 2 Copynumber: 31.0 Consensus size: 2
1144061 AACTAATACG
*
1144071 TA TA TA TA TA TA TA TA TA TA -A TGA TA TA -A GA TA TA TA TA -A
1 TA TA TA TA TA TA TA TA TA TA TA T-A TA TA TA TA TA TA TA TA TA
*
1144111 TA TA AA TA -A TA TA -A TA TA
1 TA TA TA TA TA TA TA TA TA TA
1144129 AATAAAAAAA
Statistics
Matches: 47, Mismatches: 3, Indels: 12
0.76 0.05 0.19
Matches are distributed among these distances:
1 5 0.11
2 40 0.85
3 2 0.04
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.41
Consensus pattern (2 bp):
TA
Found at i:1144090 original size:14 final size:14
Alignment explanation
Indices: 1144071--1144128 Score: 54
Period size: 13 Copynumber: 4.4 Consensus size: 14
1144061 AACTAATACG
1144071 TATATATATATATA
1 TATATATATATATA
1144085 TATATA-ATGATATA
1 TATATATAT-ATATA
*
1144099 -AGATATATATA-A
1 TATATATATATATA
*
1144111 TATAAATA-ATATA
1 TATATATATATATA
1144124 -ATATA
1 TATATA
1144129 AATAAAAAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 10
0.72 0.08 0.20
Matches are distributed among these distances:
12 8 0.22
13 15 0.42
14 13 0.36
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.41
Consensus pattern (14 bp):
TATATATATATATA
Found at i:1144104 original size:25 final size:25
Alignment explanation
Indices: 1144074--1144124 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
1144064 TAATACGTAT
*
1144074 ATATATATATATATATAATGATATAAG
1 ATATATATA-ATATA-AATAATATAAG
1144101 ATATATATAATATAAATAATATAA
1 ATATATATAATATAAATAATATAA
1144125 TATAAATAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 9 0.39
26 5 0.22
27 9 0.39
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.39
Consensus pattern (25 bp):
ATATATATAATATAAATAATATAAG
Found at i:1144129 original size:14 final size:14
Alignment explanation
Indices: 1144094--1144133 Score: 62
Period size: 14 Copynumber: 2.7 Consensus size: 14
1144084 ATATATAATG
1144094 ATATAAGATATATATA
1 ATATAA-ATA-ATATA
1144110 ATATAAATAATATA
1 ATATAAATAATATA
1144124 ATATAAATAA
1 ATATAAATAA
1144134 AAAAAAGAGG
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
14 15 0.62
15 3 0.12
16 6 0.25
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (14 bp):
ATATAAATAATATA
Found at i:1157377 original size:2 final size:2
Alignment explanation
Indices: 1157360--1157393 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
1157350 TCATAATAAC
*
1157360 TA TA AA TA TA -A TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1157394 GAAAATAAGT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:1160280 original size:21 final size:21
Alignment explanation
Indices: 1160256--1160314 Score: 59
Period size: 22 Copynumber: 2.8 Consensus size: 21
1160246 TTCTTTTTGA
1160256 ATTTCTTATTTTTCTTTTCTT
1 ATTTCTTATTTTTCTTTTCTT
* *
1160277 ATTTTCTAATTTTT-TTTTGTT
1 A-TTTCTTATTTTTCTTTTCTT
*
1160298 CTTT-TTATCTTTTCTTT
1 ATTTCTTAT-TTTTCTTT
1160315 CTTTTTGTTC
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
19 3 0.10
20 7 0.23
21 10 0.32
22 11 0.35
ACGTcount: A:0.10, C:0.12, G:0.02, T:0.76
Consensus pattern (21 bp):
ATTTCTTATTTTTCTTTTCTT
Found at i:1160655 original size:22 final size:21
Alignment explanation
Indices: 1160621--1160662 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
1160611 GGTTGAAGAA
1160621 TTGATGGTCTTGATGGATGAAG
1 TTGATGGTCTTGAT-GATGAAG
* *
1160643 TTGATGTTGTTGATGATGAA
1 TTGATGGTCTTGATGATGAA
1160663 ATGGAGATGG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.24, C:0.02, G:0.33, T:0.40
Consensus pattern (21 bp):
TTGATGGTCTTGATGATGAAG
Found at i:1164696 original size:20 final size:21
Alignment explanation
Indices: 1164663--1164701 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
1164653 TTGAGTATTA
1164663 ATACCCAAAAAATA-GTATCG
1 ATACCCAAAAAATATGTATCG
**
1164683 ATACCCAATGAATATGTAT
1 ATACCCAAAAAATATGTAT
1164702 TTATACTCCT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.46, C:0.18, G:0.10, T:0.26
Consensus pattern (21 bp):
ATACCCAAAAAATATGTATCG
Found at i:1165978 original size:25 final size:25
Alignment explanation
Indices: 1165928--1165978 Score: 59
Period size: 25 Copynumber: 2.0 Consensus size: 25
1165918 GTTTGAGGAT
* *
1165928 TTATTTAATTTTTAAAAAATATATA
1 TTATTTAATATTTAAAAAATAAATA
*
1165953 TTATTT-ATATTTAAAAATTTAAATA
1 TTATTTAATATTTAAAAA-ATAAATA
1165978 T
1 T
1165979 AAACAATTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
24 10 0.45
25 12 0.55
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (25 bp):
TTATTTAATATTTAAAAAATAAATA
Found at i:1169801 original size:37 final size:37
Alignment explanation
Indices: 1169753--1169857 Score: 156
Period size: 37 Copynumber: 2.8 Consensus size: 37
1169743 CCTTTTCGTC
*
1169753 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
1 CTACTATGATTCAAACTCCTAAAAATAGGATAGAATT
* * *
1169790 TTGCTATGATTCAAACTCCTAAAAATAGGATAGAGTT
1 CTACTATGATTCAAACTCCTAAAAATAGGATAGAATT
* *
1169827 CTACTATGATTTAAACTCCTAAAGATAGGAT
1 CTACTATGATTCAAACTCCTAAAAATAGGAT
1169858 CCACAAGCAC
Statistics
Matches: 60, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 60 1.00
ACGTcount: A:0.40, C:0.15, G:0.14, T:0.30
Consensus pattern (37 bp):
CTACTATGATTCAAACTCCTAAAAATAGGATAGAATT
Found at i:1170397 original size:19 final size:19
Alignment explanation
Indices: 1170375--1170412 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
1170365 ATTCATTTGG
1170375 TTATT-TTTTAATACTATAT
1 TTATTATTTTAATA-TATAT
*
1170394 TTATTATTTTTATATATAT
1 TTATTATTTTAATATATAT
1170413 ATATACTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.66
Consensus pattern (19 bp):
TTATTATTTTAATATATAT
Found at i:1170400 original size:22 final size:22
Alignment explanation
Indices: 1170375--1170441 Score: 63
Period size: 21 Copynumber: 3.2 Consensus size: 22
1170365 ATTCATTTGG
*
1170375 TTATTTTTTAATACTATATTTA-
1 TTATTTTTTAATA-TATATATAC
1170397 TTA-TTTTTATATATATATATAC
1 TTATTTTTTA-ATATATATATAC
*
1170419 TT-TTTTTTAA-ATAT-TTTAC
1 TTATTTTTTAATATATATATAC
1170438 TTAT
1 TTAT
1170442 AAGCGTATTA
Statistics
Matches: 39, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
19 6 0.15
20 5 0.13
21 14 0.36
22 14 0.36
ACGTcount: A:0.31, C:0.04, G:0.00, T:0.64
Consensus pattern (22 bp):
TTATTTTTTAATATATATATAC
Found at i:1170624 original size:18 final size:17
Alignment explanation
Indices: 1170569--1170624 Score: 51
Period size: 18 Copynumber: 3.2 Consensus size: 17
1170559 ATTACTTCTA
1170569 TATTTGGTTTATA-TATT
1 TATTT-GTTTATATTATT
* * *
1170586 TATTTTTTTATTTTTTTT
1 TATTTGTTTA-TATTATT
1170604 TATTTGTTTATATTATAT
1 TATTTGTTTATATTAT-T
1170622 TAT
1 TAT
1170625 ATTTTCATAT
Statistics
Matches: 30, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
16 4 0.13
17 10 0.33
18 16 0.53
ACGTcount: A:0.21, C:0.00, G:0.05, T:0.73
Consensus pattern (17 bp):
TATTTGTTTATATTATT
Found at i:1170742 original size:20 final size:20
Alignment explanation
Indices: 1170717--1170767 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
1170707 ATTTCATTTA
*
1170717 TTTATTTATTTATTTTTCCT
1 TTTATTTATTTATTTTTACT
*
1170737 TTTATTTTATTTTTTTTTACT
1 TTTA-TTTATTTATTTTTACT
1170758 TATT-TTTATT
1 T-TTATTTATT
1170768 CTTCATTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
20 10 0.37
21 15 0.56
22 2 0.07
ACGTcount: A:0.16, C:0.06, G:0.00, T:0.78
Consensus pattern (20 bp):
TTTATTTATTTATTTTTACT
Found at i:1179423 original size:3 final size:3
Alignment explanation
Indices: 1179415--1179454 Score: 55
Period size: 3 Copynumber: 13.7 Consensus size: 3
1179405 TATCTGGAAC
* *
1179415 TCT TCT TCT TTT TCT TCT TCT TCT TCT TCC T-T TCT TCT TC
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
1179455 CCATGTGCTG
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
2 1 0.03
3 31 0.97
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:1187051 original size:32 final size:34
Alignment explanation
Indices: 1187013--1187094 Score: 105
Period size: 35 Copynumber: 2.4 Consensus size: 34
1187003 GATATATCAA
*
1187013 TGAAAAGTTGTTGAA-GATG-ATTAATTGACAAC
1 TGAAAAGTTGATGAATGATGTATTAATTGACAAC
* * *
1187045 TGAAAAGTTGCTGAAATGGTGTATTAATTGACCAC
1 TGAAAAGTTGATG-AATGATGTATTAATTGACAAC
1187080 TGAAAAGTTGATGAA
1 TGAAAAGTTGATGAA
1187095 ATAGTACATT
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
32 12 0.28
33 2 0.05
34 5 0.12
35 24 0.56
ACGTcount: A:0.39, C:0.07, G:0.23, T:0.30
Consensus pattern (34 bp):
TGAAAAGTTGATGAATGATGTATTAATTGACAAC
Found at i:1200320 original size:26 final size:26
Alignment explanation
Indices: 1200291--1200345 Score: 110
Period size: 26 Copynumber: 2.1 Consensus size: 26
1200281 AATGAAATTA
1200291 TTCTGGAAAAGTTGTTCAGTCTCTTC
1 TTCTGGAAAAGTTGTTCAGTCTCTTC
1200317 TTCTGGAAAAGTTGTTCAGTCTCTTC
1 TTCTGGAAAAGTTGTTCAGTCTCTTC
1200343 TTC
1 TTC
1200346 AATCACTGAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.18, C:0.20, G:0.18, T:0.44
Consensus pattern (26 bp):
TTCTGGAAAAGTTGTTCAGTCTCTTC
Found at i:1208498 original size:17 final size:17
Alignment explanation
Indices: 1208473--1208510 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
1208463 GCGTGCAAAC
1208473 AAAAAAAG-TAAAAAAG
1 AAAAAAAGTTAAAAAAG
*
1208489 AAAAATAAGTTCAAAAAG
1 AAAAA-AAGTTAAAAAAG
1208507 AAAA
1 AAAA
1208511 GAGAGACTCC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 5 0.26
17 3 0.16
18 11 0.58
ACGTcount: A:0.76, C:0.03, G:0.11, T:0.11
Consensus pattern (17 bp):
AAAAAAAGTTAAAAAAG
Found at i:1217416 original size:16 final size:16
Alignment explanation
Indices: 1217397--1217436 Score: 80
Period size: 16 Copynumber: 2.5 Consensus size: 16
1217387 CTTGCCCCCT
1217397 TCCCTTTCCTTCTCCC
1 TCCCTTTCCTTCTCCC
1217413 TCCCTTTCCTTCTCCC
1 TCCCTTTCCTTCTCCC
1217429 TCCCTTTC
1 TCCCTTTC
1217437 TTACGTGTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.00, C:0.55, G:0.00, T:0.45
Consensus pattern (16 bp):
TCCCTTTCCTTCTCCC
Found at i:1218007 original size:195 final size:194
Alignment explanation
Indices: 1217767--1218200 Score: 575
Period size: 195 Copynumber: 2.2 Consensus size: 194
1217757 ATTAAAATTT
* * * *
1217767 GTATCGATACTTTTCTAAGTATATGCACCAAATTATCGATACTTTAGGAATTTTAAAAAAATT-C
1 GTATCGATACTTTTATAAGTATATGTATCATATTATCGATACTTTAGGAA-TTTAAAAAAATTGC
* * * *
1217831 AATAATAGTGCCTATAAAATATCGATACTTTATAAACATGTATCGATATATGACAATATAACATG
65 AATAATAGCGCCTATAAAATATCGATACTTTAGAAACATGTATCGATACATGACAATATAACAAG
**
1217896 TAAAAATATGACAAAAATTGATTTCAATA-TGACAAAACCGATAAAGAACTACCAAATATATTGA
130 TAAAAATATGAC-AAAACCGATTTCAATATTG-CAAAACCGATAAAGAACTACCAAATATATTGA
1217960 AG
193 AG
* *
1217962 GTATCGATACTTTTATAAGTATATGTATCATAGTATCGATACTTTAGGAATTTAAAAGAATTGCA
1 GTATCGATACTTTTATAAGTATATGTATCATATTATCGATACTTTAGGAATTTAAAAAAATTGCA
* * *
1218027 ATAGTAGCGCCTATAAAGTATCGATACTTTAGAGACATGTATCGATACATGACAATATAACAAGT
66 ATAATAGCGCCTATAAAATATCGATACTTTAGAAACATGTATCGATACATGACAATATAACAAGT
* * * * * ** * ** *
1218092 TAAAATATGACAAAACCGATTTTAATATTGTAAAATCGGTAAAGCGCTATCGGATATGTTGAAG
131 AAAAATATGACAAAACCGATTTCAATATTGCAAAACCGATAAAGAACTACCAAATATATTGAAG
* *
1218156 GTATCGATACTTTAATAAGTATATGTATCATATTATCAATACTTT
1 GTATCGATACTTTTATAAGTATATGTATCATATTATCGATACTTT
1218201 TAAAACAAAA
Statistics
Matches: 208, Mismatches: 29, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
194 91 0.44
195 117 0.56
ACGTcount: A:0.41, C:0.12, G:0.13, T:0.33
Consensus pattern (194 bp):
GTATCGATACTTTTATAAGTATATGTATCATATTATCGATACTTTAGGAATTTAAAAAAATTGCA
ATAATAGCGCCTATAAAATATCGATACTTTAGAAACATGTATCGATACATGACAATATAACAAGT
AAAAATATGACAAAACCGATTTCAATATTGCAAAACCGATAAAGAACTACCAAATATATTGAAG
Found at i:1218892 original size:20 final size:20
Alignment explanation
Indices: 1218864--1218901 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
1218854 AATTTTTTTA
*
1218864 TGAATAGTGAACAGTACCGG
1 TGAACAGTGAACAGTACCGG
1218884 TGAACAGTGAACAGTACC
1 TGAACAGTGAACAGTACC
1218902 CATGCACAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.37, C:0.18, G:0.26, T:0.18
Consensus pattern (20 bp):
TGAACAGTGAACAGTACCGG
Found at i:1218910 original size:20 final size:20
Alignment explanation
Indices: 1218863--1218911 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
1218853 GAATTTTTTT
* *
1218863 ATGAATAGTGAACAGTACCG
1 ATGAACAGTGAACAGTACCC
*
1218883 GTGAACAGTGAACAGTACCC
1 ATGAACAGTGAACAGTACCC
*
1218903 ATGCACAGT
1 ATGAACAGT
1218912 AGGGGAAACG
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.37, C:0.20, G:0.24, T:0.18
Consensus pattern (20 bp):
ATGAACAGTGAACAGTACCC
Found at i:1225431 original size:44 final size:45
Alignment explanation
Indices: 1225377--1225477 Score: 132
Period size: 45 Copynumber: 2.3 Consensus size: 45
1225367 GCAATCCAAC
* *
1225377 AGTATCGATACTAGCCAGGGAGTA-TCGATACTACTTTGTAGTGT
1 AGTATCGATACCAGCCAGGGAGTATTCGATACTACTATGTAGTGT
* * **
1225421 AGTATTGATACCATCCAGGGAGTATTCGATACTACTATGTAAAGT
1 AGTATCGATACCAGCCAGGGAGTATTCGATACTACTATGTAGTGT
*
1225466 AATATCGATACC
1 AGTATCGATACC
1225478 GATCATTGTA
Statistics
Matches: 48, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
44 21 0.44
45 27 0.56
ACGTcount: A:0.32, C:0.17, G:0.21, T:0.31
Consensus pattern (45 bp):
AGTATCGATACCAGCCAGGGAGTATTCGATACTACTATGTAGTGT
Found at i:1225812 original size:18 final size:18
Alignment explanation
Indices: 1225786--1225834 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
1225776 ATAATATTCG
1225786 AATAATT-AAATCGAATAT
1 AATAATTAAAAT-GAATAT
*
1225804 AATATTTAAAATGAATAT
1 AATAATTAAAATGAATAT
*
1225822 AAAATATTAAAAT
1 AATA-ATTAAAAT
1225835 TTGTTAACAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
18 15 0.58
19 11 0.42
ACGTcount: A:0.59, C:0.02, G:0.04, T:0.35
Consensus pattern (18 bp):
AATAATTAAAATGAATAT
Found at i:1225831 original size:19 final size:19
Alignment explanation
Indices: 1225793--1225834 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
1225783 TCGAATAATT
*
1225793 AAATCGAATATAATATTTA
1 AAATCGAATATAAAATTTA
1225812 AAAT-GAATATAAAATATTA
1 AAATCGAATATAAAAT-TTA
1225831 AAAT
1 AAAT
1225835 TTGTTAACAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 10 0.48
19 11 0.52
ACGTcount: A:0.60, C:0.02, G:0.05, T:0.33
Consensus pattern (19 bp):
AAATCGAATATAAAATTTA
Found at i:1225907 original size:41 final size:39
Alignment explanation
Indices: 1225804--1225907 Score: 88
Period size: 39 Copynumber: 2.6 Consensus size: 39
1225794 AATCGAATAT
* * *
1225804 AATATTTAAAATGAATATAAAATATTAAAATTTGTTAAC
1 AATATTTAATATTAATATAAAATATCAAAATTTGTTAAC
* * *
1225843 -ATATTT-ATTTGTTATATCGAAATATCAAAATGTT-TTCAAC
1 AATATTTAATAT-TAATAT-AAAATATCAAAAT-TTGTT-AAC
1225883 AATATTTAATATCTAATATAAAATA
1 AATATTTAATAT-TAATATAAAATA
1225908 ATTGGTATTC
Statistics
Matches: 49, Mismatches: 10, Indels: 10
0.71 0.14 0.14
Matches are distributed among these distances:
37 2 0.04
38 10 0.20
39 13 0.27
40 5 0.10
41 11 0.22
42 8 0.16
ACGTcount: A:0.48, C:0.06, G:0.05, T:0.41
Consensus pattern (39 bp):
AATATTTAATATTAATATAAAATATCAAAATTTGTTAAC
Found at i:1239021 original size:24 final size:24
Alignment explanation
Indices: 1238989--1239047 Score: 100
Period size: 24 Copynumber: 2.5 Consensus size: 24
1238979 AATCAAGGGA
1238989 TCATTAGAAAAGCATTTACCTTGG
1 TCATTAGAAAAGCATTTACCTTGG
*
1239013 TCATTAGAAAAGCATTTTCCTTGG
1 TCATTAGAAAAGCATTTACCTTGG
*
1239037 GCATTAGAAAA
1 TCATTAGAAAA
1239048 TCCTTTGCCT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.36, C:0.15, G:0.17, T:0.32
Consensus pattern (24 bp):
TCATTAGAAAAGCATTTACCTTGG
Found at i:1239865 original size:21 final size:20
Alignment explanation
Indices: 1239837--1239875 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
1239827 AAGTGGTAAT
1239837 TTTCTAAAAAATAAATTTTA
1 TTTCTAAAAAATAAATTTTA
* *
1239857 TTTCATAAATAATTAATTT
1 TTTC-TAAAAAATAAATTT
1239876 AATCTTGAGA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.46, C:0.05, G:0.00, T:0.49
Consensus pattern (20 bp):
TTTCTAAAAAATAAATTTTA
Found at i:1242121 original size:2 final size:2
Alignment explanation
Indices: 1242114--1242140 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
1242104 TTTTAAATGT
1242114 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1242141 TTGAAGAACG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1243270 original size:30 final size:30
Alignment explanation
Indices: 1243208--1243305 Score: 88
Period size: 30 Copynumber: 3.3 Consensus size: 30
1243198 GCATTATAAA
* * * *
1243208 GTGTAATGACACTTAGTACAACAGTATTGT
1 GTGTAAGGACACTTAGTACAACACTGTAGT
*
1243238 GTGTAAGGACACTTAGTTCAACACTGTAGT
1 GTGTAAGGACACTTAGTACAACACTGTAGT
* * * * * *
1243268 GTGCAAGAACGCTTGGTGCAACACTGTGGT
1 GTGTAAGGACACTTAGTACAACACTGTAGT
*
1243298 ATGTAAGG
1 GTGTAAGG
1243306 TCATTCAGTG
Statistics
Matches: 54, Mismatches: 14, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
30 54 1.00
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.29
Consensus pattern (30 bp):
GTGTAAGGACACTTAGTACAACACTGTAGT
Found at i:1249615 original size:30 final size:30
Alignment explanation
Indices: 1249574--1249715 Score: 158
Period size: 30 Copynumber: 4.6 Consensus size: 30
1249564 ATCTGATTAG
*
1249574 CACTATAGTGTGTAAGGACATTTAGTGCAA
1 CACTATAGTGTGTAAGGACACTTAGTGCAA
* * *
1249604 CACTATGGTGTGTAAGGATACTTAGTGCAC
1 CACTATAGTGTGTAAGGACACTTAGTGCAA
* *
1249634 CACTATGGTGTGTAAGGACACTTGGTGCATAAA
1 CACTATAGTGTGTAAGGACACTTAGTGC---AA
* * *
1249667 GTACTATAGCGTGTAAGGACACTTAGTACAA
1 -CACTATAGTGTGTAAGGACACTTAGTGCAA
*
1249698 CACTGTAGTGTGTAAGGA
1 CACTATAGTGTGTAAGGA
1249716 TGATCAGTGG
Statistics
Matches: 93, Mismatches: 15, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
30 67 0.72
31 2 0.02
33 1 0.01
34 23 0.25
ACGTcount: A:0.31, C:0.15, G:0.26, T:0.28
Consensus pattern (30 bp):
CACTATAGTGTGTAAGGACACTTAGTGCAA
Found at i:1249737 original size:94 final size:94
Alignment explanation
Indices: 1249575--1249755 Score: 256
Period size: 94 Copynumber: 1.9 Consensus size: 94
1249565 TCTGATTAGC
* * * * *
1249575 ACTATAGTGTGTAAGGACATTTAGTGCAACACTATGGTGTGTAAGGATACTTAGTGCACCACTAT
1 ACTATAGCGTGTAAGGACACTTAGTACAACACTATAGTGTGTAAGGATACTCAGTGCACCACTAT
*
1249640 GGTGTGTAAGGACACTTGGTGCATAAAGT
66 GGTGTGTAAGGACACTCGGTGCATAAAGT
* * * *
1249669 ACTATAGCGTGTAAGGACACTTAGTACAACACTGTAGTGTGTAAGGATGA-TCAGTGGAGCACTG
1 ACTATAGCGTGTAAGGACACTTAGTACAACACTATAGTGTGTAAGGAT-ACTCAGTGCACCACTA
1249733 TGGTGTGTAAGGACACTCGGTGC
65 TGGTGTGTAAGGACACTCGGTGC
1249756 TCGACTACCT
Statistics
Matches: 76, Mismatches: 10, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
94 75 0.99
95 1 0.01
ACGTcount: A:0.29, C:0.15, G:0.29, T:0.28
Consensus pattern (94 bp):
ACTATAGCGTGTAAGGACACTTAGTACAACACTATAGTGTGTAAGGATACTCAGTGCACCACTAT
GGTGTGTAAGGACACTCGGTGCATAAAGT
Found at i:1250978 original size:10 final size:10
Alignment explanation
Indices: 1250963--1250991 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
1250953 GAAAGAATAT
1250963 AAGAAGAAGA
1 AAGAAGAAGA
1250973 AAGAAGAAGA
1 AAGAAGAAGA
1250983 AAGAAGAAG
1 AAGAAGAAG
1250992 GCAAATATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (10 bp):
AAGAAGAAGA
Found at i:1257884 original size:41 final size:41
Alignment explanation
Indices: 1257656--1257885 Score: 125
Period size: 41 Copynumber: 5.6 Consensus size: 41
1257646 TCACAATTTG
* * ** *
1257656 ATTCAATTCAATCATGATATCATGCAAT-AGTTCAAAATTCT
1 ATTCAATTCAATCATGGTAACATGCAATAAG-TCATCATTCA
* *
1257697 ATTCAATT-AATCATGG-AATCATACAATAATTCAAT-ATTCA
1 ATTCAATTCAATCATGGTAA-CATGCAATAAGTC-ATCATTCA
* ** * * **
1257737 ACTT-GATTTTATCATGGTAGCATGCAATAATTCA-CAATTTG
1 A-TTCAATTCAATCATGGTAACATGCAATAAGTCATC-ATTCA
* ** * * *
1257778 ATTCAATTCAATCACGACAACATGAAAT-AGTTCACCATTCG
1 ATTCAATTCAATCATGGTAACATGCAATAAG-TCATCATTCA
* * *
1257819 ATTTAATTTAATCAT-GAAAGCATGCAATAAGTCATCATTCA
1 ATTCAATTCAATCATGGTAA-CATGCAATAAGTCATCATTCA
*
1257860 ATTCAATTCGATCATGGTAACATGCA
1 ATTCAATTCAATCATGGTAACATGCA
1257886 TTTATTCACA
Statistics
Matches: 141, Mismatches: 34, Indels: 28
0.69 0.17 0.14
Matches are distributed among these distances:
39 1 0.01
40 30 0.21
41 103 0.73
42 7 0.05
ACGTcount: A:0.39, C:0.17, G:0.10, T:0.34
Consensus pattern (41 bp):
ATTCAATTCAATCATGGTAACATGCAATAAGTCATCATTCA
Found at i:1257905 original size:123 final size:122
Alignment explanation
Indices: 1257656--1257907 Score: 265
Period size: 123 Copynumber: 2.1 Consensus size: 122
1257646 TCACAATTTG
* * * * * * *
1257656 ATTCAATTCAATCATGATATCATGCAATAGTTCAAAATTCTATTCAATTAATCATGGAATCATAC
1 ATTCAATTCAATCACGACAACATGAAATAGTTCAAAATTCGATTCAATTAATCATGAAAGCATAC
* * ** * ****
1257721 AATAATTCAATATTCAACTTGATTTTATCATGGTAGCATGCAATAATTCACAATTTG
66 AATAAGTCAATATTCAACTTAATTCGATCATGGTAACATGCAATAATTCACAAACCA
** * *
1257778 ATTCAATTCAATCACGACAACATGAAATAGTTCACCATTCGATTTAATTTAATCATGAAAGCATG
1 ATTCAATTCAATCACGACAACATGAAATAGTTCAAAATTCGATTCAA-TTAATCATGAAAGCATA
* *
1257843 CAATAAGTC-ATCATTCAA-TTCAATTCGATCATGGTAACATGCATTTATTCACAAACCA
65 CAATAAGTCAAT-ATTCAACTT-AATTCGATCATGGTAACATGCAATAATTCACAAACCA
1257901 ATTCAAT
1 ATTCAAT
1257908 AAGGTCATGA
Statistics
Matches: 105, Mismatches: 22, Indels: 5
0.80 0.17 0.04
Matches are distributed among these distances:
122 43 0.41
123 62 0.59
ACGTcount: A:0.39, C:0.18, G:0.09, T:0.34
Consensus pattern (122 bp):
ATTCAATTCAATCACGACAACATGAAATAGTTCAAAATTCGATTCAATTAATCATGAAAGCATAC
AATAAGTCAATATTCAACTTAATTCGATCATGGTAACATGCAATAATTCACAAACCA
Found at i:1264903 original size:20 final size:21
Alignment explanation
Indices: 1264878--1264938 Score: 70
Period size: 20 Copynumber: 2.9 Consensus size: 21
1264868 TTTTGGTGTA
*
1264878 GAGGGAATCGATACCCCC-AT
1 GAGGGAATCGATTCCCCCTAT
* *
1264898 GAGGGAACCGATTCCCCCTTT
1 GAGGGAATCGATTCCCCCTAT
1264919 GAAGAGGAATCGATTCCCCC
1 G-AG-GGAATCGATTCCCCC
1264939 CACAGGGGAA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
20 16 0.47
21 2 0.06
22 2 0.06
23 14 0.41
ACGTcount: A:0.26, C:0.31, G:0.25, T:0.18
Consensus pattern (21 bp):
GAGGGAATCGATTCCCCCTAT
Found at i:1265656 original size:12 final size:12
Alignment explanation
Indices: 1265639--1265676 Score: 67
Period size: 12 Copynumber: 3.2 Consensus size: 12
1265629 ACACCATCAA
*
1265639 CCAAATCCACCT
1 CCAAATCCTCCT
1265651 CCAAATCCTCCT
1 CCAAATCCTCCT
1265663 CCAAATCCTCCT
1 CCAAATCCTCCT
1265675 CC
1 CC
1265677 TATTCTTGAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.26, C:0.53, G:0.00, T:0.21
Consensus pattern (12 bp):
CCAAATCCTCCT
Found at i:1268716 original size:24 final size:24
Alignment explanation
Indices: 1268688--1268742 Score: 110
Period size: 24 Copynumber: 2.3 Consensus size: 24
1268678 ACATGGTTTT
1268688 TGATCACTTAAATTTAACTCAACA
1 TGATCACTTAAATTTAACTCAACA
1268712 TGATCACTTAAATTTAACTCAACA
1 TGATCACTTAAATTTAACTCAACA
1268736 TGATCAC
1 TGATCAC
1268743 CATAATCTCT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.40, C:0.22, G:0.05, T:0.33
Consensus pattern (24 bp):
TGATCACTTAAATTTAACTCAACA
Found at i:1269344 original size:14 final size:14
Alignment explanation
Indices: 1269325--1269351 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
1269315 TTTACTCATG
1269325 CAATTCAATTTATA
1 CAATTCAATTTATA
1269339 CAATTCAATTTAT
1 CAATTCAATTTAT
1269352 CCTATTAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.41, C:0.15, G:0.00, T:0.44
Consensus pattern (14 bp):
CAATTCAATTTATA
Found at i:1275702 original size:91 final size:89
Alignment explanation
Indices: 1275586--1275755 Score: 232
Period size: 91 Copynumber: 1.9 Consensus size: 89
1275576 GATAAAATCT
*
1275586 CTTACCATTTATCCCATATGCTCGTAAGCTTAATTTACCAAAACACTTACCATTTAATCCATAAG
1 CTTACCATTTATCCCATAAGCTCGTAAGCTTAATTTACCAAAACACTTACCA-TTAATCCATAAG
*
1275651 CTCGTAGGCCTATTTTACCAAAATA
65 CTCGTAAGCCTATTTTACCAAAATA
* * * * * * *
1275676 CTTACCGTTTAATTCCATAAGCTCGTAAGCTTATTTTACCAATATACTTGCCATTATTCCATAAG
1 CTTACCATTT-ATCCCATAAGCTCGTAAGCTTAATTTACCAAAACACTTACCATTAATCCATAAG
*
1275741 CTCGTAAGCTTATTT
65 CTCGTAAGCCTATTT
1275756 GCATGCTTAC
Statistics
Matches: 69, Mismatches: 10, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
90 33 0.48
91 36 0.52
ACGTcount: A:0.31, C:0.24, G:0.09, T:0.36
Consensus pattern (89 bp):
CTTACCATTTATCCCATAAGCTCGTAAGCTTAATTTACCAAAACACTTACCATTAATCCATAAGC
TCGTAAGCCTATTTTACCAAAATA
Found at i:1275711 original size:46 final size:45
Alignment explanation
Indices: 1275586--1275755 Score: 234
Period size: 45 Copynumber: 3.8 Consensus size: 45
1275576 GATAAAATCT
* * * *
1275586 CTTACCATTTATCCCATATGCTCGTAAGCTTAATTTACCAAAACA
1 CTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAAAATA
* * *
1275631 CTTACCATTTAATCCATAAGCTCGTAGGCCTATTTTACCAAAATA
1 CTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAAAATA
* *
1275676 CTTACCGTTTAATTCCATAAGCTCGTAAGCTTATTTTACCAATATA
1 CTTACCATTT-ATTCCATAAGCTCGTAAGCTTATTTTACCAAAATA
*
1275722 CTTGCCA-TTATTCCATAAGCTCGTAAGCTTATTT
1 CTTACCATTTATTCCATAAGCTCGTAAGCTTATTT
1275756 GCATGCTTAC
Statistics
Matches: 110, Mismatches: 14, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
44 25 0.23
45 49 0.45
46 36 0.33
ACGTcount: A:0.31, C:0.24, G:0.09, T:0.36
Consensus pattern (45 bp):
CTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAAAATA
Found at i:1282340 original size:2 final size:2
Alignment explanation
Indices: 1282333--1282360 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
1282323 TATAAATGGA
1282333 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
1282361 GAATATAACT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1286858 original size:2 final size:2
Alignment explanation
Indices: 1286851--1286879 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
1286841 TATAAATGTA
1286851 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1286880 ACTATAACTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1287121 original size:16 final size:16
Alignment explanation
Indices: 1287100--1287139 Score: 80
Period size: 16 Copynumber: 2.5 Consensus size: 16
1287090 AAAATGGCTA
1287100 TTCATTTCAATAAATG
1 TTCATTTCAATAAATG
1287116 TTCATTTCAATAAATG
1 TTCATTTCAATAAATG
1287132 TTCATTTC
1 TTCATTTC
1287140 CATCGTCACT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.33, C:0.15, G:0.05, T:0.47
Consensus pattern (16 bp):
TTCATTTCAATAAATG
Found at i:1292350 original size:17 final size:18
Alignment explanation
Indices: 1292318--1292352 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
1292308 GTAAACTCAA
*
1292318 TAGTCTCCACATTCTATT
1 TAGTCTCCAAATTCTATT
1292336 TAGTCT-CAAATTCTATT
1 TAGTCTCCAAATTCTATT
1292353 GCATACCTTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.26, C:0.23, G:0.06, T:0.46
Consensus pattern (18 bp):
TAGTCTCCAAATTCTATT
Found at i:1296825 original size:836 final size:836
Alignment explanation
Indices: 1295633--1297191 Score: 2361
Period size: 836 Copynumber: 1.9 Consensus size: 836
1295623 CAATTAAAAC
* * *
1295633 ACTTTGCAACTTTCTAATATAATTAAATTTAAAATTTAATTTATGAGAAATTCAAATTTCACCCT
1 ACTTGGCAACTTTCTAATATAATTAAATTTAAAATTCAATTAATGAGAAATTCAAATTTCACCCT
* *
1295698 TAATTAATCATGATAATTACCAATTGCAATCGAATTATCATCCATTAAAATATCCCATAGTCAAA
66 TAATGAATCATGATAATTACAAATTGCAATCGAATTATCATCCATTAAAATATCCCATAGTCAAA
* *
1295763 GATGAACCAAAATAACATTGACTTTCTACTTTGGCCATGTAATTTTTGAAAATTATAATTTAGTA
131 GATGAACCAAAATAACATTGACTTTCTACTTTGGCCATGCAATTTTTGAAAATTACAATTTAGTA
* ** *
1295828 ACCAAATTTCTCAATTTGGACTAAATAGAGAAAATTAGCTTCAATTAAACTAATCCATGTGAAAT
196 ACCAAATTTCTCAATTTAGACTAAATAGAGAAAATTAGCTTCAATTAAACTAATCCATGCAAAAA
1295893 TTCACGGTTCTTAAATATAAAAACAATATTTCCAACCATTATCTAACATTCTTAAAATTTTCATG
261 TTCACGGTTCTTAAATATAAAAACAATATTTCCAACCATTATCTAACATTCTTAAAATTTTCATG
*
1295958 AAATTTCAATTGGATCTAATTATCCGATTTCTTACAAAACTTTACTGTTTTATAGCTTTTAATAC
326 AAATTTCAATTCGATCTAATTATCCGATTTCTTACAAAACTTTACTGTTTTATAGCTTTTAATAC
* * *
1296023 AAATCCTTAATCAAAATTATGATTCCTATGGAAAA-ATTTATTT-TGGAACAAACTATTCTTTTA
391 AAATCCTGAATCAAAATTATGATTCCCAT-GAAAACATTTATTTCTGG-ACAAACTATTCATTTA
* *
1296086 TGGGCCACAATATATAACTTTTAAAAACTATATTTTTTA-TCCTTGAACTTTTAC-AAGTTTATA
454 TAGGCCACAATATATAACTTTTAAAAACTATA-TTTTTAGTCC-TAAACTTTTACAAAG-TTATA
* * *
1296149 CTTTAATCACTAAA-TATTCAAAAAC-TGTATTTTAGTCACTAACCAAATTTTTGGGGTATTACA
516 CTTTAACCACTAAACT-TT-AAAAACTTGAATTTTAGTCACTAACCAAAATTTTGGGGTATTACA
* *
1296212 CAAGCGGTATATGTATGAAGATATGGGAATACTGAACTATCATGCTGAAGTACGCATCATGGTGT
579 CAAGCGGTATAGGTATGAAGATATGGGAATACTGAACTATCATGCTGAAGTACGCATCATGGTGC
*
1296277 GACTGAAGGTTCTGCATCACAGATCTCACACA-CTCGTCTAG-CTTT-TATGAGATAC-ACTCGA
644 GACTGAAGGTTCTGCATCACAGATCTCACACACCT-ATCTAGTCTTTATATGAGATACTA-TCGA
1296338 GTATCTAGGGTGAGATTCAATGCTACATCGAAAAGTACATCCATTGACTGTCGTACTCTGCTATA
707 GTATCTAGGGTGAGATTCAATGCTACATCGAAAAGTACATCCATTGACTGTCGTACTCTGCTATA
1296403 GAGACTTGTGTGTTCTGACTGTTACCTTAGCATCAAACTAGGCTAGATTTATGTAATCCTTGGCA
772 GAGACTTGTGTGTTCTGACTGTTACCTTAGCATCAAACTAGGCTAGATTTATGTAATCCTTGGCA
* *
1296468 ACTTGGCAACTTTCTAATCTAATTAAATTTAAAATTCAATTAATGAGAAATTCCAATTTCACCCT
1 ACTTGGCAACTTTCTAATATAATTAAATTTAAAATTCAATTAATGAGAAATTCAAATTTCACCCT
* * *
1296533 TAATGAATCATGATAATTACAAATTTCAATTGAATTATCATCCATTAAAATATCCTATAGTCAAA
66 TAATGAATCATGATAATTACAAATTGCAATCGAATTATCATCCATTAAAATATCCCATAGTCAAA
*
1296598 GATGAACCAAAAATAACATTGACTTTCTATTTTGGCCATGCAATTTTTGAAAATTACAATTTAGT
131 GATGAACC-AAAATAACATTGACTTTCTACTTTGGCCATGCAATTTTTGAAAATTACAATTTAGT
* **
1296663 AACCAAATTTACT-AATTTCAG-CTAAATAGAGAAAATTAGCTTCAATTCAACTGTTCCATGCAA
195 AACCAAATTT-CTCAATTT-AGACTAAATAGAGAAAATTAGCTTCAATTAAACTAATCCATGCAA
* * * * * *
1296726 AAATTCACGTTTCTTAAATATCAGAATAATATTT-CAAGCCTTTATCTAATATTCTTAAAATTTT
258 AAATTCACGGTTCTTAAATATAAAAACAATATTTCCAA-CCATTATCTAACATTCTTAAAATTTT
* * * *
1296790 CATGAAATTTCAGTTCGATCTGATTATCCGATTTCTTACTAGACTTTACTGTTTTATAGCTTTTA
322 CATGAAATTTCAATTCGATCTAATTATCCGATTTCTTACAAAACTTTACTGTTTTATAGCTTTTA
1296855 ATACAAATCCTGAATCAAAATTATGATTCCCATGAAAACATTTATTTCTGGACAAACTATTCATT
387 ATACAAATCCTGAATCAAAATTATGATTCCCATGAAAACATTTATTTCTGGACAAACTATTCATT
* * * * *
1296920 TATATGTCACACTATATAACTTTTAAAAATTTTATTTTTAGTTCCTAAACTTTTACAAAGTTATA
452 TATAGGCCACAATATATAACTTTTAAAAACTATATTTTTAG-TCCTAAACTTTTACAAAGTTATA
* *
1296985 CTTTAGCCACTAAACTTTTAAAACTTGAATTTTAGTCACTAACCAAAATTTTGGGGTATTACACA
516 CTTTAACCACTAAACTTTAAAAACTTGAATTTTAGTCACTAACCAAAATTTTGGGGTATTACACA
* * *
1297050 AGTGGTATAGGTATGAAGATATGGGAATAGTGAACTATCATGCTGAAGTATGCATCATGGTGCGA
581 AGCGGTATAGGTATGAAGATATGGGAATACTGAACTATCATGCTGAAGTACGCATCATGGTGCGA
* * ** * * *
1297115 CTGAGGGTTTTGCATTTCGGATCTCACACACCTATCTAGTTTTTATATGAGATACTATCTAGTAT
646 CTGAAGGTTCTGCATCACAGATCTCACACACCTATCTAGTCTTTATATGAGATACTATCGAGTAT
*
1297180 CTAGGTTGAGAT
711 CTAGGGTGAGAT
1297192 CTAGTGCTGC
Statistics
Matches: 649, Mismatches: 60, Indels: 27
0.88 0.08 0.04
Matches are distributed among these distances:
835 147 0.23
836 455 0.70
837 18 0.03
838 28 0.04
839 1 0.00
ACGTcount: A:0.35, C:0.16, G:0.12, T:0.37
Consensus pattern (836 bp):
ACTTGGCAACTTTCTAATATAATTAAATTTAAAATTCAATTAATGAGAAATTCAAATTTCACCCT
TAATGAATCATGATAATTACAAATTGCAATCGAATTATCATCCATTAAAATATCCCATAGTCAAA
GATGAACCAAAATAACATTGACTTTCTACTTTGGCCATGCAATTTTTGAAAATTACAATTTAGTA
ACCAAATTTCTCAATTTAGACTAAATAGAGAAAATTAGCTTCAATTAAACTAATCCATGCAAAAA
TTCACGGTTCTTAAATATAAAAACAATATTTCCAACCATTATCTAACATTCTTAAAATTTTCATG
AAATTTCAATTCGATCTAATTATCCGATTTCTTACAAAACTTTACTGTTTTATAGCTTTTAATAC
AAATCCTGAATCAAAATTATGATTCCCATGAAAACATTTATTTCTGGACAAACTATTCATTTATA
GGCCACAATATATAACTTTTAAAAACTATATTTTTAGTCCTAAACTTTTACAAAGTTATACTTTA
ACCACTAAACTTTAAAAACTTGAATTTTAGTCACTAACCAAAATTTTGGGGTATTACACAAGCGG
TATAGGTATGAAGATATGGGAATACTGAACTATCATGCTGAAGTACGCATCATGGTGCGACTGAA
GGTTCTGCATCACAGATCTCACACACCTATCTAGTCTTTATATGAGATACTATCGAGTATCTAGG
GTGAGATTCAATGCTACATCGAAAAGTACATCCATTGACTGTCGTACTCTGCTATAGAGACTTGT
GTGTTCTGACTGTTACCTTAGCATCAAACTAGGCTAGATTTATGTAATCCTTGGCA
Found at i:1297026 original size:29 final size:28
Alignment explanation
Indices: 1296937--1297026 Score: 74
Period size: 30 Copynumber: 3.0 Consensus size: 28
1296927 CACACTATAT
* *
1296937 AACTTTTAAAAATTTTATTTTTAGTTC-CTA
1 AACTTTT-AAAA-CTTAATTTTAG-TCACTA
* * *
1296967 AACTTTTACAAAGTTATACTTTAGCCACTA
1 AACTTTTA-AAACTTA-ATTTTAGTCACTA
1296997 AACTTTTAAAACTTGAATTTTAGTCACTA
1 AACTTTTAAAACTT-AATTTTAGTCACTA
1297026 A
1 A
1297027 CCAAAATTTT
Statistics
Matches: 49, Mismatches: 7, Indels: 9
0.75 0.11 0.14
Matches are distributed among these distances:
29 22 0.45
30 27 0.55
ACGTcount: A:0.37, C:0.14, G:0.06, T:0.43
Consensus pattern (28 bp):
AACTTTTAAAACTTAATTTTAGTCACTA
Found at i:1302609 original size:19 final size:20
Alignment explanation
Indices: 1302572--1302609 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
1302562 GGCAATTTTA
*
1302572 GAAAAGTTGTGAATGGTTGT
1 GAAAAGTTGTGAATAGTTGT
*
1302592 GAAAA-TTGTTAATAGTTG
1 GAAAAGTTGTGAATAGTTG
1302610 ATGTACTACG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 11 0.69
20 5 0.31
ACGTcount: A:0.34, C:0.00, G:0.29, T:0.37
Consensus pattern (20 bp):
GAAAAGTTGTGAATAGTTGT
Found at i:1303082 original size:21 final size:21
Alignment explanation
Indices: 1303053--1303105 Score: 81
Period size: 21 Copynumber: 2.5 Consensus size: 21
1303043 AGTAAGATTC
1303053 TAACATTTGGTTTGAATTTGTG
1 TAAC-TTTGGTTTGAATTTGTG
1303075 TAACTTTGGTTTGAATTTGTG
1 TAACTTTGGTTTGAATTTGTG
1303096 TATA-TTTGGT
1 TA-ACTTTGGT
1303106 AATGGTGTCT
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
21 25 0.83
22 5 0.17
ACGTcount: A:0.21, C:0.04, G:0.23, T:0.53
Consensus pattern (21 bp):
TAACTTTGGTTTGAATTTGTG
Found at i:1304101 original size:2 final size:2
Alignment explanation
Indices: 1304094--1304120 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
1304084 TTTATCATGA
1304094 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1304121 ATGTTTATTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1312486 original size:24 final size:24
Alignment explanation
Indices: 1312441--1312486 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 24
1312431 GAAGTTCTAT
* *
1312441 GTAGAATTTCTCCCGAATGACCGC
1 GTAGAATTTCTCACGAAGGACCGC
* *
1312465 GTAGAATTTTTCATGAAGGACC
1 GTAGAATTTCTCACGAAGGACC
1312487 ATGTAGAAAT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 18 1.00
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (24 bp):
GTAGAATTTCTCACGAAGGACCGC
Found at i:1316147 original size:17 final size:16
Alignment explanation
Indices: 1316125--1316164 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 16
1316115 CAGGTCCCTA
1316125 TACTTTTCATAATTTTT
1 TACTTTTC-TAATTTTT
1316142 TACTTTTTCTAATTTTT
1 TAC-TTTTCTAATTTTT
1316159 TACTTT
1 TACTTT
1316165 GGTCACCAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.14
17 14 0.64
18 5 0.23
ACGTcount: A:0.20, C:0.12, G:0.00, T:0.68
Consensus pattern (16 bp):
TACTTTTCTAATTTTT
Found at i:1320715 original size:30 final size:31
Alignment explanation
Indices: 1320641--1320720 Score: 87
Period size: 30 Copynumber: 2.6 Consensus size: 31
1320631 GGCTAGTGAC
1320641 AATGTTAATTT-TAAAAGTTTAGTGGACAAAG
1 AATG-TAATTTATAAAAGTTTAGTGGACAAAG
* *
1320672 TAT-AAACTTTATAAAAGTTTAG-GGACCAAA-
1 AATGTAA-TTTATAAAAGTTTAGTGGA-CAAAG
1320702 AATGTAATTTATAAAAGTT
1 AATGTAATTTATAAAAGTT
1320721 ATATATTTTT
Statistics
Matches: 41, Mismatches: 4, Indels: 9
0.76 0.07 0.17
Matches are distributed among these distances:
29 2 0.05
30 20 0.49
31 19 0.46
ACGTcount: A:0.45, C:0.05, G:0.15, T:0.35
Consensus pattern (31 bp):
AATGTAATTTATAAAAGTTTAGTGGACAAAG
Found at i:1331074 original size:23 final size:22
Alignment explanation
Indices: 1331026--1331127 Score: 131
Period size: 22 Copynumber: 4.7 Consensus size: 22
1331016 AGAACCCCAG
*
1331026 GGGGGTATCGATTCCCC-T--A
1 GGGGGAATCGATTCCCCTTCAA
1331045 GGGGGAATCGATTCCCCTTCAAA
1 GGGGGAATCGATTCCCCTTC-AA
*
1331068 GGGGGAATCGGA-TCCCCTTTAA
1 GGGGGAATC-GATTCCCCTTCAA
1331090 GGGGGAATCGATTCCCCTTCAA
1 GGGGGAATCGATTCCCCTTCAA
*
1331112 GGGGGTATCGATTCCC
1 GGGGGAATCGATTCCC
1331128 TATGCCCTAT
Statistics
Matches: 73, Mismatches: 4, Indels: 9
0.85 0.05 0.10
Matches are distributed among these distances:
19 16 0.22
20 1 0.01
21 2 0.03
22 35 0.48
23 17 0.23
24 2 0.03
ACGTcount: A:0.21, C:0.25, G:0.30, T:0.24
Consensus pattern (22 bp):
GGGGGAATCGATTCCCCTTCAA
Found at i:1344064 original size:24 final size:24
Alignment explanation
Indices: 1344037--1344085 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
1344027 TAGACGAAAA
1344037 GATGTGTCACTTGAAATTCCAAGT
1 GATGTGTCACTTGAAATTCCAAGT
* * *
1344061 GATGTGTTATTTGAAATTTCAAGT
1 GATGTGTCACTTGAAATTCCAAGT
1344085 G
1 G
1344086 TATTGCCAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.29, C:0.10, G:0.22, T:0.39
Consensus pattern (24 bp):
GATGTGTCACTTGAAATTCCAAGT
Found at i:1350388 original size:59 final size:59
Alignment explanation
Indices: 1350273--1350389 Score: 171
Period size: 59 Copynumber: 2.0 Consensus size: 59
1350263 ATCAATATAA
* * *
1350273 CACATAAGTTCATGCCAACCATATGCACTAGTTATCCTTTGGTGCAATCCTAAATATGG
1 CACATAAGGTCATGCCAACCATATGCACTAGTTATCCTTTAGTGCAATCCCAAATATGG
* ** *
1350332 CACATAAGGTCATGCCTACTTTATGCACTAGTTATCCTTTAGTGCAATCCCGAATATG
1 CACATAAGGTCATGCCAACCATATGCACTAGTTATCCTTTAGTGCAATCCCAAATATG
1350390 TAGTTGTCGG
Statistics
Matches: 51, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
59 51 1.00
ACGTcount: A:0.29, C:0.24, G:0.15, T:0.32
Consensus pattern (59 bp):
CACATAAGGTCATGCCAACCATATGCACTAGTTATCCTTTAGTGCAATCCCAAATATGG
Found at i:1356849 original size:59 final size:58
Alignment explanation
Indices: 1356734--1356929 Score: 198
Period size: 59 Copynumber: 3.3 Consensus size: 58
1356724 AAATGCACTG
* * * * * *
1356734 TAGTGCTAGCCCGATTATGATACATAAGGT-TGTGCCCACCATCTGTACTATATATCCTC
1 TAGTGCAATCCCGAATATGACACATAAGGTCT-TGCCCACCATATGCACTAT-TATCCTC
* * *
1356793 TAGTACAATCCCGAATATGGCACATAAGGTCTTGCTCACCATATGCACTAGTTATCCTC
1 TAGTGCAATCCCGAATATGACACATAAGGTCTTGCCCACCATATGCACTA-TTATCCTC
* * * * * *
1356852 TAGTGGAAACCTGAATATGATA-ATTAAGGTCGTGCCCACCATATGCACTAATTATCCTT
1 TAGTGCAATCCCGAATATGACACA-TAAGGTCTTGCCCACCATATGCACT-ATTATCCTC
1356911 TAGTGCAATCCCGAATATG
1 TAGTGCAATCCCGAATATG
1356930 CAGTTGCTGG
Statistics
Matches: 112, Mismatches: 21, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
58 1 0.01
59 108 0.96
60 3 0.03
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.30
Consensus pattern (58 bp):
TAGTGCAATCCCGAATATGACACATAAGGTCTTGCCCACCATATGCACTATTATCCTC
Found at i:1363801 original size:41 final size:41
Alignment explanation
Indices: 1363628--1363787 Score: 221
Period size: 41 Copynumber: 3.9 Consensus size: 41
1363618 GGCAGCATGA
* * * * *
1363628 AATACTTCAGCATTCAACCTAATTGGATCATGGTAACATAC
1 AATAATTCACCATTCAACTTGATTAGATCATGGTAACATAC
*
1363669 AATAATTCACCATTCAACTTGATTAGATCATGGTAGCATAC
1 AATAATTCACCATTCAACTTGATTAGATCATGGTAACATAC
* *
1363710 AATAATTCACCATTCAACTTGATTCGATCATGGTAGCATAC
1 AATAATTCACCATTCAACTTGATTAGATCATGGTAACATAC
* * *
1363751 AACAATTCACCATTCAAGTTGATTATATCATGGTAAC
1 AATAATTCACCATTCAACTTGATTAGATCATGGTAAC
1363788 TTGCATTTAT
Statistics
Matches: 107, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 107 1.00
ACGTcount: A:0.36, C:0.21, G:0.12, T:0.31
Consensus pattern (41 bp):
AATAATTCACCATTCAACTTGATTAGATCATGGTAACATAC
Found at i:1363821 original size:82 final size:82
Alignment explanation
Indices: 1363653--1363831 Score: 207
Period size: 82 Copynumber: 2.2 Consensus size: 82
1363643 AACCTAATTG
* *
1363653 GATCATGGTAACATACAATAATTCACCATTCAACTTGATTAGATCATGGTAGCATACAATAATTC
1 GATCATGGTAACATACAACAATTCACCATTCAACTTGATTAGATCATGGTAACATACAATAATTC
* * * * *
1363718 ACCATTCAACTTGATTC
66 ACAAGTCAACTTAAGTA
* * * * * * *
1363735 GATCATGGTAGCATACAACAATTCACCATTCAAGTTGATTATATCATGGTAACTTGCATTTATTC
1 GATCATGGTAACATACAACAATTCACCATTCAACTTGATTAGATCATGGTAACATACAATAATTC
1363800 ACAAGTCAA-TTCAAGTA
66 ACAAGTCAACTT-AAGTA
*
1363817 GATCATGATAACATA
1 GATCATGGTAACATA
1363832 TACTAATTCA
Statistics
Matches: 80, Mismatches: 16, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
81 2 0.03
82 78 0.98
ACGTcount: A:0.37, C:0.19, G:0.12, T:0.32
Consensus pattern (82 bp):
GATCATGGTAACATACAACAATTCACCATTCAACTTGATTAGATCATGGTAACATACAATAATTC
ACAAGTCAACTTAAGTA
Found at i:1370736 original size:22 final size:23
Alignment explanation
Indices: 1370693--1370750 Score: 63
Period size: 22 Copynumber: 2.7 Consensus size: 23
1370683 GTAAAGAATC
1370693 AGATCGATCCC-TT-ATGGAAAA
1 AGATCGATCCCATTCATGGAAAA
1370714 AGGATCGATCCCATTCAT-G-AAA
1 A-GATCGATCCCATTCATGGAAAA
*
1370736 AGATCAAT-CCATTCA
1 AGATCGATCCCATTCA
1370751 CTGTTTTACT
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
20 7 0.21
21 7 0.21
22 14 0.42
23 3 0.09
24 2 0.06
ACGTcount: A:0.38, C:0.22, G:0.16, T:0.24
Consensus pattern (23 bp):
AGATCGATCCCATTCATGGAAAA
Found at i:1370745 original size:21 final size:21
Alignment explanation
Indices: 1370711--1370750 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
1370701 CCCTTATGGA
*
1370711 AAAAGGATCGATCCCATTCATG
1 AAAAGGATCAAT-CCATTCATG
1370733 AAAA-GATCAATCCATTCA
1 AAAAGGATCAATCCATTCA
1370751 CTGTTTTACT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 7 0.41
21 6 0.35
22 4 0.24
ACGTcount: A:0.42, C:0.23, G:0.12, T:0.23
Consensus pattern (21 bp):
AAAAGGATCAATCCATTCATG
Found at i:1372983 original size:54 final size:54
Alignment explanation
Indices: 1372834--1372984 Score: 203
Period size: 54 Copynumber: 2.8 Consensus size: 54
1372824 CCGAAATGGT
* * * * * * * * * *
1372834 AATTCACAAACTCATTATGAATTACATGGGGTGCACACCTAATGTCAATACGGA
1 AATTCATAAACTTATTATGAATTTCTTAGGTTGCACACATAGTGCCAATACGAA
*
1372888 AATTCATAAACTTATTATGAATTTCTTAGGTTACACACATAGTGCCAATACGAA
1 AATTCATAAACTTATTATGAATTTCTTAGGTTGCACACATAGTGCCAATACGAA
1372942 AATTCATAAACTTATTATGAATTTCTTAGGTTGCACACATAGT
1 AATTCATAAACTTATTATGAATTTCTTAGGTTGCACACATAGT
1372985 TCCCATTCGG
Statistics
Matches: 85, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
54 85 1.00
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.32
Consensus pattern (54 bp):
AATTCATAAACTTATTATGAATTTCTTAGGTTGCACACATAGTGCCAATACGAA
Found at i:1387023 original size:54 final size:54
Alignment explanation
Indices: 1386916--1387223 Score: 395
Period size: 54 Copynumber: 5.7 Consensus size: 54
1386906 TGGTTTTCGC
* * * * * * ** *
1386916 AACTTATTATGAATTACGTAGGGTGCACACCTAGTTCCAATATGGAAAATCATA
1 AACTTATTATGAATTTCTTAGGTTACACACATAGTGCCAATACAGAAATTCATA
* * * * *
1386970 AACTAATTATTAATTTATTAGGTTGCACACATAGTGCCAAAACAGAAATTCATA
1 AACTTATTATGAATTTCTTAGGTTACACACATAGTGCCAATACAGAAATTCATA
*
1387024 AACTTATTATGAATTTCTTAGGTTACACACATAGTGCCGATAC-GAAAATTCATA
1 AACTTATTATGAATTTCTTAGGTTACACACATAGTGCCAATACAG-AAATTCATA
*
1387078 AACTTATTATGAATTTCTTAGGTTACACACATAGTGCCAATA-GGTAAATTCATA
1 AACTTATTATGAATTTCTTAGGTTACACACATAGTGCCAATACAG-AAATTCATA
* * *
1387132 AACTTATTATGAATTTATTAGGTTGCATACATAGTGCCAATACAGAAATTCATA
1 AACTTATTATGAATTTCTTAGGTTACACACATAGTGCCAATACAGAAATTCATA
* *
1387186 AACTTATTATCAATTTCTTAGGGTACACACATAGTGCC
1 AACTTATTATGAATTTCTTAGGTTACACACATAGTGCC
1387224 CATTCAGTAA
Statistics
Matches: 222, Mismatches: 29, Indels: 6
0.86 0.11 0.02
Matches are distributed among these distances:
53 1 0.00
54 220 0.99
55 1 0.00
ACGTcount: A:0.38, C:0.16, G:0.13, T:0.33
Consensus pattern (54 bp):
AACTTATTATGAATTTCTTAGGTTACACACATAGTGCCAATACAGAAATTCATA
Found at i:1387183 original size:162 final size:162
Alignment explanation
Indices: 1386916--1387223 Score: 483
Period size: 162 Copynumber: 1.9 Consensus size: 162
1386906 TGGTTTTCGC
* * * *
1386916 AACTTATTATGAATTACGTAGGGTGCACACCTAGTTCCAATATGGAAAATCATAAACTAATTATT
1 AACTTATTATGAATTACGTAGGGTACACACATAGTGCCAATATGGAAAATCATAAACTAATTATG
*
1386981 AATTTATTAGGTTGCACACATAGTGCCAAAACAGAAATTCATAAACTTATTATGAATTTCTTAGG
66 AATTTATTAGGTTGCACACATAGTGCCAAAACAGAAATTCATAAACTTATTATCAATTTCTTAGG
*
1387046 TTACACACATAGTGCCGATACGAAAATTCATA
131 GTACACACATAGTGCCGATACGAAAATTCATA
* * * * *
1387078 AACTTATTATGAATTTCTTAGGTTACACACATAGTGCCAATA-GGTAAATTCATAAACTTATTAT
1 AACTTATTATGAATTACGTAGGGTACACACATAGTGCCAATATGG-AAAATCATAAACTAATTAT
* *
1387142 GAATTTATTAGGTTGCATACATAGTGCCAATACAGAAATTCATAAACTTATTATCAATTTCTTAG
65 GAATTTATTAGGTTGCACACATAGTGCCAAAACAGAAATTCATAAACTTATTATCAATTTCTTAG
1387207 GGTACACACATAGTGCC
130 GGTACACACATAGTGCC
1387224 CATTCAGTAA
Statistics
Matches: 132, Mismatches: 13, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
161 2 0.02
162 130 0.98
ACGTcount: A:0.38, C:0.16, G:0.13, T:0.33
Consensus pattern (162 bp):
AACTTATTATGAATTACGTAGGGTACACACATAGTGCCAATATGGAAAATCATAAACTAATTATG
AATTTATTAGGTTGCACACATAGTGCCAAAACAGAAATTCATAAACTTATTATCAATTTCTTAGG
GTACACACATAGTGCCGATACGAAAATTCATA
Found at i:1392986 original size:20 final size:22
Alignment explanation
Indices: 1392947--1392986 Score: 57
Period size: 20 Copynumber: 1.9 Consensus size: 22
1392937 AATGTGTTGA
*
1392947 TTTCTTAAATTGATTTTGAGGT
1 TTTCTTAAATTGAATTTGAGGT
1392969 TTTCTT-AA-TGAATTTGAG
1 TTTCTTAAATTGAATTTGAG
1392987 TTGTTTTTGG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 9 0.53
21 2 0.12
22 6 0.35
ACGTcount: A:0.25, C:0.05, G:0.17, T:0.53
Consensus pattern (22 bp):
TTTCTTAAATTGAATTTGAGGT
Found at i:1392992 original size:22 final size:24
Alignment explanation
Indices: 1392942--1392993 Score: 58
Period size: 22 Copynumber: 2.3 Consensus size: 24
1392932 TAATTAATGT
* *
1392942 GTTGATTTCTTAAATTGATTTTGA
1 GTTGTTTTCTTAAATTGAATTTGA
1392966 G--GTTTTCTT-AA-TGAATTTGA
1 GTTGTTTTCTTAAATTGAATTTGA
1392986 GTTGTTTT
1 GTTGTTTT
1392994 TGGAGTTATT
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
20 9 0.38
21 2 0.08
22 12 0.50
24 1 0.04
ACGTcount: A:0.21, C:0.04, G:0.19, T:0.56
Consensus pattern (24 bp):
GTTGTTTTCTTAAATTGAATTTGA
Found at i:1394608 original size:31 final size:31
Alignment explanation
Indices: 1394573--1394635 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 31
1394563 CTTTGATTTA
*
1394573 TGGAAGATGATATGGTTGAGGTGTCTTGGTT
1 TGGAAGATGATAAGGTTGAGGTGTCTTGGTT
**
1394604 TGGAAGATGATAAGGTTTTGGTGTCTTGGTT
1 TGGAAGATGATAAGGTTGAGGTGTCTTGGTT
1394635 T
1 T
1394636 AATGGTAATT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.19, C:0.03, G:0.37, T:0.41
Consensus pattern (31 bp):
TGGAAGATGATAAGGTTGAGGTGTCTTGGTT
Found at i:1398925 original size:27 final size:27
Alignment explanation
Indices: 1398895--1398949 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
1398885 ACGCCTATTT
1398895 CGATGGTTCCTTATCGAATGGCCCCGA
1 CGATGGTTCCTTATCGAATGGCCCCGA
1398922 CGATGGTTCCTTATCGAATGGCCCCGA
1 CGATGGTTCCTTATCGAATGGCCCCGA
1398949 C
1 C
1398950 ATTAAGGGAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.18, C:0.31, G:0.25, T:0.25
Consensus pattern (27 bp):
CGATGGTTCCTTATCGAATGGCCCCGA
Found at i:1412253 original size:49 final size:48
Alignment explanation
Indices: 1412189--1412286 Score: 187
Period size: 49 Copynumber: 2.0 Consensus size: 48
1412179 CCAGAAGAGA
1412189 AGGACTGTAGAAGATGCCTACTAAGGAGAAGATGATGAAGTAGAAGTT
1 AGGACTGTAGAAGATGCCTACTAAGGAGAAGATGATGAAGTAGAAGTT
1412237 AGGACATGTAGAAGATGCCTACTAAGGAGAAGATGATGAAGTAGAAGTT
1 AGGAC-TGTAGAAGATGCCTACTAAGGAGAAGATGATGAAGTAGAAGTT
1412286 A
1 A
1412287 ATAGCCGAAA
Statistics
Matches: 49, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
48 5 0.10
49 44 0.90
ACGTcount: A:0.41, C:0.08, G:0.31, T:0.20
Consensus pattern (48 bp):
AGGACTGTAGAAGATGCCTACTAAGGAGAAGATGATGAAGTAGAAGTT
Found at i:1413586 original size:152 final size:154
Alignment explanation
Indices: 1413380--1413686 Score: 559
Period size: 152 Copynumber: 2.0 Consensus size: 154
1413370 AAGCTTGGTT
1413380 TAGCAACAACAAGCCATCCACATCCCTAAGCTGCAGTGGCTCAATGATGGTGGTGAACTCAAAG-
1 TAGCAACAACAAGCCATCCACATCCCTAAGCTGCAGTGGCTCAATGATGGTGGTGAACTCAAAGT
1413444 TTCCAAGCAAGACCTTATTGCTT-TCCATTGGAAAG-TACAGATGAAGTGTTATGTGACGTTGTT
66 TTCCAAGCAAGACCTTATTGCTTCTCCATTGGAAAGATACAGATGAAGTGTTATGTGACGTTGTT
1413507 CTGATGCAC-CTAGTAATCTACTA
131 CTGATGCACGCTAGTAATCTACTA
1413530 TAGCAACAACAAGCCATCCACATCCCTACAAGCTGCAGTGGCTCAATGATGGTGGTGAACTCAAA
1 TAGCAACAACAAGCCATCCACATCCCT--AAGCTGCAGTGGCTCAATGATGGTGGTGAACTCAAA
1413595 GTTTCCAAGCAAGACCTTATTGCTTCTCCATTGGAAAGTATACAGATGAAGTGTTATGTGACGTT
64 GTTTCCAAGCAAGACCTTATTGCTTCTCCATTGGAAAG-ATACAGATGAAGTGTTATGTGACGTT
1413660 GTTCTGATGCACGCTAGTAATCTACTA
128 GTTCTGATGCACGCTAGTAATCTACTA
1413687 CTTCGAAGAC
Statistics
Matches: 150, Mismatches: 0, Indels: 7
0.96 0.00 0.04
Matches are distributed among these distances:
150 27 0.18
152 37 0.25
153 23 0.15
154 12 0.08
156 37 0.25
157 14 0.09
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.27
Consensus pattern (154 bp):
TAGCAACAACAAGCCATCCACATCCCTAAGCTGCAGTGGCTCAATGATGGTGGTGAACTCAAAGT
TTCCAAGCAAGACCTTATTGCTTCTCCATTGGAAAGATACAGATGAAGTGTTATGTGACGTTGTT
CTGATGCACGCTAGTAATCTACTA
Found at i:1420359 original size:20 final size:22
Alignment explanation
Indices: 1420310--1420363 Score: 62
Period size: 21 Copynumber: 2.6 Consensus size: 22
1420300 CAATTATGAG
*
1420310 TATTCAATGTT-AATATTTAAT
1 TATTGAATGTTGAATATTTAAT
1420331 TATTGAATGTTGAAT-TTTAAGT
1 TATTGAATGTTGAATATTTAA-T
1420353 TA-T-AATGTTGA
1 TATTGAATGTTGA
1420364 TTTGGGACCA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
20 8 0.27
21 16 0.53
22 6 0.20
ACGTcount: A:0.35, C:0.02, G:0.13, T:0.50
Consensus pattern (22 bp):
TATTGAATGTTGAATATTTAAT
Found at i:1423424 original size:15 final size:15
Alignment explanation
Indices: 1423394--1423431 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
1423384 ATCGATTTAG
*
1423394 TTATATT-TATAGAA
1 TTATATTATACAGAA
1423408 TTATATTATACAGAA
1 TTATATTATACAGAA
*
1423423 TTAGATTAT
1 TTATATTAT
1423432 GTTTTTTTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 7 0.33
15 14 0.67
ACGTcount: A:0.42, C:0.03, G:0.08, T:0.47
Consensus pattern (15 bp):
TTATATTATACAGAA
Found at i:1423842 original size:23 final size:23
Alignment explanation
Indices: 1423816--1423868 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
1423806 GGGAACGTGC
* * *
1423816 CACAAGAGAATAGAAAAGCGTTT
1 CACAAGAGAAGAGAAAAGCATGT
*
1423839 CACAAGAGCAGAGAAAAGCATGT
1 CACAAGAGAAGAGAAAAGCATGT
1423862 CACAAGA
1 CACAAGA
1423869 ACAAAGATTC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.49, C:0.17, G:0.23, T:0.11
Consensus pattern (23 bp):
CACAAGAGAAGAGAAAAGCATGT
Found at i:1423929 original size:24 final size:23
Alignment explanation
Indices: 1423886--1423936 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 23
1423876 TTCTTATTTA
*
1423886 AATATAAAAAACAAGAAAAACAT
1 AATATAAAAAACAAGAAAAAAAT
*
1423909 AATATGAAAAGAATAAG-AAAAAAT
1 AATAT-AAAA-AACAAGAAAAAAAT
1423933 AATA
1 AATA
1423937 ATCGACGGTC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 5 0.21
24 14 0.58
25 5 0.21
ACGTcount: A:0.73, C:0.04, G:0.08, T:0.16
Consensus pattern (23 bp):
AATATAAAAAACAAGAAAAAAAT
Found at i:1436645 original size:77 final size:79
Alignment explanation
Indices: 1436548--1436699 Score: 200
Period size: 77 Copynumber: 1.9 Consensus size: 79
1436538 AAAAAATTTA
* * **
1436548 TTATTTAATTAATTCTAATTAAATATACATT-AAAGACATATAATCTGAATTACAATC-TTTAAT
1 TTATTTAATTAATTCGAATTAAATATAAATTCAAAGACATATAATCAAAATTACAATCTTTTAAT
*
1436611 GTTTATTTAAAATC
66 GTTTACTTAAAATC
* ** * *
1436625 TTATTTAATTATTTCGAATTAAATATAAATTCAAAGAGTTGTAATCAAAATTACATTCTTTTAAT
1 TTATTTAATTAATTCGAATTAAATATAAATTCAAAGACATATAATCAAAATTACAATCTTTTAAT
1436690 GTTTACTTAA
66 GTTTACTTAA
1436700 TATATTTGGG
Statistics
Matches: 63, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
77 28 0.44
78 20 0.32
79 15 0.24
ACGTcount: A:0.41, C:0.09, G:0.05, T:0.45
Consensus pattern (79 bp):
TTATTTAATTAATTCGAATTAAATATAAATTCAAAGACATATAATCAAAATTACAATCTTTTAAT
GTTTACTTAAAATC
Found at i:1439133 original size:112 final size:111
Alignment explanation
Indices: 1438932--1439159 Score: 339
Period size: 112 Copynumber: 2.0 Consensus size: 111
1438922 GTTATAAGTG
* * * * * *
1438932 CATTTCGACATACTTTGTGTATGATGGTATTGATCGATTTTGTTTAATGCATAACGGTGCATTTT
1 CATTTCGACATACTTAGTGTATGAAGGTATCGATCAATTTTGCTTAATGCATAACAGTGCATTTT
* * *
1438997 TGGCATAAAAGATGCCACCTATGGTATTCATAATGAGGTGGATTAC
66 CGGCATAAAAGATGCCACCCATGGTATTCATAATGAGGTGAATTAC
* *
1439043 CATTTCGACATACTTAGTGTATGAAAGTTATCGATCAATTTTGCTTAATTCATAACAGTGCATTT
1 CATTTCGACATACTTAGTGTATG-AAGGTATCGATCAATTTTGCTTAATGCATAACAGTGCATTT
*
1439108 TCGGCATAAAAGGTGCCACCCATGGTATTCATAATGAGGTGAATTAC
65 TCGGCATAAAAGATGCCACCCATGGTATTCATAATGAGGTGAATTAC
1439155 CATTT
1 CATTT
1439160 TGGCACTTCG
Statistics
Matches: 104, Mismatches: 12, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
111 22 0.21
112 82 0.79
ACGTcount: A:0.29, C:0.15, G:0.19, T:0.36
Consensus pattern (111 bp):
CATTTCGACATACTTAGTGTATGAAGGTATCGATCAATTTTGCTTAATGCATAACAGTGCATTTT
CGGCATAAAAGATGCCACCCATGGTATTCATAATGAGGTGAATTAC
Found at i:1441221 original size:46 final size:46
Alignment explanation
Indices: 1441044--1441219 Score: 244
Period size: 46 Copynumber: 3.8 Consensus size: 46
1441034 AATTATGTAA
* * * *
1441044 TTTCAATTGTGGCATACTTTTAGGTAAATTATGCACTGATATACAT
1 TTTCATTTGTGGCATCCTTTCATGTAAATTATGCACTGATATACAT
* *
1441090 TTTCATTTGTGGCATCCTTTCATGTAAATTATGAATTGATATACAT
1 TTTCATTTGTGGCATCCTTTCATGTAAATTATGCACTGATATACAT
* * * *
1441136 TTTCGTTTGTTGCATCATTTCATGTAAATTATGCACTGTTATACAT
1 TTTCATTTGTGGCATCCTTTCATGTAAATTATGCACTGATATACAT
**
1441182 TTTCATTTGTGGCATCCTTTCATGCCAATTATGCACTG
1 TTTCATTTGTGGCATCCTTTCATGTAAATTATGCACTG
1441220 TTCTTCATCT
Statistics
Matches: 113, Mismatches: 17, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 113 1.00
ACGTcount: A:0.26, C:0.16, G:0.14, T:0.44
Consensus pattern (46 bp):
TTTCATTTGTGGCATCCTTTCATGTAAATTATGCACTGATATACAT
Found at i:1441306 original size:49 final size:49
Alignment explanation
Indices: 1441225--1441322 Score: 115
Period size: 49 Copynumber: 2.0 Consensus size: 49
1441215 CACTGTTCTT
* * * *
1441225 CATCTAACTTGCATTAGTGACACCTTTCTGCCAGAAATGCACCATTAGG
1 CATCTAACTTGCATTAATGACACCTTTCTGCCAAAAAAGCACAATTAGG
* ** * *
1441274 CATCTATCTTGCATTAATGGTACTTTTTTGCCAAAAAAGCACAATTAGG
1 CATCTAACTTGCATTAATGACACCTTTCTGCCAAAAAAGCACAATTAGG
1441323 TATTTAGTCT
Statistics
Matches: 40, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
49 40 1.00
ACGTcount: A:0.31, C:0.22, G:0.15, T:0.32
Consensus pattern (49 bp):
CATCTAACTTGCATTAATGACACCTTTCTGCCAAAAAAGCACAATTAGG
Found at i:1441630 original size:54 final size:54
Alignment explanation
Indices: 1441572--1441939 Score: 501
Period size: 54 Copynumber: 6.8 Consensus size: 54
1441562 ACCAATACGA
*
1441572 AAATTCATAAACTTATTATGAATTTCTTAGTTTGCACACACAGTGCCCATACTG
1 AAATTCATAAACTTATTATGAATTTCTTAGTTTGCACACATAGTGCCCATACTG
* *
1441626 AAATTTATAAAATTATTATGAATTTCTTAGTTTGCACACATAGTGCCCATAC-G
1 AAATTCATAAACTTATTATGAATTTCTTAGTTTGCACACATAGTGCCCATACTG
* * * * *
1441679 AAAATTCGTAAACTTATTATAAATTTCTTAGTTTGCACATATGGTGCTCATA-TAG
1 -AAATTCATAAACTTATTATGAATTTCTTAGTTTGCACACATAGTGCCCATACT-G
* ** *
1441734 AAATTCATAAACTTATTATGAGTTTCTTAGTTT-CACACATAGTGCTTATACGG
1 AAATTCATAAACTTATTATGAATTTCTTAGTTTGCACACATAGTGCCCATACTG
* *
1441787 AAATTCAAAAACTTATTATGAATTTCTTAGTTTGCACACATAGTGCCCATACAG
1 AAATTCATAAACTTATTATGAATTTCTTAGTTTGCACACATAGTGCCCATACTG
* * *
1441841 AAATTCATAAACTTATTATGAATTTCTTAGTTTGCACACCTAGTGTCCATA-TAA
1 AAATTCATAAACTTATTATGAATTTCTTAGTTTGCACACATAGTGCCCATACT-G
* * *
1441895 AAATTCATAAGCTTTTTATGAATTTCTTAGTTTGCACACTTAGTG
1 AAATTCATAAACTTATTATGAATTTCTTAGTTTGCACACATAGTG
1441940 TCATTTGGTA
Statistics
Matches: 278, Mismatches: 30, Indels: 12
0.87 0.09 0.04
Matches are distributed among these distances:
53 47 0.17
54 230 0.83
55 1 0.00
ACGTcount: A:0.34, C:0.16, G:0.12, T:0.38
Consensus pattern (54 bp):
AAATTCATAAACTTATTATGAATTTCTTAGTTTGCACACATAGTGCCCATACTG
Found at i:1441837 original size:161 final size:162
Alignment explanation
Indices: 1441571--1441939 Score: 548
Period size: 161 Copynumber: 2.3 Consensus size: 162
1441561 TACCAATACG
* * *
1441571 AAAATTCATAAACTTATTATGAATTTCTTAGTTTGCACACACAGTGCCCATACTGAAATTTATAA
1 AAAATTCATAAACTTATTATGAATTTCTTAGTTTGCACACATAGTGCCCATACGGAAATTCATAA
*
1441636 AATTATTATGAATTTCTTAGTTTGCACACATAGTGCCCATAC-GAAAATTCGTAAACTTATTATA
66 AATTATTATGAATTTCTTAGTTTGCACACATAGTGCCCATACAG-AAATTCATAAACTTATTATA
* *
1441700 AATTTCTTAGTTTGCACATATGGTG-CTCATATA
130 AATTTCTTAGTTTGCACACATAGTGTC-CATATA
* * **
1441733 GAAATTCATAAACTTATTATGAGTTTCTTAGTTT-CACACATAGTGCTTATACGGAAATTCA-AA
1 AAAATTCATAAACTTATTATGAATTTCTTAGTTTGCACACATAGTGCCCATACGGAAATTCATAA
*
1441796 AACTTATTATGAATTTCTTAGTTTGCACACATAGTGCCCATACAGAAATTCATAAACTTATTATG
66 AA-TTATTATGAATTTCTTAGTTTGCACACATAGTGCCCATACAGAAATTCATAAACTTATTATA
*
1441861 AATTTCTTAGTTTGCACACCTAGTGTCCATATA
130 AATTTCTTAGTTTGCACACATAGTGTCCATATA
* * *
1441894 AAAATTCATAAGCTTTTTATGAATTTCTTAGTTTGCACACTTAGTG
1 AAAATTCATAAACTTATTATGAATTTCTTAGTTTGCACACATAGTG
1441940 TCATTTGGTA
Statistics
Matches: 186, Mismatches: 17, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
160 4 0.02
161 138 0.74
162 44 0.24
ACGTcount: A:0.34, C:0.16, G:0.12, T:0.38
Consensus pattern (162 bp):
AAAATTCATAAACTTATTATGAATTTCTTAGTTTGCACACATAGTGCCCATACGGAAATTCATAA
AATTATTATGAATTTCTTAGTTTGCACACATAGTGCCCATACAGAAATTCATAAACTTATTATAA
ATTTCTTAGTTTGCACACATAGTGTCCATATA
Found at i:1447315 original size:81 final size:81
Alignment explanation
Indices: 1447178--1447978 Score: 1106
Period size: 81 Copynumber: 9.9 Consensus size: 81
1447168 CTGTTTTAAA
* * * * *
1447178 TAAAAGATTAATGGCCTCGCTGTGTATTTTACAGAAATGTGTCAATTATGCAAGTTAGATAAAAG
1 TAAAAGATTAATGGCCTAGCTGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGATGAAAG
1447243 GTTAAATACCTTTGAG
66 GTTAAATACCTTTGAG
* * *
1447259 TAAAATATTAATGGCCTAGCT-TGGCATTTTACAGAAATGAGTCAATTATGCCAGTTAGATGAAA
1 TAAAAGATTAATGGCCTAGCTGT-GCATTTGACAGAAATGTGTCAATTATGCCAGTTAGATGAAA
1447323 GGTTAAATACCTTTGAG
65 GGTTAAATACCTTTGAG
* * *
1447340 TAAAAGATTAATGGCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATTCCAGTTAGATGAAAG
1 TAAAAGATTAATGGCCTAGCTGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGATGAAAG
**
1447405 AATAAATACCTTTGAG
66 GTTAAATACCTTTGAG
*
1447421 TAAAAGATTAATGGCCTAGCTGTGCATTTGACA-TAATGGTGTCAATTATGCCAGTTAGATGAAA
1 TAAAAGATTAATGGCCTAGCTGTGCATTTGACAGAAAT-GTGTCAATTATGCCAGTTAGATGAAA
1447485 GGTTAAATACCTTTGAG
65 GGTTAAATACCTTTGAG
* * * *
1447502 TAAAAGATTAATGGCCTAGATGTGCATTTGACATAAAGGTGTCAATTATGCGAGTTAGATGAAAG
1 TAAAAGATTAATGGCCTAGCTGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGATGAAAG
1447567 GTTAAATACCTTTGAG
66 GTTAAATACCTTTGAG
* * * *
1447583 TAAAAGATTAATGGCCTAGTTATGCATTTGACAGAAA-GTTGTCAATTATTCTAGTTAGATGAAA
1 TAAAAGATTAATGGCCTAGCTGTGCATTTGACAGAAATG-TGTCAATTATGCCAGTTAGATGAAA
1447647 GGTTAAATACCTTTGAG
65 GGTTAAATACCTTTGAG
* * * * *
1447664 TAAAAGATTAATGGCCTAGCTATTCATTTGACAGAAA-GATATCAATTATGCTAGTTACATGAAA
1 TAAAAGATTAATGGCCTAGCTGTGCATTTGACAGAAATG-TGTCAATTATGCCAGTTAGATGAAA
* *
1447728 GGCTAAATACCTTTGCG
65 GGTTAAATACCTTTGAG
* * * * * *
1447745 TAAAAGATTAATGGCCTAGCTGTGAATTTGATAAAAATGTGTCAATTATACTAGTTGGATGAAAG
1 TAAAAGATTAATGGCCTAGCTGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGATGAAAG
*
1447810 GTTAAATACCTTCGAG
66 GTTAAATACCTTTGAG
* * *
1447826 TAAAAGATTAATGGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGACAGTTAGATGAAAT
1 TAAAAGATTAATGGCCTAGCTGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGATGAAAG
*
1447891 GTTATATACCTTTGAG
66 GTTAAATACCTTTGAG
* ** * * * *
1447907 TAAAAGATTATTTACCTAGCTGTGCAATTGGCAGAAAAGTGTCAATTATGCAAGTTAGATGAAAG
1 TAAAAGATTAATGGCCTAGCTGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGATGAAAG
*
1447972 GCTAAAT
66 GTTAAAT
1447979 GCGTTAGGGT
Statistics
Matches: 643, Mismatches: 71, Indels: 12
0.89 0.10 0.02
Matches are distributed among these distances:
80 4 0.01
81 635 0.99
82 4 0.01
ACGTcount: A:0.36, C:0.11, G:0.21, T:0.32
Consensus pattern (81 bp):
TAAAAGATTAATGGCCTAGCTGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGATGAAAG
GTTAAATACCTTTGAG
Found at i:1453139 original size:41 final size:41
Alignment explanation
Indices: 1453094--1453187 Score: 127
Period size: 41 Copynumber: 2.3 Consensus size: 41
1453084 CATGTATTAA
* * *
1453094 TTCACAATTCAATTCAATTCAATCA-TGACAACATGCAATAG
1 TTCACCATTCAATCCAATTCAATCATTG-CAACATGCAATAC
**
1453135 TTCACCATTTGATCCAATTCAATCATTGCAACATGCAATAC
1 TTCACCATTCAATCCAATTCAATCATTGCAACATGCAATAC
1453176 TTCACCATTCAA
1 TTCACCATTCAA
1453188 CTTGTTTCGA
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
41 43 0.96
42 2 0.04
ACGTcount: A:0.37, C:0.26, G:0.06, T:0.31
Consensus pattern (41 bp):
TTCACCATTCAATCCAATTCAATCATTGCAACATGCAATAC
Found at i:1462534 original size:10 final size:10
Alignment explanation
Indices: 1462519--1462554 Score: 54
Period size: 10 Copynumber: 3.6 Consensus size: 10
1462509 GTAACATCGT
1462519 AAAAAAAAGA
1 AAAAAAAAGA
*
1462529 AAAAAAAAGT
1 AAAAAAAAGA
*
1462539 GAAAAAAAGA
1 AAAAAAAAGA
1462549 AAAAAA
1 AAAAAA
1462555 TGTGTAGTAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.86, C:0.00, G:0.11, T:0.03
Consensus pattern (10 bp):
AAAAAAAAGA
Found at i:1465749 original size:17 final size:17
Alignment explanation
Indices: 1465727--1465771 Score: 81
Period size: 17 Copynumber: 2.6 Consensus size: 17
1465717 AGATTAAATT
*
1465727 TAATAAATGGTAAAGTA
1 TAATAAATGATAAAGTA
1465744 TAATAAATGATAAAGTA
1 TAATAAATGATAAAGTA
1465761 TAATAAATGAT
1 TAATAAATGAT
1465772 TTAGGAAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.56, C:0.00, G:0.13, T:0.31
Consensus pattern (17 bp):
TAATAAATGATAAAGTA
Found at i:1467447 original size:54 final size:54
Alignment explanation
Indices: 1467335--1467449 Score: 124
Period size: 54 Copynumber: 2.1 Consensus size: 54
1467325 GACACTAAAT
* * ** * **
1467335 GTGCAACCCATGGTATTCATAATGTGTTTATGAATGACCATTTCGACACTATGT
1 GTGCAATCCATGGAATTCATAATAAGTTTATGAATGACCATTTCCACACTATCA
* **
1467389 GTGCAATCCATGGAATTCATAATAAGTTTGTGAATTTTCCATTTCCACACT-TCA
1 GTGCAATCCATGGAATTCATAATAAGTTTATGAA-TGACCATTTCCACACTATCA
1467443 GTGCAAT
1 GTGCAAT
1467450 TGATGTAACT
Statistics
Matches: 50, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
54 37 0.74
55 13 0.26
ACGTcount: A:0.29, C:0.19, G:0.17, T:0.36
Consensus pattern (54 bp):
GTGCAATCCATGGAATTCATAATAAGTTTATGAATGACCATTTCCACACTATCA
Found at i:1468522 original size:24 final size:24
Alignment explanation
Indices: 1468490--1468542 Score: 97
Period size: 24 Copynumber: 2.2 Consensus size: 24
1468480 GCTCCTAAGT
1468490 TATGGGAGAAGACGATGAAGGTCC
1 TATGGGAGAAGACGATGAAGGTCC
*
1468514 TATGGGAGAAGAGGATGAAGGTCC
1 TATGGGAGAAGACGATGAAGGTCC
1468538 TATGG
1 TATGG
1468543 AAGATGATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.32, C:0.09, G:0.40, T:0.19
Consensus pattern (24 bp):
TATGGGAGAAGACGATGAAGGTCC
Found at i:1477268 original size:41 final size:41
Alignment explanation
Indices: 1477116--1477268 Score: 155
Period size: 41 Copynumber: 3.7 Consensus size: 41
1477106 ATTCGGTGTA
* * * * * *
1477116 ATTCAATCATGGCAACATGCAATACTTCACCACTAAACTTG
1 ATTCAATCATGGTAACATACATTAATTCACCATTCAACTTG
* * *
1477157 ATTCGATCATGGTAGCATACATTAATTCAACATTCAACTTG
1 ATTCAATCATGGTAACATACATTAATTCACCATTCAACTTG
* * *
1477198 ATTCGATCATTGTAGA-ATACAATAATTCACCATTCAACTTG
1 ATTCAATCATGGTA-ACATACATTAATTCACCATTCAACTTG
* * *
1477239 ATTCAATCATAGTAACATGCATTTATTCAC
1 ATTCAATCATGGTAACATACATTAATTCAC
1477269 AAGTCAATTC
Statistics
Matches: 92, Mismatches: 18, Indels: 4
0.81 0.16 0.04
Matches are distributed among these distances:
40 1 0.01
41 91 0.99
ACGTcount: A:0.36, C:0.22, G:0.10, T:0.33
Consensus pattern (41 bp):
ATTCAATCATGGTAACATACATTAATTCACCATTCAACTTG
Found at i:1483136 original size:21 final size:21
Alignment explanation
Indices: 1483118--1483159 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
1483108 CAACAATTTG
1483118 TTCATTCAAGATTTCAATTCA
1 TTCATTCAAGATTTCAATTCA
1483139 TTCATTCAAGATTTCAATTCA
1 TTCATTCAAGATTTCAATTCA
1483160 ACTGAGTTCG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.33, C:0.19, G:0.05, T:0.43
Consensus pattern (21 bp):
TTCATTCAAGATTTCAATTCA
Found at i:1483244 original size:41 final size:41
Alignment explanation
Indices: 1483199--1483276 Score: 122
Period size: 41 Copynumber: 1.9 Consensus size: 41
1483189 ATTCACAATT
*
1483199 CAATTCAATC-GTGACAACATGCAATAGTTCACCATTCGATC
1 CAATTCAATCAGTG-CAACATGCAATACTTCACCATTCGATC
*
1483240 CAATTCAATCATTGCAACATGCAATACTTCACCATTC
1 CAATTCAATCAGTGCAACATGCAATACTTCACCATTC
1483277 AACTTGTTTC
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
41 32 0.94
42 2 0.06
ACGTcount: A:0.35, C:0.28, G:0.09, T:0.28
Consensus pattern (41 bp):
CAATTCAATCAGTGCAACATGCAATACTTCACCATTCGATC
Found at i:1497377 original size:54 final size:55
Alignment explanation
Indices: 1497319--1497424 Score: 126
Period size: 54 Copynumber: 1.9 Consensus size: 55
1497309 TGGCACTAAA
* **
1497319 TGTGCAAACCAAT-GTATTCATAATGTGTTTATGAA-TGACCATTTCGACACTATG
1 TGTGCAAACC-ATGGAATTCATAATAAGTTTATGAATTGACCATTTCGACACTATG
* * **
1497373 TGTGCAATCCATGGAATTCATAATAAGTTTGTGAATTTTCCATTTCGACACT
1 TGTGCAAACCATGGAATTCATAATAAGTTTATGAATTGACCATTTCGACACT
1497425 TCAGTGCAAT
Statistics
Matches: 43, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
53 2 0.05
54 27 0.63
55 14 0.33
ACGTcount: A:0.30, C:0.17, G:0.16, T:0.37
Consensus pattern (55 bp):
TGTGCAAACCATGGAATTCATAATAAGTTTATGAATTGACCATTTCGACACTATG
Found at i:1507245 original size:41 final size:41
Alignment explanation
Indices: 1507184--1507337 Score: 139
Period size: 41 Copynumber: 3.8 Consensus size: 41
1507174 TTCACAATTT
** * * *
1507184 AATTCAATCATTACAACATGCAATAGTTCACCATTCTA-TC
1 AATTCAATCATGGCAGCATGCAATAATTCACCATTCAACTC
*
1507224 GAATTCAATCATGGCAGCATGCAATACTTCACCATTCAACTC
1 -AATTCAATCATGGCAGCATGCAATAATTCACCATTCAACTC
** * * *
1507266 AATTTGATCATGGTAGCATACAATAATTCACCATTCAACTT
1 AATTCAATCATGGCAGCATGCAATAATTCACCATTCAACTC
* * * * * *
1507307 GATTCGATCATGGTAACATGCATTTATTCAC
1 AATTCAATCATGGCAGCATGCAATAATTCAC
1507338 AAGTGAATTC
Statistics
Matches: 95, Mismatches: 17, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
41 93 0.98
42 2 0.02
ACGTcount: A:0.34, C:0.23, G:0.10, T:0.32
Consensus pattern (41 bp):
AATTCAATCATGGCAGCATGCAATAATTCACCATTCAACTC
Found at i:1509790 original size:44 final size:44
Alignment explanation
Indices: 1509718--1509810 Score: 143
Period size: 44 Copynumber: 2.1 Consensus size: 44
1509708 GCATATCCAA
1509718 TATTTTACCATACACTTACCATTCATTCCATAAGCTCGTAAGCT
1 TATTTTACCATACACTTACCATTCATTCCATAAGCTCGTAAGCT
* * *
1509762 TATTTTACCCATATACTTGCCATT-ATTCCATAAGCTCGTAAGTT
1 TATTTTA-CCATACACTTACCATTCATTCCATAAGCTCGTAAGCT
1509806 TATTT
1 TATTT
1509811 GCATGCTTAC
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
44 31 0.69
45 14 0.31
ACGTcount: A:0.28, C:0.24, G:0.08, T:0.41
Consensus pattern (44 bp):
TATTTTACCATACACTTACCATTCATTCCATAAGCTCGTAAGCT
Found at i:1514624 original size:34 final size:34
Alignment explanation
Indices: 1514581--1514665 Score: 152
Period size: 34 Copynumber: 2.5 Consensus size: 34
1514571 AGGTTTTATT
1514581 CAATTAAAATATAGTTTTTGATTTCATATGATAA
1 CAATTAAAATATAGTTTTTGATTTCATATGATAA
*
1514615 CAATTAAAATTTAGTTTTTGATTTCATATGATAA
1 CAATTAAAATATAGTTTTTGATTTCATATGATAA
*
1514649 CAATTAAAATAAAGTTT
1 CAATTAAAATATAGTTT
1514666 GAATAAAACC
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 48 1.00
ACGTcount: A:0.42, C:0.06, G:0.08, T:0.44
Consensus pattern (34 bp):
CAATTAAAATATAGTTTTTGATTTCATATGATAA
Found at i:1516277 original size:21 final size:21
Alignment explanation
Indices: 1516253--1516293 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
1516243 ATTAACACTA
*
1516253 ACTACCTAGCTAGCTTCCTAC
1 ACTACCTAGCTAGCTACCTAC
*
1516274 ACTACCTAGCTGGCTACCTA
1 ACTACCTAGCTAGCTACCTA
1516294 AGTCACCTCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.24, C:0.37, G:0.12, T:0.27
Consensus pattern (21 bp):
ACTACCTAGCTAGCTACCTAC
Found at i:1519379 original size:21 final size:21
Alignment explanation
Indices: 1519353--1519431 Score: 115
Period size: 21 Copynumber: 3.8 Consensus size: 21
1519343 TCAAAGACAC
1519353 TTACCAAGGTACTTCACGTAT
1 TTACCAAGGTACTTCACGTAT
*
1519374 TTACCAAGGTACTTCAAGTAT
1 TTACCAAGGTACTTCACGTAT
*
1519395 TTACCAAGGTACTTCAAC-TAC
1 TTACCAAGGTACTTC-ACGTAT
*
1519416 TTACCAAGGTAATTCA
1 TTACCAAGGTACTTCA
1519432 TCTATTTCCA
Statistics
Matches: 53, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
20 1 0.02
21 51 0.96
22 1 0.02
ACGTcount: A:0.33, C:0.23, G:0.13, T:0.32
Consensus pattern (21 bp):
TTACCAAGGTACTTCACGTAT
Found at i:1525392 original size:14 final size:14
Alignment explanation
Indices: 1525373--1525402 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
1525363 TGACTTTTTA
1525373 GTCAAAGTCAACGG
1 GTCAAAGTCAACGG
*
1525387 GTCAAAGTCAATGG
1 GTCAAAGTCAACGG
1525401 GT
1 GT
1525403 TGACTCAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.33, C:0.17, G:0.30, T:0.20
Consensus pattern (14 bp):
GTCAAAGTCAACGG
Found at i:1537219 original size:90 final size:89
Alignment explanation
Indices: 1537062--1537238 Score: 282
Period size: 90 Copynumber: 2.0 Consensus size: 89
1537052 CCTAACACAC
* * *
1537062 CCTTTTATAGCCAAGTTACCCTAATCATATTAGGGTTTTATTATTTCAAATTAATTAAATTTATA
1 CCTTTTAAAGCCAAGTTACCCTAATCATATTAGGGTTTTATTATTTCAAAATAATTAAATCTATA
* *
1537127 TTTAATTAATTAGAATTTAATAAT
66 TTTAATTAATTAAAATTAAATAAT
* *
1537151 CCTTTTAAATCCAAGTTGCCCTAATCATATTAGGGATTTTATTATTTCAAAATAATTAAATCTAT
1 CCTTTTAAAGCCAAGTTACCCTAATCATATTAGGG-TTTTATTATTTCAAAATAATTAAATCTAT
1537216 ATTTAATTAATTAAAATTAAATA
65 ATTTAATTAATTAAAATTAAATA
1537239 TTAGGGATTA
Statistics
Matches: 80, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
89 32 0.40
90 48 0.60
ACGTcount: A:0.39, C:0.11, G:0.06, T:0.44
Consensus pattern (89 bp):
CCTTTTAAAGCCAAGTTACCCTAATCATATTAGGGTTTTATTATTTCAAAATAATTAAATCTATA
TTTAATTAATTAAAATTAAATAAT
Found at i:1543768 original size:90 final size:89
Alignment explanation
Indices: 1543609--1543785 Score: 293
Period size: 90 Copynumber: 2.0 Consensus size: 89
1543599 TCTAACACAC
*
1543609 CCTTTTATAGCCAAGTTACCCTAGTCATATTAGGGTTTTATTAATTCAAATTAATTAAATCTATA
1 CCTTTTATAGCCAAGTTACCCTAATCATATTAGGGTTTTATTAATTCAAATTAATTAAATCTATA
* *
1543674 TTTAATTAATTGGAATTTAATAAT
66 TTTAATTAATTGAAATTAAATAAT
*
1543698 CCTTTTATATCCAAGTTACCCTAATCATATTAGGGATTTTATT-ATATCAAATTAATTAAATCTA
1 CCTTTTATAGCCAAGTTACCCTAATCATATTAGGG-TTTTATTAAT-TCAAATTAATTAAATCTA
1543762 TATTTAATTAATTGAAATTAAATA
64 TATTTAATTAATTGAAATTAAATA
1543786 TTTGGGATTA
Statistics
Matches: 82, Mismatches: 4, Indels: 3
0.92 0.04 0.03
Matches are distributed among these distances:
89 35 0.43
90 47 0.57
ACGTcount: A:0.38, C:0.11, G:0.07, T:0.44
Consensus pattern (89 bp):
CCTTTTATAGCCAAGTTACCCTAATCATATTAGGGTTTTATTAATTCAAATTAATTAAATCTATA
TTTAATTAATTGAAATTAAATAAT
Found at i:1545173 original size:44 final size:45
Alignment explanation
Indices: 1545120--1545659 Score: 821
Period size: 44 Copynumber: 12.2 Consensus size: 45
1545110 ATCAATAAAT
* * *
1545120 TTACCATTTATTCCATAAGCTCGTAAACTTATTTTACCAACATAC
1 TTACCATTTATTCCATAAGCTCGTAAGCCTATTTTACCAATATAC
*
1545165 TT-CCATTTATTCCATAAGCTCGTAAGCCTATTTTACCAACA-AGC
1 TTACCATTTATTCCATAAGCTCGTAAGCCTATTTTACCAATATA-C
1545209 TTA-CATTTTATTCCATAAGCTCGTAAGCCTATTTTACCAATATAC
1 TTACCA-TTTATTCCATAAGCTCGTAAGCCTATTTTACCAATATAC
*
1545254 TTACCA-TTATTCCATAAGCTCGTAAGCCTATTTTACCAACATAC
1 TTACCATTTATTCCATAAGCTCGTAAGCCTATTTTACCAATATAC
*
1545298 TTACCATTTATTCCATAAGCTCGTAAGCATATTTTACCAATATAC
1 TTACCATTTATTCCATAAGCTCGTAAGCCTATTTTACCAATATAC
*
1545343 TTACCA-TTATTCCATAAGCTCGTAAGCCTATTTTACCAATACAC
1 TTACCATTTATTCCATAAGCTCGTAAGCCTATTTTACCAATATAC
* *
1545387 TTATCA-TTATTCCATAAGCTCATAAGCCTATTTTACCAATATAC
1 TTACCATTTATTCCATAAGCTCGTAAGCCTATTTTACCAATATAC
*
1545431 TTACCA-TTATTCCATAAGCTCGTAAGCCTATTTTACCAACATAC
1 TTACCATTTATTCCATAAGCTCGTAAGCCTATTTTACCAATATAC
*
1545475 TTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAATATAC
1 TTACCATTTATTCCATAAGCTCGTAAGCCTATTTTACCAATATAC
1545520 TTACCATTTATTCCATAAGCTCGTAAGCCTATTTTACCAATATAC
1 TTACCATTTATTCCATAAGCTCGTAAGCCTATTTTACCAATATAC
* *
1545565 TTACCA-TTATTCCATAAGCTCGAAAGCTTATTTTACCAATATAC
1 TTACCATTTATTCCATAAGCTCGTAAGCCTATTTTACCAATATAC
** * ** *
1545609 TTTTCA-TTATTCTATAAGCTAATAAGCTTATTTTACCAATATAC
1 TTACCATTTATTCCATAAGCTCGTAAGCCTATTTTACCAATATAC
1545653 TT-CCATT
1 TTACCATT
1545660 AACCTCATTT
Statistics
Matches: 461, Mismatches: 26, Indels: 17
0.91 0.05 0.03
Matches are distributed among these distances:
43 3 0.01
44 286 0.62
45 169 0.37
46 3 0.01
ACGTcount: A:0.32, C:0.24, G:0.06, T:0.38
Consensus pattern (45 bp):
TTACCATTTATTCCATAAGCTCGTAAGCCTATTTTACCAATATAC
Found at i:1545277 original size:89 final size:89
Alignment explanation
Indices: 1545120--1545659 Score: 840
Period size: 89 Copynumber: 6.1 Consensus size: 89
1545110 ATCAATAAAT
* *
1545120 TTACCATTTATTCCATAAGCTCGTAAACTTATTTTACCAACATACTT-CCATTTATTCCATAAGC
1 TTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAATATACTTACCA-TTATTCCATAAGC
1545184 TCGTAAGCCTATTTTACCAACA-AGC
65 TCGTAAGCCTATTTTACCAACATA-C
*
1545209 TTA-CATTTTATTCCATAAGCTCGTAAGCCTATTTTACCAATATACTTACCATTATTCCATAAGC
1 TTACCA-TTTATTCCATAAGCTCGTAAGCTTATTTTACCAATATACTTACCATTATTCCATAAGC
1545273 TCGTAAGCCTATTTTACCAACATAC
65 TCGTAAGCCTATTTTACCAACATAC
*
1545298 TTACCATTTATTCCATAAGCTCGTAAGCATATTTTACCAATATACTTACCATTATTCCATAAGCT
1 TTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAATATACTTACCATTATTCCATAAGCT
* *
1545363 CGTAAGCCTATTTTACCAATACAC
66 CGTAAGCCTATTTTACCAACATAC
* * *
1545387 TTATCA-TTATTCCATAAGCTCATAAGCCTATTTTACCAATATACTTACCATTATTCCATAAGCT
1 TTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAATATACTTACCATTATTCCATAAGCT
1545451 CGTAAGCCTATTTTACCAACATAC
66 CGTAAGCCTATTTTACCAACATAC
1545475 TTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAATATACTTACCATTTATTCCATAAGC
1 TTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAATATACTTACCA-TTATTCCATAAGC
*
1545540 TCGTAAGCCTATTTTACCAATATAC
65 TCGTAAGCCTATTTTACCAACATAC
* ** *
1545565 TTACCA-TTATTCCATAAGCTCGAAAGCTTATTTTACCAATATACTTTTCATTATTCTATAAGCT
1 TTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAATATACTTACCATTATTCCATAAGCT
** * *
1545629 AATAAGCTTATTTTACCAATATAC
66 CGTAAGCCTATTTTACCAACATAC
1545653 TT-CCATT
1 TTACCATT
1545660 AACCTCATTT
Statistics
Matches: 422, Mismatches: 22, Indels: 15
0.92 0.05 0.03
Matches are distributed among these distances:
87 3 0.01
88 122 0.29
89 248 0.59
90 49 0.12
ACGTcount: A:0.32, C:0.24, G:0.06, T:0.38
Consensus pattern (89 bp):
TTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAATATACTTACCATTATTCCATAAGCT
CGTAAGCCTATTTTACCAACATAC
Found at i:1545513 original size:222 final size:220
Alignment explanation
Indices: 1545120--1545660 Score: 854
Period size: 222 Copynumber: 2.4 Consensus size: 220
1545110 ATCAATAAAT
* * *
1545120 TTACCATTTATTCCATAAGCTCGTAAACTTATTTTACCAACATACTTCCATTTATTCCATAAGCT
1 TTACCA-TTATTCCATAAGCTCGTAAGCTTATTTTACCAATATACTTTCA-TTATTCCATAAGCT
* *
1545185 CGTAAGCCTATTTTACCAACA-AGCTTA-CATTTTATTCCATAAGCTCGTAAGCCTATTTTACCA
64 CATAAGCCTATTTTACCAATATA-CTTACCA--TTATTCCATAAGCTCGTAAGCCTATTTTACCA
*
1545248 ATATACTTACCATTATTCCATAAGCTCGTAAGCCTATTTTACCAACATACTTACCATTTATTCCA
126 ACATACTTACCATTATTCCATAAGCTCGTAAGCCTATTTTACCAACATACTTACCATTTATTCCA
1545313 TAAGCTCGTAAGCATATTTTACCAATATAC
191 TAAGCTCGTAAGCATATTTTACCAATATAC
* *
1545343 TTACCATTATTCCATAAGCTCGTAAGCCTATTTTACCAATACACTTATCATTATTCCATAAGCTC
1 TTACCATTATTCCATAAGCTCGTAAGCTTATTTTACCAATATACTT-TCATTATTCCATAAGCTC
1545408 ATAAGCCTATTTTACCAATATACTTACCATTATTCCATAAGCTCGTAAGCCTATTTTACCAACAT
65 ATAAGCCTATTTTACCAATATACTTACCATTATTCCATAAGCTCGTAAGCCTATTTTACCAACAT
* *
1545473 ACTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAATATACTTACCATTTATTCCATAA
130 ACTTACCA-TTATTCCATAAGCTCGTAAGCCTATTTTACCAACATACTTACCATTTATTCCATAA
*
1545538 GCTCGTAAGCCTATTTTACCAATATAC
194 GCTCGTAAGCATATTTTACCAATATAC
* * *
1545565 TTACCATTATTCCATAAGCTCGAAAGCTTATTTTACCAATATACTTTTCATTATTCTATAAGCTA
1 TTACCATTATTCCATAAGCTCGTAAGCTTATTTTACCAATATAC-TTTCATTATTCCATAAGCTC
*
1545630 ATAAGCTTATTTTACCAATATACTT-CCATTA
65 ATAAGCCTATTTTACCAATATACTTACCATTA
1545661 ACCTCATTTA
Statistics
Matches: 296, Mismatches: 17, Indels: 12
0.91 0.05 0.04
Matches are distributed among these distances:
221 49 0.17
222 234 0.79
223 13 0.04
ACGTcount: A:0.32, C:0.24, G:0.06, T:0.38
Consensus pattern (220 bp):
TTACCATTATTCCATAAGCTCGTAAGCTTATTTTACCAATATACTTTCATTATTCCATAAGCTCA
TAAGCCTATTTTACCAATATACTTACCATTATTCCATAAGCTCGTAAGCCTATTTTACCAACATA
CTTACCATTATTCCATAAGCTCGTAAGCCTATTTTACCAACATACTTACCATTTATTCCATAAGC
TCGTAAGCATATTTTACCAATATAC
Found at i:1545872 original size:59 final size:59
Alignment explanation
Indices: 1545792--1545903 Score: 138
Period size: 59 Copynumber: 1.9 Consensus size: 59
1545782 GCTTCCCTTT
* *
1545792 CATTTTAGCACACAAAGTGCCCTA-TTAAAAAATTCATACCATTAGTATAATTTTGTTAC
1 CATTTTAGCACACAAAGTGCCCTACGT-AAAAATGCATACCATTAGTATAATTTTGTTAC
** * *
1545851 CATTTTAGCACTTGAAA-TGCCCTACGTGAAAATGCATACCATTAGTATGATTT
1 CATTTTAGCAC-ACAAAGTGCCCTACGTAAAAATGCATACCATTAGTATAATTT
1545904 CCTTATCTTT
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
59 41 0.91
60 4 0.09
ACGTcount: A:0.35, C:0.19, G:0.12, T:0.35
Consensus pattern (59 bp):
CATTTTAGCACACAAAGTGCCCTACGTAAAAATGCATACCATTAGTATAATTTTGTTAC
Found at i:1546076 original size:116 final size:117
Alignment explanation
Indices: 1545938--1546213 Score: 419
Period size: 116 Copynumber: 2.4 Consensus size: 117
1545928 ACTTTATTTT
* *
1545938 GAAATCCATACACTCAGTATGATTCCCTTACCATTTTAGCACATAAAATGCCCTATCTAGAAATC
1 GAAATCTATACACTCAGTATGATTTCCTTACCATTTTAGCACATAAAATGCCCTATCTAGAAATC
* * * * *
1546003 CATATTTTCAATATGATTT-CTTATCACTTAGCACACTTAGTTCTCCATATG
66 AATATTTCCAATATGATTTCCCTATCACTTAGCACACTCAGTGCTCCATATG
* * *
1546054 GAAATCTATACACTCAGTATGATTTCCATACCATTTTAGCACATAAAATGCTCTATCTGGAAATC
1 GAAATCTATACACTCAGTATGATTTCCTTACCATTTTAGCACATAAAATGCCCTATCTAGAAATC
* * *
1546119 AATATTTCCAATATGATTTCCCTATCATTTAGCAGACTCAGTGCTTCATATG
66 AATATTTCCAATATGATTTCCCTATCACTTAGCACACTCAGTGCTCCATATG
*
1546171 GAAATCTATACACCCAGTATGATTTCCTTACCATTTTAGCACA
1 GAAATCTATACACTCAGTATGATTTCCTTACCATTTTAGCACA
1546214 CAAGCTGCCA
Statistics
Matches: 144, Mismatches: 15, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
116 77 0.53
117 67 0.47
ACGTcount: A:0.32, C:0.23, G:0.10, T:0.35
Consensus pattern (117 bp):
GAAATCTATACACTCAGTATGATTTCCTTACCATTTTAGCACATAAAATGCCCTATCTAGAAATC
AATATTTCCAATATGATTTCCCTATCACTTAGCACACTCAGTGCTCCATATG
Found at i:1546192 original size:58 final size:59
Alignment explanation
Indices: 1545894--1546214 Score: 199
Period size: 59 Copynumber: 5.5 Consensus size: 59
1545884 GCATACCATT
* * * * * * * * *
1545894 AGTATGATTTCCTTATC-TTTGTAGCACCCTTAGTACTTTATTTTGAAATCCATACACTC
1 AGTATGATTTCCTTACCATTT-TAGCACACTAAGTGCTTCATATGGAAATCTATACACCC
* * * * * * ****
1545953 AGTATGATTCCCTTACCATTTTAGCACA-TAAAATGC-CCTATCTAGAAATCCATATTTTC
1 AGTATGATTTCCTTACCATTTTAGCACACT-AAGTGCTTC-ATATGGAAATCTATACACCC
* * * * * * *
1546012 AATATGATTT-CTTATCA-CTTAGCACACTTAGTTCTCCATATGGAAATCTATACACTC
1 AGTATGATTTCCTTACCATTTTAGCACACTAAGTGCTTCATATGGAAATCTATACACCC
* * * * ***
1546069 AGTATGATTTCCATACCATTTTAGCACA-TAAAATGC-TCTATCTGGAAATCAATATTTCC
1 AGTATGATTTCCTTACCATTTTAGCACACT-AAGTGCTTC-ATATGGAAATCTATACACCC
* * * * *
1546128 AATATGATTTCCCTATCA-TTTAGCAGACTCAGTGCTTCATATGGAAATCTATACACCC
1 AGTATGATTTCCTTACCATTTTAGCACACTAAGTGCTTCATATGGAAATCTATACACCC
1546186 AGTATGATTTCCTTACCATTTTAGCACAC
1 AGTATGATTTCCTTACCATTTTAGCACAC
1546215 AAGCTGCCAT
Statistics
Matches: 195, Mismatches: 55, Indels: 24
0.71 0.20 0.09
Matches are distributed among these distances:
57 34 0.17
58 59 0.30
59 99 0.51
60 3 0.02
ACGTcount: A:0.31, C:0.23, G:0.10, T:0.37
Consensus pattern (59 bp):
AGTATGATTTCCTTACCATTTTAGCACACTAAGTGCTTCATATGGAAATCTATACACCC
Found at i:1550669 original size:7 final size:7
Alignment explanation
Indices: 1550624--1550654 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
1550614 TTTTACGAAT
1550624 AGTGAAC
1 AGTGAAC
1550631 AGTGAAC
1 AGTGAAC
1550638 AGTGAAC
1 AGTGAAC
*
1550645 AATGAAC
1 AGTGAAC
1550652 AGT
1 AGT
1550655 ACCGTGAACA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.45, C:0.13, G:0.26, T:0.16
Consensus pattern (7 bp):
AGTGAAC
Found at i:1551237 original size:44 final size:45
Alignment explanation
Indices: 1551188--1551813 Score: 865
Period size: 44 Copynumber: 14.1 Consensus size: 45
1551178 ATAAATTTAT
* * * *
1551188 CATTTATCCCATAAGCTCGTAATCTTATTTTACCAACATACTT-C
1 CATTTATTCCATAAGCTCGTAAGCCTATTTTACCAATATACTTAC
* * * *
1551232 CATTTATTGCATAAGCTAGTAAACCTATTTTACCAACATACTTAC
1 CATTTATTCCATAAGCTCGTAAGCCTATTTTACCAATATACTTAC
* * *
1551277 CATTTATTTCATAAGCATCGTAAGCCTACTTTACCAACATACTTAC
1 CATTTATTCCATAAGC-TCGTAAGCCTATTTTACCAATATACTTAC
* * *
1551323 CATTTATTCTATAAGCTTGTAAGCCTATTTTACCAACATACTTAC
1 CATTTATTCCATAAGCTCGTAAGCCTATTTTACCAATATACTTAC
* * *
1551368 CA-TTATTCCATAAGCTCGTAAGCTTATTTTACCAACATACTTAT
1 CATTTATTCCATAAGCTCGTAAGCCTATTTTACCAATATACTTAC
*
1551412 CATTTATTCCATAAGCTCGTAAGCCTATTTTTCCAATATACTTAC
1 CATTTATTCCATAAGCTCGTAAGCCTATTTTACCAATATACTTAC
1551457 CA-TTATTCCATAAGCTCGTAAGCCTATTTTACCAATATACTTAC
1 CATTTATTCCATAAGCTCGTAAGCCTATTTTACCAATATACTTAC
* *
1551501 CA-TTATTCCAAAATCTCGTAAGCCTATTTTACCAATATACTTAC
1 CATTTATTCCATAAGCTCGTAAGCCTATTTTACCAATATACTTAC
* *
1551545 CA-TTATTCTATAAGCTCGTAAGCCTATTTTACCAACATACTTA-
1 CATTTATTCCATAAGCTCGTAAGCCTATTTTACCAATATACTTAC
*
1551588 CATTTATTCCATAAGCTCGTAAGCCTATTTTACCAATATAATTAC
1 CATTTATTCCATAAGCTCGTAAGCCTATTTTACCAATATACTTAC
1551633 CATTTATTCCATAAGCTCGTAAGCCTATTTTACCAATATACTTAC
1 CATTTATTCCATAAGCTCGTAAGCCTATTTTACCAATATACTTAC
* *
1551678 CATTTAGTCCATAAGCACGTAAGCCTATTTTACCAATATACTTAC
1 CATTTATTCCATAAGCTCGTAAGCCTATTTTACCAATATACTTAC
** **
1551723 CA-TTATTCCATAAGCTCGTAAGTTTATTTTACCAATATACTTGT
1 CATTTATTCCATAAGCTCGTAAGCCTATTTTACCAATATACTTAC
* * ** * *
1551767 CA-TTATTCTATAGGCTAATGAGCCTATTTTACAAATATACTT-C
1 CATTTATTCCATAAGCTCGTAAGCCTATTTTACCAATATACTTAC
1551810 CATT
1 CATT
1551814 AACCTCATTT
Statistics
Matches: 527, Mismatches: 49, Indels: 12
0.90 0.08 0.02
Matches are distributed among these distances:
43 4 0.01
44 309 0.59
45 174 0.33
46 40 0.08
ACGTcount: A:0.32, C:0.23, G:0.07, T:0.38
Consensus pattern (45 bp):
CATTTATTCCATAAGCTCGTAAGCCTATTTTACCAATATACTTAC
Found at i:1551426 original size:89 final size:89
Alignment explanation
Indices: 1551191--1551814 Score: 880
Period size: 89 Copynumber: 7.0 Consensus size: 89
1551181 AATTTATCAT
* * * * * *
1551191 TTATCCCATAAGCTCGTAATCTTATTTTACCAACATACTT-CCATTTATTGCATAAGCTAGTAAA
1 TTATTCCATAAGCTCGTAAGCCTATTTTACCAACATACTTACCATTTATTCCATAAGCTCGTAAG
*
1551255 CCTATTTTACCAACATACTTACCA
66 CCTATTTTACCAATATACTTACCA
* * * *
1551279 TTTATTTCATAAGCATCGTAAGCCTACTTTACCAACATACTTACCATTTATTCTATAAGCTTGTA
1 -TTATTCCATAAGC-TCGTAAGCCTATTTTACCAACATACTTACCATTTATTCCATAAGCTCGTA
*
1551344 AGCCTATTTTACCAACATACTTACCA
64 AGCCTATTTTACCAATATACTTACCA
* *
1551370 TTATTCCATAAGCTCGTAAGCTTATTTTACCAACATACTTATCATTTATTCCATAAGCTCGTAAG
1 TTATTCCATAAGCTCGTAAGCCTATTTTACCAACATACTTACCATTTATTCCATAAGCTCGTAAG
*
1551435 CCTATTTTTCCAATATACTTACCA
66 CCTATTTTACCAATATACTTACCA
* * *
1551459 TTATTCCATAAGCTCGTAAGCCTATTTTACCAATATACTTACCA-TTATTCCAAAATCTCGTAAG
1 TTATTCCATAAGCTCGTAAGCCTATTTTACCAACATACTTACCATTTATTCCATAAGCTCGTAAG
1551523 CCTATTTTACCAATATACTTACCA
66 CCTATTTTACCAATATACTTACCA
*
1551547 TTATTCTATAAGCTCGTAAGCCTATTTTACCAACATACTTA-CATTTATTCCATAAGCTCGTAAG
1 TTATTCCATAAGCTCGTAAGCCTATTTTACCAACATACTTACCATTTATTCCATAAGCTCGTAAG
*
1551611 CCTATTTTACCAATATAATTACCA
66 CCTATTTTACCAATATACTTACCA
* * *
1551635 TTTATTCCATAAGCTCGTAAGCCTATTTTACCAATATACTTACCATTTAGTCCATAAGCACGTAA
1 -TTATTCCATAAGCTCGTAAGCCTATTTTACCAACATACTTACCATTTATTCCATAAGCTCGTAA
1551700 GCCTATTTTACCAATATACTTACCA
65 GCCTATTTTACCAATATACTTACCA
** * ** * * ** *
1551725 TTATTCCATAAGCTCGTAAGTTTATTTTACCAATATACTTGTCA-TTATTCTATAGGCTAATGAG
1 TTATTCCATAAGCTCGTAAGCCTATTTTACCAACATACTTACCATTTATTCCATAAGCTCGTAAG
*
1551789 CCTATTTTACAAATATACTT-CCA
66 CCTATTTTACCAATATACTTACCA
1551812 TTA
1 TTA
1551815 ACCTCATTTA
Statistics
Matches: 485, Mismatches: 45, Indels: 12
0.89 0.08 0.02
Matches are distributed among these distances:
87 8 0.02
88 153 0.32
89 200 0.41
90 80 0.16
91 44 0.09
ACGTcount: A:0.32, C:0.23, G:0.07, T:0.38
Consensus pattern (89 bp):
TTATTCCATAAGCTCGTAAGCCTATTTTACCAACATACTTACCATTTATTCCATAAGCTCGTAAG
CCTATTTTACCAATATACTTACCA
Done.