Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002352.1 Hibiscus syriacus cultivar Beakdansim tig00004797_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: 2012169
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 6 of 10
Found at i:1057600 original size:543 final size:543
Alignment explanation
Indices: 1056573--1057630 Score: 1672
Period size: 543 Copynumber: 1.9 Consensus size: 543
1056563 TGATGTGGCC
* * **
1056573 CAAGAATGATACCTCTAACAATCAAAACTCGTACTTCTCAAACTTGATATACAATTGAATCTCAT
1 CAAGAATGATACCTCTAACAATCAAAACTCATACTTCTCAAACTTGACATACAATTGAAGATCAT
* * *
1056638 GAAGCATTTACAAGACATTACAGAGGTGTTGGTCGCTCATCTTCGGATCGATATTATACAAGGAT
66 GAAGCATTTACAAGACAATACAGAGGTGTTAGTCGCTCATATTCGGATCGATATTATACAAGGAT
*
1056703 ATCATCTATGAAGACTACTACAATGTGATCTACATATGGTTGGAAGACTCAATTTGTCAACTCCA
131 ATCATCTATGAAGACTACTACAATGTGATCTACATATGGTTGGAAGACTCAATTCGTCAACTCCA
* *
1056768 TAATTGTCGTCAGTGAGTTGGTGAGTCCAAACAATATTACCTGAAATTTATTGTGATTGTACCTA
196 TAATTGTCGTCAGTGAGTTGGTGAGTCCAAACAACATTACCTGAAATTTATAGTGATTGTACCTA
*
1056833 GTCCCGAACGTTATCTTTGATATAACGACATCCTTAAATTTTAACTGATAGTATCCAAATAAGTA
261 GTCACGAACGTTATCTTTGATATAACGACATCCTTAAATTTTAACTGATAGTATCCAAATAAGTA
*
1056898 ACCCCTTAAACCCAACCTAGAAGAAATAAGGTTGAATTTAGAGAGCTCAATTGAAACTTGTCTCT
326 ACCCCTTAAACCCAACCTAGAAGAAATAAGGTTGAATTTAGAGAGATCAATTGAAACTTGTCTCT
* * *
1056963 CACCAGATTCATATTTGTTTTAAACCTTAAAATTACTATTTAAAACTTTATTATTTTATTAAAAA
391 CAACAGATTCATATTTGTTTTAAACCTTAAAATTACCAATTAAAACTTTATTATTTTATTAAAAA
* * * *
1057028 TAAATATTTGAGAAAAATTTGATATAAATAATAATATTCGAAAGATATGCGTAACAGTTCGAATG
456 TAAATATTTGAGAAAAATCTGACATAAATAATAATATTCGAAAGAGATGCATAACAGTTCGAATG
1057093 GTACCTCTAATAATTATGTTGCA
521 GTACCTCTAATAATTATGTTGCA
* * *
1057116 CAAGAATGATACCTCTAACAATCAAAACTCATACTTCTCAAATTTGGCATACAATTGAAGATCCT
1 CAAGAATGATACCTCTAACAATCAAAACTCATACTTCTCAAACTTGACATACAATTGAAGATCAT
* * * * * *
1057181 GAAGCATTTGCAGGATAATACAGAGGTGTTAGTTGCTCATATTTGGATTGATATTATACAAGGAT
66 GAAGCATTTACAAGACAATACAGAGGTGTTAGTCGCTCATATTCGGATCGATATTATACAAGGAT
1057246 ATCATCTATGAAGACTACTA-AGATGTGATCTACATATGGTTGGAAGACTCAATTCGTCAACTCC
131 ATCATCTATGAAGACTACTACA-ATGTGATCTACATATGGTTGGAAGACTCAATTCGTCAACTCC
* * *
1057310 ATAATTGTCGTCA-TCGCGTTGGTGAGTCCAAACAACATTACTTGGAATTTATAGTGATTGTACC
195 ATAATTGTCGTCAGT-GAGTTGGTGAGTCCAAACAACATTACCTGAAATTTATAGTGATTGTACC
* * * * * * *
1057374 TAGTCATGAACGTTGTCTTTGATATATCGGCATCCTTAAATTTTAACTGATAGTATTCGAATCTA
259 TAGTCACGAACGTTATCTTTGATATAACGACATCCTTAAATTTTAACTGATAGTATCCAAAT-AA
* * *
1057439 -TAATCCCTTAAACCCAACCTAGAAGAAATTAGGTTGAATTTAGAGAGATGAATTGAAACTTGTC
323 GTAACCCCTTAAACCCAACCTAGAAGAAATAAGGTTGAATTTAGAGAGATCAATTGAAACTTGTC
* * *
1057503 TTTTAATAGATTCATATTTGTTTTAAACCTTAAAATTACCAATTAAAACTTTATTATTTTATTAA
388 TCTCAACAGATTCATATTTGTTTTAAACCTTAAAATTACCAATTAAAACTTTATTATTTTATTAA
1057568 AAATAAATATTTGAGAAAAATCTGACATAAATAATAATATTCGAAAGAGATGCATAACAGTTC
453 AAATAAATATTTGAGAAAAATCTGACATAAATAATAATATTCGAAAGAGATGCATAACAGTTC
1057631 AAAAATTAAT
Statistics
Matches: 468, Mismatches: 44, Indels: 6
0.90 0.08 0.01
Matches are distributed among these distances:
542 2 0.00
543 465 0.99
544 1 0.00
ACGTcount: A:0.36, C:0.16, G:0.14, T:0.33
Consensus pattern (543 bp):
CAAGAATGATACCTCTAACAATCAAAACTCATACTTCTCAAACTTGACATACAATTGAAGATCAT
GAAGCATTTACAAGACAATACAGAGGTGTTAGTCGCTCATATTCGGATCGATATTATACAAGGAT
ATCATCTATGAAGACTACTACAATGTGATCTACATATGGTTGGAAGACTCAATTCGTCAACTCCA
TAATTGTCGTCAGTGAGTTGGTGAGTCCAAACAACATTACCTGAAATTTATAGTGATTGTACCTA
GTCACGAACGTTATCTTTGATATAACGACATCCTTAAATTTTAACTGATAGTATCCAAATAAGTA
ACCCCTTAAACCCAACCTAGAAGAAATAAGGTTGAATTTAGAGAGATCAATTGAAACTTGTCTCT
CAACAGATTCATATTTGTTTTAAACCTTAAAATTACCAATTAAAACTTTATTATTTTATTAAAAA
TAAATATTTGAGAAAAATCTGACATAAATAATAATATTCGAAAGAGATGCATAACAGTTCGAATG
GTACCTCTAATAATTATGTTGCA
Found at i:1060007 original size:21 final size:21
Alignment explanation
Indices: 1059983--1060041 Score: 66
Period size: 21 Copynumber: 2.8 Consensus size: 21
1059973 CTACACATCG
1059983 AAGGGATTGATCCTTTTTTAA
1 AAGGGATTGATCCTTTTTTAA
* * **
1060004 AAGGGATTGCTTCTTTTTTTG
1 AAGGGATTGATCCTTTTTTAA
1060025 AA-GGATTCGATCCTTTT
1 AAGGGATT-GATCCTTTT
1060042 CCATGTGGAT
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
20 5 0.16
21 26 0.84
ACGTcount: A:0.22, C:0.12, G:0.20, T:0.46
Consensus pattern (21 bp):
AAGGGATTGATCCTTTTTTAA
Found at i:1060948 original size:2 final size:2
Alignment explanation
Indices: 1060941--1060976 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
1060931 AGAAGGGATT
1060941 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1060977 GCTCCACATG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1062239 original size:18 final size:18
Alignment explanation
Indices: 1062216--1062288 Score: 67
Period size: 18 Copynumber: 3.9 Consensus size: 18
1062206 AGGGATTATC
1062216 AGTGGTCATTCGGGACAT
1 AGTGGTCATTCGGGACAT
*
1062234 AGTGGTTC-TTCGGAACAAT
1 AGTGG-TCATTCGGGAC-AT
* * * *
1062253 CAATGGTCCTTCAGGATAT
1 -AGTGGTCATTCGGGACAT
1062272 AGTGGTCATTCGGGACA
1 AGTGGTCATTCGGGACA
1062289 AATATTTAGT
Statistics
Matches: 42, Mismatches: 9, Indels: 8
0.71 0.15 0.14
Matches are distributed among these distances:
18 25 0.60
19 8 0.19
20 9 0.21
ACGTcount: A:0.25, C:0.18, G:0.29, T:0.29
Consensus pattern (18 bp):
AGTGGTCATTCGGGACAT
Found at i:1070308 original size:30 final size:30
Alignment explanation
Indices: 1070266--1070335 Score: 79
Period size: 30 Copynumber: 2.3 Consensus size: 30
1070256 CATGCCTTAG
* * **
1070266 AAAATTTGGGGACCATTTTTTAATTTT-CA
1 AAAAGTTGGGGACCAATTCATAATTTTGCA
*
1070295 AAAAGTTGAGGGACCAATTCATAATTTTGGA
1 AAAAGTTG-GGGACCAATTCATAATTTTGCA
1070326 AAAAGTTGGG
1 AAAAGTTGGG
1070336 AATGGTTGTA
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
29 7 0.21
30 18 0.53
31 9 0.26
ACGTcount: A:0.36, C:0.09, G:0.21, T:0.34
Consensus pattern (30 bp):
AAAAGTTGGGGACCAATTCATAATTTTGCA
Found at i:1071369 original size:59 final size:59
Alignment explanation
Indices: 1071270--1071391 Score: 172
Period size: 59 Copynumber: 2.1 Consensus size: 59
1071260 CAGCAGGCTG
** * *
1071270 CATATTCGAGAATACACTAAAGGATACCTAGTGTATATGGTGGGCACGACCTTATGTGT
1 CATATTCGAGAATACACTAAAGGATACCTAGTACAGATGGTGGACACGACCTTATGTGT
* ** *
1071329 CATATTCGAGACTGTACTTAAGGATACCTAGTACAGATGGTGGACACGACCTTATGTGT
1 CATATTCGAGAATACACTAAAGGATACCTAGTACAGATGGTGGACACGACCTTATGTGT
1071388 CATA
1 CATA
1071392 CTCGGGATTG
Statistics
Matches: 55, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
59 55 1.00
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.29
Consensus pattern (59 bp):
CATATTCGAGAATACACTAAAGGATACCTAGTACAGATGGTGGACACGACCTTATGTGT
Found at i:1071564 original size:45 final size:45
Alignment explanation
Indices: 1071514--1071687 Score: 264
Period size: 45 Copynumber: 3.9 Consensus size: 45
1071504 GTAACCATAC
*
1071514 AAATAAGCTTACGAGTTTATGGAATAAATGGTAAGTATATTGGTA
1 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGTA
* * *
1071559 AAATAAGATTACGAGCTTTTGGAAT-AATGGTAAGTATTTTGGTA
1 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGTA
1071603 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGTA
1 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGTA
* *
1071648 AAATAAGCTTGCGAGCTTATAGG-ATAAATGATAAG-ATATT
1 AAATAAGCTTACGAGCTTAT-GGAATAAATGGTAAGTATATT
1071688 TTATATTATG
Statistics
Matches: 118, Mismatches: 9, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
44 46 0.39
45 70 0.59
46 2 0.02
ACGTcount: A:0.40, C:0.06, G:0.22, T:0.33
Consensus pattern (45 bp):
AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGTA
Found at i:1072357 original size:13 final size:13
Alignment explanation
Indices: 1072339--1072375 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
1072329 TCTATTACGA
1072339 GCATTTATGACAC
1 GCATTTATGACAC
*
1072352 GCATTTATGACTC
1 GCATTTATGACAC
*
1072365 ACATTTATGAC
1 GCATTTATGAC
1072376 GCACAGTGAG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.30, C:0.22, G:0.14, T:0.35
Consensus pattern (13 bp):
GCATTTATGACAC
Found at i:1072380 original size:13 final size:13
Alignment explanation
Indices: 1072340--1072380 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 13
1072330 CTATTACGAG
*
1072340 CATTTATGACACG
1 CATTTATGACACA
*
1072353 CATTTATGACTCA
1 CATTTATGACACA
*
1072366 CATTTATGACGCA
1 CATTTATGACACA
1072379 CA
1 CA
1072381 GTGAGTGTCA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.32, C:0.24, G:0.12, T:0.32
Consensus pattern (13 bp):
CATTTATGACACA
Found at i:1072546 original size:2 final size:2
Alignment explanation
Indices: 1072539--1072567 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
1072529 TTTCGTAAAT
1072539 TA 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 TA T
1072568 TGTAGATTGA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1083631 original size:8 final size:8
Alignment explanation
Indices: 1083618--1083645 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
1083608 TTTCATGTAA
1083618 ATTTGTCT
1 ATTTGTCT
1083626 ATTTGTCT
1 ATTTGTCT
1083634 ATTTGTCT
1 ATTTGTCT
1083642 ATTT
1 ATTT
1083646 ATTTATTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.14, C:0.11, G:0.11, T:0.64
Consensus pattern (8 bp):
ATTTGTCT
Found at i:1083652 original size:16 final size:16
Alignment explanation
Indices: 1083618--1083653 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
1083608 TTTCATGTAA
*
1083618 ATTTGTCTATTTGTCT
1 ATTTGTCTATTTATCT
*
1083634 ATTTGTCTATTTATTT
1 ATTTGTCTATTTATCT
1083650 ATTT
1 ATTT
1083654 TTATTATTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.17, C:0.08, G:0.08, T:0.67
Consensus pattern (16 bp):
ATTTGTCTATTTATCT
Found at i:1090553 original size:34 final size:34
Alignment explanation
Indices: 1090515--1090582 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
1090505 TAATTAAAGA
1090515 TAAAATATACCAAAATAAATAACTCATCATGTAG
1 TAAAATATACCAAAATAAATAACTCATCATGTAG
1090549 TAAAATATACCAAAATAAATAACTCATCATGTAG
1 TAAAATATACCAAAATAAATAACTCATCATGTAG
1090583 CTATCATCGA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.53, C:0.15, G:0.06, T:0.26
Consensus pattern (34 bp):
TAAAATATACCAAAATAAATAACTCATCATGTAG
Found at i:1096805 original size:54 final size:54
Alignment explanation
Indices: 1096660--1097042 Score: 367
Period size: 54 Copynumber: 7.2 Consensus size: 54
1096650 AATTATATTG
* *
1096660 GGAGATGTACATACTTACACTAGTGTAAGTATGTGTTAAGTGCTACAC-TTTTT
1 GGAGATATACATACTTACACTGGTGTAAGTATGTGTTAAGTGCTACACTTTTTT
* * * * * * *
1096713 -CA-TTTTA-TTCACTTACATTGATGTAAGTATGTGTTAAGTGCTATACTTTTTT
1 GGAGATATACAT-ACTTACACTGGTGTAAGTATGTGTTAAGTGCTACACTTTTTT
* *
1096765 GGAGATATACATACTTACACTGGTATAAGTATGTGTTAAGTGCGACA-TTTTTT
1 GGAGATATACATACTTACACTGGTGTAAGTATGTGTTAAGTGCTACACTTTTTT
*** * * * *
1096818 GGAGATATACATACTTACACCATTGCAAATATTTGTTAAGTTCT--ACTTTTTT
1 GGAGATATACATACTTACACTGGTGTAAGTATGTGTTAAGTGCTACACTTTTTT
* * * * * * *
1096870 --A-TTTTA-TTCACTTATA-TCGATGTAAGTATGTGTTAAGTTCTACACTTTTTG
1 GGAGATATACAT-ACTTACACT-GGTGTAAGTATGTGTTAAGTGCTACACTTTTTT
* * *
1096921 GGAGATATACATACTTTACACTGGTGTAAGTGTGTATTAAGTGCTACACTTTTTG
1 GGAGATATACATAC-TTACACTGGTGTAAGTATGTGTTAAGTGCTACACTTTTTT
** *
1096976 GGAGATATACATACTTACACCAGTGTAAGTATGTGTTAAGTGCTACACTTTTTG
1 GGAGATATACATACTTACACTGGTGTAAGTATGTGTTAAGTGCTACACTTTTTT
1097030 GGAGATATACATA
1 GGAGATATACATA
1097043 TTTCTGTTTG
Statistics
Matches: 265, Mismatches: 49, Indels: 31
0.77 0.14 0.09
Matches are distributed among these distances:
48 1 0.00
49 27 0.10
50 2 0.01
51 43 0.16
52 12 0.05
53 43 0.16
54 87 0.33
55 49 0.18
56 1 0.00
ACGTcount: A:0.29, C:0.13, G:0.18, T:0.41
Consensus pattern (54 bp):
GGAGATATACATACTTACACTGGTGTAAGTATGTGTTAAGTGCTACACTTTTTT
Found at i:1096893 original size:156 final size:158
Alignment explanation
Indices: 1096657--1097021 Score: 536
Period size: 158 Copynumber: 2.3 Consensus size: 158
1096647 TATAATTATA
* *
1096657 TTGGGAGATGTACATACTTACACTAGTGTAAGTATGTGTTAAGTGCTACACTTTTTCATTTTATT
1 TTGGGAGATATACATACTTACACCAGTGTAAGTATGTGTTAAGTGCT--ACTTTTTCATTTTATT
* * *
1096722 CACTTACATTGATGTAAGTATGTGTTAAGTGCTATACTTTTTTGGAGATATACATAC-TTACACT
64 CACTTACATCGATGTAAGTATGTGTTAAGTGCTACACTTTTTGGGAGATATACATACTTTACACT
*
1096786 GGTATAAGTATGTGTTAAGTGCGACA-TTT
129 GGTATAAGTATGTATTAAGTGCGACACTTT
* * * * * * *
1096815 TTTGGAGATATACATACTTACACCATTGCAAATATTTGTTAAGTTCTACTTTTTTATTTTATTCA
1 TTGGGAGATATACATACTTACACCAGTGTAAGTATGTGTTAAGTGCTACTTTTTCATTTTATTCA
* *
1096880 CTTATATCGATGTAAGTATGTGTTAAGTTCTACACTTTTTGGGAGATATACATACTTTACACTGG
66 CTTACATCGATGTAAGTATGTGTTAAGTGCTACACTTTTTGGGAGATATACATACTTTACACTGG
* * *
1096945 TGTAAGTGTGTATTAAGTGCTACACTTT
131 TATAAGTATGTATTAAGTGCGACACTTT
1096973 TTGGGAGATATACATACTTACACCAGTGTAAGTATGTGTTAAGTGCTAC
1 TTGGGAGATATACATACTTACACCAGTGTAAGTATGTGTTAAGTGCTAC
1097022 ACTTTTTGGG
Statistics
Matches: 181, Mismatches: 24, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
156 67 0.37
157 29 0.16
158 85 0.47
ACGTcount: A:0.28, C:0.13, G:0.18, T:0.41
Consensus pattern (158 bp):
TTGGGAGATATACATACTTACACCAGTGTAAGTATGTGTTAAGTGCTACTTTTTCATTTTATTCA
CTTACATCGATGTAAGTATGTGTTAAGTGCTACACTTTTTGGGAGATATACATACTTTACACTGG
TATAAGTATGTATTAAGTGCGACACTTT
Found at i:1097235 original size:41 final size:42
Alignment explanation
Indices: 1097172--1097253 Score: 132
Period size: 41 Copynumber: 2.0 Consensus size: 42
1097162 TAAACTCTAT
*
1097172 TGACTAAATTTTTCATTCAAGATTGAACAAAATATATAAAGC
1 TGACCAAATTTTTCATTCAAGATTGAACAAAATATATAAAGC
1097214 TGACCAAA-TTTTCATAT-AAGATTGAACAAAATATATAAAG
1 TGACCAAATTTTTCAT-TCAAGATTGAACAAAATATATAAAG
1097254 TTGAAAAAAA
Statistics
Matches: 38, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
41 30 0.79
42 8 0.21
ACGTcount: A:0.48, C:0.11, G:0.10, T:0.32
Consensus pattern (42 bp):
TGACCAAATTTTTCATTCAAGATTGAACAAAATATATAAAGC
Found at i:1097243 original size:22 final size:22
Alignment explanation
Indices: 1097181--1097243 Score: 53
Period size: 19 Copynumber: 3.0 Consensus size: 22
1097171 TTGACTAAAT
1097181 TTTTCAT-TCAAGATTGAACAAA
1 TTTTCATAT-AAGATTGAACAAA
* * * *
1097203 ATAT-ATA-AAG-CTGACCAAA
1 TTTTCATATAAGATTGAACAAA
1097222 TTTTCATATAAGATTGAACAAA
1 TTTTCATATAAGATTGAACAAA
1097244 ATATATAAAG
Statistics
Matches: 29, Mismatches: 8, Indels: 8
0.64 0.18 0.18
Matches are distributed among these distances:
19 9 0.31
20 6 0.21
21 5 0.17
22 9 0.31
ACGTcount: A:0.46, C:0.13, G:0.10, T:0.32
Consensus pattern (22 bp):
TTTTCATATAAGATTGAACAAA
Found at i:1097251 original size:19 final size:19
Alignment explanation
Indices: 1097194--1097273 Score: 88
Period size: 19 Copynumber: 4.1 Consensus size: 19
1097184 TCATTCAAGA
1097194 TTGAACAAAATATATAAAG
1 TTGAACAAAATATATAAAG
* * * *
1097213 CTGACCAAATTTTCATATAAG
1 TTGAACAAAATAT-ATA-AAG
1097234 ATTGAACAAAATATATAAAG
1 -TTGAACAAAATATATAAAG
*
1097254 TTGAAAAAAATATATAAAG
1 TTGAACAAAATATATAAAG
1097273 T
1 T
1097274 CATGACTGCC
Statistics
Matches: 49, Mismatches: 9, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
19 28 0.57
20 6 0.12
21 6 0.12
22 9 0.18
ACGTcount: A:0.54, C:0.07, G:0.10, T:0.29
Consensus pattern (19 bp):
TTGAACAAAATATATAAAG
Found at i:1098656 original size:16 final size:15
Alignment explanation
Indices: 1098611--1098679 Score: 50
Period size: 16 Copynumber: 4.3 Consensus size: 15
1098601 AAAATAGTAA
*
1098611 AAATTATAAAATTTAA
1 AAATTAT-AAATTTAT
1098627 AATATGTAATAAATTTGAT
1 AA-AT-T-ATAAATTT-AT
* *
1098646 AAATTATAAATATAAA
1 AAATTATAAAT-TTAT
1098662 AAATTA-AAATTTAT
1 AAATTATAAATTTAT
1098676 AAAT
1 AAAT
1098680 ATTTATAAAG
Statistics
Matches: 43, Mismatches: 5, Indels: 12
0.72 0.08 0.20
Matches are distributed among these distances:
14 6 0.14
15 4 0.09
16 15 0.35
17 4 0.09
18 9 0.21
19 5 0.12
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (15 bp):
AAATTATAAATTTAT
Found at i:1103098 original size:14 final size:14
Alignment explanation
Indices: 1103079--1103107 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
1103069 TAAAAATTTT
1103079 CGTATGGATGAACA
1 CGTATGGATGAACA
1103093 CGTATGGATGAACA
1 CGTATGGATGAACA
1103107 C
1 C
1103108 AAATAAAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.34, C:0.17, G:0.28, T:0.21
Consensus pattern (14 bp):
CGTATGGATGAACA
Found at i:1110041 original size:6 final size:6
Alignment explanation
Indices: 1110030--1110056 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
1110020 CATTCACGTC
1110030 TTTGCA TTTGCA TTTGCA TTTGCA TTT
1 TTTGCA TTTGCA TTTGCA TTTGCA TTT
1110057 TTGCATTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.15, C:0.15, G:0.15, T:0.56
Consensus pattern (6 bp):
TTTGCA
Found at i:1114953 original size:123 final size:123
Alignment explanation
Indices: 1114801--1115638 Score: 1004
Period size: 123 Copynumber: 6.9 Consensus size: 123
1114791 CACTCGATGG
* * *
1114801 ATCAACATTTCCAGAAGGAGTTCGCAATAAGAAGAATTCATCTGAAGAGGAAGAAGAAGTTCATA
1 ATCAACATTTCCAGAAGGAGTTCGTAATAAGAAGAACTCATCTGAAGAAGAAGAAGAAGTTCATA
* * * *
1114866 ATATGAAGAACTTATTCAACCTTTTGCTCGACTCTATCACATAAGGAGATAGAGCAGT
66 ATCTGAAGAACTTATTCAACCTTTTGCTCGACTCTATCGCAGAAGGAGATAGAGCAGC
* * *
1114924 ATCAACATTTCCATAAGGAGTTTGTAAT---AAGAACTCATCTGAAGAGGAAGAAGAAGTTCATA
1 ATCAACATTTCCAGAAGGAGTTCGTAATAAGAAGAACTCATCTGAAGAAGAAGAAGAAGTTCATA
* * * * *
1114986 ATCTAAAGAACTTATTCAACCTTTTGTTTGACTCTATCGCATAAGGAGATAGAGCATC
66 ATCTGAAGAACTTATTCAACCTTTTGCTCGACTCTATCGCAGAAGGAGATAGAGCAGC
** * * *
1115044 ATCAACATTTCCAGAATAAGTTCGTAATAAGAAGAACTCATCTG-A-CA-AAGAAGTATTTCATA
1 ATCAACATTTCCAGAAGGAGTTCGTAATAAGAAGAACTCATCTGAAGAAGAAGAAGAAGTTCATA
* *
1115106 ATCTGAAGAACTTATTCAACTTTTTACTCGACTCTATCGCAGAAGGAGATAGAGCAGC
66 ATCTGAAGAACTTATTCAACCTTTTGCTCGACTCTATCGCAGAAGGAGATAGAGCAGC
* * * *
1115164 ATCAACATTTCCAAAAAGAGTTTGTAATAAGAAGAACTCATCTGAAGAAGAAGAAGAAGTTTATA
1 ATCAACATTTCCAGAAGGAGTTCGTAATAAGAAGAACTCATCTGAAGAAGAAGAAGAAGTTCATA
* * * *
1115229 ATCTGAAGAACTTATTCAACTTTTTGCTCGACTCTATCGTAGAAGGAGATAGAACAAC
66 ATCTGAAGAACTTATTCAACCTTTTGCTCGACTCTATCGCAGAAGGAGATAGAGCAGC
* * *
1115287 ATCAACATTTCCAAAAGGAGTTCGTAATAAGAAGAACTCATCTGAATAAGAAGAAGAAGTTCGTA
1 ATCAACATTTCCAGAAGGAGTTCGTAATAAGAAGAACTCATCTGAAGAAGAAGAAGAAGTTCATA
* * *
1115352 ATCTGAAGAACTTATTCAACTTTTTGCTCAACTCTATCGCAGAAGGAGATAGAGCAGT
66 ATCTGAAGAACTTATTCAACCTTTTGCTCGACTCTATCGCAGAAGGAGATAGAGCAGC
* * * * * * *
1115410 ATCAATATTTCTAGAAGGAGTTCGCAATCAGAAGAACCCATTTGAAAAAGAAGAAGAAGTTCATA
1 ATCAACATTTCCAGAAGGAGTTCGTAATAAGAAGAACTCATCTGAAGAAGAAGAAGAAGTTCATA
* * * * *
1115475 ATATGAAGAACTTATTC-A-----T--TCGAATCTATCGTAGAAGGAGATAGAGAAAC
66 ATCTGAAGAACTTATTCAACCTTTTGCTCGACTCTATCGCAGAAGGAGATAGAGCAGC
* * * **
1115525 ATCAACATTTCTAGAA-GAGTTCATAATGAGAAGAACTCATCCAAAGAAGAAGAAGAAGTTCATA
1 ATCAACATTTCCAGAAGGAGTTCGTAATAAGAAGAACTCATCTGAAGAAGAAGAAGAAGTTCATA
*** * * * * * * *
1115589 ATAACAAGAGCTTGTTCAACCTTTTGATAGATTCCATCACAGAAGGAGAT
66 ATCTGAAGAACTTATTCAACCTTTTGCTCGACTCTATCGCAGAAGGAGAT
1115639 GGATCTTCAT
Statistics
Matches: 619, Mismatches: 82, Indels: 29
0.85 0.11 0.04
Matches are distributed among these distances:
114 53 0.09
115 41 0.07
117 1 0.00
120 213 0.34
121 1 0.00
122 21 0.03
123 289 0.47
ACGTcount: A:0.40, C:0.16, G:0.18, T:0.26
Consensus pattern (123 bp):
ATCAACATTTCCAGAAGGAGTTCGTAATAAGAAGAACTCATCTGAAGAAGAAGAAGAAGTTCATA
ATCTGAAGAACTTATTCAACCTTTTGCTCGACTCTATCGCAGAAGGAGATAGAGCAGC
Found at i:1115240 original size:243 final size:244
Alignment explanation
Indices: 1114801--1115590 Score: 1023
Period size: 243 Copynumber: 3.3 Consensus size: 244
1114791 CACTCGATGG
* * *
1114801 ATCAACATTTCCAGAAGGAGTTCGCAATAAGAAGAATTCATCTGAAGAGGAAGAAGAAGTTCATA
1 ATCAACATTTCCAGAAGGAGTTCGTAATAAGAAGAACTCATCTGAA-AAGAAGAAGAAGTTCATA
* * * *
1114866 ATATGAAGAACTTATTCAACCTTTTGCTCGACTCTATCACATAAGGAGATAGAGCAGTATCAACA
65 ATCTGAAGAACTTATTCAACTTTTTGCTCGACTCTATCGCAGAAGGAGATAGAGCAGTATCAACA
* * *
1114931 TTTCCATAAGGAGTTTGTAAT--AAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATCTAAAG
130 TTTCCAAAAGGAGTTTGTAATAGAAGAACTCATCTGAAGAAGAAGAAGAAGTTCATAATCTGAAG
* * * * *
1114994 AACTTATTCAACCTTTTGTTTGACTCTATCGCATAAGGAGATAGAGCATC
195 AACTTATTCAACCTTTTGCTCGACTCTATCGCAGAAGGAGATAGAACAAC
** * * *
1115044 ATCAACATTTCCAGAATAAGTTCGTAATAAGAAGAACTCATCTG-ACA-AAGAAGTATTTCATAA
1 ATCAACATTTCCAGAAGGAGTTCGTAATAAGAAGAACTCATCTGAAAAGAAGAAGAAGTTCATAA
* *
1115107 TCTGAAGAACTTATTCAACTTTTTACTCGACTCTATCGCAGAAGGAGATAGAGCAGCATCAACAT
66 TCTGAAGAACTTATTCAACTTTTTGCTCGACTCTATCGCAGAAGGAGATAGAGCAGTATCAACAT
* *
1115172 TTCCAAAAAGAGTTTGTAATAAGAAGAACTCATCTGAAGAAGAAGAAGAAGTTTATAATCTGAAG
131 TTCCAAAAGGAGTTTGTAAT-AGAAGAACTCATCTGAAGAAGAAGAAGAAGTTCATAATCTGAAG
* *
1115237 AACTTATTCAACTTTTTGCTCGACTCTATCGTAGAAGGAGATAGAACAAC
195 AACTTATTCAACCTTTTGCTCGACTCTATCGCAGAAGGAGATAGAACAAC
* *
1115287 ATCAACATTTCCAAAAGGAGTTCGTAATAAGAAGAACTCATCTGAATAAGAAGAAGAAGTTCGTA
1 ATCAACATTTCCAGAAGGAGTTCGTAATAAGAAGAACTCATCTGAA-AAGAAGAAGAAGTTCATA
* *
1115352 ATCTGAAGAACTTATTCAACTTTTTGCTCAACTCTATCGCAGAAGGAGATAGAGCAGTATCAATA
65 ATCTGAAGAACTTATTCAACTTTTTGCTCGACTCTATCGCAGAAGGAGATAGAGCAGTATCAACA
* * * * * * * *
1115417 TTTCTAGAAGGAGTTCGCAATCAGAAGAACCCATTTGAAAAAGAAGAAGAAGTTCATAATATGAA
130 TTTCCAAAAGGAGTTTGTAAT-AGAAGAACTCATCTGAAGAAGAAGAAGAAGTTCATAATCTGAA
* *
1115482 GAACTTATTC-A-----T--TCGAATCTATCGTAGAAGGAGATAGAGA-AAC
194 GAACTTATTCAACCTTTTGCTCGACTCTATCGCAGAAGGAGATAGA-ACAAC
* * * **
1115525 ATCAACATTTCTAGAA-GAGTTCATAATGAGAAGAACTCATCCAAAGAAGAAGAAGAAGTTCATA
1 ATCAACATTTCCAGAAGGAGTTCGTAATAAGAAGAACTCATCTGAA-AAGAAGAAGAAGTTCATA
1115589 AT
65 AT
1115591 AACAAGAGCT
Statistics
Matches: 483, Mismatches: 57, Indels: 20
0.86 0.10 0.04
Matches are distributed among these distances:
237 44 0.09
238 42 0.09
239 1 0.00
240 92 0.19
242 1 0.00
243 163 0.34
244 1 0.00
245 2 0.00
246 137 0.28
ACGTcount: A:0.40, C:0.16, G:0.18, T:0.26
Consensus pattern (244 bp):
ATCAACATTTCCAGAAGGAGTTCGTAATAAGAAGAACTCATCTGAAAAGAAGAAGAAGTTCATAA
TCTGAAGAACTTATTCAACTTTTTGCTCGACTCTATCGCAGAAGGAGATAGAGCAGTATCAACAT
TTCCAAAAGGAGTTTGTAATAGAAGAACTCATCTGAAGAAGAAGAAGAAGTTCATAATCTGAAGA
ACTTATTCAACCTTTTGCTCGACTCTATCGCAGAAGGAGATAGAACAAC
Found at i:1115588 original size:114 final size:115
Alignment explanation
Indices: 1115384--1115591 Score: 294
Period size: 114 Copynumber: 1.8 Consensus size: 115
1115374 TTTGCTCAAC
* ** * *
1115384 TCTATCGCAGAAGGAGATAGAGCAGTATCAATATTTCTAGAAGGAGTTCGCAATCAGAAGAACCC
1 TCTATCGCAGAAGGAGATAGAGAAACATCAACATTTCTAGAAGGAGTTCACAATCAGAAGAACCC
**
1115449 ATTTGAAAAAGAAGAAGAAGTTCATAATATGAAGAACTTATTCATTCGAA
66 ATTCCAAAAAGAAGAAGAAGTTCATAATATGAAGAACTTATTCATTCGAA
* * * *
1115499 TCTATCGTAGAAGGAGATAGAGAAACATCAACATTTCTAGAA-GAGTTCATAATGAGAAGAACTC
1 TCTATCGCAGAAGGAGATAGAGAAACATCAACATTTCTAGAAGGAGTTCACAATCAGAAGAACCC
1115563 A-TCCAAAGAAGAAGAAGAAGTTCATAATA
66 ATTCCAAA-AAGAAGAAGAAGTTCATAATA
1115592 ACAAGAGCTT
Statistics
Matches: 81, Mismatches: 11, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
113 4 0.05
114 40 0.49
115 37 0.46
ACGTcount: A:0.44, C:0.13, G:0.20, T:0.23
Consensus pattern (115 bp):
TCTATCGCAGAAGGAGATAGAGAAACATCAACATTTCTAGAAGGAGTTCACAATCAGAAGAACCC
ATTCCAAAAAGAAGAAGAAGTTCATAATATGAAGAACTTATTCATTCGAA
Found at i:1115884 original size:119 final size:119
Alignment explanation
Indices: 1115538--1115936 Score: 584
Period size: 119 Copynumber: 3.3 Consensus size: 119
1115528 AACATTTCTA
* *
1115538 GAAGAGTTCATAATGAGAAGAACTCATCCAAAGAAGAAGAAGAAGTTCATAATAACAAGAGCTTG
1 GAAGAGTTCATAATGAGAAGAACTCATCCGAAGAAGAAGAAGAAGTTCATAATAAGAAGAGCTTG
*
1115603 TTCAACCTTTTGATAGATTCCATCACAGAAGGAGATGGATCTTCATTCCCAGTG
66 TTCAACCTTTTGATAGATTCCATCACAGAAGGAGATGGATCGTCATTCCCAGTG
* *** ** ** *
1115657 GAAGAGTTCAATACTGAGAAGAACTCATCATCATCATCAGAAGAAGTCCATAATAAGAAGAGCTT
1 GAAGAGTTC-ATAATGAGAAGAACTCATCCGAAGAAGAAGAAGAAGTTCATAATAAGAAGAGCTT
1115722 GTTCAACCTTTTGATAGATTCCATCACAGAAGGAGATGGATCGTCATTCCCAGTG
65 GTTCAACCTTTTGATAGATTCCATCACAGAAGGAGATGGATCGTCATTCCCAGTG
* * * *
1115777 GAAGAGTTCATAATAAGAAGAACTCATCTGAAGAGGAAGAATAAGTTCATAATAAGAAGAGCTTG
1 GAAGAGTTCATAATGAGAAGAACTCATCCGAAGAAGAAGAAGAAGTTCATAATAAGAAGAGCTTG
* * * *
1115842 TTCAATCTTTTGATAGATTTCATCACAG-AGGTAGATGTATCGTCATTCCTAGTG
66 TTCAACCTTTTGATAGATTCCATCACAGAAGG-AGATGGATCGTCATTCCCAGTG
*
1115896 GAAGAGTTCATAATGAGTAGAACTCATCCGAAGAAGAAGAA
1 GAAGAGTTCATAATGAGAAGAACTCATCCGAAGAAGAAGAA
1115937 CTTGTTCAAC
Statistics
Matches: 247, Mismatches: 31, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
118 3 0.01
119 136 0.55
120 108 0.44
ACGTcount: A:0.38, C:0.16, G:0.21, T:0.25
Consensus pattern (119 bp):
GAAGAGTTCATAATGAGAAGAACTCATCCGAAGAAGAAGAAGAAGTTCATAATAAGAAGAGCTTG
TTCAACCTTTTGATAGATTCCATCACAGAAGGAGATGGATCGTCATTCCCAGTG
Found at i:1119853 original size:17 final size:17
Alignment explanation
Indices: 1119831--1119877 Score: 58
Period size: 17 Copynumber: 2.8 Consensus size: 17
1119821 GGTTCATGTA
1119831 AAAAAATATTTAAATTT
1 AAAAAATATTTAAATTT
**
1119848 AAAAAATATAAAAATTT
1 AAAAAATATTTAAATTT
**
1119865 ATTAAATATTTAA
1 AAAAAATATTTAA
1119878 TCAAGTAGGG
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (17 bp):
AAAAAATATTTAAATTT
Found at i:1128818 original size:74 final size:74
Alignment explanation
Indices: 1128732--1129241 Score: 677
Period size: 74 Copynumber: 6.9 Consensus size: 74
1128722 ATTTAATACG
* * *
1128732 AAGATTTATCTCACTTGAGATTGTTTTTCTTTAAACAAGATTAATCTCTCTTGAGATAGTTTCAC
1 AAGATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAGATTCATCTCGCTTGAGATAGTTTCAC
* **
1128797 TCAAAACTG
66 TCGAAACAA
*
1128806 AAGATTTATCTCACTTGAAATTGTTTTTCTTAAAACAAGATTCATCTCGCTTGAGATAGTTTCAC
1 AAGATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAGATTCATCTCGCTTGAGATAGTTTCAC
1128871 TCGAAACAA
66 TCGAAACAA
*
1128880 AAGATTTATCTCACTTGAGATAGTTTTTCTTAAAACAAGATTCATCTCGCTTGAGATAGTTTCAC
1 AAGATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAGATTCATCTCGCTTGAGATAGTTTCAC
*
1128945 TCGAAACAG
66 TCGAAACAA
*
1128954 AAGATTTATCTCACTTGAGATTGTTTTTCTTAAAATAAGATTCATCTCGCTTGAGATAGTTTCAC
1 AAGATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAGATTCATCTCGCTTGAGATAGTTTCAC
1129019 TCGAAACAA
66 TCGAAACAA
* *
1129028 GAGATTTATCTCACTTGAGATTGTTTTTCTTAAAACAA-ATTTCATCTCGTTTGAGATAGTTTCA
1 AAGATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAGA-TTCATCTCGCTTGAGATAGTTTCA
* *
1129092 CTCAAAATAA
65 CTCGAAACAA
* * * ** * *
1129102 AAGATTTATCTCACATGAGATTGCTTTTCTTAAAATAA-ACTTTGTCTCGCTTGAGACTATTTTT
1 AAGATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAGA-TTCATCTCGCTTGAGA-TAGTTTC
1129166 ACTCGAAACAA
64 ACTCGAAACAA
* ** * * * * *
1129177 GAA-ATTTCATTTCACTCAAGATTG-ATTTCTTAAAAAAAAAATTCATCTTGCTTGAGAAAGTTT
1 -AAGATTT-ATCTCACTTGAGATTGTTTTTCTT-AAAACAAGATTCATCTCGCTTGAGATAGTTT
1129240 CA
63 CA
1129242 ATTGAAATAT
Statistics
Matches: 388, Mismatches: 42, Indels: 11
0.88 0.10 0.02
Matches are distributed among these distances:
73 1 0.00
74 324 0.84
75 29 0.07
76 33 0.09
77 1 0.00
ACGTcount: A:0.33, C:0.16, G:0.13, T:0.38
Consensus pattern (74 bp):
AAGATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAGATTCATCTCGCTTGAGATAGTTTCAC
TCGAAACAA
Found at i:1129082 original size:36 final size:36
Alignment explanation
Indices: 1128732--1129136 Score: 353
Period size: 36 Copynumber: 11.0 Consensus size: 36
1128722 ATTTAATACG
* *
1128732 AAGATTTATCTCACTTGAGATTGTTTTTCTTTAAAC
1 AAGATTTATCTCACTTGAGATAGTTTTTCTTAAAAC
* * ** *
1128768 AAGATTAATCTCTCTTGAGATAGTTTCACTCAAAAC
1 AAGATTTATCTCACTTGAGATAGTTTTTCTTAAAAC
* *
1128804 TGAAGATTTATCTCACTTGAAATTGTTTTTCTTAAAAC
1 --AAGATTTATCTCACTTGAGATAGTTTTTCTTAAAAC
* * ** * *
1128842 AAGATTCATCTCGCTTGAGATAGTTTCACTCGAAACAA
1 AAGATTTATCTCACTTGAGATAGTTTTTCT-TAAA-AC
1128880 AAGATTTATCTCACTTGAGATAGTTTTTCTTAAAAC
1 AAGATTTATCTCACTTGAGATAGTTTTTCTTAAAAC
* * ** * *
1128916 AAGATTCATCTCGCTTGAGATAGTTTCACTCGAAACAG
1 AAGATTTATCTCACTTGAGATAGTTTTTCT-TAAA-AC
* *
1128954 AAGATTTATCTCACTTGAGATTGTTTTTCTTAAAAT
1 AAGATTTATCTCACTTGAGATAGTTTTTCTTAAAAC
* * ** **
1128990 AAGATTCATCTCGCTTGAGATAGTTTCACTCGAAAC
1 AAGATTTATCTCACTTGAGATAGTTTTTCTTAAAAC
*
1129026 AAGAGATTTATCTCACTTGAGATTGTTTTTCTTAAAAC
1 -A-AGATTTATCTCACTTGAGATAGTTTTTCTTAAAAC
** ** * *
1129064 AA-ATTTCATCTCGTTTGAGATAGTTTCACTCAAAATAA
1 AAGATTT-ATCTCACTTGAGATAGTTTTTCT-TAAA-AC
* * *
1129102 AAGATTTATCTCACATGAGATTGCTTTTCTTAAAA
1 AAGATTTATCTCACTTGAGATAGTTTTTCTTAAAA
1129137 TAAACTTTGT
Statistics
Matches: 286, Mismatches: 71, Indels: 24
0.75 0.19 0.06
Matches are distributed among these distances:
35 4 0.01
36 129 0.45
37 20 0.07
38 129 0.45
39 4 0.01
ACGTcount: A:0.33, C:0.16, G:0.13, T:0.38
Consensus pattern (36 bp):
AAGATTTATCTCACTTGAGATAGTTTTTCTTAAAAC
Found at i:1129415 original size:179 final size:179
Alignment explanation
Indices: 1129087--1129522 Score: 576
Period size: 179 Copynumber: 2.4 Consensus size: 179
1129077 TTTGAGATAG
* * * * * *
1129087 TTTCACTCAAAATAAAAGATTTATCTCACATGAGATTGCTTTTCTTAAAATAAACTTTGTCTCGC
1 TTTCACTCGAAACAGAAGATTTATCTCACTTGAGATTGATTTTCTTAAAACAAACTTTGTCTCGC
1129152 TTGAGACTA-TTTTTACTCGAAACAAGAAATTTCATTTCACTCAAGATTGATTTCTTAAAAAAAA
66 TTGAGAC-AGTTTTTACTCGAAACAAGAAATTTCATTTCACTCAAGATTGATTTCTTAAAAAAAA
* *
1129216 AATTCATCTTGCTTGAGAAAGTTTCAATTGAAATATGAAATTTGAAATCT-
130 AATTCATCTTGCTGGAGAAAGTTTCAATTGAAATATAAAATTTGAAAT-TA
* * * *
1129266 TTTCACTCGAAACAGAAGATTTATCTCATTTGAGATTGAGTTTCTTAAAACAAATTTTGTCTTGC
1 TTTCACTCGAAACAGAAGATTTATCTCACTTGAGATTGATTTTCTTAAAACAAACTTTGTCTCGC
* *
1129331 TTGAGACAGTTTTTACTCGAAACAAGAAATTTCATTTCACTCAAGATTGTTTTTCTT-AAAACAA
66 TTGAGACAGTTTTTACTCGAAACAAGAAATTTCATTTCACTCAAGATTG-ATTTCTTAAAAAAAA
* * **
1129395 ATTTTATCTCT-CTGGAGAAAGTTTCCCTTGAAATATAAAATTTGAAATTA
130 AATTCATCT-TGCTGGAGAAAGTTTCAATTGAAATATAAAATTTGAAATTA
* * * * *
1129445 TTTCACTTGAAACAAGAAG-TTTATCTCACTTCAGATTGTTTTTCTTAAAACAAACTTCGTCTCA
1 TTTCACTCGAAAC-AGAAGATTTATCTCACTTGAGATTGATTTTCTTAAAACAAACTTTGTCTCG
*
1129509 CATGAGACAGTTTT
65 CTTGAGACAGTTTT
1129523 CCCTAGAAAT
Statistics
Matches: 224, Mismatches: 28, Indels: 10
0.85 0.11 0.04
Matches are distributed among these distances:
178 2 0.01
179 210 0.94
180 12 0.05
ACGTcount: A:0.35, C:0.15, G:0.11, T:0.38
Consensus pattern (179 bp):
TTTCACTCGAAACAGAAGATTTATCTCACTTGAGATTGATTTTCTTAAAACAAACTTTGTCTCGC
TTGAGACAGTTTTTACTCGAAACAAGAAATTTCATTTCACTCAAGATTGATTTCTTAAAAAAAAA
ATTCATCTTGCTGGAGAAAGTTTCAATTGAAATATAAAATTTGAAATTA
Found at i:1129825 original size:59 final size:59
Alignment explanation
Indices: 1129723--1129881 Score: 219
Period size: 59 Copynumber: 2.7 Consensus size: 59
1129713 CTTGTTCAAA
* **
1129723 CTTTGCTCGATTCACGACATTTTGAATCAGTGATGCCTCACTCGAGGAATTAACATTTC
1 CTTTGCTCGATTCATGACATTTTGAATCAGTGACACCTCACTCGAGGAATTAACATTTC
* * *
1129782 CTTTTCTCGATTCATGACATTTTGAATCAGTGACACCTTACTCGAGGGATTAACATTTC
1 CTTTGCTCGATTCATGACATTTTGAATCAGTGACACCTCACTCGAGGAATTAACATTTC
* * ** *
1129841 CTTTGCTCGATTTATAACATTTCAAATCAGTGACGCCTCAC
1 CTTTGCTCGATTCATGACATTTTGAATCAGTGACACCTCAC
1129882 ATAAGGGGCC
Statistics
Matches: 87, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
59 87 1.00
ACGTcount: A:0.26, C:0.24, G:0.15, T:0.35
Consensus pattern (59 bp):
CTTTGCTCGATTCATGACATTTTGAATCAGTGACACCTCACTCGAGGAATTAACATTTC
Found at i:1129896 original size:59 final size:59
Alignment explanation
Indices: 1129723--1129900 Score: 151
Period size: 59 Copynumber: 3.0 Consensus size: 59
1129713 CTTGTTCAAA
** ** ** * * **
1129723 CTTTGCTCGATTCACGACATTTTGAATCAGTGATGCCTCACTCGAGGAATTAACATTTC
1 CTTTGCTCGATTCATAACATTTCAAATCAGTGACACCTCACTCAAGGGACCAACATTTC
* * ** * * **
1129782 CTTTTCTCGATTCATGACATTTTGAATCAGTGACACCTTACTCGAGGGATTAACATTTC
1 CTTTGCTCGATTCATAACATTTCAAATCAGTGACACCTCACTCAAGGGACCAACATTTC
* * *
1129841 CTTTGCTCGATTTATAACATTTCAAATCAGTGACGCCTCACAT-AAGGGGCCAACATTTC
1 CTTTGCTCGATTCATAACATTTCAAATCAGTGACACCTCAC-TCAAGGGACCAACATTTC
1129900 C
1 C
1129901 AGTAGAGAAT
Statistics
Matches: 101, Mismatches: 17, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
59 100 0.99
60 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.16, T:0.34
Consensus pattern (59 bp):
CTTTGCTCGATTCATAACATTTCAAATCAGTGACACCTCACTCAAGGGACCAACATTTC
Found at i:1132375 original size:42 final size:42
Alignment explanation
Indices: 1132273--1132450 Score: 182
Period size: 42 Copynumber: 4.2 Consensus size: 42
1132263 AAAGGTTGAT
* * * *
1132273 ATCTATAGCAGTGTTTTTGGAACAAACGCCATAACAA-GTCGAT
1 ATCTATAGCGGCGTTTTTGGAACAAACGCCGTAA-AAGGTC-AG
* *
1132316 ATCTATAGTGGCATTTTTGGGAA-AAACGCCGTAAAAGGTCAG
1 ATCTATAGCGGCGTTTTT-GGAACAAACGCCGTAAAAGGTCAG
* *
1132358 ATCTATAGCGGCGTTTTTGGAATAAACGCCGCAAAAGGTCAG
1 ATCTATAGCGGCGTTTTTGGAACAAACGCCGTAAAAGGTCAG
* * * *
1132400 ATCTATAGCGG-GTTTTTGGATACAAATGTCGCAAAAGGTCAT
1 ATCTATAGCGGCGTTTTTGGA-ACAAACGCCGTAAAAGGTCAG
*
1132442 ATTTATAGC
1 ATCTATAGC
1132451 AACATTTTTT
Statistics
Matches: 117, Mismatches: 14, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
41 13 0.11
42 73 0.62
43 27 0.23
44 4 0.03
ACGTcount: A:0.33, C:0.16, G:0.23, T:0.28
Consensus pattern (42 bp):
ATCTATAGCGGCGTTTTTGGAACAAACGCCGTAAAAGGTCAG
Found at i:1137458 original size:24 final size:23
Alignment explanation
Indices: 1137419--1137490 Score: 63
Period size: 24 Copynumber: 3.0 Consensus size: 23
1137409 ATACATTACC
*
1137419 TGAATTCTCTTCTGATTTCTGATA
1 TGAATTCTGTT-TGATTTCTGATA
* * * *
1137443 TGGATTCTGTTATGATATCTGTTC
1 TGAATTCTGTT-TGATTTCTGATA
* *
1137467 TGAATTCTGTTTTATTTTTGATA
1 TGAATTCTGTTTGATTTCTGATA
1137490 T
1 T
1137491 CTCCGTTTAA
Statistics
Matches: 36, Mismatches: 12, Indels: 1
0.73 0.24 0.02
Matches are distributed among these distances:
23 8 0.22
24 28 0.78
ACGTcount: A:0.19, C:0.11, G:0.15, T:0.54
Consensus pattern (23 bp):
TGAATTCTGTTTGATTTCTGATA
Found at i:1137475 original size:12 final size:12
Alignment explanation
Indices: 1137418--1137477 Score: 50
Period size: 12 Copynumber: 5.0 Consensus size: 12
1137408 AATACATTAC
*
1137418 CTGAATTCTCTT
1 CTGAATTCTGTT
* *
1137430 CTGATTTCTGAT
1 CTGAATTCTGTT
* *
1137442 ATGGATTCTGTT
1 CTGAATTCTGTT
*
1137454 ATG-ATATCTGTT
1 CTGAAT-TCTGTT
1137466 CTGAATTCTGTT
1 CTGAATTCTGTT
1137478 TTATTTTTGA
Statistics
Matches: 38, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
11 2 0.05
12 34 0.89
13 2 0.05
ACGTcount: A:0.18, C:0.15, G:0.17, T:0.50
Consensus pattern (12 bp):
CTGAATTCTGTT
Found at i:1138963 original size:30 final size:30
Alignment explanation
Indices: 1138929--1139001 Score: 119
Period size: 30 Copynumber: 2.4 Consensus size: 30
1138919 CCCGAAGGAC
1138929 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
*
1138959 CTATCCAGAGGTCATAAAGATCCTTGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
* *
1138989 CTGTCCATAGGTC
1 CTATCCAGAGGTC
1139002 CCGAAGAACC
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 40 1.00
ACGTcount: A:0.30, C:0.23, G:0.21, T:0.26
Consensus pattern (30 bp):
CTATCCAGAGGTCATAAAGATCCTCGGTAA
Found at i:1139025 original size:31 final size:31
Alignment explanation
Indices: 1138987--1139114 Score: 143
Period size: 31 Copynumber: 4.1 Consensus size: 31
1138977 GATCCTTGGT
* *
1138987 AACTGTCCATAGGTCCCGAAGAACCTAGGTA
1 AACTGTCCATATGTCCCGAAGAACATAGGTA
*
1139018 AACTGTCCATATGTTCC-ATAGAACATAGGTA
1 AACTGTCCATATGTCCCGA-AGAACATAGGTA
* * *
1139049 TACCGTCCATATGTCTCGAA-AGACATAGGTAA
1 AACTGTCCATATGTCCCGAAGA-ACATAGGT-A
* *
1139081 AACTGTCCATATGTTCCGTAGAACATAGGTA
1 AACTGTCCATATGTCCCGAAGAACATAGGTA
1139112 AAC
1 AAC
1139115 CCTCGACTCT
Statistics
Matches: 80, Mismatches: 12, Indels: 10
0.78 0.12 0.10
Matches are distributed among these distances:
30 2 0.03
31 52 0.65
32 25 0.31
33 1 0.01
ACGTcount: A:0.34, C:0.22, G:0.19, T:0.25
Consensus pattern (31 bp):
AACTGTCCATATGTCCCGAAGAACATAGGTA
Found at i:1140510 original size:21 final size:21
Alignment explanation
Indices: 1140486--1140530 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
1140476 TTTTGTTCGT
* *
1140486 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
1140507 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
1140528 TTG
1 TTG
1140531 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:1143825 original size:29 final size:29
Alignment explanation
Indices: 1143792--1143849 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
1143782 TCCCGAGGAC
1143792 CTATCCAGAGGTCATAAAGATCCTCGGTA
1 CTATCCAGAGGTCATAAAGATCCTCGGTA
1143821 CTATCCAGAGGTCATAAAGATCCTCGGTA
1 CTATCCAGAGGTCATAAAGATCCTCGGTA
1143850 ACTGTCCATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.31, C:0.24, G:0.21, T:0.24
Consensus pattern (29 bp):
CTATCCAGAGGTCATAAAGATCCTCGGTA
Found at i:1143906 original size:28 final size:30
Alignment explanation
Indices: 1143849--1143967 Score: 81
Period size: 28 Copynumber: 4.1 Consensus size: 30
1143839 GATCCTCGGT
*
1143849 AACTGTCCATAGTCCCGAAGAACCTAGGTA
1 AACTGTCCATAGTCCCGAAGAACATAGGTA
**
1143879 AACTGTCCATA-T-CCTTAGAACATAGGTA
1 AACTGTCCATAGTCCCGAAGAACATAGGTA
* * * *
1143907 TAC-AT--AT-GTCTCGAA-AGACATTGGTAA
1 AACTGTCCATAGTCCCGAAGA-ACATAGGT-A
* *
1143934 AACTGTCCATATGTTCCGTAGAACATAGGTA
1 AACTGTCCATA-GTCCCGAAGAACATAGGTA
1143965 AAC
1 AAC
1143968 CTCGACTCTT
Statistics
Matches: 64, Mismatches: 15, Indels: 19
0.65 0.15 0.19
Matches are distributed among these distances:
25 4 0.06
26 9 0.14
27 4 0.06
28 16 0.25
29 1 0.02
30 13 0.20
31 4 0.06
32 12 0.19
33 1 0.02
ACGTcount: A:0.35, C:0.21, G:0.18, T:0.26
Consensus pattern (30 bp):
AACTGTCCATAGTCCCGAAGAACATAGGTA
Found at i:1145330 original size:21 final size:20
Alignment explanation
Indices: 1145300--1145342 Score: 59
Period size: 21 Copynumber: 2.1 Consensus size: 20
1145290 TTTTGTTCGT
* *
1145300 TTGAAGGGTATCGGTTCCCC
1 TTGAAGGGTACCGATTCCCC
1145320 TTGAATGGGTACCGATTCCCC
1 TTGAA-GGGTACCGATTCCCC
1145341 TT
1 TT
1145343 TTGTTCGTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 5 0.25
21 15 0.75
ACGTcount: A:0.16, C:0.26, G:0.26, T:0.33
Consensus pattern (20 bp):
TTGAAGGGTACCGATTCCCC
Found at i:1145353 original size:51 final size:51
Alignment explanation
Indices: 1145290--1145393 Score: 208
Period size: 51 Copynumber: 2.0 Consensus size: 51
1145280 ATTCTGGAAA
1145290 TTTTGTTCGTTTGAAGGGTATCGGTTCCCCTTGAATGGGTACCGATTCCCC
1 TTTTGTTCGTTTGAAGGGTATCGGTTCCCCTTGAATGGGTACCGATTCCCC
1145341 TTTTGTTCGTTTGAAGGGTATCGGTTCCCCTTGAATGGGTACCGATTCCCC
1 TTTTGTTCGTTTGAAGGGTATCGGTTCCCCTTGAATGGGTACCGATTCCCC
1145392 TT
1 TT
1145394 GCCCAGAAAT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 53 1.00
ACGTcount: A:0.13, C:0.23, G:0.25, T:0.38
Consensus pattern (51 bp):
TTTTGTTCGTTTGAAGGGTATCGGTTCCCCTTGAATGGGTACCGATTCCCC
Found at i:1145381 original size:21 final size:20
Alignment explanation
Indices: 1145351--1145394 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 20
1145341 TTTTGTTCGT
* *
1145351 TTGAAGGGTATCGGTTCCCC
1 TTGAAGGGTACCGATTCCCC
1145371 TTGAATGGGTACCGATTCCCC
1 TTGAA-GGGTACCGATTCCCC
1145392 TTG
1 TTG
1145395 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 5 0.24
21 16 0.76
ACGTcount: A:0.16, C:0.25, G:0.27, T:0.32
Consensus pattern (20 bp):
TTGAAGGGTACCGATTCCCC
Found at i:1146060 original size:3 final size:3
Alignment explanation
Indices: 1146052--1146114 Score: 112
Period size: 3 Copynumber: 21.7 Consensus size: 3
1146042 ATGAACTCTG
1146052 AAT AAT AAT -AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1146098 AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AA
1146115 GTACACCAGG
Statistics
Matches: 58, Mismatches: 0, Indels: 4
0.94 0.00 0.06
Matches are distributed among these distances:
2 4 0.07
3 54 0.93
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:1147067 original size:41 final size:41
Alignment explanation
Indices: 1147016--1147358 Score: 268
Period size: 41 Copynumber: 8.4 Consensus size: 41
1147006 TTGTAAACAC
* * *
1147016 AAACACCACTAAAGTACGAA-TCTATAGCGGCATTTGTATAT
1 AAACGCCACTAAAGTAC-AAGTCTATAGCGGCGTTTGTATAA
* * **
1147057 AAACGCCACTAAAGTACAAGTGTGTAGCATCGTTTGTAT-A
1 AAACGCCACTAAAGTACAAGTCTATAGCGGCGTTTGTATAA
* * *
1147097 AAATGCCACTAAAGTACGAGTCT-TAGCGGCATTTGTGA-ACA
1 AAACGCCACTAAAGTACAAGTCTATAGCGGCGTTTGT-ATA-A
* * *
1147138 CAAACGTCACTAAAGTACAAGTGTATAGCGGCGTTAGTATAA
1 -AAACGCCACTAAAGTACAAGTCTATAGCGGCGTTTGTATAA
* * *
1147180 AAACGCCACTAAAATACAAGTCTATATCGTCGTTTGTATAA
1 AAACGCCACTAAAGTACAAGTCTATAGCGGCGTTTGTATAA
* ** * *
1147221 AAATGCCACTAAAGTATGAGTCTATTGTGGCGTTTGTATAA
1 AAACGCCACTAAAGTACAAGTCTATAGCGGCGTTTGTATAA
* * * * *
1147262 AAACGCCACTAAAGCACTACTCTGTTGCGGCGTTTGT-TGAAA
1 AAACGCCACTAAAGTACAAGTCTATAGCGGCGTTTGTAT--AA
* * * * * *
1147304 AAATGCCACT-ATGGATGAA-CCTATTGCGGCGTTTGTATAA
1 AAACGCCACTAAAGTA-CAAGTCTATAGCGGCGTTTGTATAA
* *
1147344 AAACACCGCTAAAGT
1 AAACGCCACTAAAGT
1147359 TACCATTTTG
Statistics
Matches: 238, Mismatches: 52, Indels: 24
0.76 0.17 0.08
Matches are distributed among these distances:
39 10 0.04
40 33 0.14
41 149 0.63
42 34 0.14
43 12 0.05
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.27
Consensus pattern (41 bp):
AAACGCCACTAAAGTACAAGTCTATAGCGGCGTTTGTATAA
Found at i:1147275 original size:123 final size:123
Alignment explanation
Indices: 1147005--1147243 Score: 336
Period size: 123 Copynumber: 1.9 Consensus size: 123
1146995 ACTTGCGGTG
* * * *
1147005 TTTGTAAACACAAACACCACTAAAGTACGAATCTATAGCGGCATTTGTATATAAACGCCACTAAA
1 TTTGTGAACACAAACGCCACTAAAGTACGAATCTATAGCGGCATTAGTATAAAAACGCCACTAAA
* * *
1147070 GTACAAGTGTGTAGCATCGTTTGTATAAAATGCCACTAAAGTACGAGTCTTAGCGGCA
66 ATACAAGTCTATAGCATCGTTTGTATAAAATGCCACTAAAGTACGAGTCTTAGCGGCA
* * *
1147128 TTTGTGAACACAAACGTCACTAAAGTAC-AAGTGTATAGCGGCGTTAGTATAAAAACGCCACTAA
1 TTTGTGAACACAAACGCCACTAAAGTACGAA-TCTATAGCGGCATTAGTATAAAAACGCCACTAA
* * *
1147192 AATACAAGTCTATATCGTCGTTTGTATAAAAATGCCACTAAAGTATGAGTCT
65 AATACAAGTCTATAGCATCGTTTGTAT-AAAATGCCACTAAAGTACGAGTCT
1147244 ATTGTGGCGT
Statistics
Matches: 101, Mismatches: 13, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
122 2 0.02
123 76 0.75
124 23 0.23
ACGTcount: A:0.37, C:0.18, G:0.18, T:0.27
Consensus pattern (123 bp):
TTTGTGAACACAAACGCCACTAAAGTACGAATCTATAGCGGCATTAGTATAAAAACGCCACTAAA
ATACAAGTCTATAGCATCGTTTGTATAAAATGCCACTAAAGTACGAGTCTTAGCGGCA
Found at i:1147292 original size:123 final size:123
Alignment explanation
Indices: 1147005--1147295 Score: 320
Period size: 123 Copynumber: 2.4 Consensus size: 123
1146995 ACTTGCGGTG
* * * * * *
1147005 TTTGTAAACACAAACACCACTAAAGTACGAA-TCTATAGCGGCATTTGTATATAAACGCCACTAA
1 TTTGTGAACACAAACGCCACTAAAGCAC-AACTCTATAGCGGCGTTAGTATAAAAACGCCACTAA
* * *
1147069 AGTACAAGTGTGTAGCATCGTTTGTATAAAATGCCACTAAAGTACGAGTCTTAGCGGCA
65 AATACAAGTCTATAGCATCGTTTGTATAAAATGCCACTAAAGTACGAGTCTTAGCGGCA
* * * *
1147128 TTTGTGAACACAAACGTCACTAAAGTACAAGTGTATAGCGGCGTTAGTATAAAAACGCCACTAAA
1 TTTGTGAACACAAACGCCACTAAAGCACAACTCTATAGCGGCGTTAGTATAAAAACGCCACTAAA
* * * * * *
1147193 ATACAAGTCTATATCGTCGTTTGTATAAAAATGCCACTAAAGTATGAGTCTATTGTGGCG
66 ATACAAGTCTATAGCATCGTTTGTAT-AAAATGCCACTAAAGTACGAGTCT-TAGCGGCA
* * *
1147253 TTTGT-ATA-A-AAACGCCACTAAAGCACTACTCTGTTGCGGCGTT
1 TTTGTGA-ACACAAACGCCACTAAAGCACAACTCTATAGCGGCGTT
1147296 TGTTGAAAAA
Statistics
Matches: 141, Mismatches: 23, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
122 2 0.01
123 103 0.73
124 25 0.18
125 11 0.08
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.27
Consensus pattern (123 bp):
TTTGTGAACACAAACGCCACTAAAGCACAACTCTATAGCGGCGTTAGTATAAAAACGCCACTAAA
ATACAAGTCTATAGCATCGTTTGTATAAAATGCCACTAAAGTACGAGTCTTAGCGGCA
Found at i:1153759 original size:11 final size:11
Alignment explanation
Indices: 1153743--1153779 Score: 74
Period size: 11 Copynumber: 3.4 Consensus size: 11
1153733 AACTTTCAAA
1153743 GATTTAAAAAG
1 GATTTAAAAAG
1153754 GATTTAAAAAG
1 GATTTAAAAAG
1153765 GATTTAAAAAG
1 GATTTAAAAAG
1153776 GATT
1 GATT
1153780 GGTGATTTGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.51, C:0.00, G:0.19, T:0.30
Consensus pattern (11 bp):
GATTTAAAAAG
Found at i:1155127 original size:5 final size:5
Alignment explanation
Indices: 1155109--1155157 Score: 64
Period size: 5 Copynumber: 9.8 Consensus size: 5
1155099 AAATTATCGT
* *
1155109 AAATG AAATGA AAATA AAA-A AAGTA AAATA AAATA AAATA AAATA AAAT
1 AAATA AAAT-A AAATA AAATA AAATA AAATA AAATA AAATA AAATA AAAT
1155158 GGGTTACATC
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
4 3 0.08
5 32 0.82
6 4 0.10
ACGTcount: A:0.76, C:0.00, G:0.06, T:0.18
Consensus pattern (5 bp):
AAATA
Found at i:1156826 original size:227 final size:226
Alignment explanation
Indices: 1156423--1156857 Score: 622
Period size: 227 Copynumber: 1.9 Consensus size: 226
1156413 TTTATATGTG
* * *
1156423 GCTAAATATTTTACCATATCAGTGAACCATGGGGAAGTTCCTCTTTGCGCCAACATCAAATGTTC
1 GCTAAATAGTTTACCATATCAGCGAACCATGGGGAAGTTCCTCTCTGCGCCAACATCAAATGTTC
* * * * * *
1156488 TTCCGAAAATTCTTTTTTAATTGTTGGTCATTCATGGAGAGAGGAATTCAACTTAAGTGGTCGGC
66 TTCCGAAAATTCTTCTCTAATTGCTAGTCAGTCATGGAGAGAGGAATTCAACTTAAGTGATCGGC
** * * * *
1156553 CACCAAATTCTTGCATCCTTTCTTATCCTTAATTTCCAAATTGAATTCTTGAAGAAGTAAAATCC
131 CACCAAATTCTCCCATCATTTCTTATCCTTAATTTCCAAATTGAATTATTGAAAAACTAAAATCC
1156618 ACCAGATAAGTCTTGACTTCACTTACATCTA
196 ACCAGATAAGTCTTGACTTCACTTACATCTA
* *
1156649 GCTAAATAGTTTACCATAT-TGACGAACCATGGGGAAGTTCCTCTCTGTGCCAACATCAAATGTT
1 GCTAAATAGTTTACCATATCAG-CGAACCATGGGGAAGTTCCTCTCTGCGCCAACATCAAATGTT
* * *
1156713 CTTCC-AGGAATTCTTCTCTAATTGGCTAGTCAGTCGTGGAGAGAGGAATTCAACTTAAGTGATT
65 CTTCCGA-AAATTCTTCTCTAATT-GCTAGTCAGTCATGGAGAGAGGAATTCAACTTAAGTGATC
*
1156777 GGCCACCAAATTCTCCCATCATTTCTTATCCTTGATTTCCAAATTGAATTATTGAAAAACTAAAA
128 GGCCACCAAATTCTCCCATCATTTCTTATCCTTAATTTCCAAATTGAATTATTGAAAAACTAAAA
* *
1156842 TCCATCATATAAGTCT
193 TCCACCAGATAAGTCT
1156858 CAGCTTCACT
Statistics
Matches: 183, Mismatches: 23, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
225 2 0.01
226 75 0.41
227 106 0.58
ACGTcount: A:0.30, C:0.21, G:0.15, T:0.34
Consensus pattern (226 bp):
GCTAAATAGTTTACCATATCAGCGAACCATGGGGAAGTTCCTCTCTGCGCCAACATCAAATGTTC
TTCCGAAAATTCTTCTCTAATTGCTAGTCAGTCATGGAGAGAGGAATTCAACTTAAGTGATCGGC
CACCAAATTCTCCCATCATTTCTTATCCTTAATTTCCAAATTGAATTATTGAAAAACTAAAATCC
ACCAGATAAGTCTTGACTTCACTTACATCTA
Found at i:1161729 original size:17 final size:16
Alignment explanation
Indices: 1161700--1161741 Score: 52
Period size: 15 Copynumber: 2.6 Consensus size: 16
1161690 ATCGCAAATC
1161700 AATT-TTTTATCTTTTAA
1 AATTATTTTATC--TTAA
1161717 AATTATTTT-TCTTAA
1 AATTATTTTATCTTAA
1161732 AATTATTTTA
1 AATTATTTTA
1161742 AGAGGAATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
15 13 0.57
17 6 0.26
18 4 0.17
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (16 bp):
AATTATTTTATCTTAA
Found at i:1161813 original size:4 final size:4
Alignment explanation
Indices: 1161804--1161828 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
1161794 CAAATTTGTC
1161804 TATT TATT TATT TATT TATT TATT T
1 TATT TATT TATT TATT TATT TATT T
1161829 CAAACCCAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TATT
Found at i:1166013 original size:2 final size:2
Alignment explanation
Indices: 1166002--1166030 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
1165992 TAAAGGCGAT
1166002 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1166031 CAATAAAGCT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:1166788 original size:44 final size:44
Alignment explanation
Indices: 1166723--1166823 Score: 152
Period size: 44 Copynumber: 2.3 Consensus size: 44
1166713 AATGATGAAT
**
1166723 GTGGGGCAC-TTTTTGAAGGTCCGTATCATTTAAAAGTATTAAC
1 GTGGGGCACTTTTTTGAAGGTCCGTATCATCCAAAAGTATTAAC
* *
1166766 GTGGGACACTTTTTTGAAGGTCCGTATCATCCAAAAGTATTAAT
1 GTGGGGCACTTTTTTGAAGGTCCGTATCATCCAAAAGTATTAAC
1166810 GTGGGGCA-TTTTTT
1 GTGGGGCACTTTTTT
1166824 AGGCCCATAC
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
43 14 0.27
44 38 0.73
ACGTcount: A:0.26, C:0.14, G:0.24, T:0.37
Consensus pattern (44 bp):
GTGGGGCACTTTTTTGAAGGTCCGTATCATCCAAAAGTATTAAC
Found at i:1168022 original size:62 final size:62
Alignment explanation
Indices: 1167924--1168334 Score: 500
Period size: 62 Copynumber: 6.5 Consensus size: 62
1167914 TGTTTCCTAA
* * * *
1167924 AGTCAATCTTTGACTTCCTCGTGAAGAGAAGACAACCTTTGTTATTCCTGACTCCCTAGTAG
1 AGTCAATCCTTGACTTCCTCGTGAAGAGAAGTCAACCTTTGTTATTCCTGACTCCCCAGCAG
* * * * *
1167986 AGTCAATCCTTGACTTCCTCATGAAGAGTAGTCAACCTTTATAATTCCTGACT-CCCAGTAG
1 AGTCAATCCTTGACTTCCTCGTGAAGAGAAGTCAACCTTTGTTATTCCTGACTCCCCAGCAG
* * * * * * *
1168047 AGTCAATCTTTGACTTCCTTGTAAAGAGAAGTCAACCTTTGTTATTTCTAAATCCCTCACGAAGA
1 AGTCAATCCTTGACTTCCTCGTGAAGAGAAGTCAACCTTTGTTATTCCTGACTCCC-CA-G--CA
1168112 GG
62 -G
* * *
1168114 AGTCAATCCTTGACTTCCTCGTAAAGAGAAGTTAACCTTTGTTATTCCTAACTCCCCAGCAG
1 AGTCAATCCTTGACTTCCTCGTGAAGAGAAGTCAACCTTTGTTATTCCTGACTCCCCAGCAG
* *
1168176 AGTCAATCCTTGACTTTCCTCGTAAAGAGAAGTCAACCTTTGTTAATCCTGACTCCCCAGCAG
1 AGTCAATCCTTGAC-TTCCTCGTGAAGAGAAGTCAACCTTTGTTATTCCTGACTCCCCAGCAG
* * * * *
1168239 AGTCAATCCTTGGCTTCCTCATGAAGAGAAGTCAACATTTGTTATTCCTGATTCCCCAGCAA
1 AGTCAATCCTTGACTTCCTCGTGAAGAGAAGTCAACCTTTGTTATTCCTGACTCCCCAGCAG
* * *
1168301 AGTTAATCTTTGACTTCCTCATGAAGAGAAGTCA
1 AGTCAATCCTTGACTTCCTCGTGAAGAGAAGTCA
1168335 GTTTTTCAAA
Statistics
Matches: 305, Mismatches: 37, Indels: 14
0.86 0.10 0.04
Matches are distributed among these distances:
61 50 0.16
62 137 0.45
63 61 0.20
64 1 0.00
65 1 0.00
66 3 0.01
67 52 0.17
ACGTcount: A:0.28, C:0.25, G:0.16, T:0.31
Consensus pattern (62 bp):
AGTCAATCCTTGACTTCCTCGTGAAGAGAAGTCAACCTTTGTTATTCCTGACTCCCCAGCAG
Found at i:1168511 original size:89 final size:89
Alignment explanation
Indices: 1168338--1169064 Score: 784
Period size: 89 Copynumber: 8.2 Consensus size: 89
1168328 GAAGTCAGTT
* * * * ** * *
1168338 TTTCAAATTTGGTATTCCCAAAAGAGTAGTGAAGCAAATCAATCACGAGTCTGATATCCCCGGAA
1 TTTCAGATTTGGTCTTCCCGAAAGAGTAGCGAAGCAAATCAATTTCGAGTCTGATCTCCTCGGAA
* ** * *
1168403 GAGTATAGGAGTATATTCTTCTCA
66 GAGTAGAGGAACAAATTCTTCTTA
* ** * * * *
1168427 TTTCAGATATGGTCTTCTTGAAATAGTAGCGAAGAAAATTAATTTCGAGTCTAATCTCCTCGGAA
1 TTTCAGATTTGGTCTTCCCGAAAGAGTAGCGAAGCAAATCAATTTCGAGTCTGATCTCCTCGGAA
* *
1168492 GAGTAGTGAAACAAATTCTTCTTA
66 GAGTAGAGGAACAAATTCTTCTTA
* * * * *
1168516 TTTCAGATTTGGTCTTCTCAAAAGAGTAGCGAAGTAAATCAATTTCTAGTCTTATCTCC-CTGGA
1 TTTCAGATTTGGTCTTCCCGAAAGAGTAGCGAAGCAAATCAATTTCGAGTCTGATCTCCTC-GGA
*
1168580 AGAGTAGAGGAACGAATTCTTCTTA
65 AGAGTAGAGGAACAAATTCTTCTTA
* * * *
1168605 TTTCAGATTTGATCTTCAC-AAGAGAGTAGCAAAGCAAATCAATTT-GAGTTTGATCTCC-CAGG
1 TTTCAGATTTGGTCTTCCCGAA-AGAGTAGCGAAGCAAATCAATTTCGAGTCTGATCTCCTC-GG
* * *
1168667 AAGATTAGAGGAGCATATTCTTCTTA
64 AAGAGTAGAGGAACAAATTCTTCTTA
* ** *
1168693 TTTCATATTTGGTCTTCCCGAAAGAGTAGCGAAAAAAATCAATTTCGAGTCTGAT-TACCTCGAA
1 TTTCAGATTTGGTCTTCCCGAAAGAGTAGCGAAGCAAATCAATTTCGAGTCTGATCT-CCTCGGA
*
1168757 AGAGTAGATGAACAAATTCTTCTTA
65 AGAGTAGAGGAACAAATTCTTCTTA
* * * * * * *
1168782 TTTCAGATTTGGTCTTCTCGAAATAGTAGGGAAGCAAATCAATCTCGATTCTGGTCTCCCCGGAA
1 TTTCAGATTTGGTCTTCCCGAAAGAGTAGCGAAGCAAATCAATTTCGAGTCTGATCTCCTCGGAA
1168847 GAGTAGAGGAGA-AAATTCTTCTTA
66 GAGTAGAGGA-ACAAATTCTTCTTA
** * * * *
1168871 TTTCAGATTTAATATTCCCGAAAGAGTAGCGAAGCAAATCAATCTCGAGTCTGATCTCCCCGAAA
1 TTTCAGATTTGGTCTTCCCGAAAGAGTAGCGAAGCAAATCAATTTCGAGTCTGATCTCCTCGGAA
* *
1168936 GAGTAGAGGAGCAGATTCTTCTTA
66 GAGTAGAGGAACAAATTCTTCTTA
* * * *
1168960 TTTCAGATTTGGTCTTCCCGAAAGAGTAGCAAAGTAAATCAATCTT-GAGTTTGATCTCCTTGGA
1 TTTCAGATTTGGTCTTCCCGAAAGAGTAGCGAAGCAAATCAAT-TTCGAGTCTGATCTCCTCGGA
* * *
1169024 AGAGTAGTGGAGCAGATTCTTCTTA
65 AGAGTAGAGGAACAAATTCTTCTTA
*
1169049 TTTCATATTTGGTCTT
1 TTTCAGATTTGGTCTT
1169065 ACTGAAGAAT
Statistics
Matches: 536, Mismatches: 92, Indels: 20
0.83 0.14 0.03
Matches are distributed among these distances:
88 75 0.14
89 457 0.85
90 4 0.01
ACGTcount: A:0.31, C:0.17, G:0.20, T:0.32
Consensus pattern (89 bp):
TTTCAGATTTGGTCTTCCCGAAAGAGTAGCGAAGCAAATCAATTTCGAGTCTGATCTCCTCGGAA
GAGTAGAGGAACAAATTCTTCTTA
Found at i:1169001 original size:355 final size:356
Alignment explanation
Indices: 1168338--1169064 Score: 951
Period size: 355 Copynumber: 2.0 Consensus size: 356
1168328 GAAGTCAGTT
* * * ** *
1168338 TTTCAAATTTGGTATTCCCAAAAGAGTAGTGAAGCAAATCAATCACGAGTCTGATATCCCCGGAA
1 TTTCATATTTGGTCTTCCCAAAAGAGTAGCGAAAAAAATCAATCACGAGTCTGATATCCCCGAAA
* ** * * *
1168403 GAGTATAGGAGTATATTCTTCTCATTTCAGATATGGTCTTCTTGAAATAGTAGCGAAGAAAATTA
66 GAGTAGAGGAACAAATTCTTCTCATTTCAGATATGGTCTTCTCGAAATAGTAGCGAAGAAAATCA
* * * ** *
1168468 ATTTCGAGTCTAATCTCCTCGGAAGAGTAGTGAAACAAATTCTTCTTATTTCAGATTTGGTCTTC
131 ATCTCGAGTCTAATCTCCCCGGAAGAGTAGGGAAACAAATTCTTCTTATTTCAGATTTAATATTC
* * * * * * *
1168533 TCAAAAGAGTAGCGAAGTAAATCAATTTCTAGTCTTATCTCCCTGGAAGAGTAGAGGAACGAATT
196 CCAAAAGAGTAGCGAAGCAAATCAATCTCGAGTCTGATCTCCCCGAAAGAGTAGAGGAACGAATT
1168598 CTTCTTATTTCAGATTTGATCTTCACAAGAGAGTAGCAAAGCAAATCAAT-TTGAGTTTGATCTC
261 CTTCTTATTTCAGATTTGATCTTCACAAGAGAGTAGCAAAGCAAATCAATCTTGAGTTTGATCTC
* *
1168662 CCAGGAAGATTAGAGGAGCATATTCTTCTTA
326 CCAGGAAGAGTAGAGGAGCAGATTCTTCTTA
* ** *
1168693 TTTCATATTTGGTCTTCCCGAAAGAGTAGCGAAAAAAATCAATTTCGAGTCTGAT-TACCTCGAA
1 TTTCATATTTGGTCTTCCCAAAAGAGTAGCGAAAAAAATCAATCACGAGTCTGATAT-CCCCGAA
* * * * *
1168757 AGAGTAGATGAACAAATTCTTCTTATTTCAGATTTGGTCTTCTCGAAATAGTAGGGAAGCAAATC
65 AGAGTAGAGGAACAAATTCTTCTCATTTCAGATATGGTCTTCTCGAAATAGTAGCGAAGAAAATC
* ** *
1168822 AATCTCGATTCTGGTCTCCCCGGAAGAGTAGAGGAGA-AAATTCTTCTTATTTCAGATTTAATAT
130 AATCTCGAGTCTAATCTCCCCGGAAGAGTAG-GGAAACAAATTCTTCTTATTTCAGATTTAATAT
* *
1168886 TCCCGAAAGAGTAGCGAAGCAAATCAATCTCGAGTCTGATCTCCCCGAAAGAGTAGAGGAGC-AG
194 TCCCAAAAGAGTAGCGAAGCAAATCAATCTCGAGTCTGATCTCCCCGAAAGAGTAGAGGAACGA-
* * *
1168950 ATTCTTCTTATTTCAGATTTGGTCTTCCCGAA-AGAGTAGCAAAGTAAATCAATCTTGAGTTTGA
258 ATTCTTCTTATTTCAGATTTGATCTTCAC-AAGAGAGTAGCAAAGCAAATCAATCTTGAGTTTGA
** *
1169014 TCTCCTTGGAAGAGTAGTGGAGCAGATTCTTCTTA
322 TCTCCCAGGAAGAGTAGAGGAGCAGATTCTTCTTA
1169049 TTTCATATTTGGTCTT
1 TTTCATATTTGGTCTT
1169065 ACTGAAGAAT
Statistics
Matches: 319, Mismatches: 48, Indels: 9
0.85 0.13 0.02
Matches are distributed among these distances:
354 2 0.01
355 256 0.80
356 61 0.19
ACGTcount: A:0.31, C:0.17, G:0.20, T:0.32
Consensus pattern (356 bp):
TTTCATATTTGGTCTTCCCAAAAGAGTAGCGAAAAAAATCAATCACGAGTCTGATATCCCCGAAA
GAGTAGAGGAACAAATTCTTCTCATTTCAGATATGGTCTTCTCGAAATAGTAGCGAAGAAAATCA
ATCTCGAGTCTAATCTCCCCGGAAGAGTAGGGAAACAAATTCTTCTTATTTCAGATTTAATATTC
CCAAAAGAGTAGCGAAGCAAATCAATCTCGAGTCTGATCTCCCCGAAAGAGTAGAGGAACGAATT
CTTCTTATTTCAGATTTGATCTTCACAAGAGAGTAGCAAAGCAAATCAATCTTGAGTTTGATCTC
CCAGGAAGAGTAGAGGAGCAGATTCTTCTTA
Found at i:1169432 original size:82 final size:82
Alignment explanation
Indices: 1169161--1171200 Score: 2137
Period size: 82 Copynumber: 25.0 Consensus size: 82
1169151 AGTCTTATAT
* *
1169161 CCCTGAAAGAATAGTGGAGCAGACTCAT-TTCCAAAAATTAATCTGACTACCCAAAAAAGAGGAA
1 CCCTGAAAGAATAGTGGAGCAGACTCATCTTCC-AAAATTGATCTGACTACCCGAAAAAGAGGAA
*
1169225 CATATCAAGTCTTATCT-
65 CATATCAAGTCTGATCTC
* * * * *
1169242 CCTTGAAAGAAGAGTGGAGTAGACTCGT-TTCCAAAAATTGATCTGACTACCTGAAAAAAAGAGG
1 CCCTGAAAGAATAGTGGAGCAGACTCATCTTCC-AAAATTGATCTGACTACCCG--AAAAAGAGG
* * *
1169306 AATAAATCAAGTCTAATCTC
63 AACATATCAAGTCTGATCTC
* * *** * * * *
1169326 CCTTGAAAGAAGAAAAGAGAAGACTCATCTTCCAAAATTGATCTGGCTACCTGAAAAAGATGAAC
1 CCCTGAAAGAATAGTGGAGCAGACTCATCTTCCAAAATTGATCTGACTACCCGAAAAAGAGGAAC
* *
1169391 AAATCAAGTGTGATCTC
66 ATATCAAGTCTGATCTC
* * * * *
1169408 CCCGGAAAGAATAGTAGAGCAGACTCATCTTCCAAAATTAATCTTACTACCCGAAAAAGAAGAAC
1 CCCTGAAAGAATAGTGGAGCAGACTCATCTTCCAAAATTGATCTGACTACCCGAAAAAGAGGAAC
1169473 -TGATCAAGTCTGATC-C
66 AT-ATCAAGTCTGATCTC
* * * *
1169489 CCCTGAAAGAATAGTGGAGCAGACTCCTCTTCC-AAATTGATCTAACTACCCAAAAAAGAGAAAC
1 CCCTGAAAGAATAGTGGAGCAGACTCATCTTCCAAAATTGATCTGACTACCCGAAAAAGAGGAAC
* *
1169553 ATATAAAGTCTGATATC
66 ATATCAAGTCTGATCTC
* * * * * *
1169570 CCCTGAAATAATAGTGGAGAAGACCCATCTTCCAAAATTGATTTGACTACCCAAAAAAGTGGAAC
1 CCCTGAAAGAATAGTGGAGCAGACTCATCTTCCAAAATTGATCTGACTACCCGAAAAAGAGGAAC
* *
1169635 AAATCAAGTGTGATCTC
66 ATATCAAGTCTGATCTC
* * ** * * *
1169652 CCCTGAAAGAATAGTGGAGCAAAC-CTGTCTTAAAAAATTGATTTGATTACCCGAAAAATAGGAA
1 CCCTGAAAGAATAGTGGAGCAGACTC-ATCTTCCAAAATTGATCTGACTACCCGAAAAAGAGGAA
* *
1169716 CAAATCAAGTCTGATATC
65 CATATCAAGTCTGATCTC
* * * *
1169734 CCCTGAAAGACTAGTGGAGCATACCCATCTTCAAAAATTGATCTGACTACCCGAAAAAGAGGAAC
1 CCCTGAAAGAATAGTGGAGCAGACTCATCTTCCAAAATTGATCTGACTACCCGAAAAAGAGGAAC
1169799 ATATCAAGTCTGATCTC
66 ATATCAAGTCTGATCTC
* * * * * * * * *
1169816 CCCTTAAAAAATAGTAGAGTAGACCCGTCTT-CAAAATTGATCTAACTACCAGAAAAAGAGGAAA
1 CCCTGAAAGAATAGTGGAGCAGACTCATCTTCCAAAATTGATCTGACTACCCGAAAAAGAGGAAC
*
1169880 ATATCAAGTCTAATCTC
66 ATATCAAGTCTGATCTC
* * * * * * *
1169897 CCCTAAAAGAATAGTAGAGCAGACCCGTCTTCCAAAATTGATATGACTACCTGAAAAAAAAGGAA
1 CCCTGAAAGAATAGTGGAGCAGACTCATCTTCCAAAATTGATCTGACTACCCG-AAAAAGAGGAA
* *
1169962 CAGATCAAGTATGATCTC
65 CATATCAAGTCTGATCTC
* * * * *
1169980 CTCTGAAAGAATAGTGGAGCATACCCATCTT-CAAAAGTTGATCTGACTACCCAAAAAATAGGAA
1 CCCTGAAAGAATAGTGGAGCAGACTCATCTTCCAAAA-TTGATCTGACTACCCGAAAAAGAGGAA
*
1170044 CATATCAAGTCTGAACTC
65 CATATCAAGTCTGATCTC
* * * * * ** * * * *
1170062 CCATAAAAGAATAGTGGACCAGACCCGTCTTAAAAAAATAATCTAACTACCTGAAAAAGAGGAAC
1 CCCTGAAAGAATAGTGGAGCAGACTCATCTTCCAAAATTGATCTGACTACCCGAAAAAGAGGAAC
*
1170127 ATATCAAGTATGATCTC
66 ATATCAAGTCTGATCTC
* * * *
1170144 CCCTGAAAGAATAGTGGAGCAGAC-CATCTT-CAAAATAGATTTGATTACTCGAAAAAGAGGAAC
1 CCCTGAAAGAATAGTGGAGCAGACTCATCTTCCAAAATTGATCTGACTACCCGAAAAAGAGGAAC
* *
1170207 ATATCATGTCTTATCTC
66 ATATCAAGTCTGATCTC
* * * * *
1170224 CCCTGAAAGAATAGTGGAGCATA-TCTGTCTT-CAAAATAGATCTGACTACCCGAAAAAAAAAAG
1 CCCTGAAAGAATAGTGGAGCAGACTC-ATCTTCCAAAATTGATCTGACTACCCG--AAAAAGAGG
*
1170287 AACAGATCAAGTCTGATCT-
63 AACATATCAAGTCTGATCTC
* * * *
1170306 CCCTGAAAGAATAATGGAGCAGA-TCCATCTTCCAAAATTGATTTGATTACCCAAAAAAGAGGAA
1 CCCTGAAAGAATAGTGGAGCAGACT-CATCTTCCAAAATTGATCTGACTACCCGAAAAAGAGGAA
*
1170370 CATATCAAGTGTGATCTC
65 CATATCAAGTCTGATCTC
* * * ** *
1170388 CCCTGAAAGAATAGTGGAGCA-AGCCCGTCTTCAAAAATTGATCTGACTACCTTAAAAAGATGAA
1 CCCTGAAAGAATAGTGGAGCAGA-CTCATCTTCCAAAATTGATCTGACTACCCGAAAAAGAGGAA
* *
1170452 TATATCAAGTCTGATATC
65 CATATCAAGTCTGATCTC
* * *
1170470 CCCTGAAATAATAGTGGAGCAGACCCATCTTCAAAAATTGATCTGACTACCCGAAAAAGAGGAAC
1 CCCTGAAAGAATAGTGGAGCAGACTCATCTTCCAAAATTGATCTGACTACCCGAAAAAGAGGAAC
* *
1170535 AGATCAAGTTTGATCTC
66 ATATCAAGTCTGATCTC
* * * * * * *
1170552 CCCTAAAAGAATAGTGGAGCAGACAT-GTCTT-CAATATTGATTTAACTACACAAAAAAGAGGAA
1 CCCTGAAAGAATAGTGGAGCAGAC-TCATCTTCCAAAATTGATCTGACTACCCGAAAAAGAGGAA
* *
1170615 CATATCAAGTCTAATTTC
65 CATATCAAGTCTGATCTC
* * * *
1170633 CCATGAAAGAATAGTGGAGCAGACCCATCTTCTAAAATTGATATGACTACCC-AAAAAGGAGGAA
1 CCCTGAAAGAATAGTGGAGCAGACTCATCTTCCAAAATTGATCTGACTACCCGAAAAA-GAGGAA
* * * *
1170697 AAAATTAAGTCTGATATC
65 CATATCAAGTCTGATCTC
* * * ** * * *
1170715 CCCTGAAAGAATAGTGGAGCATAATTATCTTTAAAAATTGATTTAACTACCCAAAAAAGAGGAAC
1 CCCTGAAAGAATAGTGGAGCAGACTCATCTTCCAAAATTGATCTGACTACCCGAAAAAGAGGAAC
* *
1170780 ATATCAAGTCTAATTTC
66 ATATCAAGTCTGATCTC
* * * * * *
1170797 CCATGAAAGAATAGTGGAGCAGACTCGTCTTCCAAAATTGATATGACTACCAGAAAAGGAGGAAA
1 CCCTGAAAGAATAGTGGAGCAGACTCATCTTCCAAAATTGATCTGACTACCCGAAAAAGAGGAAC
* *
1170862 AAATTAAGTCTGATCTC
66 ATATCAAGTCTGATCTC
* * ** * * *
1170879 CCCTGAAAGAATAGTGGAGCATAATCATCTTTAAAAATTGATCTGACTACCCAAAAAAGATGAGC
1 CCCTGAAAGAATAGTGGAGCAGACTCATCTTCCAAAATTGATCTGACTACCCGAAAAAGAGGAAC
*
1170944 ATATCAAGTCTGATCTT
66 ATATCAAGTCTGATCTC
* * * * * * *
1170961 CCTTAAAAGAATAGTGGAGCAAACCCGTCTTCAAAAATTGATCTAACTACCCGAAAAAGAGGAAC
1 CCCTGAAAGAATAGTGGAGCAGACTCATCTTCCAAAATTGATCTGACTACCCGAAAAAGAGGAAC
*
1171026 ATATCAAGTCTGATCTA
66 ATATCAAGTCTGATCTC
* * *
1171043 CCCTGAAAAAATAGTGGAGCAGACTCATCTT-CAAAATAGATCTGACTACCCAAAAAAGAGGAAC
1 CCCTGAAAGAATAGTGGAGCAGACTCATCTTCCAAAATTGATCTGACTACCCGAAAAAGAGGAAC
*
1171107 ATATCAAGTCTTATCTC
66 ATATCAAGTCTGATCTC
* * * *
1171124 CCCTTAAAGAATAGTGGAGCAGAC-CTGTCTT-CAAAATAGATCTGACTACCC-AAACAAGAGAA
1 CCCTGAAAGAATAGTGGAGCAGACTC-ATCTTCCAAAATTGATCTGACTACCCGAAA-AAGAGGA
*
1171186 ACAAATCAAGTCTGA
64 ACATATCAAGTCTGA
1171201 AGAACCGTTT
Statistics
Matches: 1639, Mismatches: 289, Indels: 62
0.82 0.15 0.03
Matches are distributed among these distances:
80 102 0.06
81 414 0.25
82 937 0.57
83 140 0.09
84 42 0.03
85 4 0.00
ACGTcount: A:0.41, C:0.20, G:0.17, T:0.23
Consensus pattern (82 bp):
CCCTGAAAGAATAGTGGAGCAGACTCATCTTCCAAAATTGATCTGACTACCCGAAAAAGAGGAAC
ATATCAAGTCTGATCTC
Found at i:1170584 original size:736 final size:734
Alignment explanation
Indices: 1169161--1171200 Score: 2552
Period size: 736 Copynumber: 2.8 Consensus size: 734
1169151 AGTCTTATAT
* * *
1169161 CCCTGAAAGAATAGTGGAGCAGACTCAT-TTCCAAAAATTAATCTGACTACCCAAAAAAGAGGAA
1 CCCTGAAAGAATAGTGGAGCAGACCCATCTTCC-AAAATTGATATGACTACCCAAAAAAGAGGAA
* * * * * *
1169225 CATATCAAGTCTTATCTCCT-TGAAAGAAGAGTGGAGTAGACTCGT-TTCCAAAAATTGATCTGA
65 CAAATCAAGTCTGATCTCCTCTGAAAGAATAGTGGAGCATACTCATCTT-CAAAAATTGATCTGA
* * * * * *** * *
1169288 CTACCTGAAAAAAAGAGGAATAAATCAAGTCTAATCTCCCTTGAAAGAAGAAAAGAGAAGACTCA
129 CTACC--CAAAAAAGAGGAACATATCAAGTCTAATCTCCCATGAAAGAATAGTGGAGCAGACTCG
* * * *
1169353 TCTTCCAAAATTGATCTGGCTACCTGAAAAAGATGAACAAATCAAGTGTGATCTCCCCGGAAAGA
192 TCTTCCAAAATTGATCTGACTACCTGAAAAAGAGGAACAAATCAAGTATGATCTCCCCTGAAAGA
*
1169418 ATAGTAGAGCAGACTCATCTTCCAAAATTA-ATCTT-ACTACCCGAAAAAGAAGAAC-TGATCAA
257 ATAGTGGAGCAGAC-CATCTT-CAAAA-TAGAT-TTGACTACCCGAAAAAGAAGAACAT-ATCAA
* * *
1169480 GTCTGATC-CCCCTGAAAGAATAGTGGAGCAGACTCCTCTTCCAAATTGATCTAACTACCC-AAA
317 GTCTGATCTCCCCTGAAAGAATAGTGGAGCAAACT-GTCTTCAAAATTGATCTAACTACCCGAAA
* * * * * * *
1169543 AAAGAGA-AACATATAAAGTCTGATATCCCCTGAAATAATAGTGGAGAAGACCCATCTTCCAAAA
381 AAAAAAAGAACATATCAAGTCTGATCTACCCTGAAAAAATAGTGGAGCAGA-CCATCTTCCAAAA
* *
1169607 TTGATTTGACTACCCAAAAAAGTGGAACAAATCAAGTGTGATCTCCCCTGAAAGAATAGTGGAGC
445 TTGATTTGACTACCCAAAAAAGAGGAACATATCAAGTGTGATCTCCCCTGAAAGAATAGTGGAGC
* * * * *
1169672 AAACCTGTCTTAAAAAATTGATTTGATTACCCGAAAAATAGGAACAAATCAAGTCTGATATCCCC
510 AAGCCTGTCTTCAAAAATTGATCTGACTACCCGAAAAAGAGGAACAAATCAAGTCTGATATCCCC
* * *
1169737 TGAAAGACTAGTGGAGCATACCCATCTTCAAAAATTGATCTGACTACCCGAAAAAGAGGAACATA
575 TGAAAGAATAGTGGAGCAGACCCATCTTCAAAAATTGATCTGACTACCCGAAAAAGAGGAACAGA
* *
1169802 TCAAGTCTGATCTCCCCTTAAAAAATAGTAGAGTAGACCCGTCTTCAAAATTGATCTAACTAC-C
640 TCAAGTCTGATCTCCCCTTAAAAAATAGTAGAGCAGACACGTCTTCAAAATTGATCTAACTACAC
1169866 AGAAAAAGAGGAAAATATCAAGTCTAATCTC
705 A-AAAAAGAGGAAAATATCAAGTCTAATCTC
* * * * *
1169897 CCCTAAAAGAATAGTAGAGCAGACCCGTCTTCCAAAATTGATATGACTACCTGAAAAAAAAGGAA
1 CCCTGAAAGAATAGTGGAGCAGACCCATCTTCCAAAATTGATATGACTACC-CAAAAAAGAGGAA
* * * *
1169962 CAGATCAAGTATGATCTCCTCTGAAAGAATAGTGGAGCATACCCATCTTCAAAAGTTGATCTGAC
65 CAAATCAAGTCTGATCTCCTCTGAAAGAATAGTGGAGCATACTCATCTTCAAAAATTGATCTGAC
* * * *
1170027 TACCCAAAAAATAGGAACATATCAAGTCTGAA-CTCCCATAAAAGAATAGTGGACCAGACCCGTC
130 TACCCAAAAAAGAGGAACATATCAAGTCT-AATCTCCCATGAAAGAATAGTGGAGCAGACTCGTC
** * * * *
1170091 TTAAAAAAATAATCTAACTACCTGAAAAAGAGGAACATATCAAGTATGATCTCCCCTGAAAGAAT
194 TTCCAAAATTGATCTGACTACCTGAAAAAGAGGAACAAATCAAGTATGATCTCCCCTGAAAGAAT
* * * * *
1170156 AGTGGAGCAGACCATCTTCAAAATAGATTTGATTACTCGAAAAAGAGGAACATATCATGTCTTAT
259 AGTGGAGCAGACCATCTTCAAAATAGATTTGACTACCCGAAAAAGAAGAACATATCAAGTCTGAT
* * *
1170221 CTCCCCTGAAAGAATAGTGGAGCATATCTGTCTTCAAAATAGATCTGACTACCCGAAAAAAAAAA
324 CTCCCCTGAAAGAATAGTGGAGCA-AACTGTCTTCAAAATTGATCTAACTACCCGAAAAAAAAAA
* * *
1170286 GAACAGATCAAGTCTGATCT-CCCTGAAAGAATAATGGAGCAGATCCATCTTCCAAAATTGATTT
388 GAACATATCAAGTCTGATCTACCCTGAAAAAATAGTGGAGCAGA-CCATCTTCCAAAATTGATTT
* *
1170350 GATTACCCAAAAAAGAGGAACATATCAAGTGTGATCTCCCCTGAAAGAATAGTGGAGCAAGCCCG
452 GACTACCCAAAAAAGAGGAACATATCAAGTGTGATCTCCCCTGAAAGAATAGTGGAGCAAGCCTG
** * * * *
1170415 TCTTCAAAAATTGATCTGACTACCTTAAAAAGATGAATATATCAAGTCTGATATCCCCTGAAATA
517 TCTTCAAAAATTGATCTGACTACCCGAAAAAGAGGAACAAATCAAGTCTGATATCCCCTGAAAGA
*
1170480 ATAGTGGAGCAGACCCATCTTCAAAAATTGATCTGACTACCCGAAAAAGAGGAACAGATCAAGTT
582 ATAGTGGAGCAGACCCATCTTCAAAAATTGATCTGACTACCCGAAAAAGAGGAACAGATCAAGTC
* * * *
1170545 TGATCTCCCC-TAAAAGAATAGTGGAGCAGACATGTCTTCAATATTGATTTAACTACACAAAAAA
647 TGATCTCCCCTTAAAA-AATAGTAGAGCAGACACGTCTTCAAAATTGATCTAACTACACAAAAAA
* *
1170609 GAGGAACATATCAAGTCTAATTTC
711 GAGGAAAATATCAAGTCTAATCTC
* * * *
1170633 CCATGAAAGAATAGTGGAGCAGACCCATCTTCTAAAATTGATATGACTACCCAAAAAGGAGGAAA
1 CCCTGAAAGAATAGTGGAGCAGACCCATCTTCCAAAATTGATATGACTACCCAAAAAAGAGGAAC
* * * * * * * *
1170698 AAATTAAGTCTGATATCCCCTGAAAGAATAGTGGAGCATAATTATCTTTAAAAATTGATTTAACT
66 AAATCAAGTCTGATCTCCTCTGAAAGAATAGTGGAGCATACTCATCTTCAAAAATTGATCTGACT
*
1170763 ACCCAAAAAAGAGGAACATATCAAGTCTAATTTCCCATGAAAGAATAGTGGAGCAGACTCGTCTT
131 ACCCAAAAAAGAGGAACATATCAAGTCTAATCTCCCATGAAAGAATAGTGGAGCAGACTCGTCTT
* * * * * *
1170828 CCAAAATTGATATGACTACCAGAAAAGGAGGAAAAAATTAAGTCTGATCTCCCCTGAAAGAATAG
196 CCAAAATTGATCTGACTACCTGAAAAAGAGGAACAAATCAAGTATGATCTCCCCTGAAAGAATAG
* * * * * * * *
1170893 TGGAGCATAATCATCTTTAAAAATTGATCTGACTACCCAAAAAAGATGAGCATATCAAGTCTGAT
261 TGGAGCA-GACCATC-TTCAAAATAGATTTGACTACCCGAAAAAGAAGAACATATCAAGTCTGAT
* * * * *
1170958 CTTCCTTAAAAGAATAGTGGAGCAAACCCGTCTTCAAAAATTGATCTAACTACCCG--AAAAAGA
324 CTCCCCTGAAAGAATAGTGGAGCAAA-CTGTCTTC-AAAATTGATCTAACTACCCGAAAAAAAAA
* * *
1171021 GGAACATATCAAGTCTGATCTACCCTGAAAAAATAGTGGAGCAGACTCATCTT-CAAAATAGATC
387 AGAACATATCAAGTCTGATCTACCCTGAAAAAATAGTGGAGCAGAC-CATCTTCCAAAATTGATT
* * *
1171085 TGACTACCCAAAAAAGAGGAACATATCAAGTCTTATCTCCCCTTAAAGAATAGTGGAGC-AGACC
451 TGACTACCCAAAAAAGAGGAACATATCAAGTGTGATCTCCCCTGAAAGAATAGTGGAGCAAG-CC
* *
1171149 TGTCTTC-AAAATAGATCTGACTACCC-AAACAAGAGAAACAAATCAAGTCTGA
515 TGTCTTCAAAAATTGATCTGACTACCCGAAA-AAGAGGAACAAATCAAGTCTGA
1171201 AGAACCGTTT
Statistics
Matches: 1117, Mismatches: 164, Indels: 47
0.84 0.12 0.04
Matches are distributed among these distances:
733 4 0.00
734 40 0.04
735 272 0.24
736 596 0.53
737 146 0.13
738 57 0.05
739 2 0.00
ACGTcount: A:0.41, C:0.20, G:0.17, T:0.23
Consensus pattern (734 bp):
CCCTGAAAGAATAGTGGAGCAGACCCATCTTCCAAAATTGATATGACTACCCAAAAAAGAGGAAC
AAATCAAGTCTGATCTCCTCTGAAAGAATAGTGGAGCATACTCATCTTCAAAAATTGATCTGACT
ACCCAAAAAAGAGGAACATATCAAGTCTAATCTCCCATGAAAGAATAGTGGAGCAGACTCGTCTT
CCAAAATTGATCTGACTACCTGAAAAAGAGGAACAAATCAAGTATGATCTCCCCTGAAAGAATAG
TGGAGCAGACCATCTTCAAAATAGATTTGACTACCCGAAAAAGAAGAACATATCAAGTCTGATCT
CCCCTGAAAGAATAGTGGAGCAAACTGTCTTCAAAATTGATCTAACTACCCGAAAAAAAAAAGAA
CATATCAAGTCTGATCTACCCTGAAAAAATAGTGGAGCAGACCATCTTCCAAAATTGATTTGACT
ACCCAAAAAAGAGGAACATATCAAGTGTGATCTCCCCTGAAAGAATAGTGGAGCAAGCCTGTCTT
CAAAAATTGATCTGACTACCCGAAAAAGAGGAACAAATCAAGTCTGATATCCCCTGAAAGAATAG
TGGAGCAGACCCATCTTCAAAAATTGATCTGACTACCCGAAAAAGAGGAACAGATCAAGTCTGAT
CTCCCCTTAAAAAATAGTAGAGCAGACACGTCTTCAAAATTGATCTAACTACACAAAAAAGAGGA
AAATATCAAGTCTAATCTC
Found at i:1171421 original size:6 final size:6
Alignment explanation
Indices: 1171410--1171437 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
1171400 GTCCCAAATG
1171410 ATATCC ATATCC ATATCC ATATCC ATAT
1 ATATCC ATATCC ATATCC ATATCC ATAT
1171438 TATTATTATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.36, C:0.29, G:0.00, T:0.36
Consensus pattern (6 bp):
ATATCC
Found at i:1171443 original size:3 final size:3
Alignment explanation
Indices: 1171435--1171481 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
1171425 TCCATATCCA
1171435 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1171482 AATAATTATA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:1172633 original size:22 final size:22
Alignment explanation
Indices: 1172599--1172650 Score: 70
Period size: 23 Copynumber: 2.4 Consensus size: 22
1172589 TAAAATAATA
1172599 TATTTTATATTCG-AATATATT
1 TATTTTATATTCGTAATATATT
*
1172620 TATTTTAATATTCGTAATATATG
1 TATTTT-ATATTCGTAATATATT
*
1172643 TGTTTTAT
1 TATTTTAT
1172651 TTAAAATTTG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
21 6 0.22
22 9 0.33
23 12 0.44
ACGTcount: A:0.31, C:0.04, G:0.08, T:0.58
Consensus pattern (22 bp):
TATTTTATATTCGTAATATATT
Found at i:1174923 original size:28 final size:28
Alignment explanation
Indices: 1174886--1174943 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 28
1174876 TAGCATTTTA
* *
1174886 AAAGTAAAGA-AAACATGAAAAGAAAAAT
1 AAAGAAAAGAGAAA-ATAAAAAGAAAAAT
*
1174914 AAAGAAAAGAGAAAGTAAAAAGAAAAAT
1 AAAGAAAAGAGAAAATAAAAAGAAAAAT
1174942 AA
1 AA
1174944 CTTAATAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
28 23 0.88
29 3 0.12
ACGTcount: A:0.74, C:0.02, G:0.16, T:0.09
Consensus pattern (28 bp):
AAAGAAAAGAGAAAATAAAAAGAAAAAT
Found at i:1180363 original size:3 final size:3
Alignment explanation
Indices: 1180357--1180382 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
1180347 ATTAGTTGAG
1180357 ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT AT
1180383 ATACATATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:1181937 original size:20 final size:20
Alignment explanation
Indices: 1181886--1181924 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
1181876 TTAGAAGACT
* *
1181886 AATATCAATATTGGAAGAAA
1 AATATCGATACTGGAAGAAA
1181906 AATATCGATACTGGAAGAA
1 AATATCGATACTGGAAGAA
1181925 CATTATTGAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.51, C:0.08, G:0.18, T:0.23
Consensus pattern (20 bp):
AATATCGATACTGGAAGAAA
Found at i:1181979 original size:25 final size:26
Alignment explanation
Indices: 1181938--1182098 Score: 138
Period size: 25 Copynumber: 6.4 Consensus size: 26
1181928 TATTGATACT
** *
1181938 TCCTAAA-TCTAATGTTGGAAAAGGG
1 TCCTAAATTCTAACATTGGAAAAAGG
*
1181963 TCCTAAATTC-AACGTTGGAAAAAAGG
1 TCCTAAATTCTAACATTGG-AAAAAGG
* * *
1181989 TCTTAAA-TCTAACATTGAAAAAAGA
1 TCCTAAATTCTAACATTGGAAAAAGG
** *
1182014 TCCTAAATT-TGAA-ATCAGAAAAGGG
1 TCCTAAATTCT-AACATTGGAAAAAGG
* *
1182039 TCCTAAATTC-AACGTTAGAAAAAGG
1 TCCTAAATTCTAACATTGGAAAAAGG
*
1182064 TCCTAAA-TCTAACATTGGAAAAAGA
1 TCCTAAATTCTAACATTGGAAAAAGG
1182089 TCCTAAATTC
1 TCCTAAATTC
1182099 GAAACCAGAA
Statistics
Matches: 109, Mismatches: 18, Indels: 17
0.76 0.12 0.12
Matches are distributed among these distances:
24 4 0.04
25 80 0.73
26 25 0.23
ACGTcount: A:0.43, C:0.15, G:0.16, T:0.26
Consensus pattern (26 bp):
TCCTAAATTCTAACATTGGAAAAAGG
Found at i:1182097 original size:75 final size:76
Alignment explanation
Indices: 1181955--1182114 Score: 268
Period size: 75 Copynumber: 2.1 Consensus size: 76
1181945 TCTAATGTTG
* *
1181955 GAAAAGGGTCCTAAATTCAACGTTGGAAAAAAGGTCTTAAATCTAACATTGAAAAAAGATCCTAA
1 GAAAAGGGTCCTAAATTCAACGTTAGAAAAAAGGTCCTAAATCTAACATTGAAAAAAGATCCTAA
* *
1182020 ATTTGAAATCA
66 ATTCGAAACCA
*
1182031 GAAAAGGGTCCTAAATTCAACGTTAG-AAAAAGGTCCTAAATCTAACATTGGAAAAAGATCCTAA
1 GAAAAGGGTCCTAAATTCAACGTTAGAAAAAAGGTCCTAAATCTAACATTGAAAAAAGATCCTAA
1182095 ATTCGAAACCA
66 ATTCGAAACCA
1182106 GAAAAGGGT
1 GAAAAGGGT
1182115 ATCGATACTA
Statistics
Matches: 79, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
75 54 0.68
76 25 0.32
ACGTcount: A:0.46, C:0.14, G:0.17, T:0.23
Consensus pattern (76 bp):
GAAAAGGGTCCTAAATTCAACGTTAGAAAAAAGGTCCTAAATCTAACATTGAAAAAAGATCCTAA
ATTCGAAACCA
Found at i:1182109 original size:25 final size:25
Alignment explanation
Indices: 1182007--1182110 Score: 70
Period size: 25 Copynumber: 4.2 Consensus size: 25
1181997 CTAACATTGA
* *
1182007 AAAAAGATCCTAAATTTGAAATCAG
1 AAAAAGATCCTAAATTCGAAACCAG
* * *
1182032 AAAAGGGTCCTAAATTC--AACGTTAG
1 AAAAAGATCCTAAATTCGAAAC--CAG
* * ***
1182057 AAAAAGGTCCTAAA-TCTAACATTGG
1 AAAAAGATCCTAAATTCGAA-ACCAG
1182082 AAAAAGATCCTAAATTCGAAACCAG
1 AAAAAGATCCTAAATTCGAAACCAG
1182107 AAAA
1 AAAA
1182111 GGGTATCGAT
Statistics
Matches: 60, Mismatches: 13, Indels: 12
0.71 0.15 0.14
Matches are distributed among these distances:
23 2 0.03
24 2 0.03
25 50 0.83
26 5 0.08
27 1 0.02
ACGTcount: A:0.49, C:0.15, G:0.14, T:0.21
Consensus pattern (25 bp):
AAAAAGATCCTAAATTCGAAACCAG
Found at i:1185456 original size:18 final size:19
Alignment explanation
Indices: 1185421--1185457 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
1185411 CATTGAATGT
1185421 AAGATTACCAGTGGGAATAA
1 AAGATTACCAG-GGGAATAA
1185441 AAGATTACCA-GGGAATA
1 AAGATTACCAGGGGAATA
1185458 GGATTACTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.41
20 10 0.59
ACGTcount: A:0.46, C:0.11, G:0.24, T:0.19
Consensus pattern (19 bp):
AAGATTACCAGGGGAATAA
Found at i:1185904 original size:2 final size:2
Alignment explanation
Indices: 1185893--1185954 Score: 58
Period size: 2 Copynumber: 31.5 Consensus size: 2
1185883 TATAATATTA
*
1185893 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT TT A- AT GACT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -A-T AT
* *
1185935 AT AT -T AT AT AC CT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT A
1185955 ATTGATTAGA
Statistics
Matches: 49, Mismatches: 6, Indels: 10
0.75 0.09 0.15
Matches are distributed among these distances:
1 3 0.06
2 43 0.88
3 2 0.04
4 1 0.02
ACGTcount: A:0.45, C:0.05, G:0.02, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1188558 original size:17 final size:17
Alignment explanation
Indices: 1188536--1188577 Score: 84
Period size: 17 Copynumber: 2.5 Consensus size: 17
1188526 AAAGATGATA
1188536 TAGCCTCATGTTTTGCT
1 TAGCCTCATGTTTTGCT
1188553 TAGCCTCATGTTTTGCT
1 TAGCCTCATGTTTTGCT
1188570 TAGCCTCA
1 TAGCCTCA
1188578 ATTTTAACCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.14, C:0.26, G:0.17, T:0.43
Consensus pattern (17 bp):
TAGCCTCATGTTTTGCT
Found at i:1189085 original size:14 final size:14
Alignment explanation
Indices: 1189066--1189105 Score: 55
Period size: 13 Copynumber: 2.9 Consensus size: 14
1189056 ACTTAACATT
1189066 ATGAAAAAAAAATA
1 ATGAAAAAAAAATA
1189080 ATG-AAAAAAAATA
1 ATGAAAAAAAAATA
* *
1189093 AAGAAAGAAAAAT
1 ATGAAAAAAAAAT
1189106 GGAGATGAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
13 12 0.52
14 11 0.48
ACGTcount: A:0.78, C:0.00, G:0.10, T:0.12
Consensus pattern (14 bp):
ATGAAAAAAAAATA
Found at i:1197972 original size:7 final size:7
Alignment explanation
Indices: 1197960--1197986 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
1197950 CAGCCTCTCC
1197960 CGGTCTA
1 CGGTCTA
1197967 CGGTCTA
1 CGGTCTA
1197974 CGGTCTA
1 CGGTCTA
1197981 CGGTCT
1 CGGTCT
1197987 TACGATTTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.11, C:0.30, G:0.30, T:0.30
Consensus pattern (7 bp):
CGGTCTA
Found at i:1208320 original size:30 final size:30
Alignment explanation
Indices: 1208277--1208336 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
1208267 ATCCTTGCAC
* * * *
1208277 CAGTCTGTTGACCTCTGGGTCAACTCACAT
1 CAGTCCGTAGACCTATGGGTAAACTCACAT
1208307 CAGTCCGTAGACCTATGGGTAAACTCACAT
1 CAGTCCGTAGACCTATGGGTAAACTCACAT
1208337 GGGTTGACTC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.27
Consensus pattern (30 bp):
CAGTCCGTAGACCTATGGGTAAACTCACAT
Found at i:1209282 original size:3 final size:3
Alignment explanation
Indices: 1209276--1209325 Score: 66
Period size: 3 Copynumber: 16.7 Consensus size: 3
1209266 TTTGTTTTTT
* *
1209276 TTA TTA TTA TTT TTA TTA TTA TTA TTA TTAA ATA TTA TTA TTA -TA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA
1209321 TTA TT
1 TTA TT
1209326 TACAAATAGT
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
2 2 0.05
3 37 0.90
4 2 0.05
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:1209288 original size:15 final size:15
Alignment explanation
Indices: 1209255--1209301 Score: 60
Period size: 15 Copynumber: 3.2 Consensus size: 15
1209245 GTAAACACTA
*
1209255 ATTTTTTTAATT-TT
1 ATTTTTTTTATTATT
*
1209269 GTTTTTTTTATTATT
1 ATTTTTTTTATTATT
*
1209284 ATTTTTATTATTATT
1 ATTTTTTTTATTATT
1209299 ATT
1 ATT
1209302 ATTAAATATT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
14 10 0.36
15 18 0.64
ACGTcount: A:0.21, C:0.00, G:0.02, T:0.77
Consensus pattern (15 bp):
ATTTTTTTTATTATT
Found at i:1209380 original size:26 final size:26
Alignment explanation
Indices: 1209333--1209386 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 26
1209323 ATTTACAAAT
* * * *
1209333 AGTTACAAACCAAACTGGACCGGCCC
1 AGTTACAAACAAAACAGAACCGACCC
1209359 AGTTACAAACAAAACAGAACCGACCC
1 AGTTACAAACAAAACAGAACCGACCC
1209385 AG
1 AG
1209387 ACTAACTAGA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.43, C:0.31, G:0.17, T:0.09
Consensus pattern (26 bp):
AGTTACAAACAAAACAGAACCGACCC
Found at i:1210521 original size:22 final size:22
Alignment explanation
Indices: 1210464--1210541 Score: 74
Period size: 22 Copynumber: 3.6 Consensus size: 22
1210454 TTTATTTCCT
* *
1210464 TTATTTTAATCATTATTTGCAATA
1 TTATTTTAATTATTA-TT-CATTA
1210488 TTATTTT-ATTATT-TT--TTA
1 TTATTTTAATTATTATTCATTA
*
1210506 TTGTTTTAATTATTATTCATTA
1 TTATTTTAATTATTATTCATTA
*
1210528 TTATTTTTATTATT
1 TTATTTTAATTATT
1210542 TATAAAAATA
Statistics
Matches: 45, Mismatches: 5, Indels: 10
0.75 0.08 0.17
Matches are distributed among these distances:
18 8 0.18
19 6 0.13
20 2 0.04
21 2 0.04
22 15 0.33
23 5 0.11
24 7 0.16
ACGTcount: A:0.27, C:0.04, G:0.03, T:0.67
Consensus pattern (22 bp):
TTATTTTAATTATTATTCATTA
Found at i:1210841 original size:27 final size:27
Alignment explanation
Indices: 1210810--1210862 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
1210800 CCTTTTCTGA
1210810 TATTTCTAAATAAATAAATATTTTATT
1 TATTTCTAAATAAATAAATATTTTATT
* * * *
1210837 TATTTTTATATAAATATATTTTTTAT
1 TATTTCTAAATAAATAAATATTTTAT
1210863 ATAATTATAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (27 bp):
TATTTCTAAATAAATAAATATTTTATT
Found at i:1210859 original size:17 final size:17
Alignment explanation
Indices: 1210839--1210871 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
1210829 ATTTTATTTA
1210839 TTTTTATATAAATATAT
1 TTTTTATATAAATATAT
*
1210856 TTTTTATATAATTATA
1 TTTTTATATAAATATA
1210872 ACTTTGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (17 bp):
TTTTTATATAAATATAT
Found at i:1213484 original size:114 final size:114
Alignment explanation
Indices: 1213284--1213501 Score: 373
Period size: 114 Copynumber: 1.9 Consensus size: 114
1213274 CGTTCTCGTA
* *
1213284 GTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGG
1 GTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTATTCTTTGAGTTATCTGATCTGGTTCGG
* *
1213349 TATGAACCCCAAAACCAATCATTGGATTTGAAAGATGAATTTCCTCATG
66 TAGGAACCCCAAAACCAATCATTGGAATTGAAAGATGAATTTCCTCATG
* *
1213398 GTAGAAATAAGGAGGCCCAATAGCATCTTCTGGAAGTATTCTTTGAGTTATCTGATCTGGTTCGG
1 GTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTATTCTTTGAGTTATCTGATCTGGTTCGG
*
1213463 TAGGAACCCCAGAACCAATCATTGGAATTGAAAGATGAA
66 TAGGAACCCCAAAACCAATCATTGGAATTGAAAGATGAA
1213502 CTGCATGATC
Statistics
Matches: 97, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
114 97 1.00
ACGTcount: A:0.32, C:0.17, G:0.22, T:0.29
Consensus pattern (114 bp):
GTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTATTCTTTGAGTTATCTGATCTGGTTCGG
TAGGAACCCCAAAACCAATCATTGGAATTGAAAGATGAATTTCCTCATG
Found at i:1215649 original size:54 final size:54
Alignment explanation
Indices: 1215562--1215835 Score: 404
Period size: 54 Copynumber: 5.1 Consensus size: 54
1215552 CAATGATTGA
** *
1215562 GAACATCTGAGCAGAAACCACAGGAAATAATGAATATGTTGTCAAATGTTTTAC
1 GAACATCTGAGCAGAAACCACAGGAAAGGATGAATGTGTTGTCAAATGTTTTAC
* *
1215616 GAACATCTGAGCAGAAACTACAGGAAAGGATGAATGTGTTGTCAAATGTTTTAA
1 GAACATCTGAGCAGAAACCACAGGAAAGGATGAATGTGTTGTCAAATGTTTTAC
* **
1215670 AAACATCTGAGCAGAAACCACAGGAAATAATGAATGTGTTGTCAAATGTTTTAC
1 GAACATCTGAGCAGAAACCACAGGAAAGGATGAATGTGTTGTCAAATGTTTTAC
* * *
1215724 GAACATCTGAGCAGAAACTACAGGAAAGGATGAATGTTTTGTCAAATGTTTTAA
1 GAACATCTGAGCAGAAACCACAGGAAAGGATGAATGTGTTGTCAAATGTTTTAC
* * * **
1215778 AAACATCTGAGCAGAAGCCACAGGAAAGGATGAATGCGCCGTCAAATGTTTTAC
1 GAACATCTGAGCAGAAACCACAGGAAAGGATGAATGTGTTGTCAAATGTTTTAC
1215832 GAAC
1 GAAC
1215836 CTGTTATTCT
Statistics
Matches: 195, Mismatches: 25, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
54 195 1.00
ACGTcount: A:0.39, C:0.15, G:0.22, T:0.24
Consensus pattern (54 bp):
GAACATCTGAGCAGAAACCACAGGAAAGGATGAATGTGTTGTCAAATGTTTTAC
Found at i:1215752 original size:108 final size:108
Alignment explanation
Indices: 1215563--1215835 Score: 474
Period size: 108 Copynumber: 2.5 Consensus size: 108
1215553 AATGATTGAG
*
1215563 AACATCTGAGCAGAAACCACAGGAAATAATGAATATGTTGTCAAATGTTTTACGAACATCTGAGC
1 AACATCTGAGCAGAAACCACAGGAAATAATGAATGTGTTGTCAAATGTTTTACGAACATCTGAGC
1215628 AGAAACTACAGGAAAGGATGAATGTGTTGTCAAATGTTTTAAA
66 AGAAACTACAGGAAAGGATGAATGTGTTGTCAAATGTTTTAAA
1215671 AACATCTGAGCAGAAACCACAGGAAATAATGAATGTGTTGTCAAATGTTTTACGAACATCTGAGC
1 AACATCTGAGCAGAAACCACAGGAAATAATGAATGTGTTGTCAAATGTTTTACGAACATCTGAGC
*
1215736 AGAAACTACAGGAAAGGATGAATGTTTTGTCAAATGTTTTAAA
66 AGAAACTACAGGAAAGGATGAATGTGTTGTCAAATGTTTTAAA
* ** * **
1215779 AACATCTGAGCAGAAGCCACAGGAAAGGATGAATGCGCCGTCAAATGTTTTACGAAC
1 AACATCTGAGCAGAAACCACAGGAAATAATGAATGTGTTGTCAAATGTTTTACGAAC
1215836 CTGTTATTCT
Statistics
Matches: 157, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
108 157 1.00
ACGTcount: A:0.40, C:0.15, G:0.21, T:0.25
Consensus pattern (108 bp):
AACATCTGAGCAGAAACCACAGGAAATAATGAATGTGTTGTCAAATGTTTTACGAACATCTGAGC
AGAAACTACAGGAAAGGATGAATGTGTTGTCAAATGTTTTAAA
Found at i:1216225 original size:22 final size:22
Alignment explanation
Indices: 1216196--1216250 Score: 92
Period size: 22 Copynumber: 2.5 Consensus size: 22
1216186 ATCTACACTC
*
1216196 TTCAAAGATGATAGATTCTCTT
1 TTCAAAGATGACAGATTCTCTT
*
1216218 TTTAAAGATGACAGATTCTCTT
1 TTCAAAGATGACAGATTCTCTT
1216240 TTCAAAGATGA
1 TTCAAAGATGA
1216251 AAACTTTATG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.15, T:0.38
Consensus pattern (22 bp):
TTCAAAGATGACAGATTCTCTT
Found at i:1217073 original size:76 final size:76
Alignment explanation
Indices: 1216928--1218098 Score: 2103
Period size: 76 Copynumber: 15.4 Consensus size: 76
1216918 CTATTTCCTA
1216928 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCC-AAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
1216993 AAGCCTTCGGGT
65 AAGCCTTCGGGT
1217005 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1217070 AGCCTTCGGGT
66 AGCCTTCGGGT
** *
1217081 CATCTGTAAGTTATTCAGTGCATGATATTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
1217146 TA-CCGTCGGGT
66 -AGCCTTCGGGT
*
1217157 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1217222 AGCCTTCGGGT
66 AGCCTTCGGGT
**
1217233 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAATCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1217298 AGCCTTCGGGT
66 AGCCTTCGGGT
1217309 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
1217374 AACCTTCGGGT
66 AGCCTTCGGGT
* *
1217385 CATCTGTAAGCCCTTCAGTGCATGATATTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
1217450 AACCTTCGGGT
66 AGCCTTCGGGT
* *
1217461 CAACTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1217526 AGCCTTCGGGT
66 AGCCTTCGGGT
1217537 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1217602 AGCCTTCGGGT
66 AGCCTTCGGGT
1217613 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
1217678 AACCTTCGGGT
66 AGCCTTCGGGT
* * *
1217689 CATCTGTAAGCCCTTCAGTGCATGATATTTCCAAAAAGCCTTCGGGTGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
1217754 AACCTTCGGGT
66 AGCCTTCGGGT
* *
1217765 CATCTGTAA-CCCTTCAGTGCATGATATTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1217829 AGCCTTCGGGT
66 AGCCTTCGGGT
*
1217840 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1217905 AGCCTTCGGGT
66 AGCCTTCGGGT
*
1217916 CATCTGTAAGTTCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1217981 AGCCTTCGGGT
66 AGCCTTCGGGT
1217992 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCC-AAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
1218057 AAGCCTTCGGGT
65 AAGCCTTCGGGT
1218069 CATCTGTAAGTCCTTCAGTGCATGATGTTT
1 CATCTGTAAGTCCTTCAGTGCATGATGTTT
1218099 TTAAGACCTC
Statistics
Matches: 1058, Mismatches: 32, Indels: 8
0.96 0.03 0.01
Matches are distributed among these distances:
75 74 0.07
76 877 0.83
77 107 0.10
ACGTcount: A:0.22, C:0.21, G:0.21, T:0.35
Consensus pattern (76 bp):
CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
AGCCTTCGGGT
Found at i:1218243 original size:3 final size:3
Alignment explanation
Indices: 1218237--1218289 Score: 72
Period size: 3 Copynumber: 17.7 Consensus size: 3
1218227 TTTATTTTTG
* *
1218237 TTA TTA TTA TTA TTA TTA TTT TTA TTA TTA TTAA ATA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA
1218283 -TA TTA TT
1 TTA TTA TT
1218290 TACAAACAGT
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
2 2 0.05
3 40 0.91
4 2 0.05
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:1218344 original size:26 final size:26
Alignment explanation
Indices: 1218296--1218349 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 26
1218286 TATTTACAAA
* * * *
1218296 CAGTTACAAACCAAACTGGACCGGCC
1 CAGTTACAAACAAAACAGAACCGACC
1218322 CAGTTACAAACAAAACAGAACCGACC
1 CAGTTACAAACAAAACAGAACCGACC
1218348 CA
1 CA
1218350 TACTAACTAG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.43, C:0.33, G:0.15, T:0.09
Consensus pattern (26 bp):
CAGTTACAAACAAAACAGAACCGACC
Found at i:1219687 original size:3 final size:3
Alignment explanation
Indices: 1219674--1219738 Score: 52
Period size: 3 Copynumber: 23.3 Consensus size: 3
1219664 TTATTTGCAA
*
1219674 TAT TAT T-T TAT TAT TAT TAT T-T T-T TAT TGT T-T TAAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT TAT TAT
* *
1219716 T-T CAT TGT TAT TAT T-T TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT T
1219739 TATAAAAATA
Statistics
Matches: 51, Mismatches: 5, Indels: 12
0.75 0.07 0.18
Matches are distributed among these distances:
2 11 0.22
3 38 0.75
4 2 0.04
ACGTcount: A:0.25, C:0.02, G:0.03, T:0.71
Consensus pattern (3 bp):
TAT
Found at i:1219694 original size:48 final size:47
Alignment explanation
Indices: 1219637--1219738 Score: 109
Period size: 48 Copynumber: 2.1 Consensus size: 47
1219627 TTTAATACTA
*
1219637 TATTTTTATTTCCTT-TTATTTTAATCATTATTTGCAATATTATT-TTAT
1 TATTATTATTT-CTTATTATTTTAATCATTATTT-CAATATTATTATT-T
* * * * *
1219685 TATTATTATTTTTTATTGTTTTAATTATTATTTCATTGTTATTATTT
1 TATTATTATTTCTTATTATTTTAATCATTATTTCAATATTATTATTT
1219732 TATTATT
1 TATTATT
1219739 TATAAAAATA
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
47 18 0.39
48 28 0.61
ACGTcount: A:0.25, C:0.05, G:0.03, T:0.68
Consensus pattern (47 bp):
TATTATTATTTCTTATTATTTTAATCATTATTTCAATATTATTATTT
Found at i:1219734 original size:22 final size:22
Alignment explanation
Indices: 1219681--1219739 Score: 70
Period size: 22 Copynumber: 2.8 Consensus size: 22
1219671 CAATATTATT
*
1219681 TTATTATTATTATT-TTTTATTG
1 TTATTATT-TTATTATTTCATTG
*
1219703 TT-TTA-ATTATTATTTCATTG
1 TTATTATTTTATTATTTCATTG
1219723 TTATTATTTTATTATTT
1 TTATTATTTTATTATTT
1219740 ATAAAAATAA
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
19 5 0.16
20 9 0.29
21 6 0.19
22 11 0.35
ACGTcount: A:0.24, C:0.02, G:0.03, T:0.71
Consensus pattern (22 bp):
TTATTATTTTATTATTTCATTG
Found at i:1220067 original size:18 final size:17
Alignment explanation
Indices: 1220042--1220080 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
1220032 ATATTTTATT
1220042 TATATTTTATATATAAA
1 TATATTTTATATATAAA
* *
1220059 TATATTTTTTTATATAAT
1 TATA-TTTTATATATAAA
1220077 TATA
1 TATA
1220081 ACTTTGAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 4 0.21
18 15 0.79
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
TATATTTTATATATAAA
Found at i:1220080 original size:26 final size:26
Alignment explanation
Indices: 1220028--1220080 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
1220018 TTCTAAATAA
**
1220028 ATAAATATTTTATTTATATTTTATAT
1 ATAAATATTTTATTTATATAATATAT
*
1220054 ATAAATATATTTTTTTATATAAT-TAT
1 ATAAATAT-TTTATTTATATAATATAT
1220080 A
1 A
1220081 ACTTTGAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
26 12 0.52
27 11 0.48
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (26 bp):
ATAAATATTTTATTTATATAATATAT
Found at i:1222524 original size:31 final size:31
Alignment explanation
Indices: 1222489--1222566 Score: 84
Period size: 31 Copynumber: 2.5 Consensus size: 31
1222479 AAAAAAAACA
*
1222489 TAAGTTTTGGTAACTTACGTTATCATTTTAT
1 TAAGTTTTGATAACTTACGTTATCATTTTAT
* * * * **
1222520 TAAGTTTTCATCAGTTACTTTATTGTTTTAT
1 TAAGTTTTGATAACTTACGTTATCATTTTAT
*
1222551 TAAGTTTTGATCACTT
1 TAAGTTTTGATAACTT
1222567 GGACATTGAA
Statistics
Matches: 38, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
31 38 1.00
ACGTcount: A:0.24, C:0.10, G:0.12, T:0.54
Consensus pattern (31 bp):
TAAGTTTTGATAACTTACGTTATCATTTTAT
Found at i:1223974 original size:31 final size:31
Alignment explanation
Indices: 1223939--1224016 Score: 95
Period size: 31 Copynumber: 2.5 Consensus size: 31
1223929 TTCAACGTCC
* *
1223939 AAGTGACTAAAACTTAATAAAACGATAATA-T
1 AAGTGACCAAAACTTAATAAAACAATAA-AGT
* * *
1223970 AAGTGACCGAGACTTAATATAACAATAAAGT
1 AAGTGACCAAAACTTAATAAAACAATAAAGT
1224001 AAGTGACCAAAACTTA
1 AAGTGACCAAAACTTA
1224017 TTTTTTTTGA
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
30 1 0.03
31 38 0.97
ACGTcount: A:0.51, C:0.13, G:0.13, T:0.23
Consensus pattern (31 bp):
AAGTGACCAAAACTTAATAAAACAATAAAGT
Found at i:1224371 original size:20 final size:19
Alignment explanation
Indices: 1224346--1224387 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
1224336 TGAAATTTTG
*
1224346 TAAATTCAAGTTCGTTACCT
1 TAAATTCAAATTC-TTACCT
*
1224366 TAAATTCAAATTCTTAGCT
1 TAAATTCAAATTCTTACCT
1224385 TAA
1 TAA
1224388 CATAAAATCT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 8 0.40
20 12 0.60
ACGTcount: A:0.36, C:0.17, G:0.07, T:0.40
Consensus pattern (19 bp):
TAAATTCAAATTCTTACCT
Found at i:1234038 original size:15 final size:17
Alignment explanation
Indices: 1234006--1234038 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
1233996 TAATGCCTTG
1234006 TTGGGTCATGTGAGTTT
1 TTGGGTCATGTGAGTTT
1234023 TTGGGTC-TGT-AGTTT
1 TTGGGTCATGTGAGTTT
1234038 T
1 T
1234039 GCAAACTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.38
16 3 0.19
17 7 0.44
ACGTcount: A:0.09, C:0.06, G:0.33, T:0.52
Consensus pattern (17 bp):
TTGGGTCATGTGAGTTT
Found at i:1240244 original size:67 final size:67
Alignment explanation
Indices: 1240127--1240257 Score: 217
Period size: 67 Copynumber: 2.0 Consensus size: 67
1240117 ATTACAAAGT
* *
1240127 AATATATGTTCAAAACCTTTCTTAACCATTAAAAACGTACACACGCATGCAAACACAGTTACTTG
1 AATACATGCTCAAAACCTTTCTTAACCATTAAAAACGTACACACGCATGCAAACACAGTTACTTG
1240192 AA
66 AA
* **
1240194 AATACATGCTCAAAACCTTTCTTAACCATTGAAAACGTACTGACGCATGCAAACACAGTTACTT
1 AATACATGCTCAAAACCTTTCTTAACCATTAAAAACGTACACACGCATGCAAACACAGTTACTT
1240258 AAACCCACGA
Statistics
Matches: 59, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
67 59 1.00
ACGTcount: A:0.40, C:0.24, G:0.10, T:0.27
Consensus pattern (67 bp):
AATACATGCTCAAAACCTTTCTTAACCATTAAAAACGTACACACGCATGCAAACACAGTTACTTG
AA
Found at i:1240355 original size:4 final size:4
Alignment explanation
Indices: 1240346--1243189 Score: 5055
Period size: 4 Copynumber: 724.8 Consensus size: 4
1240336 ACCACATATG
1240346 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1240394 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1240442 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
* *
1240490 ACAT ACAT ACAC ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ATAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
* * * *
1240538 ACAT ACAT ACAT ACAT GCCT ACAT ACAT GCAT GCAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1240586 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
* * * *
1240634 ACAT ACAC ACAT ACAT ACAT ACAC ACAC ACAC ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1240682 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
*
1240730 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAC
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
*
1240778 ACAT ACAT ACAT ACAC ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
* * *
1240826 ACAT ATAT ACAT AC-- ACAT ACAT ACAT GCAT GCAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
*
1240872 ATAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
* * * *
1240920 ACAT GCCT ACAT ACAT GCAT GCAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
*
1240968 ACAT ACAT ACAT ACAT ACAT ACAC ACAT ACAT ACAT ACAT A-AT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1241015 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT --AT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1241061 ACAT ACAT ACAT -CAT ACAT ACAT ACAT AC-T ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1241107 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1241155 ACAT ACAT ACAT AC-- ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1241201 ACAT AC-T ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1241248 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1241296 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1241344 ACAT AC-- ACAT ACAT ACAT --AT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1241388 ACAT ACAT -CAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1241435 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1241483 ACAT AC-T ACAT ACAT ACAT ACAT ACAT ACAT --AT ACAT ACAT -CAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1241527 ACAT ACAT --AT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1241573 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
*
1241621 AC-- ACAT ACAT ACAT ACAT ACAC ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1241667 ACAT ACAT ACAT AC-T ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1241714 ACAT ACAT AC-T ACAT ACAT ACAT ACAT ACAT AC-T ACAT AC-T ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1241759 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1241807 ACAT ACAT AC-T ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1241854 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT AC-T ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1241901 ACAT ACAT AC-- ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1241947 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT AC-T ACAT ACAT AC-T
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1241993 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1242041 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1242089 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACA-
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1242136 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1242184 ACAT AC-T ACAT ACAT -CAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1242230 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT --AT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1242276 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1242324 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1242372 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT CACAT AC-T ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT -ACAT ACAT ACAT ACAT
1242420 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1242468 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1242516 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1242564 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1242612 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1242660 ACAT ACAT ACA- ACAT ACAT ACAT ACAT ACA- ACAT ACAT ACCAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT A-CAT ACAT
*
1242707 ACAT AC-T ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACCT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1242754 ACAT -CAT ACAT --AT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1242799 ACAT ACAT ACAT AC-- ACAT ACAT ACAT ACAT ACAT ACA- ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1242844 ACAT AC-T ACAT ACAT ACAT ACAT AC-T ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1242890 ACAT ACAT ACAT ACAT ACAT ACAT AC-- ACAT ACAT ACAT ACAT ACA-
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1242935 ACAT ACAT ACAT ACAT ACAT ACAT ACA- ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1242982 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1243030 ACAT ACAT A-AT ACAT ACAT ACAT ACAT ACAT AC-T ACAT AC-T ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1243075 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1243123 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
*
1243171 ACAT ACAT ACAT TCAT ACA
1 ACAT ACAT ACAT ACAT ACA
1243190 AAATATGGGT
Statistics
Matches: 2743, Mismatches: 38, Indels: 118
0.95 0.01 0.04
Matches are distributed among these distances:
2 26 0.01
3 93 0.03
4 2616 0.95
5 8 0.00
ACGTcount: A:0.49, C:0.26, G:0.00, T:0.25
Consensus pattern (4 bp):
ACAT
Found at i:1244495 original size:2 final size:2
Alignment explanation
Indices: 1244488--1244567 Score: 144
Period size: 2 Copynumber: 40.0 Consensus size: 2
1244478 ATTTAAGTTG
1244488 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1244530 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT CAT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT
1244568 TTAAAATTAT
Statistics
Matches: 76, Mismatches: 0, Indels: 4
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.01
2 73 0.96
3 2 0.03
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1246299 original size:20 final size:20
Alignment explanation
Indices: 1246239--1246303 Score: 67
Period size: 20 Copynumber: 3.2 Consensus size: 20
1246229 AAACTATTCG
*
1246239 TGGGTATCGATACTAAGCTCC
1 TGGGTATCGATACTAACCT-C
** * **
1246260 TTAGTATCGATATTGGCCTC
1 TGGGTATCGATACTAACCTC
1246280 TGGGTATCGATACTAACCTC
1 TGGGTATCGATACTAACCTC
1246300 TGGG
1 TGGG
1246304 AATTGATATC
Statistics
Matches: 33, Mismatches: 11, Indels: 1
0.73 0.24 0.02
Matches are distributed among these distances:
20 20 0.61
21 13 0.39
ACGTcount: A:0.22, C:0.22, G:0.25, T:0.32
Consensus pattern (20 bp):
TGGGTATCGATACTAACCTC
Found at i:1257495 original size:24 final size:23
Alignment explanation
Indices: 1257445--1257496 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 23
1257435 GATTGTTTAT
* *
1257445 AAAGAAAGTAATTTAAAGACAAT
1 AAAGAAAGTAATTTAAAGAAAAG
*
1257468 AAAGAAAGTAATTTTAAGGAAAAG
1 AAAGAAAGTAA-TTTAAAGAAAAG
1257492 AAAGA
1 AAAGA
1257497 TGAAAATTCT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
23 11 0.44
24 14 0.56
ACGTcount: A:0.62, C:0.02, G:0.17, T:0.19
Consensus pattern (23 bp):
AAAGAAAGTAATTTAAAGAAAAG
Found at i:1265450 original size:24 final size:22
Alignment explanation
Indices: 1265415--1265490 Score: 64
Period size: 24 Copynumber: 3.2 Consensus size: 22
1265405 ATATATATAT
*
1265415 TGAA-AATGTGAAAAAGTTTGA
1 TGAAGAATTTGAAAAAGTTTGA
* *
1265436 TGAAGAAGTTTTGAAAATGTTTTA
1 TGAAGAA--TTTGAAAAAGTTTGA
1265460 TGAAAGAATTTGAAAAAAATGTTTGA
1 TG-AAGAATTTG--AAAAA-GTTTGA
1265486 TGAAG
1 TGAAG
1265491 TTTTTTGAAA
Statistics
Matches: 43, Mismatches: 5, Indels: 10
0.74 0.09 0.17
Matches are distributed among these distances:
21 4 0.09
22 2 0.05
23 4 0.09
24 14 0.33
25 12 0.28
26 7 0.16
ACGTcount: A:0.45, C:0.00, G:0.22, T:0.33
Consensus pattern (22 bp):
TGAAGAATTTGAAAAAGTTTGA
Found at i:1265520 original size:23 final size:24
Alignment explanation
Indices: 1265474--1265527 Score: 74
Period size: 24 Copynumber: 2.3 Consensus size: 24
1265464 AGAATTTGAA
* * *
1265474 AAAAATGTTTGATGAAGTTTTTTG
1 AAAAATGATTGATAAAGTTGTTTG
1265498 AAAAATGATTGATAAAG-TGTTTG
1 AAAAATGATTGATAAAGTTGTTTG
1265521 AAAAATG
1 AAAAATG
1265528 GTGCCTCTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
23 12 0.44
24 15 0.56
ACGTcount: A:0.43, C:0.00, G:0.20, T:0.37
Consensus pattern (24 bp):
AAAAATGATTGATAAAGTTGTTTG
Found at i:1265521 original size:49 final size:49
Alignment explanation
Indices: 1265425--1265525 Score: 116
Period size: 49 Copynumber: 2.1 Consensus size: 49
1265415 TGAAAATGTG
* *
1265425 AAAAAGTTTGATGAAGAAGTTTTGAAAATGTTTTATGAAAGAATTTGAA
1 AAAAAGTTTGATGAAGAAGTTTTGAAAATGATTGATGAAAGAATTTGAA
** **
1265474 AAAAATGTTTGATGAAG-TTTTTTGAAAAATGATTGAT-AAAGTGTTTGAA
1 AAAAA-GTTTGATGAAGAAGTTTTG-AAAATGATTGATGAAAGAATTTGAA
1265523 AAA
1 AAA
1265526 TGGTGCCTCT
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
49 23 0.52
50 21 0.48
ACGTcount: A:0.45, C:0.00, G:0.20, T:0.36
Consensus pattern (49 bp):
AAAAAGTTTGATGAAGAAGTTTTGAAAATGATTGATGAAAGAATTTGAA
Found at i:1267416 original size:81 final size:81
Alignment explanation
Indices: 1267275--1267771 Score: 649
Period size: 81 Copynumber: 6.1 Consensus size: 81
1267265 CGTTATGAAT
* * * * * *
1267275 TTAATCTTTTATTCCAAATGCATTCAACCTTTCATCTAACTTGCATGATTGACACCTTTCTACCA
1 TTAATCTTTTACT-CAAAGGTATTTAACCTTTCATCTAACTTGCATGATTGACACATTTCTGCCA
* * *
1267340 AATGCACAGCTATGCCA
65 AATGCACAACTAGGCTA
*
1267357 TTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTTGCATGGTTGACACATTTCTGCCAA
1 TTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTTGCATGATTGACACATTTCTGCCAA
*
1267422 ATGCACAGCTAGGCTA
66 ATGCACAACTAGGCTA
* * * * * * *
1267438 TTAATCTATTACTCAATGGTATTTAACATTTCATCTAA-TTGGCATAATTGAGACCTTTCTGTCA
1 TTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTT-GCATGATTGACACATTTCTGCCA
* *
1267502 AATGCAGAACTAGACTA
65 AATGCACAACTAGGCTA
* * *
1267519 TTAATCTTTTACTGAAAGGTATTTAACCTTTCATCTAACTTGCATGATTGACACCTTTCTGTCAA
1 TTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTTGCATGATTGACACATTTCTGCCAA
* *
1267584 ATGCATAACTAAGCTA
66 ATGCACAACTAGGCTA
** * * *
1267600 TTAATCTTTTACTCAAATATATTTAACCTTTCATCTAACTGGCATGATTGACACATTTATTCCAA
1 TTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTTGCATGATTGACACATTTCTGCCAA
1267665 ATGCACAACTAGGCTA
66 ATGCACAACTAGGCTA
*
1267681 TTAATCTTTTACTCAAAGGTATTTAACATTTCATCTAAC-TGCATGATTGACACATTTCTGCCAA
1 TTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTTGCATGATTGACACATTTCTGCCAA
*
1267745 ATGCACAGCTAGGCGT-
66 ATGCACAACTAGGC-TA
*
1267761 TTAATTTTTTA
1 TTAATCTTTTA
1267772 TTTTAAAACA
Statistics
Matches: 365, Mismatches: 47, Indels: 8
0.87 0.11 0.02
Matches are distributed among these distances:
80 47 0.13
81 304 0.83
82 14 0.04
ACGTcount: A:0.31, C:0.21, G:0.11, T:0.37
Consensus pattern (81 bp):
TTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTTGCATGATTGACACATTTCTGCCAA
ATGCACAACTAGGCTA
Found at i:1272023 original size:20 final size:20
Alignment explanation
Indices: 1272000--1272047 Score: 96
Period size: 20 Copynumber: 2.4 Consensus size: 20
1271990 TATGGCATAT
1272000 TTTCATGCCTTAATGCATCC
1 TTTCATGCCTTAATGCATCC
1272020 TTTCATGCCTTAATGCATCC
1 TTTCATGCCTTAATGCATCC
1272040 TTTCATGC
1 TTTCATGC
1272048 ATTTTATTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.19, C:0.29, G:0.10, T:0.42
Consensus pattern (20 bp):
TTTCATGCCTTAATGCATCC
Found at i:1272107 original size:45 final size:47
Alignment explanation
Indices: 1272014--1272140 Score: 156
Period size: 45 Copynumber: 2.8 Consensus size: 47
1272004 ATGCCTTAAT
* * * **
1272014 GCATCCTTTCATGCC-TTAATGCATCCTTTCATGCATTTTATTTATG
1 GCATCCTTTCATGCCAATAATGCATCCTATCATGCATTTCAGCTATG
1272060 GCATCCTTTCATGCCAATAATGCAT-CTAT-ATGCATTTCAGCTATG
1 GCATCCTTTCATGCCAATAATGCATCCTATCATGCATTTCAGCTATG
* *
1272105 GCATCCTTTCATTCCAATAATGCA-CCCATC-TGCATT
1 GCATCCTTTCATGCCAATAATGCATCCTATCATGCATT
1272141 ATTATGTTAT
Statistics
Matches: 71, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
45 45 0.63
46 18 0.25
47 8 0.11
ACGTcount: A:0.24, C:0.27, G:0.11, T:0.39
Consensus pattern (47 bp):
GCATCCTTTCATGCCAATAATGCATCCTATCATGCATTTCAGCTATG
Found at i:1272159 original size:34 final size:34
Alignment explanation
Indices: 1272121--1272366 Score: 215
Period size: 34 Copynumber: 6.6 Consensus size: 34
1272111 TTTCATTCCA
* *
1272121 ATAATGCACCCATCTGCATTATTATGTTATGCCG
1 ATAATGCACCCATATGCATTATTATTTTATGCCG
1272155 ATAATGCACCCATATGCATTTAACCTATGGCATCATTTCATGCC-
1 ATAATGCACCCATATGCA-TT-A--T-T---AT--TTT-ATGCCG
*
1272199 ATTAATGCACCCATATGCATTATTCTTTTATGCCG
1 A-TAATGCACCCATATGCATTATTATTTTATGCCG
*
1272234 ATAATGCACCCATATGCATTTAAGCTATGACATCCTTTCATGCCA
1 ATAATGCACCCATATGCA-TT-A--T-T---AT--TTT-ATGCCG
*
1272279 ATAATGCACCCATATGCATTATTCTTTTATGCCG
1 ATAATGCACCCATATGCATTATTATTTTATGCCG
* *
1272313 ATAATGCACCCATATGCATTATTCTTTTATACCG
1 ATAATGCACCCATATGCATTATTATTTTATGCCG
1272347 ATAATGCACCCATATGCATT
1 ATAATGCACCCATATGCATT
1272367 TTAGCTATGG
Statistics
Matches: 180, Mismatches: 8, Indels: 48
0.76 0.03 0.20
Matches are distributed among these distances:
34 97 0.54
35 11 0.06
36 2 0.01
37 2 0.01
38 2 0.01
39 2 0.01
40 2 0.01
41 2 0.01
42 3 0.02
43 2 0.01
44 10 0.06
45 45 0.25
ACGTcount: A:0.29, C:0.25, G:0.11, T:0.35
Consensus pattern (34 bp):
ATAATGCACCCATATGCATTATTATTTTATGCCG
Found at i:1272161 original size:79 final size:79
Alignment explanation
Indices: 1272065--1272332 Score: 419
Period size: 79 Copynumber: 3.4 Consensus size: 79
1272055 TTATGGCATC
* * * * * *
1272065 CTTTCATGCCAATAATGCATCTATATGCATTTCAGCTATGGCATCCTTTCATTCCAATAATGCAC
1 CTTTTATGCCGATAATGCACCCATATGCATTTAAGCTATGGCATCCTTTCATGCCAATAATGCAC
*
1272130 CCATCTGCATTATT
66 CCATATGCATTATT
* * * * *
1272144 ATGTTATGCCGATAATGCACCCATATGCATTTAACCTATGGCATCATTTCATGCCATTAATGCAC
1 CTTTTATGCCGATAATGCACCCATATGCATTTAAGCTATGGCATCCTTTCATGCCAATAATGCAC
1272209 CCATATGCATTATT
66 CCATATGCATTATT
*
1272223 CTTTTATGCCGATAATGCACCCATATGCATTTAAGCTATGACATCCTTTCATGCCAATAATGCAC
1 CTTTTATGCCGATAATGCACCCATATGCATTTAAGCTATGGCATCCTTTCATGCCAATAATGCAC
1272288 CCATATGCATTATT
66 CCATATGCATTATT
1272302 CTTTTATGCCGATAATGCACCCATATGCATT
1 CTTTTATGCCGATAATGCACCCATATGCATT
1272333 ATTCTTTTAT
Statistics
Matches: 171, Mismatches: 18, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
79 171 1.00
ACGTcount: A:0.28, C:0.25, G:0.12, T:0.35
Consensus pattern (79 bp):
CTTTTATGCCGATAATGCACCCATATGCATTTAAGCTATGGCATCCTTTCATGCCAATAATGCAC
CCATATGCATTATT
Found at i:1272205 original size:45 final size:41
Alignment explanation
Indices: 1272149--1272588 Score: 224
Period size: 45 Copynumber: 10.6 Consensus size: 41
1272139 TTATTATGTT
1272149 ATGCCGATAATGCACCCATATGCATTTAACCTATGGCATCATTTC
1 ATGCC-ATAATGCACCCATATGCATTTAA-CTAT-GCATC-TTTC
1272194 ATGCCATTAATGCACCCATATGCA-TT-A-T-T-C-T-TTT-
1 ATGCCA-TAATGCACCCATATGCATTTAACTATGCATCTTTC
1272228 ATGCCGATAATGCACCCATATGCATTTAAGCTATGACATCCTTTC
1 ATGCC-ATAATGCACCCATATGCATTTAA-CTATG-CAT-CTTTC
1272273 ATGCCAATAATGCACCCATATGCA-TT-A-T-T-C-T-TTT-
1 ATGCC-ATAATGCACCCATATGCATTTAACTATGCATCTTTC
1272307 ATGCCGATAATGCACCCATATGCA-TT-A-T-T-C-T-TTT-
1 ATGCC-ATAATGCACCCATATGCATTTAACTATGCATCTTTC
* *
1272341 ATACCGATAATGCACCCATATGCATTTTAGCTATGGCATCCTTTC
1 ATGCC-ATAATGCACCCATATGCA-TTTAACTAT-GCAT-CTTTC
* * *
1272386 ATGCCAATAATGCACCCATATGCCAATAATGCACCCATATGCATTATTCTTTT
1 ATGCC-ATAATGCACCCATATG-C-AT--T-TA-AC-TATGC---A-TCTTTC
* *
1272439 ATGCCGATAATGCACCCATATGCATTTCAGCTATGGAATCCTTTC
1 ATGCC-ATAATGCACCCATATGCATTT-AACTAT-GCAT-CTTTC
*
1272484 ATGCCAATATTGCACCCATATGCA-TT-A-T-T-C-T-TTT-
1 ATGCC-ATAATGCACCCATATGCATTTAACTATGCATCTTTC
* * *
1272518 ATACCGATAATGCACCTATATGCATTTCAGCTATGACATCCTTTC
1 ATGCC-ATAATGCACCCATATGCATTT-AACTATG-CAT-CTTTC
1272563 ATGCCAATAATGCACCCATATGCATT
1 ATGCC-ATAATGCACCCATATGCATT
1272589 ATTCTTTTAT
Statistics
Matches: 320, Mismatches: 26, Indels: 98
0.72 0.06 0.22
Matches are distributed among these distances:
34 98 0.31
35 14 0.04
36 3 0.01
37 3 0.01
38 5 0.02
39 3 0.01
40 3 0.01
41 6 0.02
42 3 0.01
43 2 0.01
44 17 0.05
45 115 0.36
46 2 0.01
47 4 0.01
48 3 0.01
49 3 0.01
50 3 0.01
51 5 0.02
52 1 0.00
53 26 0.08
54 1 0.00
ACGTcount: A:0.29, C:0.26, G:0.12, T:0.34
Consensus pattern (41 bp):
ATGCCATAATGCACCCATATGCATTTAACTATGCATCTTTC
Found at i:1272329 original size:113 final size:113
Alignment explanation
Indices: 1272201--1272408 Score: 389
Period size: 113 Copynumber: 1.8 Consensus size: 113
1272191 TTCATGCCAT
*
1272201 TAATGCACCCATATGCATTATTCTTTTATGCCGATAATGCACCCATATGCATTTAAGCTATGACA
1 TAATGCACCCATATGCATTATTCTTTTATACCGATAATGCACCCATATGCATTTAAGCTATGACA
1272266 TCCTTTCATGCCAATAATGCACCCATATGCATTATTCTTTTATGCCGA
66 TCCTTTCATGCCAATAATGCACCCATATGCATTATTCTTTTATGCCGA
* *
1272314 TAATGCACCCATATGCATTATTCTTTTATACCGATAATGCACCCATATGCATTTTAGCTATGGCA
1 TAATGCACCCATATGCATTATTCTTTTATACCGATAATGCACCCATATGCATTTAAGCTATGACA
1272379 TCCTTTCATGCCAATAATGCACCCATATGC
66 TCCTTTCATGCCAATAATGCACCCATATGC
1272409 CAATAATGCA
Statistics
Matches: 92, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
113 92 1.00
ACGTcount: A:0.28, C:0.25, G:0.12, T:0.35
Consensus pattern (113 bp):
TAATGCACCCATATGCATTATTCTTTTATACCGATAATGCACCCATATGCATTTAAGCTATGACA
TCCTTTCATGCCAATAATGCACCCATATGCATTATTCTTTTATGCCGA
Found at i:1272410 original size:19 final size:19
Alignment explanation
Indices: 1272386--1272427 Score: 84
Period size: 19 Copynumber: 2.2 Consensus size: 19
1272376 GCATCCTTTC
1272386 ATGCCAATAATGCACCCAT
1 ATGCCAATAATGCACCCAT
1272405 ATGCCAATAATGCACCCAT
1 ATGCCAATAATGCACCCAT
1272424 ATGC
1 ATGC
1272428 ATTATTCTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.36, C:0.31, G:0.12, T:0.21
Consensus pattern (19 bp):
ATGCCAATAATGCACCCAT
Found at i:1272422 original size:98 final size:98
Alignment explanation
Indices: 1272306--1272506 Score: 357
Period size: 98 Copynumber: 2.1 Consensus size: 98
1272296 ATTATTCTTT
* *
1272306 TATGCCGATAATGCACCCATATGCATTATTCTTTTATACCGATAATGCACCCATATGCATTTTAG
1 TATGCCAATAATGCACCCATATGCATTATTCTTTTATACCGATAATGCACCCATATGCATTTCAG
*
1272371 CTATGGCATCCTTTCATGCCAATAATGCACCCA
66 CTATGGAATCCTTTCATGCCAATAATGCACCCA
*
1272404 TATGCCAATAATGCACCCATATGCATTATTCTTTTATGCCGATAATGCACCCATATGCATTTCAG
1 TATGCCAATAATGCACCCATATGCATTATTCTTTTATACCGATAATGCACCCATATGCATTTCAG
*
1272469 CTATGGAATCCTTTCATGCCAATATTGCACCCA
66 CTATGGAATCCTTTCATGCCAATAATGCACCCA
1272502 TATGC
1 TATGC
1272507 ATTATTCTTT
Statistics
Matches: 98, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
98 98 1.00
ACGTcount: A:0.28, C:0.26, G:0.12, T:0.33
Consensus pattern (98 bp):
TATGCCAATAATGCACCCATATGCATTATTCTTTTATACCGATAATGCACCCATATGCATTTCAG
CTATGGAATCCTTTCATGCCAATAATGCACCCA
Found at i:1272449 original size:34 final size:34
Alignment explanation
Indices: 1272404--1272598 Score: 138
Period size: 34 Copynumber: 5.1 Consensus size: 34
1272394 AATGCACCCA
1272404 TATGCCAATAATGCACCCATATGCATTATTCTTT
1 TATGCCAATAATGCACCCATATGCATTATTCTTT
*
1272438 TATGCCGATAATGCACCCATATGCATTTCAGCTATGGAATCCTTT
1 TATGCCAATAATGCACCCATATGCA--T----TAT----T-CTTT
* *
1272483 CATGCCAATATTGCACCCATATGCATTATTCTTT
1 TATGCCAATAATGCACCCATATGCATTATTCTTT
* * *
1272517 TATACCGATAATGCACCTATATGCATTTCAGCTATGACATCCTT
1 TATGCCAATAATGCACCCATATGCA-TT-A--T-T--C-T--TT
1272561 TCATGCCAATAATGCACCCATATGCATTATTCTTT
1 T-ATGCCAATAATGCACCCATATGCATTATTCTTT
1272596 TAT
1 TAT
1272599 TCATTCTTTA
Statistics
Matches: 127, Mismatches: 12, Indels: 44
0.69 0.07 0.24
Matches are distributed among these distances:
34 50 0.39
35 6 0.05
36 2 0.02
37 1 0.01
38 2 0.02
39 4 0.03
40 4 0.03
41 2 0.02
42 1 0.01
43 2 0.02
44 6 0.05
45 47 0.37
ACGTcount: A:0.28, C:0.25, G:0.11, T:0.36
Consensus pattern (34 bp):
TATGCCAATAATGCACCCATATGCATTATTCTTT
Found at i:1272502 original size:79 final size:79
Alignment explanation
Indices: 1272405--1272598 Score: 345
Period size: 79 Copynumber: 2.5 Consensus size: 79
1272395 ATGCACCCAT
*
1272405 ATGCCAATAATGCACCCATATGCATTATTCTTTTATGCCGATAATGCACCCATATGCATTTCAGC
1 ATGCCAATAATGCACCCATATGCATTATTCTTTTATACCGATAATGCACCCATATGCATTTCAGC
1272470 TATGGA-ATCCTTTC
66 TAT-GACATCCTTTC
* *
1272484 ATGCCAATATTGCACCCATATGCATTATTCTTTTATACCGATAATGCACCTATATGCATTTCAGC
1 ATGCCAATAATGCACCCATATGCATTATTCTTTTATACCGATAATGCACCCATATGCATTTCAGC
1272549 TATGACATCCTTTC
66 TATGACATCCTTTC
1272563 ATGCCAATAATGCACCCATATGCATTATTCTTTTAT
1 ATGCCAATAATGCACCCATATGCATTATTCTTTTAT
1272599 TCATTCTTTA
Statistics
Matches: 110, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
78 2 0.02
79 108 0.98
ACGTcount: A:0.28, C:0.25, G:0.11, T:0.36
Consensus pattern (79 bp):
ATGCCAATAATGCACCCATATGCATTATTCTTTTATACCGATAATGCACCCATATGCATTTCAGC
TATGACATCCTTTC
Found at i:1273040 original size:22 final size:19
Alignment explanation
Indices: 1273008--1273066 Score: 73
Period size: 19 Copynumber: 2.9 Consensus size: 19
1272998 ATCAATACCC
*
1273008 CTACCATGGTATCGATACT
1 CTACTATGGTATCGATACT
*
1273027 ACTATACTATGGTACCGATACT
1 -C--TACTATGGTATCGATACT
1273049 CTACTATGGTATCGATAC
1 CTACTATGGTATCGATAC
1273067 AAATTTTGCA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
19 16 0.47
20 1 0.03
21 1 0.03
22 16 0.47
ACGTcount: A:0.29, C:0.24, G:0.15, T:0.32
Consensus pattern (19 bp):
CTACTATGGTATCGATACT
Found at i:1273116 original size:20 final size:21
Alignment explanation
Indices: 1273091--1273142 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 21
1273081 GCTTTGAAAT
*
1273091 GGTATCAATACCTTCCC-TTC
1 GGTATCAATACCTACCCTTTC
*
1273111 GGTATCGATA-CTACCCTTTC
1 GGTATCAATACCTACCCTTTC
1273131 GGTATCAATACC
1 GGTATCAATACC
1273143 GATTGAATCA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
19 5 0.19
20 21 0.78
21 1 0.04
ACGTcount: A:0.23, C:0.31, G:0.13, T:0.33
Consensus pattern (21 bp):
GGTATCAATACCTACCCTTTC
Found at i:1274533 original size:43 final size:43
Alignment explanation
Indices: 1274486--1274692 Score: 170
Period size: 43 Copynumber: 4.8 Consensus size: 43
1274476 GCAATAAGTG
* * * *
1274486 TTGAGATTTAGCGGTGTTTTCCCTATAAACGCCGCAGTAGGTA
1 TTGAGATTTAGCGGCGTTTTCCATACAAACGCCGCAGTAGGTT
* * * *
1274529 TTGAGATTTAGCGGAGTTTTACTTACAAACGCCGCAGAAGGTT
1 TTGAGATTTAGCGGCGTTTTCCATACAAACGCCGCAGTAGGTT
* * * **
1274572 TTGATATTTTGCGGCGTTGTTCCCA-A-AAACGTCATAGTAGGTT
1 TTGAGATTTAGCGGCGTT-TT-CCATACAAACGCCGCAGTAGGTT
* ** * * *
1274615 TTCAGATTTAGCGGCGTTTTTTATTTA-AAACGCCGTAATAGGTG
1 TTGAGATTTAGCGGCGTTTTCCA--TACAAACGCCGCAGTAGGTT
*
1274659 TTGATATTTAGCGGCGTTTT-CATACAAACGCCGC
1 TTGAGATTTAGCGGCGTTTTCCATACAAACGCCGC
1274693 TAAAATTCGG
Statistics
Matches: 130, Mismatches: 28, Indels: 13
0.76 0.16 0.08
Matches are distributed among these distances:
41 3 0.02
42 10 0.08
43 81 0.62
44 35 0.27
45 1 0.01
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (43 bp):
TTGAGATTTAGCGGCGTTTTCCATACAAACGCCGCAGTAGGTT
Found at i:1274674 original size:87 final size:86
Alignment explanation
Indices: 1274475--1274679 Score: 227
Period size: 86 Copynumber: 2.4 Consensus size: 86
1274465 AAAAAATCGT
* * * * * *
1274475 CGCAATAAGTGTTGAGATTTAGCGGTGTTTTCCCTATAAACGCCGCAGTAGGTATTGAGATTTAG
1 CGCAATAGGTGTTGATATTTAGCGGCGTTTTCCCTAAAAACGCCACAGTAGGTATTCAGATTTAG
1274540 CGGAGTTTTACTTACAAACGC
66 CGGAGTTTTACTTACAAACGC
* * * * *
1274561 CGCAGA-AGGTTTTGATATTTTGCGGCGTTGTTCCC-AAAAACGTCATAGTAGGTTTTCAGATTT
1 CGCA-ATAGGTGTTGATATTTAGCGGCGTT-TTCCCTAAAAACGCCACAGTAGGTATTCAGATTT
* *
1274624 AGCGGCGTTTTTTATTTA-AAACGC
64 AGCGGAG--TTTTACTTACAAACGC
*
1274648 CGTAATAGGTGTTGATATTTAGCGGCGTTTTC
1 CGCAATAGGTGTTGATATTTAGCGGCGTTTTC
1274680 ATACAAACGC
Statistics
Matches: 98, Mismatches: 16, Indels: 10
0.79 0.13 0.08
Matches are distributed among these distances:
86 54 0.55
87 36 0.37
88 8 0.08
ACGTcount: A:0.24, C:0.16, G:0.24, T:0.35
Consensus pattern (86 bp):
CGCAATAGGTGTTGATATTTAGCGGCGTTTTCCCTAAAAACGCCACAGTAGGTATTCAGATTTAG
CGGAGTTTTACTTACAAACGC
Found at i:1274744 original size:16 final size:16
Alignment explanation
Indices: 1274723--1274756 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
1274713 CATTTCTAGT
1274723 ATACAAACGCCGCTAA
1 ATACAAACGCCGCTAA
1274739 ATACAAACGCCGCTAA
1 ATACAAACGCCGCTAA
1274755 AT
1 AT
1274757 GTATGGTATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.44, C:0.29, G:0.12, T:0.15
Consensus pattern (16 bp):
ATACAAACGCCGCTAA
Found at i:1275148 original size:21 final size:21
Alignment explanation
Indices: 1275110--1275162 Score: 52
Period size: 21 Copynumber: 2.5 Consensus size: 21
1275100 CTGCTGATAT
*
1275110 GCTGCTTCTCTCTGTGCTGCC
1 GCTGCTTCTCTCTCTGCTGCC
* * *
1275131 GCTGCTTCTTTTTCTGCTTCC
1 GCTGCTTCTCTCTCTGCTGCC
* *
1275152 ACTGCTGCTCT
1 GCTGCTTCTCT
1275163 GGCTACTTCT
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.02, C:0.36, G:0.19, T:0.43
Consensus pattern (21 bp):
GCTGCTTCTCTCTCTGCTGCC
Done.