Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008301.1 Hibiscus syriacus cultivar Beakdansim tig00110987_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: 3376434
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 7 of 18
Found at i:1237664 original size:26 final size:28
Alignment explanation
Indices: 1237634--1237695 Score: 76
Period size: 26 Copynumber: 2.3 Consensus size: 28
1237624 TAAAAAATAA
*
1237634 TAAAATTAGTAATTAAA-T-GAA-AGTAT
1 TAAAATTAGTAACTAAATTAGAACA-TAT
*
1237660 TAAAATTAGTGACTAAATTAGAACATAT
1 TAAAATTAGTAACTAAATTAGAACATAT
1237688 TAAAATTA
1 TAAAATTA
1237696 AATATCCTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
26 15 0.48
27 1 0.03
28 14 0.45
29 1 0.03
ACGTcount: A:0.53, C:0.03, G:0.10, T:0.34
Consensus pattern (28 bp):
TAAAATTAGTAACTAAATTAGAACATAT
Found at i:1239037 original size:3 final size:3
Alignment explanation
Indices: 1239029--1239140 Score: 79
Period size: 3 Copynumber: 37.7 Consensus size: 3
1239019 GAAATGTAAA
* * * * *
1239029 AAT AAT AAT ATT AAT AAT ATT AAT ATT AAT AAAT AAT GTAT TAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT -AAT AAT AAT
* * *
1239076 AAT AA- AAT AAA AAT AAT AGT -AT AAAT AA- AAT AAT ATT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT
* *
1239119 AAT -AT AAT AAT ATT AAA AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AA
1239141 ATGGATAAAA
Statistics
Matches: 84, Mismatches: 18, Indels: 14
0.72 0.16 0.12
Matches are distributed among these distances:
2 7 0.08
3 70 0.83
4 7 0.08
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (3 bp):
AAT
Found at i:1239106 original size:23 final size:22
Alignment explanation
Indices: 1239074--1239140 Score: 71
Period size: 23 Copynumber: 2.8 Consensus size: 22
1239064 ATGTATTATA
*
1239074 ATAATAAAATAAAAATAATAGT
1 ATAATAAAATAAAAATAATAAT
1239096 ATAAATAAAATAATATTAATAATAAT
1 AT-AATAAAATAA-A--AATAATAAT
*
1239122 ATAATAATATTAAAAATAA
1 ATAATAA-AATAAAAATAA
1239141 ATGGATAAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
22 2 0.05
23 15 0.39
24 1 0.03
25 6 0.16
26 14 0.37
ACGTcount: A:0.67, C:0.00, G:0.01, T:0.31
Consensus pattern (22 bp):
ATAATAAAATAAAAATAATAAT
Found at i:1239148 original size:20 final size:20
Alignment explanation
Indices: 1239030--1239140 Score: 73
Period size: 17 Copynumber: 6.0 Consensus size: 20
1239020 AAATGTAAAA
1239030 ATAATAATATT---AATAAT
1 ATAATAATATTAAAAATAAT
1239047 AT--TAATATTAATAAATAATGT
1 ATAATAATATTAA-AAATAA--T
* *
1239068 ATTATAATAAT-AAAATAA-
1 ATAATAATATTAAAAATAAT
* *
1239086 A-AATAATAGTATAAAT-A-
1 ATAATAATATTAAAAATAAT
*
1239103 A-AATAATATTAATAATAAT
1 ATAATAATATTAAAAATAAT
1239122 ATAATAATATTAAAAATAA
1 ATAATAATATTAAAAATAA
1239141 ATGGATAAAA
Statistics
Matches: 74, Mismatches: 8, Indels: 21
0.72 0.08 0.20
Matches are distributed among these distances:
15 7 0.09
17 23 0.31
18 6 0.08
19 6 0.08
20 16 0.22
21 9 0.12
22 1 0.01
23 6 0.08
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (20 bp):
ATAATAATATTAAAAATAAT
Found at i:1240582 original size:15 final size:15
Alignment explanation
Indices: 1240561--1240597 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
1240551 TGAGACATTA
*
1240561 CCCGCCCTGCATCCG
1 CCCGCCCCGCATCCG
*
1240576 TCCGCCCCGCATCCG
1 CCCGCCCCGCATCCG
1240591 CCCGCCC
1 CCCGCCC
1240598 AACTAAATAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.05, C:0.65, G:0.19, T:0.11
Consensus pattern (15 bp):
CCCGCCCCGCATCCG
Found at i:1244159 original size:112 final size:111
Alignment explanation
Indices: 1243985--1244216 Score: 374
Period size: 112 Copynumber: 2.1 Consensus size: 111
1243975 TGTTGAAATT
* * *
1243985 TTGAAGCAAACTGAACCTAATACAAGTCATTGATAACAAGGCAAGAAAGTTGTACAGCTAAAATG
1 TTGAAGCAAACTCAACCTAAAACAAGTCACTGATAACAAGGCAAGAAAGTTGTACAGCTAAAATG
* *
1244050 AAACACAAATGAAGTTAGACATCCATGCTTAAATGAGAAAGTAAAA
66 AAACACAAATAAAGTTAGACATCCATGCTTAAATCAGAAAGTAAAA
*
1244096 TTGAAGCATACTCAACCTAAAACAAGTCACTGATAAACAAGGCAAGAAAGTTGTACAGCTAAAAT
1 TTGAAGCAAACTCAACCTAAAACAAGTCACTGAT-AACAAGGCAAGAAAGTTGTACAGCTAAAAT
* **
1244161 GAAACACAGATAAAGTTAGACATCCATGCTTAAATCAGACCGTAAAA
65 GAAACACAAATAAAGTTAGACATCCATGCTTAAATCAGAAAGTAAAA
1244208 TTGAAGCAA
1 TTGAAGCAA
1244217 GAAACGAAAA
Statistics
Matches: 110, Mismatches: 10, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
111 30 0.27
112 80 0.73
ACGTcount: A:0.47, C:0.16, G:0.16, T:0.20
Consensus pattern (111 bp):
TTGAAGCAAACTCAACCTAAAACAAGTCACTGATAACAAGGCAAGAAAGTTGTACAGCTAAAATG
AAACACAAATAAAGTTAGACATCCATGCTTAAATCAGAAAGTAAAA
Found at i:1246776 original size:17 final size:17
Alignment explanation
Indices: 1246754--1246787 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
1246744 TTAATTCTCA
*
1246754 TATTTAACTACAAATTT
1 TATTTAAATACAAATTT
*
1246771 TATTTAAATATAAATTT
1 TATTTAAATACAAATTT
1246788 AATTCAAATC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (17 bp):
TATTTAAATACAAATTT
Found at i:1249185 original size:2 final size:2
Alignment explanation
Indices: 1249178--1249232 Score: 92
Period size: 2 Copynumber: 27.5 Consensus size: 2
1249168 AATTTATCTT
*
1249178 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TG
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
1249220 TA TG TA TA TA TA T
1 TA TA TA TA TA TA T
1249233 TTAATGTTTT
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1253610 original size:77 final size:77
Alignment explanation
Indices: 1253523--1253677 Score: 283
Period size: 77 Copynumber: 2.0 Consensus size: 77
1253513 GGTCAATTCC
*
1253523 ATCGATCGATTAACTCAACAATTGGTATCAGAGCTTGACTCATTTGAAGGTTTAACCGTCTCTTG
1 ATCGATCGATTAACTCAACAATTGGTATCAGAGCTTGACTCATTTGAAGGTTTAACCATCTCTTG
1253588 AGTAGATCAGGG
66 AGTAGATCAGGG
* *
1253600 ATCGATCGATTAACTCAATAATTGGTATCAGAGCTTGACTCATTTGAAGGTTTAATCATCTCTTG
1 ATCGATCGATTAACTCAACAATTGGTATCAGAGCTTGACTCATTTGAAGGTTTAACCATCTCTTG
1253665 AGTAGATCAGGG
66 AGTAGATCAGGG
1253677 A
1 A
1253678 AGAGTTAAAT
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
77 75 1.00
ACGTcount: A:0.30, C:0.17, G:0.21, T:0.32
Consensus pattern (77 bp):
ATCGATCGATTAACTCAACAATTGGTATCAGAGCTTGACTCATTTGAAGGTTTAACCATCTCTTG
AGTAGATCAGGG
Found at i:1257984 original size:21 final size:21
Alignment explanation
Indices: 1257960--1258006 Score: 85
Period size: 21 Copynumber: 2.2 Consensus size: 21
1257950 AGAATATGTT
1257960 GATATTTTGCACCAATTAGCG
1 GATATTTTGCACCAATTAGCG
*
1257981 GATACTTTGCACCAATTAGCG
1 GATATTTTGCACCAATTAGCG
1258002 GATAT
1 GATAT
1258007 CTTTACAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.32
Consensus pattern (21 bp):
GATATTTTGCACCAATTAGCG
Found at i:1258383 original size:22 final size:22
Alignment explanation
Indices: 1258358--1258430 Score: 92
Period size: 22 Copynumber: 3.3 Consensus size: 22
1258348 GAATCGATAC
1258358 CCCCCTTGAAGGGGAACCGATT
1 CCCCCTTGAAGGGGAACCGATT
1258380 CCCCCTTTGAAGGGGAACCGATT
1 CCCCC-TTGAAGGGGAACCGATT
* * * * *
1258403 TCCCCATGTAGGGGAATCGATA
1 CCCCCTTGAAGGGGAACCGATT
1258425 CCCCCT
1 CCCCCT
1258431 GAGGGTTCTG
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
22 22 0.51
23 21 0.49
ACGTcount: A:0.22, C:0.33, G:0.25, T:0.21
Consensus pattern (22 bp):
CCCCCTTGAAGGGGAACCGATT
Found at i:1258405 original size:24 final size:23
Alignment explanation
Indices: 1258346--1258429 Score: 89
Period size: 23 Copynumber: 3.7 Consensus size: 23
1258336 TTAGTGCAGA
* *
1258346 GGGAATCGATACCCCCCTTGAAG
1 GGGAACCGATTCCCCCCTTGAAG
*
1258369 GGGAACCGATTCCCCCTTTGAAG
1 GGGAACCGATTCCCCCCTTGAAG
* * *
1258392 GGGAACCGATT-TCCCCATGTAG
1 GGGAACCGATTCCCCCCTTGAAG
* *
1258414 GGGAATCGATACCCCC
1 GGGAACCGATTCCCCC
1258430 TGAGGGTTCT
Statistics
Matches: 50, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
22 16 0.32
23 34 0.68
ACGTcount: A:0.24, C:0.31, G:0.26, T:0.19
Consensus pattern (23 bp):
GGGAACCGATTCCCCCCTTGAAG
Found at i:1261704 original size:15 final size:15
Alignment explanation
Indices: 1261674--1261762 Score: 97
Period size: 15 Copynumber: 5.9 Consensus size: 15
1261664 AATAAAAAAT
* *
1261674 ATATAATACCAGAAA
1 ATATAATAACATAAA
*
1261689 ATACAATAACATAAA
1 ATATAATAACATAAA
* *
1261704 ATATAATACCAAAAA
1 ATATAATAACATAAA
* **
1261719 ATACAATAATGTAAA
1 ATATAATAACATAAA
*
1261734 ATATAATATCATAAA
1 ATATAATAACATAAA
1261749 ATATAATAACATAA
1 ATATAATAACATAA
1261763 CATAAACTAT
Statistics
Matches: 58, Mismatches: 16, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
15 58 1.00
ACGTcount: A:0.63, C:0.10, G:0.02, T:0.25
Consensus pattern (15 bp):
ATATAATAACATAAA
Found at i:1261708 original size:30 final size:30
Alignment explanation
Indices: 1261674--1261793 Score: 132
Period size: 30 Copynumber: 3.8 Consensus size: 30
1261664 AATAAAAAAT
1261674 ATATAATACCAGAAAATACAATAACATAAA
1 ATATAATACCAGAAAATACAATAACATAAA
* **
1261704 ATATAATACCAAAAAATACAATAATGTAAA
1 ATATAATACCAGAAAATACAATAACATAAA
* * *
1261734 ATATAATATCATAAAATATAATAACATAACATAA
1 ATATAATACCAGAAAATACAATAACAT---A-AA
*
1261768 ACTATAATACCAGAAAATAAAATAAC
1 A-TATAATACCAGAAAATACAATAAC
1261794 TTAATTATGG
Statistics
Matches: 74, Mismatches: 11, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
30 49 0.66
33 1 0.01
34 3 0.04
35 21 0.28
ACGTcount: A:0.62, C:0.12, G:0.03, T:0.23
Consensus pattern (30 bp):
ATATAATACCAGAAAATACAATAACATAAA
Found at i:1261756 original size:20 final size:20
Alignment explanation
Indices: 1261743--1261791 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
1261733 AATATAATAT
1261743 CATAAAATATAATAACATAA
1 CATAAAATATAATAACATAA
* * *
1261763 CATAAACTATAATACCAGAA
1 CATAAAATATAATAACATAA
*
1261783 AATAAAATA
1 CATAAAATA
1261792 ACTTAATTAT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.63, C:0.12, G:0.02, T:0.22
Consensus pattern (20 bp):
CATAAAATATAATAACATAA
Found at i:1263199 original size:102 final size:100
Alignment explanation
Indices: 1263032--1263260 Score: 291
Period size: 102 Copynumber: 2.3 Consensus size: 100
1263022 GAATGAGTCT
* *
1263032 GTAGATGAATG-TCTTCCCTTGAACTTGAAGTCATATTTGATATGGGTTCTGAATGGACTATTGA
1 GTAGATGAATGCT-TTCCATTGAACTTGAAGACATATTTGATATGGGTTCTGAATGGACTATTGA
* * *
1263096 GTAGATAACATTTCGTTGTTGAGGTAAAATAAGTTG
65 GTAGATAACATTTCGATGTTGAGGTAAAAGAAGTTA
* * *
1263132 GTAGATGAATGCATTTCCATTGCACTTGAAGACATA-TTGCCATATGGGTTTTGAATGGACTGTT
1 GTAGATGAATGC-TTTCCATTGAACTTGAAGACATATTTG--ATATGGGTTCTGAATGGACTATT
* **
1263196 GAGTAGATGACATTTCGATGTTGAGGTTGAAGAAGTTA
63 GAGTAGATAACATTTCGATGTTGAGGTAAAAGAAGTTA
*
1263234 GTAGATGAATGCTTTCCCCTTGAACTT
1 GTAGATGAATGCTTT-CCATTGAACTT
1263261 AAGGAGGTGT
Statistics
Matches: 111, Mismatches: 13, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
100 14 0.13
101 22 0.20
102 75 0.68
ACGTcount: A:0.28, C:0.12, G:0.24, T:0.36
Consensus pattern (100 bp):
GTAGATGAATGCTTTCCATTGAACTTGAAGACATATTTGATATGGGTTCTGAATGGACTATTGAG
TAGATAACATTTCGATGTTGAGGTAAAAGAAGTTA
Found at i:1264178 original size:24 final size:22
Alignment explanation
Indices: 1264122--1264180 Score: 68
Period size: 24 Copynumber: 2.6 Consensus size: 22
1264112 ACCAAAATAG
1264122 GTAGTATCGATACCATCACTAA
1 GTAGTATCGATACCATCACTAA
*
1264144 G-AGTGTCGATACTACTAT-ACTAA
1 GTAGTATCGATAC--C-ATCACTAA
1264167 GTAGTATCGATACC
1 GTAGTATCGATACC
1264181 GTATATGGTA
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
21 10 0.32
22 2 0.06
23 7 0.23
24 12 0.39
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.29
Consensus pattern (22 bp):
GTAGTATCGATACCATCACTAA
Found at i:1268017 original size:11 final size:11
Alignment explanation
Indices: 1268001--1268030 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
1267991 TCCCCATCAT
1268001 ACTCATCTCAA
1 ACTCATCTCAA
1268012 ACTCATCTCAA
1 ACTCATCTCAA
1268023 ACTCATCT
1 ACTCATCT
1268031 TGCATTTGCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.33, C:0.37, G:0.00, T:0.30
Consensus pattern (11 bp):
ACTCATCTCAA
Found at i:1274041 original size:192 final size:191
Alignment explanation
Indices: 1273683--1274152 Score: 581
Period size: 192 Copynumber: 2.5 Consensus size: 191
1273673 TTAAACACAT
* * * *
1273683 AATTTTATCTACAGATAATGTTCATCTATGGGGAACTATTTATCCCATTATTTCCCTGCTTAATG
1 AATTTTATCTATAGATAATGTTCCTCTAAGGGGAACTATTTATCCCATTATCTCCCTG-TTAATG
* * **
1273748 GGATGGGACACTGGTGTCTCAAATTAATAAACACCATGACATGGTAGAGATTCTCTACCAAAGGT
65 GGATGAGACACTGGTGTCTCAAAATAATAAACACCATGACATGACAGAGATTCTCTACCAAAGGT
* * *
1273813 GAAAGAGATTTTTGTGAAAAATAACTTCCTCTTTTTGTAGAGATTCCCTACATTAACCACCC
130 GAAAGAGATTTTTGTGAAAAACAACTTCCTCTTTTTGCAAAGATTCCCTACATTAACCACCC
* *
1273875 AATTTTATCTATAGATAATGTTCCTCTACGGGGAAC-ATTTCATCCCACTATCTCCCTGTTTAAT
1 AATTTTATCTATAGATAATGTTCCTCTAAGGGGAACTATTT-ATCCCATTATCTCCCTG-TTAAT
* * * * * *
1273939 GGGATGAGACACTAGTGTCTTAAAATAATAGACACTATGACATGACAGAGATTCTCTGCCAAATG
64 GGGATGAGACACTGGTGTCTCAAAATAATAAACACCATGACATGACAGAGATTCTCTACCAAAGG
* * ** * * * *
1274004 TGACAA-AGCTTTTTTTTGAAAAACGTCTTTC-CTTTTTGCAAAGATTCTCTGCATTAATCACCC
129 TGA-AAGAG-ATTTTTGTGAAAAACAACTTCCTCTTTTTGCAAAGATTCCCTACATTAACCACCC
* * *
1274067 AATTTTATTTATAGATAATGTTCCTCTAAGGGGAACTATTTTTCCCATTATCTCTCC--TTGATG
1 AATTTTATCTATAGATAATGTTCCTCTAAGGGGAACTATTTATCCCATTATCTC-CCTGTTAATG
1274130 GGATGAGACACTGGTGTCTCAAA
65 GGATGAGACACTGGTGTCTCAAA
1274153 GTTAATAGCT
Statistics
Matches: 239, Mismatches: 34, Indels: 12
0.84 0.12 0.04
Matches are distributed among these distances:
190 26 0.11
191 4 0.02
192 185 0.77
193 24 0.10
ACGTcount: A:0.30, C:0.20, G:0.16, T:0.35
Consensus pattern (191 bp):
AATTTTATCTATAGATAATGTTCCTCTAAGGGGAACTATTTATCCCATTATCTCCCTGTTAATGG
GATGAGACACTGGTGTCTCAAAATAATAAACACCATGACATGACAGAGATTCTCTACCAAAGGTG
AAAGAGATTTTTGTGAAAAACAACTTCCTCTTTTTGCAAAGATTCCCTACATTAACCACCC
Found at i:1276080 original size:7 final size:7
Alignment explanation
Indices: 1276070--1276101 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
1276060 TTTTTCATTT
1276070 TAAAAAA
1 TAAAAAA
1276077 TAAAAAA
1 TAAAAAA
1276084 TAAAAAA
1 TAAAAAA
1276091 TAAAAAA
1 TAAAAAA
1276098 TAAA
1 TAAA
1276102 TTATATAAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (7 bp):
TAAAAAA
Found at i:1285916 original size:20 final size:20
Alignment explanation
Indices: 1285891--1285939 Score: 89
Period size: 20 Copynumber: 2.5 Consensus size: 20
1285881 CTGAACCAAG
1285891 AAAAATGATAAGGTTACTCT
1 AAAAATGATAAGGTTACTCT
*
1285911 AAAAATGATAAGTTTACTCT
1 AAAAATGATAAGGTTACTCT
1285931 AAAAATGAT
1 AAAAATGAT
1285940 TAAATCCATT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.49, C:0.08, G:0.12, T:0.31
Consensus pattern (20 bp):
AAAAATGATAAGGTTACTCT
Found at i:1287615 original size:2 final size:2
Alignment explanation
Indices: 1287608--1287633 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
1287598 AAATAAAATC
1287608 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
1287634 TTTAAAAGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1289673 original size:3 final size:3
Alignment explanation
Indices: 1289665--1289718 Score: 81
Period size: 3 Copynumber: 17.7 Consensus size: 3
1289655 TTCGTCCCAG
* *
1289665 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AGTA ATT ATT ACT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A-TT ATT ATT ATT
1289711 ATT ATT AT
1 ATT ATT AT
1289719 AAATAAAATA
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
3 44 0.96
4 2 0.04
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.61
Consensus pattern (3 bp):
ATT
Found at i:1291890 original size:131 final size:130
Alignment explanation
Indices: 1291721--1292090 Score: 499
Period size: 131 Copynumber: 2.8 Consensus size: 130
1291711 ATTGATATTG
* * * * * *
1291721 AGAATAGTAATATCTTTTCATTTCGGTTGGAGTAATAAATGACTGCTTTAAGGCATGAGAGATCA
1 AGAATAGTGATATCTCTTCATTTCGATTGGAGTAATAAATGAATG-TTTAAGGTATGAGAGGTCA
* * * * *
1291786 TTTATTCTCAATTGGAAATAATTTGATATTACCATTTTCTCTCGAATTAATATTGATTTTTAAGA
65 TTTATTCTCAATTGGAAATAATTAGATATTATCATTTTCTCTCGAATCAATATTGAATTTTAAAA
*
1291851 T
130 C
* * *
1291852 GGAATAGTGATATCTCTCCATTTCGATTGGAGCAATAAATGAATGTTTTAAGGTATGAGAGGTCA
1 AGAATAGTGATATCTCTTCATTTCGATTGGAGTAATAAATGAATG-TTTAAGGTATGAGAGGTCA
* * *
1291917 TTTATTCTCAATTGGAAATTATTAGATATTATCGTTTT-TACTCGAATCGATATTGAATTTTAAA
65 TTTATTCTCAATTGGAAATAATTAGATATTATCATTTTCT-CTCGAATCAATATTGAATTTTAAA
1291981 AC
129 AC
* *
1291983 AGAATAGTGATAACTCTTCATTTCGATTGGAGTAATAAATGATTGTTATAAGGTATGAGAGGTCA
1 AGAATAGTGATATCTCTTCATTTCGATTGGAGTAATAAATGAATGTT-TAAGGTATGAGAGGTCA
* *
1292048 TTTATTCTCGATTGGAAATAATTAGATATTATTATTTTCTCTC
65 TTTATTCTCAATTGGAAATAATTAGATATTATCATTTTCTCTC
1292091 TTAAAATTAT
Statistics
Matches: 208, Mismatches: 28, Indels: 6
0.86 0.12 0.02
Matches are distributed among these distances:
130 3 0.01
131 204 0.98
132 1 0.00
ACGTcount: A:0.33, C:0.10, G:0.17, T:0.40
Consensus pattern (130 bp):
AGAATAGTGATATCTCTTCATTTCGATTGGAGTAATAAATGAATGTTTAAGGTATGAGAGGTCAT
TTATTCTCAATTGGAAATAATTAGATATTATCATTTTCTCTCGAATCAATATTGAATTTTAAAAC
Found at i:1295658 original size:28 final size:26
Alignment explanation
Indices: 1295626--1295678 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
1295616 ATATATATAT
*
1295626 ATATATACATTATATAGTTTTTTAAATG
1 ATATATA-A-TATATAGTTTTTAAAATG
1295654 ATATATAATATATAGTTTTTAAAAT
1 ATATATAATATATAGTTTTTAAAAT
1295679 ATTTAGAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 16 0.67
27 1 0.04
28 7 0.29
ACGTcount: A:0.43, C:0.02, G:0.06, T:0.49
Consensus pattern (26 bp):
ATATATAATATATAGTTTTTAAAATG
Found at i:1295695 original size:36 final size:36
Alignment explanation
Indices: 1295649--1295943 Score: 296
Period size: 36 Copynumber: 8.3 Consensus size: 36
1295639 ATAGTTTTTT
* *
1295649 AAATGATATATAATATATAGTTTTTAAAATATTTAGA
1 AAAT-ATATATAATATATAGTTTTTAAAACATTTTGA
* *
1295686 AAACT-TATATAATATATAGTTTTTAAAGC-GTTT--
1 AAA-TATATATAATATATAGTTTTTAAAACATTTTGA
1295719 ---TA-A-A-AATATATAGTTTTTAAAACATTTTGAA
1 AAATATATATAATATATAGTTTTTAAAACATTTTG-A
*
1295750 AACATATATATAATATATAGTTTTTAAATCATTTTGA
1 AA-ATATATATAATATATAGTTTTTAAAACATTTTGA
*
1295787 AAATATATATAATATATAGTTTTTAAAACATTTAGAAA
1 AAATATATATAATATATAGTTTTTAAAACATTTTG--A
*
1295825 AACATATATATATTATATAGTTTTTAAAACATTTTGA
1 AA-ATATATATAATATATAGTTTTTAAAACATTTTGA
*
1295862 AAATATATATAATATATAGTTTTAAAAAACATTTTTG-
1 AAATATATATAATATATAGTTTT-TAAAACA-TTTTGA
*
1295899 AAA-ACATAT-A-ATATAG-TTTTAAAACATTTTTGA
1 AAATATATATAATATATAGTTTTTAAAACA-TTTTGA
*
1295932 ATATAATATATA
1 AAAT-ATATATA
1295944 GTTTTGAAAA
Statistics
Matches: 219, Mismatches: 17, Indels: 45
0.78 0.06 0.16
Matches are distributed among these distances:
27 18 0.08
28 4 0.02
29 2 0.01
32 12 0.05
33 5 0.02
34 6 0.03
35 10 0.05
36 79 0.36
37 19 0.09
38 33 0.15
39 31 0.14
ACGTcount: A:0.47, C:0.04, G:0.06, T:0.43
Consensus pattern (36 bp):
AAATATATATAATATATAGTTTTTAAAACATTTTGA
Found at i:1295726 original size:27 final size:28
Alignment explanation
Indices: 1295696--1295759 Score: 94
Period size: 27 Copynumber: 2.3 Consensus size: 28
1295686 AAACTTATAT
* *
1295696 AATATATAGTTTTTAAAGCGTTTT-AAA
1 AATATATAGTTTTTAAAACATTTTGAAA
1295723 AATATATAGTTTTTAAAACATTTTGAAA
1 AATATATAGTTTTTAAAACATTTTGAAA
1295751 ACATATATA
1 A-ATATATA
1295760 TAATATATAG
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
27 22 0.67
28 4 0.12
29 7 0.21
ACGTcount: A:0.45, C:0.05, G:0.08, T:0.42
Consensus pattern (28 bp):
AATATATAGTTTTTAAAACATTTTGAAA
Found at i:1295851 original size:75 final size:74
Alignment explanation
Indices: 1295723--1295913 Score: 310
Period size: 75 Copynumber: 2.5 Consensus size: 74
1295713 GCGTTTTAAA
*
1295723 AATATATAGTTTTTAAAACATTTTGAAAACATATATATAATATATAGTTTTTAAATCATTTTGAA
1 AATATATAGTTTTTAAAACATTTTGAAAACATATATATAATATATAGTTTTTAAAACATTTTGAA
1295788 AATATATAT
66 AATATATAT
* *
1295797 AATATATAGTTTTTAAAACATTTAGAAAAACATATATATATTATATAGTTTTTAAAACATTTTGA
1 AATATATAGTTTTTAAAACATTTTG-AAAACATATATATAATATATAGTTTTTAAAACATTTTGA
1295862 AAATATATAT
65 AAATATATAT
*
1295872 AATATATAGTTTTAAAAAACATTTTTGAAAACATATAATATA
1 AATATATAGTTTT-TAAAACA-TTTTGAAAACATAT-ATATA
1295914 GTTTTAAAAC
Statistics
Matches: 108, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
74 24 0.22
75 60 0.56
76 15 0.14
77 9 0.08
ACGTcount: A:0.48, C:0.04, G:0.05, T:0.42
Consensus pattern (74 bp):
AATATATAGTTTTTAAAACATTTTGAAAACATATATATAATATATAGTTTTTAAAACATTTTGAA
AATATATAT
Found at i:1295965 original size:3 final size:3
Alignment explanation
Indices: 1295957--1295987 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
1295947 TTGAAAACAT
1295957 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1295988 CTGATTTATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:1297507 original size:12 final size:12
Alignment explanation
Indices: 1297492--1297516 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1297482 ATGTTTTTTA
1297492 TTTTGATTTATT
1 TTTTGATTTATT
1297504 TTTTGATTTATT
1 TTTTGATTTATT
1297516 T
1 T
1297517 ATTTACTGTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.00, G:0.08, T:0.76
Consensus pattern (12 bp):
TTTTGATTTATT
Found at i:1297537 original size:41 final size:38
Alignment explanation
Indices: 1297463--1297547 Score: 116
Period size: 41 Copynumber: 2.1 Consensus size: 38
1297453 ATTTCTTCCT
1297463 TTTTGTTGATTTATTTAATATGTTTTTTATTTTGATTTA
1 TTTT-TTGATTTATTTAATATGTTTTTTATTTTGATTTA
* *
1297502 TTTTTTGATTTATTTATTTACTGTTTTTATCTTTTGATTTA
1 TTTTTTGATTTATTTA-ATA-TGTTTTT-TATTTTGATTTA
1297543 TTTTT
1 TTTTT
1297548 ATTATTTTTC
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
38 12 0.29
39 6 0.15
40 7 0.17
41 16 0.39
ACGTcount: A:0.18, C:0.02, G:0.08, T:0.72
Consensus pattern (38 bp):
TTTTTTGATTTATTTAATATGTTTTTTATTTTGATTTA
Found at i:1302848 original size:85 final size:85
Alignment explanation
Indices: 1302684--1304036 Score: 1668
Period size: 85 Copynumber: 15.9 Consensus size: 85
1302674 TTAAAGGAAC
* ** * * *
1302684 AATTCACAGCATAACTCAAGGCGAGAAGGGTTATCTACCAACAAAATACCTTCAAGTTTGATTAC
1 AATTTACAGCATAACTCAAGGCGAGAAGGGTTATCTGTCAAC-AAAGACCTTCGAGTTCGATTAC
* *
1302749 ATTCAGCTCAAAGGCATGTCA
65 ACTCAGCTCAAAGGCATATCA
* * * * * *
1302770 AATTTACAACATAACTCAAGGTGAGAGGGGTTATCTATTAACCAAGACCTTCGAGTTCGATTACA
1 AATTTACAGCATAACTCAAGGCGAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACA
* * *
1302835 CTCAACTCAAAGGCACAACA
66 CTCAGCTCAAAGGCATATCA
* ** * *
1302855 AATTTACAACATAACTCAAGGTAAGAAGGGCTATCTGTCAACCAAGACCTTCGAGTTCGATTACA
1 AATTTACAGCATAACTCAAGGCGAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACA
*
1302920 CTCAACTCAAAGGCATATCA
66 CTCAGCTCAAAGGCATATCA
* * * *
1302940 AATTTATAGCATAACTCAAGGCGATAAGGGTTATCTGTCAACCAAGACCTTCGAGTTCGATTATA
1 AATTTACAGCATAACTCAAGGCGAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACA
* *
1303005 CTCGGCTCAAAGGCATATGA
66 CTCAGCTCAAAGGCATATCA
* * * * *
1303025 AATTTACAGTATAGCTCAAGGCGAGAAGGGCTATCTGTCAACCAAGACCTTCGAGTTTGATTACA
1 AATTTACAGCATAACTCAAGGCGAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACA
* *
1303090 CTCAGCTCAAAGGCACATAA
66 CTCAGCTCAAAGGCATATCA
* *
1303110 AATTTACAGCATAACTCAAGGCGAGAAGGGTTATTTGTCAACAATA-A-CTTCGAGTTCAATTAC
1 AATTTACAGCATAACTCAAGGCGAGAAGGGTTATCTGTCAACAA-AGACCTTCGAGTTCGATTAC
*
1303173 ACTCAGCTCAAATGCATATCA
65 ACTCAGCTCAAAGGCATATCA
* * * * *
1303194 AATTTACAGCATAGCTTAAGGCAAGAAGGGTTATCTGTCAACAAAAGACCTTCGAGTTTGACTAC
1 AATTTACAGCATAACTCAAGGCGAGAAGGGTTATCTGTCAAC-AAAGACCTTCGAGTTCGATTAC
* *
1303259 ATTCAGCTCAAAGGCATATCC
65 ACTCAGCTCAAAGGCATATCA
* * * *
1303280 AATTTATATCATAACTTAAGGCGAGAAGGGTTATCTATCAACCAAA-ACCTTCGAGTTCGATTAC
1 AATTTACAGCATAACTCAAGGCGAGAAGGGTTATCTGTCAA-CAAAGACCTTCGAGTTCGATTAC
*
1303344 ACTCAGCTCAAAGGCACATCA
65 ACTCAGCTCAAAGGCATATCA
*
1303365 AATTTACAGCATAGCTCAAGGCGAGAAGGGTTATCTGTCAACAAAAGACCTTCGAGTTCGATTAC
1 AATTTACAGCATAACTCAAGGCGAGAAGGGTTATCTGTCAAC-AAAGACCTTCGAGTTCGATTAC
* *
1303430 ACTCAGCTCAAATGCATATCC
65 ACTCAGCTCAAAGGCATATCA
* * * * * *
1303451 AATTTATAGCATAACTCAATGTGAGAAGGGTTATCTGTCAACCAAGACCTTTGAGTTTGATTACA
1 AATTTACAGCATAACTCAAGGCGAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACA
* *
1303516 CTCAGCTCAAAGGCACATTA
66 CTCAGCTCAAAGGCATATCA
* * * ** * * *
1303536 AATTTATAGCATAGCTCAAGGTGAGAAAAGTTATCTGTCAACAAAAGACCTTCAAGCTCGATTAG
1 AATTTACAGCATAACTCAAGGCGAGAAGGGTTATCTGTCAAC-AAAGACCTTCGAGTTCGATTAC
* *
1303601 ATTCAGCTCAAAGGCATATCC
65 ACTCAGCTCAAAGGCATATCA
* * *
1303622 AATTTACAGCATAACTCATGGCGAGAAGGGTTATATGTCAACAAAGACCTTCGAGTTCGATTATA
1 AATTTACAGCATAACTCAAGGCGAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACA
*
1303687 CTCAGCTCAAAGGCACATCA
66 CTCAGCTCAAAGGCATATCA
*
1303707 AATTTACAGCATAGCTCAAGGCGAGAAGGGTTATCTGTCAACAAAAGACCTTCGAGTTCGATTAC
1 AATTTACAGCATAACTCAAGGCGAGAAGGGTTATCTGTCAAC-AAAGACCTTCGAGTTCGATTAC
* * *
1303772 ACTCAGCTCAAAGACACATAA
65 ACTCAGCTCAAAGGCATATCA
* * *
1303793 AATTTACAGCATAGCTCAAGGCGAGAAGGGCTATCTGTCAACAAAAGACCTTCGAGTTTGATTAC
1 AATTTACAGCATAACTCAAGGCGAGAAGGGTTATCTGTCAAC-AAAGACCTTCGAGTTCGATTAC
* * *
1303858 ATTCATCTCAAAGGCATATCC
65 ACTCAGCTCAAAGGCATATCA
* * * * * *
1303879 AATTTACAACATAACTAAAGGTGAGAAGAGTTATCTATCAACAAAGACCTTCGAGTTCGATTCCA
1 AATTTACAGCATAACTCAAGGCGAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACA
* ** *
1303944 TTCAGCTCAGGGGCATGTCA
66 CTCAGCTCAAAGGCATATCA
* * * ** * * * *
1303964 AATTTACAGCATAGCTTAAGTCGAGAAAAGCTATCTGTCAACAAAAACTTTCGAGTTCGATTCCA
1 AATTTACAGCATAACTCAAGGCGAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACA
1304029 CTCAGCTC
66 CTCAGCTC
1304037 GATGACATAT
Statistics
Matches: 1101, Mismatches: 157, Indels: 19
0.86 0.12 0.01
Matches are distributed among these distances:
84 72 0.07
85 626 0.57
86 402 0.37
87 1 0.00
ACGTcount: A:0.36, C:0.22, G:0.18, T:0.25
Consensus pattern (85 bp):
AATTTACAGCATAACTCAAGGCGAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACA
CTCAGCTCAAAGGCATATCA
Found at i:1303395 original size:171 final size:171
Alignment explanation
Indices: 1302684--1304036 Score: 1710
Period size: 171 Copynumber: 7.9 Consensus size: 171
1302674 TTAAAGGAAC
* * ** * * *
1302684 AATTCACAGCATAACTCAAGGCGAGAAGGGTTATCTACCAACAAAATACCTTCAAGTTTGATTAC
1 AATTTACAGCATAGCTCAAGGCGAGAAGGGTTATCTGTCAACAAAAGACCTTCGAGTTCGATTAC
* * * * * * *
1302749 ATTCAGCTCAAAGGCATGTCAAATTTACAACATAACTCAAGGTGAGAGGGGTTATCTATTAACCA
66 ACTCAGCTCAAAGGCATATCAAATTTACAGCATAACTCAAGGCGAGAAGGGTTATCTGTCAACCA
* * *
1302814 AGACCTTCGAGTTCGATTACACTCAACTCAAAGGCACAACA
131 AAACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCA
* * ** * *
1302855 AATTTACAACATAACTCAAGGTAAGAAGGGCTATCTGTCAAC-CAAGACCTTCGAGTTCGATTAC
1 AATTTACAGCATAGCTCAAGGCGAGAAGGGTTATCTGTCAACAAAAGACCTTCGAGTTCGATTAC
* * *
1302919 ACTCAACTCAAAGGCATATCAAATTTATAGCATAACTCAAGGCGATAAGGGTTATCTGTCAACCA
66 ACTCAGCTCAAAGGCATATCAAATTTACAGCATAACTCAAGGCGAGAAGGGTTATCTGTCAACCA
* * * * *
1302984 AGACCTTCGAGTTCGATTATACTCGGCTCAAAGGCATATGA
131 AAACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCA
* * * *
1303025 AATTTACAGTATAGCTCAAGGCGAGAAGGGCTATCTGTCAAC-CAAGACCTTCGAGTTTGATTAC
1 AATTTACAGCATAGCTCAAGGCGAGAAGGGTTATCTGTCAACAAAAGACCTTCGAGTTCGATTAC
* * *
1303089 ACTCAGCTCAAAGGCACATAAAATTTACAGCATAACTCAAGGCGAGAAGGGTTATTTGTCAA-CA
66 ACTCAGCTCAAAGGCATATCAAATTTACAGCATAACTCAAGGCGAGAAGGGTTATCTGTCAACCA
* * *
1303153 ATAA-CTTCGAGTTCAATTACACTCAGCTCAAATGCATATCA
131 A-AACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCA
* * * *
1303194 AATTTACAGCATAGCTTAAGGCAAGAAGGGTTATCTGTCAACAAAAGACCTTCGAGTTTGACTAC
1 AATTTACAGCATAGCTCAAGGCGAGAAGGGTTATCTGTCAACAAAAGACCTTCGAGTTCGATTAC
* * * * * *
1303259 ATTCAGCTCAAAGGCATATCCAATTTATATCATAACTTAAGGCGAGAAGGGTTATCTATCAACCA
66 ACTCAGCTCAAAGGCATATCAAATTTACAGCATAACTCAAGGCGAGAAGGGTTATCTGTCAACCA
1303324 AAACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCA
131 AAACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCA
1303365 AATTTACAGCATAGCTCAAGGCGAGAAGGGTTATCTGTCAACAAAAGACCTTCGAGTTCGATTAC
1 AATTTACAGCATAGCTCAAGGCGAGAAGGGTTATCTGTCAACAAAAGACCTTCGAGTTCGATTAC
* * * * *
1303430 ACTCAGCTCAAATGCATATCCAATTTATAGCATAACTCAATGTGAGAAGGGTTATCTGTCAACCA
66 ACTCAGCTCAAAGGCATATCAAATTTACAGCATAACTCAAGGCGAGAAGGGTTATCTGTCAACCA
* * * *
1303495 AGACCTTTGAGTTTGATTACACTCAGCTCAAAGGCACATTA
131 AAACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCA
* * ** * * *
1303536 AATTTATAGCATAGCTCAAGGTGAGAAAAGTTATCTGTCAACAAAAGACCTTCAAGCTCGATTAG
1 AATTTACAGCATAGCTCAAGGCGAGAAGGGTTATCTGTCAACAAAAGACCTTCGAGTTCGATTAC
* * * *
1303601 ATTCAGCTCAAAGGCATATCCAATTTACAGCATAACTCATGGCGAGAAGGGTTATATGTCAA-CA
66 ACTCAGCTCAAAGGCATATCAAATTTACAGCATAACTCAAGGCGAGAAGGGTTATCTGTCAACCA
*
1303665 AAGACCTTCGAGTTCGATTATACTCAGCTCAAAGGCACATCA
131 AA-ACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCA
1303707 AATTTACAGCATAGCTCAAGGCGAGAAGGGTTATCTGTCAACAAAAGACCTTCGAGTTCGATTAC
1 AATTTACAGCATAGCTCAAGGCGAGAAGGGTTATCTGTCAACAAAAGACCTTCGAGTTCGATTAC
* * * * * *
1303772 ACTCAGCTCAAAGACACATAAAATTTACAGCATAGCTCAAGGCGAGAAGGGCTATCTGTCAACAA
66 ACTCAGCTCAAAGGCATATCAAATTTACAGCATAACTCAAGGCGAGAAGGGTTATCTGTCAACCA
* * * * *
1303837 AAGACCTTCGAGTTTGATTACATTCATCTCAAAGGCATATCC
131 AA-ACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCA
* * * * * * *
1303879 AATTTACAACATAACTAAAGGTGAGAAGAGTTATCTATCAAC-AAAGACCTTCGAGTTCGATTCC
1 AATTTACAGCATAGCTCAAGGCGAGAAGGGTTATCTGTCAACAAAAGACCTTCGAGTTCGATTAC
* ** * * * * ** * *
1303943 ATTCAGCTCAGGGGCATGTCAAATTTACAGCATAGCTTAAGTCGAGAAAAGCTATCTGTCAACAA
66 ACTCAGCTCAAAGGCATATCAAATTTACAGCATAACTCAAGGCGAGAAGGGTTATCTGTCAACCA
* *
1304008 AAACTTTCGAGTTCGATTCCACTCAGCTC
131 AAACCTTCGAGTTCGATTACACTCAGCTC
1304037 GATGACATAT
Statistics
Matches: 1033, Mismatches: 143, Indels: 13
0.87 0.12 0.01
Matches are distributed among these distances:
169 73 0.07
170 323 0.31
171 564 0.55
172 73 0.07
ACGTcount: A:0.36, C:0.22, G:0.18, T:0.25
Consensus pattern (171 bp):
AATTTACAGCATAGCTCAAGGCGAGAAGGGTTATCTGTCAACAAAAGACCTTCGAGTTCGATTAC
ACTCAGCTCAAAGGCATATCAAATTTACAGCATAACTCAAGGCGAGAAGGGTTATCTGTCAACCA
AAACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCA
Found at i:1304647 original size:38 final size:37
Alignment explanation
Indices: 1304605--1305008 Score: 378
Period size: 36 Copynumber: 11.5 Consensus size: 37
1304595 TTTGCAAATG
* *
1304605 ATATATAATATATAGATTTTAAAATATTTTGAAAACT
1 ATATATAATATATAGTTTTTAAAACATTTTGAAAACT
* *
1304642 -TATATAATATATAGTTTTTAAAATATTTTAAAAACT
1 ATATATAATATATAGTTTTTAAAACATTTTGAAAACT
* *
1304678 -TATATAATATATAGTTTTTAAAGC-GTTT------T
1 ATATATAATATATAGTTTTTAAAACATTTTGAAAACT
1304707 A-A-A-AATATATAGTTTTTAAAACATTTTGAAAACAT
1 ATATATAATATATAGTTTTTAAAACATTTTGAAAAC-T
* *
1304742 ATATATAATATATAGTTTTTAAATCGTTTTGAAAA-T
1 ATATATAATATATAGTTTTTAAAACATTTTGAAAACT
1304778 ATATATAATATATAGTTTTTAAAACATTTTGAAAACAT
1 ATATATAATATATAGTTTTTAAAACATTTTGAAAAC-T
*
1304816 ATATATATTATATAGTTTTTAAAACATTTTGAAAA-T
1 ATATATAATATATAGTTTTTAAAACATTTTGAAAACT
***
1304852 ATATATAATATATAGTTAAAAAAACATTTTTGAAAAC-
1 ATATATAATATATAGTTTTTAAAACA-TTTTGAAAACT
*
1304889 --ATAT-A-ATATAG-TTTTAAAACATTTTTTAAAAC-
1 ATATATAATATATAGTTTTTAAAACA-TTTTGAAAACT
* *
1304921 -TATATAATATATAGTTTTGAAAAAAATTTT-AAAA-T
1 ATATATAATATATAGTTTT-TAAAACATTTTGAAAACT
* * *
1304956 -TATATAATATAT-GGTTTAAAAATATGTTTTG-AAA-T
1 ATATATAATATATAGTTTTTAAAACA--TTTTGAAAACT
*
1304991 ATATATATTATATAGTTT
1 ATATATAATATATAGTTT
1305009 ATATTATATT
Statistics
Matches: 314, Mismatches: 26, Indels: 54
0.80 0.07 0.14
Matches are distributed among these distances:
27 18 0.06
28 4 0.01
29 2 0.01
32 17 0.05
33 16 0.05
34 6 0.02
35 39 0.12
36 132 0.42
37 18 0.06
38 62 0.20
ACGTcount: A:0.46, C:0.03, G:0.06, T:0.44
Consensus pattern (37 bp):
ATATATAATATATAGTTTTTAAAACATTTTGAAAACT
Found at i:1304718 original size:27 final size:28
Alignment explanation
Indices: 1304683--1304746 Score: 94
Period size: 27 Copynumber: 2.3 Consensus size: 28
1304673 AAACTTATAT
* *
1304683 AATATATAGTTTTTAAAGCGTTTT-AAA
1 AATATATAGTTTTTAAAACATTTTGAAA
1304710 AATATATAGTTTTTAAAACATTTTGAAA
1 AATATATAGTTTTTAAAACATTTTGAAA
1304738 ACATATATA
1 A-ATATATA
1304747 TAATATATAG
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
27 22 0.67
28 4 0.12
29 7 0.21
ACGTcount: A:0.45, C:0.05, G:0.08, T:0.42
Consensus pattern (28 bp):
AATATATAGTTTTTAAAACATTTTGAAA
Found at i:1304898 original size:33 final size:33
Alignment explanation
Indices: 1304836--1304931 Score: 106
Period size: 33 Copynumber: 2.8 Consensus size: 33
1304826 TATAGTTTTT
*
1304836 AAAACA-TTTTGAAAATATATATAATATATAGTTAAA
1 AAAACATTTTTGAAAA-CTATAT-A-ATATAGTT-AA
**
1304872 AAAACATTTTTGAAAAC-ATATAATATAGTTTT
1 AAAACATTTTTGAAAACTATATAATATAGTTAA
*
1304904 AAAACATTTTTTAAAACTATATAATATA
1 AAAACATTTTTGAAAACTATATAATATA
1304932 TAGTTTTGAA
Statistics
Matches: 54, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
32 16 0.30
33 18 0.33
34 1 0.02
35 4 0.07
36 6 0.11
37 9 0.17
ACGTcount: A:0.52, C:0.05, G:0.04, T:0.39
Consensus pattern (33 bp):
AAAACATTTTTGAAAACTATATAATATAGTTAA
Found at i:1304906 original size:35 final size:33
Alignment explanation
Indices: 1304787--1304977 Score: 108
Period size: 35 Copynumber: 5.5 Consensus size: 33
1304777 TATATATAAT
*
1304787 ATATAGTTTT-TAAAACATTTTGAAAACATATATATA
1 ATATAGTTTTAAAAAACATTTTGAAAAC----ATATA
* *
1304823 TTATATAGTTTT-TAAAACATTTTGAAAATATATATA
1 --ATATAGTTTTAAAAAACATTTTG-AAA-ACATATA
*
1304859 ATATA-TAGTTAAAAAAACATTTTTGAAAACATATA
1 ATATAGT--TTTAAAAAACA-TTTTGAAAACATATA
*
1304894 ATATAGTTTT--AAAACATTTTTTAAAACTATATAA
1 ATATAGTTTTAAAAAACA-TTTTGAAAAC-ATAT-A
*
1304928 TATATAGTTTTGAAAAAA-ATTTT-AAAATTATATA
1 -ATATAGTTTT-AAAAAACATTTTGAAAA-CATATA
*
1304962 ATATATGGTTTAAAAA
1 ATATA-GTTTTAAAAA
1304978 TATGTTTTGA
Statistics
Matches: 130, Mismatches: 8, Indels: 35
0.75 0.05 0.20
Matches are distributed among these distances:
32 16 0.12
33 15 0.12
34 13 0.10
35 31 0.24
36 19 0.15
37 6 0.05
38 26 0.20
39 3 0.02
40 1 0.01
ACGTcount: A:0.49, C:0.04, G:0.06, T:0.42
Consensus pattern (33 bp):
ATATAGTTTTAAAAAACATTTTGAAAACATATA
Found at i:1305068 original size:18 final size:18
Alignment explanation
Indices: 1305006--1305070 Score: 57
Period size: 18 Copynumber: 3.7 Consensus size: 18
1304996 TATTATATAG
1305006 TTTATA-TTATATTATTA-
1 TTTATATTTAT-TTATTAT
**
1305023 TTCGTATTTA-TTATTAT
1 TTTATATTTATTTATTAT
1305040 TTTATGATTTATTTATTCAT
1 TTTAT-ATTTATTTATT-AT
1305060 TTTAT-TTTATT
1 TTTATATTTATT
1305071 AACTTTATTT
Statistics
Matches: 39, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
16 6 0.15
17 7 0.18
18 14 0.36
19 5 0.13
20 7 0.18
ACGTcount: A:0.26, C:0.03, G:0.03, T:0.68
Consensus pattern (18 bp):
TTTATATTTATTTATTAT
Found at i:1306447 original size:19 final size:18
Alignment explanation
Indices: 1306423--1306463 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 18
1306413 TTCAATAATT
*
1306423 TTTTTTCTTTATTTTTTTC
1 TTTTTTCTTT-TTTTTTTA
1306442 TTTTTTCTTTTTTTTTTA
1 TTTTTTCTTTTTTTTTTA
1306460 TTTT
1 TTTT
1306464 CCCTCCTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 11 0.52
19 10 0.48
ACGTcount: A:0.05, C:0.07, G:0.00, T:0.88
Consensus pattern (18 bp):
TTTTTTCTTTTTTTTTTA
Found at i:1306589 original size:12 final size:12
Alignment explanation
Indices: 1306574--1306598 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1306564 TTATTTTCCC
1306574 TTTTGATTTATT
1 TTTTGATTTATT
1306586 TTTTGATTTATT
1 TTTTGATTTATT
1306598 T
1 T
1306599 ATTTATTGTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.00, G:0.08, T:0.76
Consensus pattern (12 bp):
TTTTGATTTATT
Found at i:1306612 original size:29 final size:27
Alignment explanation
Indices: 1306580--1306644 Score: 85
Period size: 27 Copynumber: 2.3 Consensus size: 27
1306570 TCCCTTTTGA
*
1306580 TTTATTTTTTGATTTATTTATTTATTGTT
1 TTTATTTTTTGATTTA-TT-TTTATTATT
*
1306609 TTTATCTTTTGATTTATTTTTATTATT
1 TTTATTTTTTGATTTATTTTTATTATT
*
1306636 TTTGTTTTT
1 TTTATTTTT
1306645 ACCTTGATTT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
27 15 0.47
28 2 0.06
29 15 0.47
ACGTcount: A:0.15, C:0.02, G:0.06, T:0.77
Consensus pattern (27 bp):
TTTATTTTTTGATTTATTTTTATTATT
Found at i:1306645 original size:21 final size:21
Alignment explanation
Indices: 1306573--1306639 Score: 70
Period size: 21 Copynumber: 3.3 Consensus size: 21
1306563 TTTATTTTCC
*
1306573 CTTTTGATTTATT-TTTTGAT
1 CTTTTGATTTATTGTTTTTAT
*
1306593 -TTATTTATTTATTGTTTTTAT
1 CTT-TTGATTTATTGTTTTTAT
1306614 CTTTTGATTTATT-TTTATTAT
1 CTTTTGATTTATTGTTT-TTAT
1306635 -TTTTG
1 CTTTTG
1306640 TTTTTACCTT
Statistics
Matches: 40, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
19 2 0.05
20 17 0.43
21 19 0.47
22 2 0.05
ACGTcount: A:0.16, C:0.03, G:0.07, T:0.73
Consensus pattern (21 bp):
CTTTTGATTTATTGTTTTTAT
Found at i:1306652 original size:31 final size:35
Alignment explanation
Indices: 1306592--1306658 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 35
1306582 TATTTTTTGA
*
1306592 TTTATTTATTTATTGTTTTTATCTTTTGATTTATT
1 TTTATTTATTTATTGTTTTTATCTCTTGATTTATT
1306627 TTTA-TTATTT-TTGTTTTTA-C-CTTGATTTATT
1 TTTATTTATTTATTGTTTTTATCTCTTGATTTATT
1306658 T
1 T
1306659 AAATATTTAT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
31 11 0.35
32 1 0.03
33 9 0.29
34 6 0.19
35 4 0.13
ACGTcount: A:0.16, C:0.04, G:0.06, T:0.73
Consensus pattern (35 bp):
TTTATTTATTTATTGTTTTTATCTCTTGATTTATT
Found at i:1308846 original size:131 final size:131
Alignment explanation
Indices: 1308481--1308839 Score: 520
Period size: 131 Copynumber: 2.7 Consensus size: 131
1308471 ATTGATATTG
* * * * *
1308481 AGAATAGTAATATCTTTTCATTTCGATTGGAGTAATAAATGACTGCTTTAAGGCATGAGAGGTCA
1 AGAATAGTGATATCTCTTCATTTTGATTGGAGTAATAAATGAATGCTTTAAGGTATGAGAGGTCA
* * * * * *
1308546 TTTATTCTTGATTGGAAATAATTCGATATTACCGTTTTCTCTTGAATTAATATTGATTTTTAAGA
66 TTTATTCTTGATTGGAAATAATTAGATATTATCGTTTTCACTCGAATCAATATTGAATTTTAAGA
1308611 T
131 T
* * * * *
1308612 GGAATAGTGATATCTCTCCATTTTGATTGGAGCAATAAATGATTGCTTTAAGGTATGAGATGTCA
1 AGAATAGTGATATCTCTTCATTTTGATTGGAGTAATAAATGAATGCTTTAAGGTATGAGAGGTCA
* * *
1308677 TTTATTTTTGATTGGAAATTATTAGATATTATCGTTTTCACTCGAATCGATATTGAATTTTAAGA
66 TTTATTCTTGATTGGAAATAATTAGATATTATCGTTTTCACTCGAATCAATATTGAATTTTAAGA
1308742 T
131 T
* *
1308743 AGAATATTGATATCTCTTCATTTTGATTGGAGTAATAAATGAATGTTTTAAGGTATGAGAGGTCA
1 AGAATAGTGATATCTCTTCATTTTGATTGGAGTAATAAATGAATGCTTTAAGGTATGAGAGGTCA
*
1308808 TTTATTCTCGATTGGAAATAATTAGATATTAT
66 TTTATTCTTGATTGGAAATAATTAGATATTAT
1308840 TATTTTCTCT
Statistics
Matches: 200, Mismatches: 28, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
131 200 1.00
ACGTcount: A:0.32, C:0.09, G:0.18, T:0.42
Consensus pattern (131 bp):
AGAATAGTGATATCTCTTCATTTTGATTGGAGTAATAAATGAATGCTTTAAGGTATGAGAGGTCA
TTTATTCTTGATTGGAAATAATTAGATATTATCGTTTTCACTCGAATCAATATTGAATTTTAAGA
T
Found at i:1310064 original size:31 final size:31
Alignment explanation
Indices: 1309993--1310064 Score: 108
Period size: 31 Copynumber: 2.3 Consensus size: 31
1309983 ATTTGAACTT
* *
1309993 GACCCGAATTTCTGAGATAAAATTTGAATCC
1 GACCCGACTTTCTGAGATAAAATTTGAAACC
* *
1310024 GACCTGACTTTTTGAGATAAAATTTGAAACC
1 GACCCGACTTTCTGAGATAAAATTTGAAACC
1310055 GACCCGACTT
1 GACCCGACTT
1310065 AACCTGAAAT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 36 1.00
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.29
Consensus pattern (31 bp):
GACCCGACTTTCTGAGATAAAATTTGAAACC
Found at i:1313238 original size:3 final size:3
Alignment explanation
Indices: 1313204--1313271 Score: 82
Period size: 3 Copynumber: 22.0 Consensus size: 3
1313194 TTGGGTTTTG
* * * *
1313204 TAA TAT TAA TAAA TAA TATA TAA TAT TTA TAA TAA TAA TAA TAA TTA
1 TAA TAA TAA T-AA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA
1313251 TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA
1313272 AAAATTTAAA
Statistics
Matches: 55, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
3 49 0.89
4 6 0.11
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (3 bp):
TAA
Found at i:1313849 original size:76 final size:76
Alignment explanation
Indices: 1313408--1313822 Score: 749
Period size: 76 Copynumber: 5.5 Consensus size: 76
1313398 GATGAAAATG
* ** *
1313408 TTTGAAAACATCATGCACTATAGGACTTACAGATGACCCTAAGGCGTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCT
*
1313473 CCCGAAGGTTT
66 CCCGAAGGCTT
*
1313484 TTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGAT
1 TTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCT
1313549 CCCGAAGGCTT
66 CCCGAAGGCTT
* *
1313560 TTTGGAAACATCATGCAATACAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCT
1313625 CCCGAAGGCTT
66 CCCGAAGGCTT
*
1313636 TTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCC
1 TTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCT
1313701 CCCGAAGGCTT
66 CCCGAAGGCTT
1313712 TTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCT
1313777 CCCGAAGGCTT
66 CCCGAAGGCTT
1313788 TTTGGAAACATCATGCACTGCAGGACTTACAGATG
1 TTTGGAAACATCATGCACTGCAGGACTTACAGATG
1313823 TGGGAAATAG
Statistics
Matches: 326, Mismatches: 13, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
76 326 1.00
ACGTcount: A:0.35, C:0.23, G:0.20, T:0.23
Consensus pattern (76 bp):
TTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCT
CCCGAAGGCTT
Found at i:1314128 original size:166 final size:166
Alignment explanation
Indices: 1313825--1314149 Score: 510
Period size: 166 Copynumber: 2.0 Consensus size: 166
1313815 TACAGATGTG
* *
1313825 GGAAATAGTTTATTAAGTAAAAAAACTAAGGAAATCGTTTTCTTACTTTTCAACAATTTCATTTT
1 GGAAATAGTTTACTAAGTAAAAAAACTAAGAAAATCGTTTTCTTACTTTTCAACAATTTCATTTT
* ** *
1313890 TAGAAAAGATTGAATGAGAAACTATGGAAATCATTTTCTCATTATTTTTCAAAATAACATGTTGA
66 TAGAAAAAATAAAATGAGAAACTATGAAAATCATTTTCTCATTATTTTTCAAAATAACATGTTGA
*
1313955 TTGGGTAACATGCCCCAATCTCAAGATAAGGCTGTT
131 TTGGGTAACATGACCCAATCTCAAGATAAGGCTGTT
1313991 GGAAATAGTTTACTAAGT-AAAAAACTAAGAAAATCGTTTTCTTACTTTTCAACAATTTCA-TTT
1 GGAAATAGTTTACTAAGTAAAAAAACTAAGAAAATCGTTTTCTTACTTTTCAACAATTTCATTTT
* * **
1314054 TAGAAAAAATAAAATGAGAAACTATGAAAATCGTTTTCTCATTCTGTTTTTTGAAATAACATGTT
66 TAGAAAAAATAAAATGAGAAACTATGAAAATCATTTTCTCA-T-TATTTTTCAAAATAACATGTT
*
1314119 GATTGGGTAACATGACCCAATCTGAAGATAA
129 GATTGGGTAACATGACCCAATCTCAAGATAA
1314150 TGCTCATTTT
Statistics
Matches: 145, Mismatches: 12, Indels: 4
0.90 0.07 0.02
Matches are distributed among these distances:
164 39 0.27
165 42 0.29
166 64 0.44
ACGTcount: A:0.39, C:0.12, G:0.14, T:0.35
Consensus pattern (166 bp):
GGAAATAGTTTACTAAGTAAAAAAACTAAGAAAATCGTTTTCTTACTTTTCAACAATTTCATTTT
TAGAAAAAATAAAATGAGAAACTATGAAAATCATTTTCTCATTATTTTTCAAAATAACATGTTGA
TTGGGTAACATGACCCAATCTCAAGATAAGGCTGTT
Found at i:1314699 original size:22 final size:22
Alignment explanation
Indices: 1314665--1314715 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 22
1314655 CATAAAGCTT
**
1314665 TCATCTTTGAAAAGAGAATCTA
1 TCATCTTCAAAAAGAGAATCTA
*
1314687 TTATCTTCAAAAAGAGAATCTA
1 TCATCTTCAAAAAGAGAATCTA
1314709 TCATCTT
1 TCATCTT
1314716 TGAAGAGTGT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.39, C:0.16, G:0.10, T:0.35
Consensus pattern (22 bp):
TCATCTTCAAAAAGAGAATCTA
Found at i:1317327 original size:114 final size:114
Alignment explanation
Indices: 1317127--1317346 Score: 377
Period size: 114 Copynumber: 1.9 Consensus size: 114
1317117 GATCATGCAG
* * *
1317127 TTCATCTTTCAATTCCAATGATTGGTTCTGAGGTTCCTACCGAACCAAATCAGATAACTCAAAGA
1 TTCATCTTTCAAATCCAATGATTGGTTCTGAGGTTCATACCAAACCAAATCAGATAACTCAAAGA
1317192 ACACTTCCAGAAGATGCTATTGGGTCTCCTTATTTCTACTATGAGCAAA
66 ACACTTCCAGAAGATGCTATTGGGTCTCCTTATTTCTACTATGAGCAAA
* * * *
1317241 TTCATCTTTCAAATCCAATGATTGGTTTTGGGGTTCATACCAAATCAGATCAGATAACTCAAAGA
1 TTCATCTTTCAAATCCAATGATTGGTTCTGAGGTTCATACCAAACCAAATCAGATAACTCAAAGA
1317306 ACACTTCCAGAAGATGCTATTGGGTCTCCTTATTTCTACTA
66 ACACTTCCAGAAGATGCTATTGGGTCTCCTTATTTCTACTA
1317347 CGAGAACGTG
Statistics
Matches: 99, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
114 99 1.00
ACGTcount: A:0.30, C:0.22, G:0.15, T:0.33
Consensus pattern (114 bp):
TTCATCTTTCAAATCCAATGATTGGTTCTGAGGTTCATACCAAACCAAATCAGATAACTCAAAGA
ACACTTCCAGAAGATGCTATTGGGTCTCCTTATTTCTACTATGAGCAAA
Found at i:1323874 original size:19 final size:18
Alignment explanation
Indices: 1323844--1323896 Score: 56
Period size: 19 Copynumber: 2.8 Consensus size: 18
1323834 TAATGAAAAT
1323844 TAATACATGAAAAAAGTATAA
1 TAATA-ATGAAAAAA-TA-AA
1323865 -AATAATGAAAATAATAAA
1 TAATAATGAAAA-AATAAA
1323883 TAATAAT-AAAAAAT
1 TAATAATGAAAAAAT
1323897 TAAAAGAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
17 3 0.10
18 6 0.20
19 15 0.50
20 6 0.20
ACGTcount: A:0.68, C:0.02, G:0.06, T:0.25
Consensus pattern (18 bp):
TAATAATGAAAAAATAAA
Found at i:1323930 original size:20 final size:20
Alignment explanation
Indices: 1323879--1323931 Score: 56
Period size: 20 Copynumber: 2.7 Consensus size: 20
1323869 ATGAAAATAA
*
1323879 TAAAT-AAT-AATAAAAAAT
1 TAAATAAATGAATTAAAAAT
* *
1323897 TAAAAGAAAAGAATTAAAAAT
1 T-AAATAAATGAATTAAAAAT
1323918 TAAATAAATGAATT
1 TAAATAAATGAATT
1323932 TTTAATTTCT
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
18 1 0.04
19 3 0.11
20 13 0.48
21 10 0.37
ACGTcount: A:0.68, C:0.00, G:0.06, T:0.26
Consensus pattern (20 bp):
TAAATAAATGAATTAAAAAT
Found at i:1324426 original size:23 final size:25
Alignment explanation
Indices: 1324374--1324434 Score: 74
Period size: 23 Copynumber: 2.6 Consensus size: 25
1324364 ATTTCAAAAT
*
1324374 TATAATTATAAA-AAAATTAATTTA
1 TATATTTATAAATAAAATTAATTTA
1324398 TATATTTATAAATAAAA-T-ATTTA
1 TATATTTATAAATAAAATTAATTTA
* *
1324421 TTTATTTAGAAATA
1 TATATTTATAAATA
1324435 TCAGAAAATG
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
23 17 0.52
24 12 0.36
25 4 0.12
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (25 bp):
TATATTTATAAATAAAATTAATTTA
Found at i:1324666 original size:2 final size:2
Alignment explanation
Indices: 1324661--1324690 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
1324651 TATTATTTAT
*
1324661 TA TA TA TA TA TA TA TA TA TA TA TT TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1324691 AATAATAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:1324706 original size:3 final size:3
Alignment explanation
Indices: 1324691--1324759 Score: 72
Period size: 3 Copynumber: 23.3 Consensus size: 3
1324681 TATTTATATA
* * *
1324691 AAT AAT AAA AAT AAT AAT AAT GA- AAT AAT AATT AA- AAC AAT AAAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT AAT AAT -AAT
1324736 AAT AAT AAT AAT AAT AA- AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT A
1324760 TTGCAAATAA
Statistics
Matches: 56, Mismatches: 5, Indels: 10
0.79 0.07 0.14
Matches are distributed among these distances:
2 5 0.09
3 45 0.80
4 6 0.11
ACGTcount: A:0.70, C:0.01, G:0.01, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:1324737 original size:19 final size:20
Alignment explanation
Indices: 1324694--1324759 Score: 73
Period size: 20 Copynumber: 3.4 Consensus size: 20
1324684 TTATATAAAT
* * *
1324694 AATAAAAATAATAATAATGA
1 AATAATAATAATAACAATAA
1324714 AATAATAATTAA-AACAAT-A
1 AATAATAA-TAATAACAATAA
*
1324733 AATAATAATAATAATAATAA
1 AATAATAATAATAACAATAA
1324753 AATAATA
1 AATAATA
1324760 TTGCAAATAA
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
18 3 0.08
19 14 0.35
20 20 0.50
21 3 0.08
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.27
Consensus pattern (20 bp):
AATAATAATAATAACAATAA
Found at i:1324779 original size:12 final size:12
Alignment explanation
Indices: 1324691--1324781 Score: 67
Period size: 12 Copynumber: 7.2 Consensus size: 12
1324681 TATTTATATA
*
1324691 AATAATAAAAAT
1 AATAATTAAAAT
*
1324703 AATAATAATGAAAT
1 AATAAT--TAAAAT
*
1324717 AATAATTAAAAC
1 AATAATTAAAAT
*
1324729 AATAAATAATAAT
1 AATAATTAA-AAT
1324742 AATAATAATAAAAT
1 AATAAT--TAAAAT
*
1324756 AAT-ATTGCAAAT
1 AATAATT-AAAAT
*
1324768 AATGATTAAAAT
1 AATAATTAAAAT
1324780 AA
1 AA
1324782 AAGGAAATAA
Statistics
Matches: 63, Mismatches: 9, Indels: 14
0.73 0.10 0.16
Matches are distributed among these distances:
11 1 0.02
12 31 0.49
13 12 0.19
14 16 0.25
15 3 0.05
ACGTcount: A:0.66, C:0.02, G:0.03, T:0.29
Consensus pattern (12 bp):
AATAATTAAAAT
Found at i:1324863 original size:18 final size:18
Alignment explanation
Indices: 1324840--1324875 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
1324830 TCAAAAATAA
1324840 AAATTAATGATTAAAATG
1 AAATTAATGATTAAAATG
1324858 AAATTAATGATTAAAATG
1 AAATTAATGATTAAAATG
1324876 TAAAATAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.56, C:0.00, G:0.11, T:0.33
Consensus pattern (18 bp):
AAATTAATGATTAAAATG
Found at i:1326162 original size:3 final size:3
Alignment explanation
Indices: 1326128--1326195 Score: 73
Period size: 3 Copynumber: 22.0 Consensus size: 3
1326118 TTGGGTTTTG
* * * *
1326128 TAA TAT TAA TAAA TAA TATA TAA TAT TTA TAA TAA TAA TAA TAA TTA
1 TAA TAA TAA T-AA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
1326175 TAA TAA TTA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA
1326196 ATTTAAATTT
Statistics
Matches: 53, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
3 47 0.89
4 6 0.11
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (3 bp):
TAA
Found at i:1331343 original size:10 final size:10
Alignment explanation
Indices: 1331328--1331353 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
1331318 ATGTAAAATG
1331328 AATAAAATTA
1 AATAAAATTA
1331338 AATAAAATTA
1 AATAAAATTA
1331348 AATAAA
1 AATAAA
1331354 TATGTGATGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (10 bp):
AATAAAATTA
Found at i:1333357 original size:18 final size:20
Alignment explanation
Indices: 1333324--1333382 Score: 59
Period size: 19 Copynumber: 3.0 Consensus size: 20
1333314 AACACCAATC
*
1333324 TTTTTCTTCTTTTTCAT-TT
1 TTTTTCTTCTTCTTCATCTT
1333343 TTTTTCTT-TTCTTCATCTT
1 TTTTTCTTCTTCTTCATCTT
* * *
1333362 TATTCTCTTGTTCTTCTTCTT
1 T-TTTTCTTCTTCTTCATCTT
1333383 CCTTCGCAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
18 7 0.21
19 11 0.32
20 6 0.18
21 10 0.29
ACGTcount: A:0.05, C:0.20, G:0.02, T:0.73
Consensus pattern (20 bp):
TTTTTCTTCTTCTTCATCTT
Found at i:1338822 original size:2 final size:2
Alignment explanation
Indices: 1338815--1338845 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
1338805 GAATGAAAAC
1338815 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1338846 AAACACCGAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1338919 original size:86 final size:86
Alignment explanation
Indices: 1338769--1338931 Score: 240
Period size: 86 Copynumber: 1.9 Consensus size: 86
1338759 TAACACACAG
* * * *
1338769 TCTACACATTATTTGGGATGGGTCTTAAGGCAATATGAATGAAAACATATATATATATATATATA
1 TCTACACATAATTTGGGATGGGTCTGAAGGCAATATGAATG-AAACATATATATACACATATATA
1338834 TATATATATATAAAACACCGAA
65 TATATATATATAAAACACCGAA
*
1338856 TCTACACATAATTTGGGATGGG-CTGAAGGCAATATGAATG-AATATATATATACACACTCATAT
1 TCTACACATAATTTGGGATGGGTCTGAAGGCAATATGAATGAAACATATATATACACA-T-ATAT
1338919 ATATATATATATA
64 ATATATATATATA
1338932 TGTATCTATA
Statistics
Matches: 69, Mismatches: 5, Indels: 5
0.87 0.06 0.06
Matches are distributed among these distances:
84 13 0.19
85 1 0.01
86 34 0.49
87 21 0.30
ACGTcount: A:0.42, C:0.11, G:0.13, T:0.33
Consensus pattern (86 bp):
TCTACACATAATTTGGGATGGGTCTGAAGGCAATATGAATGAAACATATATATACACATATATAT
ATATATATATAAAACACCGAA
Found at i:1344105 original size:31 final size:32
Alignment explanation
Indices: 1343985--1344108 Score: 96
Period size: 31 Copynumber: 3.9 Consensus size: 32
1343975 TTAGGTCTAT
* * *
1343985 AAGGAATTACCAGTCTGTG-CTGAACCTATAC
1 AAGGAATTACCAGACAGCGACTGAACCTATAC
* *
1344016 AAGGAATTACCAGA-AGCGACTG-ACCTTCAAGAGAT
1 AAGGAATTACCAGACAGCGACTGAACC-T----ATAC
* * *
1344051 AAGGAATTACCAGTCGGTG-CTGAACCTATAC
1 AAGGAATTACCAGACAGCGACTGAACCTATAC
1344082 AAGGAATTACCA-ACAGCGACTGAACCT
1 AAGGAATTACCAGACAGCGACTGAACCT
1344109 GCCAGAGTCT
Statistics
Matches: 71, Mismatches: 13, Indels: 18
0.70 0.13 0.18
Matches are distributed among these distances:
30 8 0.11
31 39 0.55
35 19 0.27
36 5 0.07
ACGTcount: A:0.36, C:0.23, G:0.21, T:0.20
Consensus pattern (32 bp):
AAGGAATTACCAGACAGCGACTGAACCTATAC
Found at i:1346075 original size:14 final size:14
Alignment explanation
Indices: 1346056--1346112 Score: 60
Period size: 14 Copynumber: 4.0 Consensus size: 14
1346046 GTCAAAGTAA
1346056 ACGAGTTGACTCGG
1 ACGAGTTGACTCGG
* *
1346070 ACGAGTTAACTCAG
1 ACGAGTTGACTCGG
* * *
1346084 ATGGGTTGACTTGG
1 ACGAGTTGACTCGG
1346098 ACCGAGTTGACTCGG
1 A-CGAGTTGACTCGG
1346113 TGACTGAACC
Statistics
Matches: 32, Mismatches: 10, Indels: 1
0.74 0.23 0.02
Matches are distributed among these distances:
14 22 0.69
15 10 0.31
ACGTcount: A:0.23, C:0.19, G:0.33, T:0.25
Consensus pattern (14 bp):
ACGAGTTGACTCGG
Found at i:1348010 original size:29 final size:29
Alignment explanation
Indices: 1347968--1348056 Score: 110
Period size: 29 Copynumber: 3.1 Consensus size: 29
1347958 TACCGGGGGT
1347968 AGGTCGCCATGCACGCCCGTCGACCTACC
1 AGGTCGCCATGCACGCCCGTCGACCTACC
***
1347997 AGGTCGCCATGCACGCCCAG-CGACCTGGT
1 AGGTCGCCATGCACGCCC-GTCGACCTACC
*
1348026 AGGTCGCCATGCATGCCC-TGCGACCTACC
1 AGGTCGCCATGCACGCCCGT-CGACCTACC
1348055 AG
1 AG
1348057 CAATGCCCAT
Statistics
Matches: 50, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
29 49 0.98
30 1 0.02
ACGTcount: A:0.18, C:0.40, G:0.27, T:0.15
Consensus pattern (29 bp):
AGGTCGCCATGCACGCCCGTCGACCTACC
Found at i:1348055 original size:58 final size:59
Alignment explanation
Indices: 1347965--1348082 Score: 161
Period size: 58 Copynumber: 2.0 Consensus size: 59
1347955 CAGTACCGGG
* *
1347965 GGTAGGTCGCCATGCACGCCCGTCGACCTACCAG-GT-CGCCATGCACGCCCAGCGACCT
1 GGTAGGTCGCCATGCACGCCCGTCGACCTACCAGAATGC-CCATGCACGCCCAACGACCT
*
1348023 GGTAGGTCGCCATGCATGCCC-TGCGACCTACCAGCAATGCCCATGCACGCCCAACGACCT
1 GGTAGGTCGCCATGCACGCCCGT-CGACCTACCAG-AATGCCCATGCACGCCCAACGACCT
1348083 CCATGCACGC
Statistics
Matches: 53, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
57 1 0.02
58 31 0.58
60 20 0.38
61 1 0.02
ACGTcount: A:0.19, C:0.41, G:0.25, T:0.14
Consensus pattern (59 bp):
GGTAGGTCGCCATGCACGCCCGTCGACCTACCAGAATGCCCATGCACGCCCAACGACCT
Found at i:1348088 original size:20 final size:20
Alignment explanation
Indices: 1348063--1348175 Score: 99
Period size: 20 Copynumber: 5.7 Consensus size: 20
1348053 CCAGCAATGC
1348063 CCATGCACGCCCAACGACCT
1 CCATGCACGCCCAACGACCT
1348083 CCATGCACGCCCAACGACCT
1 CCATGCACGCCCAACGACCT
* * *
1348103 CCATGCATGCCC-AGGCACGT
1 CCATGCACGCCCAACG-ACCT
* * **
1348123 CCA---ACGACCTCCATGCACGG
1 CCATGCACG-CC-CAACG-ACCT
1348143 CCATGCACGCCCAACGACCT
1 CCATGCACGCCCAACGACCT
1348163 CCATGCACGCCCA
1 CCATGCACGCCCA
1348176 GCTCGCCAAA
Statistics
Matches: 76, Mismatches: 10, Indels: 14
0.76 0.10 0.14
Matches are distributed among these distances:
17 2 0.03
18 2 0.03
19 3 0.04
20 61 0.80
21 3 0.04
22 2 0.03
23 3 0.04
ACGTcount: A:0.24, C:0.48, G:0.18, T:0.11
Consensus pattern (20 bp):
CCATGCACGCCCAACGACCT
Found at i:1348121 original size:30 final size:30
Alignment explanation
Indices: 1348087--1348176 Score: 144
Period size: 30 Copynumber: 3.0 Consensus size: 30
1348077 CGACCTCCAT
*
1348087 GCACGCCCAACGACCTCCATGCATGCCCAG
1 GCACGCCCAACGACCTCCATGCACGCCCAG
* * *
1348117 GCACGTCCAACGACCTCCATGCACGGCCAT
1 GCACGCCCAACGACCTCCATGCACGCCCAG
1348147 GCACGCCCAACGACCTCCATGCACGCCCAG
1 GCACGCCCAACGACCTCCATGCACGCCCAG
1348177 CTCGCCAAAG
Statistics
Matches: 53, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 53 1.00
ACGTcount: A:0.23, C:0.47, G:0.20, T:0.10
Consensus pattern (30 bp):
GCACGCCCAACGACCTCCATGCACGCCCAG
Found at i:1348127 original size:50 final size:51
Alignment explanation
Indices: 1348032--1348141 Score: 152
Period size: 50 Copynumber: 2.2 Consensus size: 51
1348022 TGGTAGGTCG
* ** *
1348032 CCATGCATGCCCTGCGACCTACCAGCAATGCCCATGCACGCCCAACGACCT
1 CCATGCACGCCCAACGACCTACCAGCAATGCCCAGGCACGCCCAACGACCT
*
1348083 CCATGCACGCCCAACGACCT-CCATGC-ATGCCCAGGCACGTCCAACGACCT
1 CCATGCACGCCCAACGACCTACCA-GCAATGCCCAGGCACGCCCAACGACCT
1348133 CCATGCACG
1 CCATGCACG
1348142 GCCATGCACG
Statistics
Matches: 53, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
50 34 0.64
51 19 0.36
ACGTcount: A:0.24, C:0.45, G:0.18, T:0.13
Consensus pattern (51 bp):
CCATGCACGCCCAACGACCTACCAGCAATGCCCAGGCACGCCCAACGACCT
Found at i:1348891 original size:28 final size:27
Alignment explanation
Indices: 1348836--1348887 Score: 79
Period size: 28 Copynumber: 1.9 Consensus size: 27
1348826 TAGTATAAAT
*
1348836 TATTAGTTTGTTAGTTTAAGTTATATTA
1 TATTAATTTGTTAGTTT-AGTTATATTA
1348864 TATTAATTTGTTAGTTT-GTTATAT
1 TATTAATTTGTTAGTTTAGTTATAT
1348888 ATTAGATTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 7 0.30
28 16 0.70
ACGTcount: A:0.27, C:0.00, G:0.13, T:0.60
Consensus pattern (27 bp):
TATTAATTTGTTAGTTTAGTTATATTA
Found at i:1352004 original size:59 final size:59
Alignment explanation
Indices: 1351923--1352339 Score: 615
Period size: 59 Copynumber: 7.1 Consensus size: 59
1351913 TTTATAAGAT
* *
1351923 TTAGTAATGA-TAGTAATGATGAAATTATTATTAATATTTAATGATTTAATAGTAATTGA
1 TTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAA-TGA
*
1351982 -TAGTAATGATTAGTAATAATGAAATTATTATTAATTATGT-ATGATTTGATAGTAATGA
1 TTAGTAATGATTAGTAATAATGAAATTATTATTAA-TATTTAATGATTTGATAGTAATGA
*
1352040 TTAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATAGTAATGA
1 TTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATGA
* *
1352099 TTTAGTAATGATTACTAATAATGAAATTATTATTAATTATGT-ATGATTTGATAGTAATGA
1 -TTAGTAATGATTAGTAATAATGAAATTATTATTAA-TATTTAATGATTTGATAGTAATGA
1352159 CTTAGTAATGA-TAGTAATAATGAAATTATTA-TAAT-TTTAATGATTTGATAGTAATGA
1 -TTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATGA
*
1352216 TTTAGTAATGA-TAGTAATAATG-AATTATTATTAATTATGT-ATGA-TTGATAGTAATGA
1 -TTAGTAATGATTAGTAATAATGAAATTATTATTAA-TATTTAATGATTTGATAGTAATGA
1352273 TTTAGTAATGATTAGTAATAATGAAATTATTATTAAT-TTTAATGATTTGATAGTAATGA
1 -TTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATGA
1352332 TTAGTAAT
1 TTAGTAAT
1352340 ACTAATTTAT
Statistics
Matches: 330, Mismatches: 14, Indels: 29
0.88 0.04 0.08
Matches are distributed among these distances:
56 10 0.03
57 69 0.21
58 47 0.14
59 135 0.41
60 66 0.20
61 3 0.01
ACGTcount: A:0.41, C:0.00, G:0.14, T:0.44
Consensus pattern (59 bp):
TTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATGA
Found at i:1352046 original size:10 final size:10
Alignment explanation
Indices: 1352031--1352057 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
1352021 TATGATTTGA
1352031 TAGTAATGAT
1 TAGTAATGAT
1352041 TAGTAATGAT
1 TAGTAATGAT
1352051 TAGTAAT
1 TAGTAAT
1352058 AATGAAATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.41, C:0.00, G:0.19, T:0.41
Consensus pattern (10 bp):
TAGTAATGAT
Found at i:1352144 original size:119 final size:117
Alignment explanation
Indices: 1351923--1352339 Score: 693
Period size: 119 Copynumber: 3.6 Consensus size: 117
1351913 TTTATAAGAT
* *
1351923 TTAGTAATGATAGTAATGATGAAATTATTATTAATATTTAATGATTTAATAGTAATTGA-TAGTA
1 TTAGTAATGATAGTAATAATGAAATTATTATTAAT-TTTAATGATTTGATAGTAA-TGATTAGTA
1351987 ATGATTAGTAATAATGAAATTATTATTAATTATGTATGATTTGATAGTAATGA-
64 ATGATTAGTAATAATGAAATTATTATTAATTATGTATGATTTGATAGTAATGAC
1352040 TTAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATAGTAATGATTTAGT
1 TTAGTAATGA-TAGTAATAATGAAATTATTATTAA-TTTTAATGATTTGATAGTAATGA-TTAGT
*
1352105 AATGATTACTAATAATGAAATTATTATTAATTATGTATGATTTGATAGTAATGAC
63 AATGATTAGTAATAATGAAATTATTATTAATTATGTATGATTTGATAGTAATGAC
1352160 TTAGTAATGATAGTAATAATGAAATTATTA-TAATTTTAATGATTTGATAGTAATGATTTAGTAA
1 TTAGTAATGATAGTAATAATGAAATTATTATTAATTTTAATGATTTGATAGTAATGA-TTAGTAA
*
1352224 TGA-TAGTAATAATG-AATTATTATTAATTATGTATGA-TTGATAGTAATGAT
65 TGATTAGTAATAATGAAATTATTATTAATTATGTATGATTTGATAGTAATGAC
1352274 TTAGTAATGATTAGTAATAATGAAATTATTATTAATTTTAATGATTTGATAGTAATGATTAGTAA
1 TTAGTAATGA-TAGTAATAATGAAATTATTATTAATTTTAATGATTTGATAGTAATGATTAGTAA
1352339 T
65 T
1352340 ACTAATTTAT
Statistics
Matches: 288, Mismatches: 5, Indels: 16
0.93 0.02 0.05
Matches are distributed among these distances:
114 23 0.08
115 50 0.17
116 36 0.12
117 47 0.16
118 44 0.15
119 78 0.27
120 10 0.03
ACGTcount: A:0.41, C:0.00, G:0.14, T:0.44
Consensus pattern (117 bp):
TTAGTAATGATAGTAATAATGAAATTATTATTAATTTTAATGATTTGATAGTAATGATTAGTAAT
GATTAGTAATAATGAAATTATTATTAATTATGTATGATTTGATAGTAATGAC
Found at i:1352212 original size:46 final size:48
Alignment explanation
Indices: 1352161--1352385 Score: 197
Period size: 46 Copynumber: 4.4 Consensus size: 48
1352151 AGTAATGACT
1352161 TAGTAATGA-TAGTAATAATGAAATTATTA-TAATTTTAATGATTTGA
1 TAGTAATGATTAGTAATAATGAAATTATTATTAATTTTAATGATTTGA
* *
1352207 TAGTAATGATTTAGTAATGATAGTAATAATGAATTATTATTAATTATGTATGATTGATAGTAATG
1 TAGTAATGA-TTAG---T-A-A-TAATGA--AATTATTATTAATT-T-TA--A-TGAT-T---TG
1352272 A
48 A
1352273 TTTAGTAATGATTAGTAATAATGAAATTATTATTAATTTTAATGATTTGA
1 --TAGTAATGATTAGTAATAATGAAATTATTATTAATTTTAATGATTTGA
* *
1352323 TAGTAATGATTAGTAATACT-AATTTATTATTAA-TTTAATGATTTGA
1 TAGTAATGATTAGTAATAATGAAATTATTATTAATTTTAATGATTTGA
*
1352369 TATTAATGATTAGTAAT
1 TAGTAATGATTAGTAAT
1352386 GATTTGATAG
Statistics
Matches: 150, Mismatches: 7, Indels: 44
0.75 0.03 0.22
Matches are distributed among these distances:
46 38 0.25
47 12 0.08
48 22 0.15
50 3 0.02
51 1 0.01
52 1 0.01
53 1 0.01
54 9 0.06
55 1 0.01
56 8 0.05
57 7 0.05
58 2 0.01
59 16 0.11
61 6 0.04
62 5 0.03
63 1 0.01
64 1 0.01
66 3 0.02
67 4 0.03
68 9 0.06
ACGTcount: A:0.41, C:0.00, G:0.13, T:0.45
Consensus pattern (48 bp):
TAGTAATGATTAGTAATAATGAAATTATTATTAATTTTAATGATTTGA
Found at i:1352289 original size:10 final size:11
Alignment explanation
Indices: 1352207--1352291 Score: 59
Period size: 11 Copynumber: 7.6 Consensus size: 11
1352197 AATGATTTGA
1352207 TAGTAATGATT
1 TAGTAATGATT
*
1352218 TAGTAATGATAG
1 TAGTAATGAT-T
* *
1352230 TAATAATGAAT
1 TAGTAATGATT
* * *
1352241 TA-TTATTAAT
1 TAGTAATGATT
1352251 TATGT-ATGATT
1 TA-GTAATGATT
1352262 GATAGTAATGATT
1 --TAGTAATGATT
1352275 TAGTAATGA-T
1 TAGTAATGATT
1352285 TAGTAAT
1 TAGTAAT
1352292 AATGAAATTA
Statistics
Matches: 60, Mismatches: 8, Indels: 13
0.74 0.10 0.16
Matches are distributed among these distances:
10 16 0.27
11 25 0.42
12 11 0.18
13 8 0.13
ACGTcount: A:0.40, C:0.00, G:0.16, T:0.44
Consensus pattern (11 bp):
TAGTAATGATT
Found at i:1352376 original size:14 final size:14
Alignment explanation
Indices: 1352358--1352404 Score: 57
Period size: 14 Copynumber: 3.6 Consensus size: 14
1352348 ATTATTAATT
*
1352358 TAATGATTTGATAT
1 TAATGATTTGATAG
1352372 TAATGA--T--TAG
1 TAATGATTTGATAG
1352382 TAATGATTTGATAG
1 TAATGATTTGATAG
1352396 TAATGATTT
1 TAATGATTT
1352405 ACGACTTGAA
Statistics
Matches: 28, Mismatches: 1, Indels: 8
0.76 0.03 0.22
Matches are distributed among these distances:
10 8 0.29
12 2 0.07
14 18 0.64
ACGTcount: A:0.36, C:0.00, G:0.17, T:0.47
Consensus pattern (14 bp):
TAATGATTTGATAG
Found at i:1354815 original size:42 final size:43
Alignment explanation
Indices: 1354768--1354858 Score: 98
Period size: 42 Copynumber: 2.2 Consensus size: 43
1354758 AAATATAACT
** * *
1354768 TAACTATTTAACTAACACAACTAATTACATA-TTTTTT-ATATA
1 TAACTATACAACTAACA-AACTAACTAAATATTTTTTTAATATA
* *
1354810 TAACTA-ACGACTAACAAACTAACTAAATATTTTTTTAATATG
1 TAACTATACAACTAACAAACTAACTAAATATTTTTTTAATATA
1354852 TAACTAT
1 TAACTAT
1354859 CAAACATGCT
Statistics
Matches: 40, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
40 11 0.28
41 13 0.32
42 16 0.40
ACGTcount: A:0.44, C:0.14, G:0.02, T:0.40
Consensus pattern (43 bp):
TAACTATACAACTAACAAACTAACTAAATATTTTTTTAATATA
Found at i:1355038 original size:28 final size:29
Alignment explanation
Indices: 1355007--1355072 Score: 82
Period size: 31 Copynumber: 2.2 Consensus size: 29
1354997 AACTAATTTA
1355007 AATAATATTCTTTTAT-AT-AACTTAAACT
1 AATAATATT-TTTTATAATAAACTTAAACT
1355035 AATAACTATTTTTTATAATAAAACTTAAACT
1 AATAA-TATTTTTTATAAT-AAACTTAAACT
*
1355066 ACTAATA
1 AATAATA
1355073 AACTAATTTT
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
28 11 0.33
29 6 0.18
30 2 0.06
31 14 0.42
ACGTcount: A:0.47, C:0.11, G:0.00, T:0.42
Consensus pattern (29 bp):
AATAATATTTTTTATAATAAACTTAAACT
Found at i:1355490 original size:12 final size:11
Alignment explanation
Indices: 1355459--1355494 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
1355449 ACGTTCACGG
1355459 GCTGCAATAAT
1 GCTGCAATAAT
*
1355470 GCAGCAATAAGT
1 GCTGCAATAA-T
1355482 GCTGCAATAAT
1 GCTGCAATAAT
1355493 GC
1 GC
1355495 AGTTGATTTC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
11 12 0.55
12 10 0.45
ACGTcount: A:0.36, C:0.19, G:0.22, T:0.22
Consensus pattern (11 bp):
GCTGCAATAAT
Found at i:1355727 original size:33 final size:33
Alignment explanation
Indices: 1355685--1355750 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
1355675 AAGCATGGAC
*
1355685 TGCATGGTGACCTTTGGCGAGCTGGACGTGCAT
1 TGCATGGTGACCTTTGGCGAGATGGACGTGCAT
*
1355718 TGCATGGTGACCTTTGGCGAGATGGGCGTGCAT
1 TGCATGGTGACCTTTGGCGAGATGGACGTGCAT
1355751 GGGCGTGCAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.15, C:0.20, G:0.38, T:0.27
Consensus pattern (33 bp):
TGCATGGTGACCTTTGGCGAGATGGACGTGCAT
Found at i:1355754 original size:10 final size:10
Alignment explanation
Indices: 1355739--1355764 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
1355729 CTTTGGCGAG
1355739 ATGGGCGTGC
1 ATGGGCGTGC
1355749 ATGGGCGTGC
1 ATGGGCGTGC
1355759 ATGGGC
1 ATGGGC
1355765 ATGGAGGTCG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.12, C:0.19, G:0.50, T:0.19
Consensus pattern (10 bp):
ATGGGCGTGC
Found at i:1360056 original size:69 final size:69
Alignment explanation
Indices: 1359937--1360074 Score: 215
Period size: 69 Copynumber: 2.0 Consensus size: 69
1359927 GATTTAAACT
*
1359937 ATGAGATTGATCAAGCACAATCATTTCTTAATCACTGAACCACTTCACTCGAAGATCATAGAGCA
1 ATGAGATTGATCAAGCACAATCATTTCTGAATCACTGAACCACTTCACTCGAAGATCATAGAGCA
1360002 TCAA
66 TCAA
* * * *
1360006 ATGAGATTGATCAAGCACAATCATTTCTGAATTACTGTATCAC-TCTACTCGAAGATCATGGAGC
1 ATGAGATTGATCAAGCACAATCATTTCTGAATCACTGAACCACTTC-ACTCGAAGATCATAGAGC
1360070 ATCAA
65 ATCAA
1360075 GAGAGAGACA
Statistics
Matches: 63, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
68 2 0.03
69 61 0.97
ACGTcount: A:0.36, C:0.22, G:0.14, T:0.28
Consensus pattern (69 bp):
ATGAGATTGATCAAGCACAATCATTTCTGAATCACTGAACCACTTCACTCGAAGATCATAGAGCA
TCAA
Found at i:1361039 original size:32 final size:31
Alignment explanation
Indices: 1361003--1361117 Score: 106
Period size: 32 Copynumber: 3.6 Consensus size: 31
1360993 GAATAATGAG
1361003 GGCATCTTTGAAGATTCAACATCAAATATGGA
1 GGCATCTTTG-AGATTCAACATCAAATATGGA
* * * *
1361035 GGCATATTTTTAGATTTAACATCAAATGTTGG-
1 GGCAT-CTTTGAGATTCAACATCAAAT-ATGGA
* * *
1361067 GGCATTTTTTGAGATTCAACATCGAATATTGA
1 GGCA-TCTTTGAGATTCAACATCAAATATGGA
*
1361099 GGCATCTTTGGGAATTCAA
1 GGCATCTTTGAG-ATTCAA
1361118 AATCCAGATG
Statistics
Matches: 67, Mismatches: 11, Indels: 10
0.76 0.12 0.11
Matches are distributed among these distances:
31 8 0.12
32 52 0.78
33 7 0.10
ACGTcount: A:0.32, C:0.13, G:0.20, T:0.35
Consensus pattern (31 bp):
GGCATCTTTGAGATTCAACATCAAATATGGA
Found at i:1361823 original size:94 final size:97
Alignment explanation
Indices: 1361700--1361963 Score: 327
Period size: 106 Copynumber: 2.6 Consensus size: 97
1361690 ATATCGTGCC
* *
1361700 ACTCGAGACAACACAAGTTCAACTACACAACGAAGGGACGACTGGTTGTCAACAAACAATTTCCC
1 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCC
1361765 AATTT-CAA-C-TTCACAGCGAAGGATATTGG
66 AATTTGCAATCATTCACAGCGAAGGATATTGG
* *
1361794 ACTCGAGACAACACAATTTCAACTTCACAATGAAGGGACGGCTGGTTGTCAACAAACAATTTCCC
1 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCC
1361859 AATTTCGGAGCCAATTTCAATTTCACAGCGAAGGATATTGG
66 AATTT----G-CAA--TC-A-TTCACAGCGAAGGATATTGG
* * * * * *
1361900 ACTCGATACAGCACAAGCTCAACTTCACAGCGAAGGGGCGGCTGGCTGTCAACAAACAAATTTC
1 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAAC-AATTTC
1361964 TTAGTTCCAG
Statistics
Matches: 145, Mismatches: 12, Indels: 13
0.85 0.07 0.08
Matches are distributed among these distances:
94 66 0.46
100 3 0.02
103 1 0.01
106 69 0.48
107 6 0.04
ACGTcount: A:0.35, C:0.25, G:0.19, T:0.21
Consensus pattern (97 bp):
ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCC
AATTTGCAATCATTCACAGCGAAGGATATTGG
Found at i:1361950 original size:106 final size:107
Alignment explanation
Indices: 1361763--1362010 Score: 336
Period size: 106 Copynumber: 2.3 Consensus size: 107
1361753 AAACAATTTC
** *
1361763 CCAATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAATTTCAACTTCACAATGAA
1 CCAATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAGCTCAACTTCACAACGAA
* * *
1361828 GGGACGGCTGGTTGTCAACAAAC-AATTTCCCAATTTCGGAG
66 GGGACGGCTGGCTGTCAACAAACAAATTTCCCAATTCCAGAG
* * * *
1361869 CCAATTTCAATTTCACAGCGAAGGATATTGGACTCGATACAGCACAAGCTCAACTTCACAGCGAA
1 CCAATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAGCTCAACTTCACAACGAA
* ** *
1361934 GGGGCGGCTGGCTGTCAACAAACAAATTTCTTAGTTCCAGAG
66 GGGACGGCTGGCTGTCAACAAACAAATTTCCCAATTCCAGAG
* * *
1361976 CCAATTTTAACTTCACGGCGGAGGATATTGGACTC
1 CCAATTTCAACTTCACAGCGAAGGATATTGGACTC
1362011 AGAACAATAC
Statistics
Matches: 123, Mismatches: 18, Indels: 1
0.87 0.13 0.01
Matches are distributed among these distances:
106 79 0.64
107 44 0.36
ACGTcount: A:0.32, C:0.24, G:0.21, T:0.24
Consensus pattern (107 bp):
CCAATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAGCTCAACTTCACAACGAA
GGGACGGCTGGCTGTCAACAAACAAATTTCCCAATTCCAGAG
Found at i:1362332 original size:36 final size:37
Alignment explanation
Indices: 1362292--1362368 Score: 93
Period size: 37 Copynumber: 2.1 Consensus size: 37
1362282 ATTGAAAACA
* *
1362292 TTTCCCATGAAATG-AATTTTATCTCGATTGAGATAG
1 TTTCCCATGAAACGAAATTTTATCTCCATTGAGATAG
* * * *
1362328 TTTCCCTTGAAACGAAATTTTGTTTCCCTTGAGATAG
1 TTTCCCATGAAACGAAATTTTATCTCCATTGAGATAG
1362365 TTTC
1 TTTC
1362369 TCTTAAAACA
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
36 12 0.35
37 22 0.65
ACGTcount: A:0.26, C:0.17, G:0.16, T:0.42
Consensus pattern (37 bp):
TTTCCCATGAAACGAAATTTTATCTCCATTGAGATAG
Found at i:1362585 original size:37 final size:36
Alignment explanation
Indices: 1362524--1362640 Score: 164
Period size: 36 Copynumber: 3.2 Consensus size: 36
1362514 TATCTTTTCC
* *
1362524 TTGAAACAAATTTCGTCTCCCTTGAGACAGTTTCTT
1 TTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCTT
*
1362560 TT-AGAACTAAGTTTTGTCTCTCTTGAGACAGTTTCTT
1 TTGA-AAC-AAATTTTGTCTCTCTTGAGACAGTTTCTT
* *
1362597 TTGAAACAAATTTTGTCCCTCTTGAGACAGTTTCTC
1 TTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCTT
1362633 TTGAAACA
1 TTGAAACA
1362641 CAAAAAAAAC
Statistics
Matches: 72, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
35 1 0.01
36 39 0.54
37 31 0.43
38 1 0.01
ACGTcount: A:0.26, C:0.20, G:0.15, T:0.40
Consensus pattern (36 bp):
TTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCTT
Found at i:1362668 original size:35 final size:37
Alignment explanation
Indices: 1362626--1362715 Score: 112
Period size: 39 Copynumber: 2.4 Consensus size: 37
1362616 TCTTGAGACA
*
1362626 GTTTCTCTTGAAACACA-A-AAAAAACCCTCGAAATT
1 GTTTCTCTTGAAACACATACAAAAAACCCTCGAAAAT
* *
1362661 GTTTCTCTTGAAACACACATACAAAAAACCTTTGAAAAT
1 GTTTCTCTTG-AA-ACACATACAAAAAACCCTCGAAAAT
*
1362700 ATTTCTCTTGAAACAC
1 GTTTCTCTTGAAACAC
1362716 CAAACCCTCG
Statistics
Matches: 47, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
35 10 0.21
36 2 0.04
37 9 0.19
38 3 0.06
39 23 0.49
ACGTcount: A:0.41, C:0.22, G:0.08, T:0.29
Consensus pattern (37 bp):
GTTTCTCTTGAAACACATACAAAAAACCCTCGAAAAT
Found at i:1362868 original size:84 final size:85
Alignment explanation
Indices: 1362723--1362879 Score: 235
Period size: 84 Copynumber: 1.9 Consensus size: 85
1362713 CACCAAACCC
* * * *
1362723 TCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGT
1 TCGAGTTCGACTACACTCAGCTTCGAAGGCACATCATTTACAGCATAACTCAAGGCAAGAAGGGC
1362788 TATCTGTCGCCAAAAGACCT
66 TATCTGTCGCCAAAAGACCT
** *
1362808 TCGAGTTCGACTATGCTCAGC-TCTAAGGCACATCATTTACAGCATAACTCAAGGCAAGAAGGGC
1 TCGAGTTCGACTACACTCAGCTTCGAAGGCACATCATTTACAGCATAACTCAAGGCAAGAAGGGC
*
1362872 TATTTGTC
66 TATCTGTC
1362880 AATACAATTG
Statistics
Matches: 64, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
84 46 0.72
85 18 0.28
ACGTcount: A:0.29, C:0.24, G:0.21, T:0.25
Consensus pattern (85 bp):
TCGAGTTCGACTACACTCAGCTTCGAAGGCACATCATTTACAGCATAACTCAAGGCAAGAAGGGC
TATCTGTCGCCAAAAGACCT
Found at i:1371606 original size:20 final size:20
Alignment explanation
Indices: 1371581--1371663 Score: 58
Period size: 21 Copynumber: 4.0 Consensus size: 20
1371571 AATTTGGCAG
*
1371581 AGGGAATCGATACCCCCATA
1 AGGGAACCGATACCCCCATA
* **
1371601 AGGGAACCGATTCCTCCTTTGA
1 AGGGAACCGATACC-CCCAT-A
* *
1371623 ATGGGAACCGATTCCCCCTGTA
1 A-GGGAACCGATACCCCC-ATA
* *
1371645 GGGGAATCGATACCCCCAT
1 AGGGAACCGATACCCCCAT
1371664 GGGGTTCTGG
Statistics
Matches: 49, Mismatches: 10, Indels: 8
0.73 0.15 0.12
Matches are distributed among these distances:
20 13 0.27
21 17 0.35
22 5 0.10
23 14 0.29
ACGTcount: A:0.27, C:0.30, G:0.23, T:0.20
Consensus pattern (20 bp):
AGGGAACCGATACCCCCATA
Found at i:1378500 original size:126 final size:126
Alignment explanation
Indices: 1378213--1378583 Score: 582
Period size: 126 Copynumber: 2.9 Consensus size: 126
1378203 AACACAAGTT
* * * * *
1378213 CCACAAATATTGATGCACTGTTTTCTTACATTAATGTATGAGGGTCACAAATAACGTTAAAAACT
1 CCACAAATATTAATGCACTATTTTCTTACATTAATGCAAGAGGGCCACAAATAACGTTAAAAACT
* *
1378278 GATT-TTTGTTATCAAAAGTCAAAAAAAAAATCTTACTAACATTCAAATTCATAACTCAGGGC
66 G-TTATTTGTTATCAAAAGT-AAAAAAAAAATCTTACTAACATTCAAATTCATAACCCAGGAC
* *
1378340 TCATAAATATTAATGCACTATTTTCTTACATTAATGCAAGAGGGCCACAAATAACGTTAAAAACT
1 CCACAAATATTAATGCACTATTTTCTTACATTAATGCAAGAGGGCCACAAATAACGTTAAAAACT
*
1378405 GTTATTTGTTATCAAAAGTAAAAAAAAAATCTTACTAACATTCAAATTCATAACCCATGAC
66 GTTATTTGTTATCAAAAGTAAAAAAAAAATCTTACTAACATTCAAATTCATAACCCAGGAC
* *
1378466 CCACAAATATTAATGCACTATTTTCTTACATTAATGCAAAAGGGCCACAAATAACGTTAAAAATT
1 CCACAAATATTAATGCACTATTTTCTTACATTAATGCAAGAGGGCCACAAATAACGTTAAAAACT
* * *
1378531 GTTATTTGTTATCAAAAATCAAAAATAAATCTTACTAACATTCAAATTCATAA
66 GTTATTTGTTATCAAAAGTAAAAAAAAAATCTTACTAACATTCAAATTCATAA
1378584 TATTTATCAA
Statistics
Matches: 226, Mismatches: 17, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
126 152 0.67
127 74 0.33
ACGTcount: A:0.43, C:0.16, G:0.09, T:0.32
Consensus pattern (126 bp):
CCACAAATATTAATGCACTATTTTCTTACATTAATGCAAGAGGGCCACAAATAACGTTAAAAACT
GTTATTTGTTATCAAAAGTAAAAAAAAAATCTTACTAACATTCAAATTCATAACCCAGGAC
Found at i:1386425 original size:31 final size:31
Alignment explanation
Indices: 1386387--1386477 Score: 112
Period size: 30 Copynumber: 2.9 Consensus size: 31
1386377 AATGATAAAT
*
1386387 TTCGATAAGTTTAAGGACCATTTTGTAACAG
1 TTCGATAAGTTTAATGACCATTTTGTAACAG
* **
1386418 TTCGATAAG-TTAATAACCATTTTGTAGTAG
1 TTCGATAAGTTTAATGACCATTTTGTAACAG
* *
1386448 TTTGATAAAGTCTAATGACCATTTTGTAAC
1 TTCGAT-AAGTTTAATGACCATTTTGTAAC
1386478 TTCCAGAATA
Statistics
Matches: 49, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
30 22 0.45
31 12 0.24
32 15 0.31
ACGTcount: A:0.33, C:0.12, G:0.16, T:0.38
Consensus pattern (31 bp):
TTCGATAAGTTTAATGACCATTTTGTAACAG
Found at i:1394501 original size:66 final size:66
Alignment explanation
Indices: 1394385--1394509 Score: 187
Period size: 66 Copynumber: 1.9 Consensus size: 66
1394375 GTCCCTTTTT
* * *
1394385 TTCTTCTGGTTGGTGGGTTCAGCTTCTCTCCCACGTTCCTCAGTAACAGTCGACTCGTTGGTGCT
1 TTCTTCGGGTTGGTGGGTGCAGCTTCTCTCCCACGTCCCTCAGTAACAGTCGACTCGTTGGTGCT
1394450 C
66 C
* * * *
1394451 TTCTTCGGGTTGGTGGGTGCAGTTTCTTTCCCACGTCCCTCGGTAGCAGTCGACTCGTT
1 TTCTTCGGGTTGGTGGGTGCAGCTTCTCTCCCACGTCCCTCAGTAACAGTCGACTCGTT
1394510 CGAGTTCCCG
Statistics
Matches: 52, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
66 52 1.00
ACGTcount: A:0.10, C:0.28, G:0.26, T:0.36
Consensus pattern (66 bp):
TTCTTCGGGTTGGTGGGTGCAGCTTCTCTCCCACGTCCCTCAGTAACAGTCGACTCGTTGGTGCT
C
Found at i:1396457 original size:15 final size:15
Alignment explanation
Indices: 1396437--1396466 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
1396427 GAAGAAACAT
*
1396437 GCCCAACCTGCTCAG
1 GCCCAACCTCCTCAG
1396452 GCCCAACCTCCTCAG
1 GCCCAACCTCCTCAG
1396467 ATCTACCCAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.20, C:0.50, G:0.17, T:0.13
Consensus pattern (15 bp):
GCCCAACCTCCTCAG
Found at i:1401377 original size:37 final size:38
Alignment explanation
Indices: 1401310--1401398 Score: 128
Period size: 38 Copynumber: 2.3 Consensus size: 38
1401300 TAAAAAGCTC
*
1401310 AACTAGAATCCTCTTCCTCTAGTTTATTTTAAGGCT-A
1 AACTAGAACCCTCTTCCTCTAGTTTATTTTAAGGCTAA
*
1401347 AACTAGGAACCCTCTTCCTTTAGTTT-TTTTAAGGCTAA
1 AACTA-GAACCCTCTTCCTCTAGTTTATTTTAAGGCTAA
1401385 AACTAAGAACCCTC
1 AACT-AGAACCCTC
1401399 CCCTTTTACA
Statistics
Matches: 47, Mismatches: 2, Indels: 5
0.87 0.04 0.09
Matches are distributed among these distances:
37 15 0.32
38 31 0.66
39 1 0.02
ACGTcount: A:0.29, C:0.24, G:0.11, T:0.36
Consensus pattern (38 bp):
AACTAGAACCCTCTTCCTCTAGTTTATTTTAAGGCTAA
Found at i:1401674 original size:18 final size:18
Alignment explanation
Indices: 1401648--1401682 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
1401638 TCTAAGAAAG
*
1401648 ATTAAACAAAGTCAACAA
1 ATTAAACAAAATCAACAA
*
1401666 ATTACACAAAATCAACA
1 ATTAAACAAAATCAACA
1401683 GCTATATTAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.60, C:0.20, G:0.03, T:0.17
Consensus pattern (18 bp):
ATTAAACAAAATCAACAA
Found at i:1414921 original size:20 final size:20
Alignment explanation
Indices: 1414896--1414935 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
1414886 AGCAACAGAA
*
1414896 TAAAAATGATTCTATCTAAT
1 TAAAAATGATCCTATCTAAT
1414916 TAAAAATGATCCTATCTAAT
1 TAAAAATGATCCTATCTAAT
1414936 AACTAACAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.45, C:0.12, G:0.05, T:0.38
Consensus pattern (20 bp):
TAAAAATGATCCTATCTAAT
Found at i:1414978 original size:20 final size:21
Alignment explanation
Indices: 1414949--1414988 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
1414939 TAACAGAATA
1414949 AAAAACTGATTC-TATCTAATT
1 AAAAACTGA-TCATATCTAATT
1414970 AAAAA-TGATCATATCTAAT
1 AAAAACTGATCATATCTAAT
1414989 AACTAATAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 2 0.11
20 11 0.61
21 5 0.28
ACGTcount: A:0.47, C:0.12, G:0.05, T:0.35
Consensus pattern (21 bp):
AAAAACTGATCATATCTAATT
Found at i:1415027 original size:20 final size:20
Alignment explanation
Indices: 1415002--1415040 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
1414992 TAATAGAATA
*
1415002 AAAACTGATTCTATCTAATT
1 AAAACTGATCCTATCTAATT
1415022 AAAACTGATCCTATCTAAT
1 AAAACTGATCCTATCTAAT
1415041 ATTTAATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.41, C:0.18, G:0.05, T:0.36
Consensus pattern (20 bp):
AAAACTGATCCTATCTAATT
Found at i:1415031 original size:52 final size:52
Alignment explanation
Indices: 1414889--1415041 Score: 263
Period size: 52 Copynumber: 2.9 Consensus size: 52
1414879 TAAAATTAGC
1414889 AACAGAATAAAAA-TGATTCTATCTAATTAAAAATGATCCTATCTAATAACT
1 AACAGAATAAAAACTGATTCTATCTAATTAAAAATGATCCTATCTAATAACT
*
1414940 AACAGAATAAAAAACTGATTCTATCTAATTAAAAATGATCATATCTAATAACT
1 AACAGAAT-AAAAACTGATTCTATCTAATTAAAAATGATCCTATCTAATAACT
* *
1414993 AATAGAATAAAAACTGATTCTATCTAATTAAAACTGATCCTATCTAATA
1 AACAGAATAAAAACTGATTCTATCTAATTAAAAATGATCCTATCTAATA
1415042 TTTAATTTAG
Statistics
Matches: 96, Mismatches: 4, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
51 8 0.08
52 44 0.46
53 44 0.46
ACGTcount: A:0.49, C:0.14, G:0.06, T:0.31
Consensus pattern (52 bp):
AACAGAATAAAAACTGATTCTATCTAATTAAAAATGATCCTATCTAATAACT
Found at i:1418886 original size:20 final size:20
Alignment explanation
Indices: 1418861--1418898 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
1418851 TAGCAACAAA
*
1418861 TAAAAATGATTCTATCTAAT
1 TAAAAATGATCCTATCTAAT
1418881 TAAAAATGATCCTATCTA
1 TAAAAATGATCCTATCTA
1418899 TAACTAATAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.45, C:0.13, G:0.05, T:0.37
Consensus pattern (20 bp):
TAAAAATGATCCTATCTAAT
Found at i:1418942 original size:20 final size:21
Alignment explanation
Indices: 1418913--1418952 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
1418903 TAATAGAATA
*
1418913 AAAAACTGATTCTATCTAATT
1 AAAAACTGATCCTATCTAATT
1418934 AAAAA-TGATCCTATCTAAT
1 AAAAACTGATCCTATCTAAT
1418953 AACTAATAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.45, C:0.15, G:0.05, T:0.35
Consensus pattern (21 bp):
AAAAACTGATCCTATCTAATT
Found at i:1418994 original size:20 final size:21
Alignment explanation
Indices: 1418964--1419004 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
1418954 ACTAATAGAA
**
1418964 TAAAAACTGATTTTATCTAAT
1 TAAAAACTGATCCTATCTAAT
1418985 TAAAAA-TGATCCTATCTAAT
1 TAAAAACTGATCCTATCTAAT
1419005 ATTTAATTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.44, C:0.12, G:0.05, T:0.39
Consensus pattern (21 bp):
TAAAAACTGATCCTATCTAAT
Found at i:1419003 original size:52 final size:52
Alignment explanation
Indices: 1418859--1419005 Score: 262
Period size: 52 Copynumber: 2.8 Consensus size: 52
1418849 ATTAGCAACA
1418859 AATAAAAA-TGATTCTATCTAATTAAAAATGATCCTATCT-ATAACTAATAG
1 AATAAAAACTGATTCTATCTAATTAAAAATGATCCTATCTAATAACTAATAG
1418909 AATAAAAAACTGATTCTATCTAATTAAAAATGATCCTATCTAATAACTAATAG
1 AAT-AAAAACTGATTCTATCTAATTAAAAATGATCCTATCTAATAACTAATAG
*
1418962 AATAAAAACTGATTTTATCTAATTAAAAATGATCCTATCTAATA
1 AATAAAAACTGATTCTATCTAATTAAAAATGATCCTATCTAATA
1419006 TTTAATTTAT
Statistics
Matches: 93, Mismatches: 1, Indels: 4
0.95 0.01 0.04
Matches are distributed among these distances:
50 3 0.03
51 5 0.05
52 71 0.76
53 14 0.15
ACGTcount: A:0.48, C:0.12, G:0.05, T:0.34
Consensus pattern (52 bp):
AATAAAAACTGATTCTATCTAATTAAAAATGATCCTATCTAATAACTAATAG
Found at i:1420445 original size:169 final size:170
Alignment explanation
Indices: 1420166--1420505 Score: 673
Period size: 169 Copynumber: 2.0 Consensus size: 170
1420156 TAAATAAGCT
1420166 TCTTTTTTCAGAAGATAGGCCATGGAAGACAAGATACATATTTCATTACCATTTTTCCAACTGCC
1 TCTTTTTTCAGAAGATAGGCCATGGAAGACAAGATACATATTTCATTACCATTTTTCCAACTGCC
1420231 TATGTGCAAGCACCCATGCATCCAACTGCCACCACACCAATTCCCCAAAGTGAAAAGGAAAATAA
66 TATGTGCAAGCACCCATGCATCCAACTGCCACCACACCAATTCCCCAAAGTGAAAAGGAAAATAA
1420296 AAAACTTGTTCAT-GAAATGGGAAAGAATTCAATAAGTAA
131 AAAACTTGTTCATAGAAATGGGAAAGAATTCAATAAGTAA
1420335 TCTTTTTTCAGAAGATAGGCCATGGAAGACAAGATACATATTTCATTACCATTTTTCCAACTGCC
1 TCTTTTTTCAGAAGATAGGCCATGGAAGACAAGATACATATTTCATTACCATTTTTCCAACTGCC
1420400 TATGTGCAAGCACCCATGCATCCAACTGCCACCACACCAATTCCCCAAAGTGAAAAGGAAAATAA
66 TATGTGCAAGCACCCATGCATCCAACTGCCACCACACCAATTCCCCAAAGTGAAAAGGAAAATAA
1420465 AAAACTTGTTCATAGAAATGGGAAAGAATTCAATAAGTAA
131 AAAACTTGTTCATAGAAATGGGAAAGAATTCAATAAGTAA
1420505 T
1 T
1420506 GTCTTACTTC
Statistics
Matches: 170, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
169 143 0.84
170 27 0.16
ACGTcount: A:0.39, C:0.22, G:0.15, T:0.25
Consensus pattern (170 bp):
TCTTTTTTCAGAAGATAGGCCATGGAAGACAAGATACATATTTCATTACCATTTTTCCAACTGCC
TATGTGCAAGCACCCATGCATCCAACTGCCACCACACCAATTCCCCAAAGTGAAAAGGAAAATAA
AAAACTTGTTCATAGAAATGGGAAAGAATTCAATAAGTAA
Found at i:1425131 original size:21 final size:20
Alignment explanation
Indices: 1425103--1425153 Score: 77
Period size: 21 Copynumber: 2.5 Consensus size: 20
1425093 TTTGAGTTAA
1425103 TTAAAATATGTTTAAAG-TGT
1 TTAAAATATGTTTAAAGAT-T
1425123 TTAAAAATATGTTTAAAGATT
1 TT-AAAATATGTTTAAAGATT
1425144 TTAAAATATG
1 TTAAAATATG
1425154 GAAAACACTA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
20 10 0.34
21 18 0.62
22 1 0.03
ACGTcount: A:0.45, C:0.00, G:0.12, T:0.43
Consensus pattern (20 bp):
TTAAAATATGTTTAAAGATT
Found at i:1426110 original size:20 final size:22
Alignment explanation
Indices: 1426064--1426117 Score: 94
Period size: 20 Copynumber: 2.5 Consensus size: 22
1426054 CGTTGAACAA
1426064 GGGGGAATCGGTACCCCCTTGG
1 GGGGGAATCGGTACCCCCTTGG
1426086 GGGGGAATCGGTA-CCCCTT-G
1 GGGGGAATCGGTACCCCCTTGG
1426106 GGGGGAATCGGT
1 GGGGGAATCGGT
1426118 TCCCTCTGGG
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
20 13 0.41
21 6 0.19
22 13 0.41
ACGTcount: A:0.15, C:0.22, G:0.44, T:0.19
Consensus pattern (22 bp):
GGGGGAATCGGTACCCCCTTGG
Found at i:1427277 original size:29 final size:30
Alignment explanation
Indices: 1427210--1427289 Score: 76
Period size: 29 Copynumber: 2.8 Consensus size: 30
1427200 AAAATTAATG
* * * * *
1427210 AAAAATGAAATAGTTTAAAGACTTATTTTG
1 AAAAATAAAATAATTTAAGGACTTATATTC
*
1427240 ACAAA-AAAATAATTTAAGGACTTA-ATTC
1 AAAAATAAAATAATTTAAGGACTTATATTC
*
1427268 AAAAATAAAAT-ATTTTAGGACT
1 AAAAATAAAATAATTTAAGGACT
1427290 GTTTTTTTTT
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
28 16 0.39
29 21 0.51
30 4 0.10
ACGTcount: A:0.51, C:0.06, G:0.10, T:0.33
Consensus pattern (30 bp):
AAAAATAAAATAATTTAAGGACTTATATTC
Found at i:1427704 original size:31 final size:31
Alignment explanation
Indices: 1427667--1427737 Score: 124
Period size: 31 Copynumber: 2.3 Consensus size: 31
1427657 AGTTTCAAAA
* *
1427667 GTAACAAATTGGTCACTAATATTATCTATTT
1 GTAACAAATGGGTCACTAACATTATCTATTT
1427698 GTAACAAATGGGTCACTAACATTATCTATTT
1 GTAACAAATGGGTCACTAACATTATCTATTT
1427729 GTAACAAAT
1 GTAACAAAT
1427738 CGATCACTCG
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 38 1.00
ACGTcount: A:0.38, C:0.14, G:0.11, T:0.37
Consensus pattern (31 bp):
GTAACAAATGGGTCACTAACATTATCTATTT
Found at i:1427745 original size:31 final size:31
Alignment explanation
Indices: 1427667--1427745 Score: 122
Period size: 31 Copynumber: 2.5 Consensus size: 31
1427657 AGTTTCAAAA
* *
1427667 GTAACAAATTGGTCACTAATATTATCTATTT
1 GTAACAAATCGGTCACTAACATTATCTATTT
*
1427698 GTAACAAATGGGTCACTAACATTATCTATTT
1 GTAACAAATCGGTCACTAACATTATCTATTT
*
1427729 GTAACAAATCGATCACT
1 GTAACAAATCGGTCACT
1427746 CGATGTTAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 44 1.00
ACGTcount: A:0.37, C:0.16, G:0.11, T:0.35
Consensus pattern (31 bp):
GTAACAAATCGGTCACTAACATTATCTATTT
Found at i:1429790 original size:23 final size:23
Alignment explanation
Indices: 1429747--1429790 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
1429737 GCAAATGGAT
**
1429747 ATGTCGTGGCAAAGTGGATTGAA
1 ATGTCGTGGCAAAGTAAATTGAA
*
1429770 ATGTCGTGGCAAATTAAATTG
1 ATGTCGTGGCAAAGTAAATTG
1429791 TATTGAGTGC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.30
Consensus pattern (23 bp):
ATGTCGTGGCAAAGTAAATTGAA
Found at i:1436867 original size:26 final size:26
Alignment explanation
Indices: 1436831--1436893 Score: 85
Period size: 26 Copynumber: 2.5 Consensus size: 26
1436821 ACCGAAGTGC
1436831 TAATACACATAAGGTCATACCCACCA
1 TAATACACATAAGGTCATACCCACCA
* * *
1436857 TAATACACATAAGGTCGTGCCCATCA
1 TAATACACATAAGGTCATACCCACCA
1436883 T-ATACAC-TAAG
1 TAATACACATAAG
1436894 TGTCCTTTAT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
24 4 0.12
25 6 0.18
26 24 0.71
ACGTcount: A:0.40, C:0.27, G:0.11, T:0.22
Consensus pattern (26 bp):
TAATACACATAAGGTCATACCCACCA
Found at i:1445166 original size:185 final size:183
Alignment explanation
Indices: 1444849--1445236 Score: 577
Period size: 185 Copynumber: 2.1 Consensus size: 183
1444839 AATCGAAATT
* * * **
1444849 AAATTTTAAATATATTATATATAACATATGGACTCAACCCAAACCGTTTATAACTTAATTAATAA
1 AAATATTAAATATATTATATATAACATATGGACTCAACCCAAACCATTTAAAACCCAATTAATAA
* * *
1444914 TTTAATATCCAATAACTTTTAAACCTAAATCAATATTAATTAATTAAAAATTTTATATAAAATTT
66 TTTAAGATCCAATAACCTTTAAACCTAAATCAATATTAATTAATTAAAAAATTTATATAAAATTT
*
1444979 TTATTTTATAAT-TATATATTATTTAAATTAATT-GTAAATGTTTTTTTGAATTACA
131 TTATTTTATAATAT-TATATTATTTAAATTAATTAG--AAT-TTTTTTTGAATTAAA
* *
1445034 AAATATTAAATATATTATATATAACATAT-GAGTTCAGCCCAAACCATTTAAAACCCAATTAATA
1 AAATATTAAATATATTATATATAACATATGGA-CTCAACCCAAACCATTTAAAACCCAATTAATA
*
1445098 ATTTAAGATCTAATAACCTTTAAACCTAAATCAATATTAATTAATTAAAAAATTTATATAAAATT
65 ATTTAAGATCCAATAACCTTTAAACCTAAATCAATATTAATTAATTAAAAAATTTATATAAAATT
1445163 TTTATTTTATAATATTATATTATTTAAATTAATTAGAATTTTTTTTGAATTAAA
130 TTTATTTTATAATATTATATTATTTAAATTAATTAGAATTTTTTTTGAATTAAA
* *
1445217 AAATATTTAAT-TTTTATATA
1 AAATATTAAATATATTATATA
1445237 AATTAGAAAA
Statistics
Matches: 186, Mismatches: 14, Indels: 9
0.89 0.07 0.04
Matches are distributed among these distances:
182 8 0.04
183 24 0.13
184 5 0.03
185 147 0.79
186 2 0.01
ACGTcount: A:0.45, C:0.08, G:0.03, T:0.44
Consensus pattern (183 bp):
AAATATTAAATATATTATATATAACATATGGACTCAACCCAAACCATTTAAAACCCAATTAATAA
TTTAAGATCCAATAACCTTTAAACCTAAATCAATATTAATTAATTAAAAAATTTATATAAAATTT
TTATTTTATAATATTATATTATTTAAATTAATTAGAATTTTTTTTGAATTAAA
Found at i:1446807 original size:2 final size:2
Alignment explanation
Indices: 1446800--1446827 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
1446790 TTCTAGTAGG
1446800 TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1446828 GCTTCTAAGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:1448302 original size:134 final size:133
Alignment explanation
Indices: 1448060--1448318 Score: 473
Period size: 134 Copynumber: 1.9 Consensus size: 133
1448050 TTACCCGGGA
* *
1448060 TTAGGTGTGAGTGCCGGATCTGAGCATGCATCTGACATGGTATGTTCAATTGTTTTTAAGTTTTC
1 TTAGGTGTGAGTACCGGATCTGAGCATGCATCCGACATGGTATGTTCAATTGTTTTTAAGTTTTC
1448125 TTTCATGTGGTGGAGGGTCCTTGGAGAGTTTATATTTTCTACTTTTATCTAGATATATGTCCCTG
66 TTTCATGTGGTGGAGGGTCCTTGGAGAGTTTATATTTTCTACTTTTATCTAGATATATGTCCCTG
1448190 GGC
131 GGC
*
1448193 TTAGGTGTGAGTACCGGATCTGAGCATGCATCCGACATGGTATGTTCAATTGTTTTTGACGTTTT
1 TTAGGTGTGAGTACCGGATCTGAGCATGCATCCGACATGGTATGTTCAATTGTTTTT-AAGTTTT
*
1448258 CTTTCATGTGGTGGAGGGTCCTTGGAGAGTTTATATTTTCTACTTTTATCTGGATATATGT
65 CTTTCATGTGGTGGAGGGTCCTTGGAGAGTTTATATTTTCTACTTTTATCTAGATATATGT
1448319 TGGATATGGA
Statistics
Matches: 121, Mismatches: 4, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
133 55 0.45
134 66 0.55
ACGTcount: A:0.19, C:0.14, G:0.25, T:0.42
Consensus pattern (133 bp):
TTAGGTGTGAGTACCGGATCTGAGCATGCATCCGACATGGTATGTTCAATTGTTTTTAAGTTTTC
TTTCATGTGGTGGAGGGTCCTTGGAGAGTTTATATTTTCTACTTTTATCTAGATATATGTCCCTG
GGC
Found at i:1448953 original size:31 final size:31
Alignment explanation
Indices: 1448918--1448985 Score: 127
Period size: 31 Copynumber: 2.2 Consensus size: 31
1448908 ATCGTCAATA
1448918 TCTTTGTGACTATAACGCATCTTTAAGAGAT
1 TCTTTGTGACTATAACGCATCTTTAAGAGAT
*
1448949 TCTTTTTGACTATAACGCATCTTTAAGAGAT
1 TCTTTGTGACTATAACGCATCTTTAAGAGAT
1448980 TCTTTG
1 TCTTTG
1448986 GCTTATTATA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.26, C:0.16, G:0.15, T:0.43
Consensus pattern (31 bp):
TCTTTGTGACTATAACGCATCTTTAAGAGAT
Found at i:1452531 original size:37 final size:37
Alignment explanation
Indices: 1452482--1452559 Score: 138
Period size: 37 Copynumber: 2.1 Consensus size: 37
1452472 GCTAAAAAAA
* *
1452482 TTGATTACAATTAACTTTAAGTTATAAATTCATAAAT
1 TTGATTAAAATTAACTTTAAATTATAAATTCATAAAT
1452519 TTGATTAAAATTAACTTTAAATTATAAATTCATAAAT
1 TTGATTAAAATTAACTTTAAATTATAAATTCATAAAT
1452556 TTGA
1 TTGA
1452560 ATCGCTTCTA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.45, C:0.06, G:0.05, T:0.44
Consensus pattern (37 bp):
TTGATTAAAATTAACTTTAAATTATAAATTCATAAAT
Found at i:1454507 original size:31 final size:30
Alignment explanation
Indices: 1454482--1454538 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
1454472 AAATTGATAT
1454482 TTTATCTAAAATTTAGGGGTCAAATTAGTA
1 TTTATCTAAAATTTAGGGGTCAAATTAGTA
* *
1454512 TTTGTCTAAACTTTAGGGGTCAAATTA
1 TTTATCTAAAATTTAGGGGTCAAATTA
1454539 AAATTTAACT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.33, C:0.09, G:0.18, T:0.40
Consensus pattern (30 bp):
TTTATCTAAAATTTAGGGGTCAAATTAGTA
Found at i:1455697 original size:20 final size:20
Alignment explanation
Indices: 1455674--1455712 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
1455664 ATTATAATAA
1455674 TAAT-AATAATTTATTTTTAC
1 TAATAAATAA-TTATTTTTAC
1455694 TAATAAATAATTATTTTTA
1 TAATAAATAATTATTTTTA
1455713 AGTTTAAGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.54
Consensus pattern (20 bp):
TAATAAATAATTATTTTTAC
Done.