Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold279
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: 1516008
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.32
File 8 of 10
Found at i:1122942 original size:52 final size:52
Alignment explanation
Indices: 1122704--1123002 Score: 314
Period size: 51 Copynumber: 5.8 Consensus size: 52
1122694 ATATATTTTA
* * * **
1122704 AATTACTATTT--AAA-AATAAAAATTAAAGAATAATTTATACTAAATC-CA
1 AATTACTATTTAAAAATAATAAAAATTAAAAAATATTTTATATTAAATCTTG
*
1122752 AATTA-TATTTAAAAATAATAAAAAATT-AAAAATATTTTATATT-AATTTTG
1 AATTACTATTTAAAAATAAT-AAAAATTAAAAAATATTTTATATTAAATCTTG
* * *
1122802 AATTACTATTTAAAAA-AACAAAAATTAAAAATATCTATTTTATTTTAAA-CTCTA
1 AATTACTATTTAAAAATAATAAAAATTAAAAA-A--TATTTTATATTAAATCT-TG
* *
1122856 AATTATTATTTGAAAATAATAAAAATT-AAAAATATTTTATATTAAATCTTG
1 AATTACTATTTAAAAATAATAAAAATTAAAAAATATTTTATATTAAATCTTG
* ***
1122907 AATTACTTTTTAAAAAATAAT-AAAATTAAAAAATATTTTAGGGTAAATCTTG
1 AATTACTATTT-AAAAATAATAAAAATTAAAAAATATTTTATATTAAATCTTG
*
1122959 AATTACTATTTAAAAATAATAAAAATTAAAAATATATTCTATAT
1 AATTACTATTTAAAAATAATAAAAATTAAAAA-ATATTTTATAT
1123003 ATGTATTAGG
Statistics
Matches: 207, Mismatches: 26, Indels: 31
0.78 0.10 0.12
Matches are distributed among these distances:
47 5 0.02
48 5 0.02
49 13 0.06
50 27 0.13
51 56 0.27
52 52 0.25
53 19 0.09
54 21 0.10
55 9 0.04
ACGTcount: A:0.53, C:0.05, G:0.03, T:0.39
Consensus pattern (52 bp):
AATTACTATTTAAAAATAATAAAAATTAAAAAATATTTTATATTAAATCTTG
Found at i:1123209 original size:22 final size:22
Alignment explanation
Indices: 1123183--1123235 Score: 72
Period size: 22 Copynumber: 2.4 Consensus size: 22
1123173 AAAGTAATAG
1123183 ATACATATTGTTATAGTTATAT
1 ATACATATTGTTATAGTTATAT
* *
1123205 TTACAT-TCAGTTATAGTTATAT
1 ATACATAT-TGTTATAGTTATAT
1123227 ATACATATT
1 ATACATATT
1123236 CTTTTATTTA
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
21 1 0.04
22 23 0.92
23 1 0.04
ACGTcount: A:0.36, C:0.08, G:0.08, T:0.49
Consensus pattern (22 bp):
ATACATATTGTTATAGTTATAT
Found at i:1123579 original size:191 final size:190
Alignment explanation
Indices: 1123278--1123620 Score: 451
Period size: 191 Copynumber: 1.8 Consensus size: 190
1123268 AGAAACCAAG
* * * *
1123278 TCTTAGGCCAAAAAATACACAAATCAAGAAAGAGAATCGATCCTTTCATAAAAAAATCTGACTTT
1 TCTTAGGCCAAAAAATACACAAATCAAGAAAGAAAATCGAACCTCTCATAAAAAAATCTAACTTT
* * * * *
1123343 TTAGGTCAAAAATAACATTTTTGCTATATATACATTTAGTTAAAATTATATGTATATGCTATTAT
66 TTAGGTCAAAAATAACATTTTTACTATATAGACATTTACTTAAAATCATATGTACATGCTATTAT
1123408 AGTCATATATACATTCAGTTATAGTTATATGTAAATATTCTTTTATTTGAAGGAATCAAA
131 AGTCATATATACATTCAGTTATAGTTATATGTAAATATTCTTTTATTTGAAGGAATCAAA
* *
1123468 TCTTAGGCCAAAAAAAATACATAAATTAAGAAA-AAAATC-AACCTCTCTATAAAAGAAATC-AA
1 TCTTAGGCC--AAAAAATACACAAATCAAGAAAGAAAATCGAACCTCTC-ATAAAA-AAATCTAA
* * * * *
1123530 CTTTTTAGGTCAAATATATA-ATTTTTATTATATGGATATTTACTTAAAATCATATTTACATGCT
62 CTTTTTAGGTCAAAAATA-ACATTTTTACTATATAGACATTTACTTAAAATCATATGTACATGCT
* *
1123594 ATTGTAGTCATATATACATTTAGTTAT
126 ATTATAGTCATATATACATTCAGTTAT
1123621 CATCATATAT
Statistics
Matches: 130, Mismatches: 18, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
190 15 0.12
191 89 0.68
192 26 0.20
ACGTcount: A:0.42, C:0.12, G:0.09, T:0.37
Consensus pattern (190 bp):
TCTTAGGCCAAAAAATACACAAATCAAGAAAGAAAATCGAACCTCTCATAAAAAAATCTAACTTT
TTAGGTCAAAAATAACATTTTTACTATATAGACATTTACTTAAAATCATATGTACATGCTATTAT
AGTCATATATACATTCAGTTATAGTTATATGTAAATATTCTTTTATTTGAAGGAATCAAA
Found at i:1127976 original size:27 final size:27
Alignment explanation
Indices: 1127938--1127992 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
1127928 TTAAAAGCTA
1127938 ATGTACCCTAATAGGATTATTGCATGG
1 ATGTACCCTAATAGGATTATTGCATGG
1127965 ATGTACCCTAATAGGATTATTGCATGG
1 ATGTACCCTAATAGGATTATTGCATGG
1127992 A
1 A
1127993 GAAATTTCCC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.31, C:0.15, G:0.22, T:0.33
Consensus pattern (27 bp):
ATGTACCCTAATAGGATTATTGCATGG
Found at i:1128054 original size:2 final size:2
Alignment explanation
Indices: 1128037--1128083 Score: 76
Period size: 2 Copynumber: 23.5 Consensus size: 2
1128027 ATGCAAATTT
* *
1128037 TA TA TC TA TC TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1128079 TA TA T
1 TA TA T
1128084 CCATGAAATC
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1130975 original size:20 final size:20
Alignment explanation
Indices: 1130950--1130987 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
1130940 ATGGACTACT
1130950 ATAAATGGTTTCATAAGTCC
1 ATAAATGGTTTCATAAGTCC
*
1130970 ATAAATGGTTTCCTAAGT
1 ATAAATGGTTTCATAAGT
1130988 GGACTTCTTA
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:0.34, C:0.13, G:0.16, T:0.37
Consensus pattern (20 bp):
ATAAATGGTTTCATAAGTCC
Found at i:1131643 original size:2 final size:2
Alignment explanation
Indices: 1131638--1131670 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
1131628 ATATATATAT
1131638 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1131671 TGTGGGCAAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:1134024 original size:30 final size:27
Alignment explanation
Indices: 1133974--1134030 Score: 71
Period size: 31 Copynumber: 2.0 Consensus size: 27
1133964 TAAATTTTTC
1133974 AATAAAATTTAATTTTTT-AAATTAAA
1 AATAAAATTTAATTTTTTAAAATTAAA
1134000 AATAAATATTTAAATATTATTTAAAATTAAA
1 AATAAA-ATTT-AAT-TT-TTTAAAATTAAA
1134031 TGATAAAAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
26 6 0.23
27 4 0.15
28 3 0.12
29 2 0.08
30 3 0.12
31 8 0.31
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (27 bp):
AATAAAATTTAATTTTTTAAAATTAAA
Found at i:1135368 original size:29 final size:30
Alignment explanation
Indices: 1135315--1135380 Score: 82
Period size: 29 Copynumber: 2.3 Consensus size: 30
1135305 TAAGGTATCT
* * *
1135315 TTAATTTTTAAATATATTATTAAAATAATA
1 TTAATTTTAAAATAAATTATCAAAATAATA
*
1135345 TTAA-TTTAAAATAAATTATCAAAATATTA
1 TTAATTTTAAAATAAATTATCAAAATAATA
1135374 TT-ATTTT
1 TTAATTTT
1135381 GATTAATAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
28 1 0.03
29 26 0.84
30 4 0.13
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (30 bp):
TTAATTTTAAAATAAATTATCAAAATAATA
Found at i:1136048 original size:38 final size:37
Alignment explanation
Indices: 1136006--1136100 Score: 127
Period size: 38 Copynumber: 2.5 Consensus size: 37
1135996 AAATGATTAC
* *
1136006 AATTTAAATTTTAAATTAATTAGATGATTATGACTTTT
1 AATTTAAATTTTAAATTAATTAGATGATTAT-AATTTA
* *
1136044 AATTTAAATTTAAAAAATAATTAGATGATTATAATTTA
1 AATTTAAATTT-TAAATTAATTAGATGATTATAATTTA
*
1136082 AATTAAAATTTTAAATTAA
1 AATTTAAATTTTAAATTAA
1136101 ACAAATTAAA
Statistics
Matches: 49, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
37 6 0.12
38 25 0.51
39 18 0.37
ACGTcount: A:0.48, C:0.01, G:0.05, T:0.45
Consensus pattern (37 bp):
AATTTAAATTTTAAATTAATTAGATGATTATAATTTA
Found at i:1136095 original size:39 final size:40
Alignment explanation
Indices: 1136006--1136096 Score: 118
Period size: 39 Copynumber: 2.4 Consensus size: 40
1135996 AAATGATTAC
* * *
1136006 AATTTAAATTTT--AAATTAATTAGATGATTATGACTTTT
1 AATTTAAATTTTAAAAAATAATTAGATGATTATGAATTTA
1136044 AATTTAAA-TTTAAAAAATAATTAGATGATTAT-AATTTA
1 AATTTAAATTTTAAAAAATAATTAGATGATTATGAATTTA
*
1136082 AATTAAAATTTTAAA
1 AATTTAAATTTTAAA
1136097 TTAAACAAAT
Statistics
Matches: 46, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
37 3 0.07
38 19 0.41
39 24 0.52
ACGTcount: A:0.48, C:0.01, G:0.05, T:0.45
Consensus pattern (40 bp):
AATTTAAATTTTAAAAAATAATTAGATGATTATGAATTTA
Found at i:1136132 original size:13 final size:14
Alignment explanation
Indices: 1136074--1136124 Score: 68
Period size: 14 Copynumber: 3.7 Consensus size: 14
1136064 TTAGATGATT
1136074 ATAATTTAAATTAA
1 ATAATTTAAATTAA
*
1136088 A-ATTTTAAATTAA
1 ATAATTTAAATTAA
* *
1136101 ACAAATTAAATTAA
1 ATAATTTAAATTAA
1136115 ATAATTTAAA
1 ATAATTTAAA
1136125 ATAATAATAC
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
13 12 0.39
14 19 0.61
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (14 bp):
ATAATTTAAATTAA
Found at i:1138522 original size:21 final size:21
Alignment explanation
Indices: 1138494--1138550 Score: 64
Period size: 21 Copynumber: 2.8 Consensus size: 21
1138484 CACTATTTTG
* *
1138494 AAAA-TATATATTGTTTTACT
1 AAAAGTATATATTGTTCTAAT
1138514 AAAAGTATATATCT-TTCTAAT
1 AAAAGTATATAT-TGTTCTAAT
*
1138535 AAATGTATATATTGTT
1 AAAAGTATATATTGTT
1138551 ATAGATATAT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
20 5 0.16
21 25 0.81
22 1 0.03
ACGTcount: A:0.40, C:0.05, G:0.07, T:0.47
Consensus pattern (21 bp):
AAAAGTATATATTGTTCTAAT
Found at i:1139459 original size:21 final size:21
Alignment explanation
Indices: 1139433--1139486 Score: 99
Period size: 21 Copynumber: 2.6 Consensus size: 21
1139423 CAGTTCGAAA
*
1139433 TATGTACATGTAAGTATGCTT
1 TATGTACATATAAGTATGCTT
1139454 TATGTACATATAAGTATGCTT
1 TATGTACATATAAGTATGCTT
1139475 TATGTACATATA
1 TATGTACATATA
1139487 GTTTTGCAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.33, C:0.09, G:0.15, T:0.43
Consensus pattern (21 bp):
TATGTACATATAAGTATGCTT
Found at i:1146949 original size:21 final size:21
Alignment explanation
Indices: 1146920--1146960 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
1146910 AAAGGTTAAA
1146920 ACCCTAGAAAGTATCGATACAG
1 ACCCTAG-AAGTATCGATACAG
1146942 ACCC-AGAAGTATCGATACA
1 ACCCTAGAAGTATCGATACA
1146961 TATTGCTTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 13 0.68
21 2 0.11
22 4 0.21
ACGTcount: A:0.41, C:0.24, G:0.17, T:0.17
Consensus pattern (21 bp):
ACCCTAGAAGTATCGATACAG
Found at i:1151029 original size:20 final size:20
Alignment explanation
Indices: 1151004--1151046 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
1150994 TATTTTTGAT
1151004 GAATCTAACTCTTCTGCAAG
1 GAATCTAACTCTTCTGCAAG
*
1151024 GAATCTAACTCTTTTGCAAG
1 GAATCTAACTCTTCTGCAAG
1151044 GAA
1 GAA
1151047 GCTATCTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.33, C:0.21, G:0.16, T:0.30
Consensus pattern (20 bp):
GAATCTAACTCTTCTGCAAG
Found at i:1153239 original size:13 final size:13
Alignment explanation
Indices: 1153221--1153256 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
1153211 ATGTTCGTAA
*
1153221 TATCGATACATTG
1 TATCGATACACTG
1153234 TATCGATACACTG
1 TATCGATACACTG
1153247 TATCGATACA
1 TATCGATACA
1153257 AAGGCACTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.33, C:0.19, G:0.14, T:0.33
Consensus pattern (13 bp):
TATCGATACACTG
Found at i:1154914 original size:16 final size:16
Alignment explanation
Indices: 1154893--1154928 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
1154883 TACTTTATTT
**
1154893 CTTTGCTTGTTTTTAA
1 CTTTGCTTGTACTTAA
1154909 CTTTGCTTGTACTTAA
1 CTTTGCTTGTACTTAA
1154925 CTTT
1 CTTT
1154929 TCTTAATGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.14, C:0.17, G:0.11, T:0.58
Consensus pattern (16 bp):
CTTTGCTTGTACTTAA
Found at i:1155158 original size:21 final size:21
Alignment explanation
Indices: 1155134--1155185 Score: 77
Period size: 21 Copynumber: 2.5 Consensus size: 21
1155124 AATCATTTTT
1155134 TTAAGGGGGAAAAAAAATTTA
1 TTAAGGGGGAAAAAAAATTTA
* * *
1155155 TTAAGGGAGAGAAAAATTTTA
1 TTAAGGGGGAAAAAAAATTTA
1155176 TTAAGGGGGA
1 TTAAGGGGGA
1155186 GTTATAAATT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.46, C:0.00, G:0.29, T:0.25
Consensus pattern (21 bp):
TTAAGGGGGAAAAAAAATTTA
Found at i:1155195 original size:23 final size:21
Alignment explanation
Indices: 1155115--1155182 Score: 75
Period size: 21 Copynumber: 3.2 Consensus size: 21
1155105 AATTTGAAAA
* *
1155115 AAGGG-GAGAAATCATTTTTTT
1 AAGGGAGAGAAA-AATTTTATT
* * *
1155136 AAGGGGGAAAAAAAATTTATT
1 AAGGGAGAGAAAAATTTTATT
1155157 AAGGGAGAGAAAAATTTTATT
1 AAGGGAGAGAAAAATTTTATT
1155178 AAGGG
1 AAGGG
1155183 GGAGTTATAA
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
21 34 0.87
22 5 0.13
ACGTcount: A:0.44, C:0.01, G:0.26, T:0.28
Consensus pattern (21 bp):
AAGGGAGAGAAAAATTTTATT
Found at i:1155813 original size:13 final size:13
Alignment explanation
Indices: 1155795--1155819 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1155785 CATATTTCTT
1155795 TGTATCGATACAC
1 TGTATCGATACAC
1155808 TGTATCGATACA
1 TGTATCGATACA
1155820 TAGCGAAGTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAC
Found at i:1157171 original size:78 final size:78
Alignment explanation
Indices: 1157011--1157182 Score: 195
Period size: 78 Copynumber: 2.2 Consensus size: 78
1157001 GTATTTACGT
* * * *
1157011 AATAGTACTTTAAAATTGAGTTCTTAGGGTTATGTGAGAACTTTCATGTCGATACTTGTCCATTA
1 AATATTACTTTAAAATTGAGTTCTTAAGGTCATGTGAGAACTTTCATGTCGATACATGTCCATTA
* *
1157076 GGGTCATTAAGAT
66 GAGTCATTAAGAC
* * * *
1157089 AATATTACATTAAAATTGAGTTTTTAAGGTCAT-TGATGAACTTTCATG-CTGATGCATGTCCTT
1 AATATTACTTTAAAATTGAGTTCTTAAGGTCATGTGA-GAACTTTCATGTC-GATACATGTCCAT
* *
1157152 TAGAGTCATTTAGGC
64 TAGAGTCATTAAGAC
*
1157167 AATATCACTTTAAAAT
1 AATATTACTTTAAAAT
1157183 AAAGCATATA
Statistics
Matches: 78, Mismatches: 14, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
77 4 0.05
78 74 0.95
ACGTcount: A:0.31, C:0.12, G:0.17, T:0.39
Consensus pattern (78 bp):
AATATTACTTTAAAATTGAGTTCTTAAGGTCATGTGAGAACTTTCATGTCGATACATGTCCATTA
GAGTCATTAAGAC
Found at i:1162901 original size:13 final size:13
Alignment explanation
Indices: 1162883--1162907 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1162873 TATTATGAAC
1162883 ATGTATCGATACA
1 ATGTATCGATACA
1162896 ATGTATCGATAC
1 ATGTATCGATAC
1162908 TAAGAAATAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1167507 original size:31 final size:31
Alignment explanation
Indices: 1167472--1167541 Score: 86
Period size: 34 Copynumber: 2.2 Consensus size: 31
1167462 AAATGTTGTC
* *
1167472 AAGTACTAAGAATATTGATGATCGCTGTTGG
1 AAGTACCAAGAATATTGATGATCGCTGTTAG
*
1167503 AAGTAAGACCATGAATATTGATGATCGCTGTTAG
1 AAGT---ACCAAGAATATTGATGATCGCTGTTAG
1167537 AAGTA
1 AAGTA
1167542 AGACCATGCC
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
31 5 0.15
34 28 0.85
ACGTcount: A:0.36, C:0.10, G:0.24, T:0.30
Consensus pattern (31 bp):
AAGTACCAAGAATATTGATGATCGCTGTTAG
Found at i:1167519 original size:34 final size:34
Alignment explanation
Indices: 1167481--1167549 Score: 129
Period size: 34 Copynumber: 2.0 Consensus size: 34
1167471 CAAGTACTAA
*
1167481 GAATATTGATGATCGCTGTTGGAAGTAAGACCAT
1 GAATATTGATGATCGCTGTTAGAAGTAAGACCAT
1167515 GAATATTGATGATCGCTGTTAGAAGTAAGACCAT
1 GAATATTGATGATCGCTGTTAGAAGTAAGACCAT
1167549 G
1 G
1167550 CCCTTATACT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.33, C:0.12, G:0.26, T:0.29
Consensus pattern (34 bp):
GAATATTGATGATCGCTGTTAGAAGTAAGACCAT
Found at i:1169815 original size:16 final size:16
Alignment explanation
Indices: 1169758--1169828 Score: 63
Period size: 16 Copynumber: 4.4 Consensus size: 16
1169748 TGCCCTCATT
* *
1169758 TGCATTTGCACTTACA
1 TGCATTCGCACTTACG
** *
1169774 TGCATTCATA-TTCATG
1 TGCATTCGCACTT-ACG
* *
1169790 TGCTTTCGCACTTACT
1 TGCATTCGCACTTACG
1169806 TGCATTCGCACTTACG
1 TGCATTCGCACTTACG
1169822 TGCATTC
1 TGCATTC
1169829 ACATTCATAA
Statistics
Matches: 41, Mismatches: 12, Indels: 4
0.72 0.21 0.07
Matches are distributed among these distances:
15 2 0.05
16 37 0.90
17 2 0.05
ACGTcount: A:0.20, C:0.27, G:0.14, T:0.39
Consensus pattern (16 bp):
TGCATTCGCACTTACG
Found at i:1169850 original size:48 final size:48
Alignment explanation
Indices: 1169757--1169851 Score: 118
Period size: 48 Copynumber: 2.0 Consensus size: 48
1169747 TTGCCCTCAT
* * ** * **
1169757 TTGCATTTGCACTTACATGCATTCATATTCATGTGCTTTCGCACTTAC
1 TTGCATTCGCACTTACATGCATTCACATTCATAAGCATTAACACTTAC
*
1169805 TTGCATTCGCACTTACGTGCATTCACATTCATAAGCATTAACACTTA
1 TTGCATTCGCACTTACATGCATTCACATTCATAAGCATTAACACTTA
1169852 TAGGCATTAT
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
48 39 1.00
ACGTcount: A:0.25, C:0.25, G:0.12, T:0.38
Consensus pattern (48 bp):
TTGCATTCGCACTTACATGCATTCACATTCATAAGCATTAACACTTAC
Found at i:1170170 original size:48 final size:48
Alignment explanation
Indices: 1170050--1170172 Score: 133
Period size: 48 Copynumber: 2.6 Consensus size: 48
1170040 ACATCTGCAT
* * * * *
1170050 TCATGTGCATTCATGCTCATGTACATTTGCATTTATAAGCATTAGCAC
1 TCATGAGCATCCATGCTCATGTGCATTTACATTCATAAGCATTAGCAC
* *
1170098 TCAT-ATACA-CCACTGCCCATGTGCATTTACATTCATAAGCATTAGCAC
1 TCATGA-GCATCCA-TGCTCATGTGCATTTACATTCATAAGCATTAGCAC
* *
1170146 TCATGAGCATCCATACTCACGTGCATT
1 TCATGAGCATCCATGCTCATGTGCATT
1170173 CATTTGCATT
Statistics
Matches: 60, Mismatches: 11, Indels: 8
0.76 0.14 0.10
Matches are distributed among these distances:
47 2 0.03
48 54 0.90
49 4 0.07
ACGTcount: A:0.28, C:0.26, G:0.13, T:0.33
Consensus pattern (48 bp):
TCATGAGCATCCATGCTCATGTGCATTTACATTCATAAGCATTAGCAC
Found at i:1171817 original size:20 final size:20
Alignment explanation
Indices: 1171794--1171844 Score: 84
Period size: 20 Copynumber: 2.5 Consensus size: 20
1171784 ACACCCAGAT
1171794 GTATCGATACAAATTGCTAA
1 GTATCGATACAAATTGCTAA
**
1171814 GTATCGATACAAATTGCTTT
1 GTATCGATACAAATTGCTAA
1171834 GTATCGATACA
1 GTATCGATACA
1171845 CTATAAATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.33
Consensus pattern (20 bp):
GTATCGATACAAATTGCTAA
Found at i:1172464 original size:34 final size:34
Alignment explanation
Indices: 1172402--1172528 Score: 141
Period size: 34 Copynumber: 3.7 Consensus size: 34
1172392 TGAGAGCTTT
* *
1172402 TATCTTAGCCTTTGAAAAAGATATGGAAGAGGTTC
1 TATCTTAGCCTGTG-AAAAGATAGGGAAGAGGTTC
*
1172437 TATCTTAGCCTATGAAAAGATAGGGAAGAGGTTC
1 TATCTTAGCCTGTGAAAAGATAGGGAAGAGGTTC
* * * *
1172471 TATTTTAGCTTGTAAAAAGATA-GGAAAAGG-TC
1 TATCTTAGCCTGTGAAAAGATAGGGAAGAGGTTC
* *
1172503 TTATCTTAACATGTGAAAAGATAGGG
1 -TATCTTAGCCTGTGAAAAGATAGGG
1172529 TTGTAAGGTT
Statistics
Matches: 79, Mismatches: 11, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
32 2 0.03
33 25 0.32
34 39 0.49
35 13 0.16
ACGTcount: A:0.37, C:0.09, G:0.24, T:0.30
Consensus pattern (34 bp):
TATCTTAGCCTGTGAAAAGATAGGGAAGAGGTTC
Found at i:1176557 original size:22 final size:22
Alignment explanation
Indices: 1176531--1176576 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
1176521 CCCCAAGAGG
1176531 TCATAATGCCTTAACAAATTTT
1 TCATAATGCCTTAACAAATTTT
*
1176553 TCATAATGCCTTACCAAATTTT
1 TCATAATGCCTTAACAAATTTT
1176575 TC
1 TC
1176577 TTGGGGTAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.33, C:0.22, G:0.04, T:0.41
Consensus pattern (22 bp):
TCATAATGCCTTAACAAATTTT
Found at i:1180927 original size:26 final size:26
Alignment explanation
Indices: 1180898--1180950 Score: 72
Period size: 25 Copynumber: 2.0 Consensus size: 26
1180888 GTTAATAATT
* *
1180898 TTGAATGAAAAATAAAAAAGAA-AAAA
1 TTGAAT-AAAAAGAAAAAAAAAGAAAA
1180924 TTGAATAAAAAGAAAAAAAAAGAAAA
1 TTGAATAAAAAGAAAAAAAAAGAAAA
1180950 T
1 T
1180951 CAAGTATGAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 13 0.54
26 11 0.46
ACGTcount: A:0.74, C:0.00, G:0.11, T:0.15
Consensus pattern (26 bp):
TTGAATAAAAAGAAAAAAAAAGAAAA
Found at i:1183160 original size:56 final size:56
Alignment explanation
Indices: 1183100--1183402 Score: 234
Period size: 56 Copynumber: 5.4 Consensus size: 56
1183090 TTGTAGGTAA
* * * *
1183100 GGATAGCTTTAGTTAAAATTGGCACCTAAATGAAAATGCTCGAGAATAGTTAGTAG
1 GGATAGCTTTAGTTGAAATTGGCACCTAAATGAAAAAGCCCAAGAATAGTTAGTAG
* * * * * ** *
1183156 GGATAG-TTCTAGTGGAAATTGGCACCTAAGTGAGAAAGCCTAAGAGTAG-CGGTAT
1 GGATAGCTT-TAGTTGAAATTGGCACCTAAATGAAAAAGCCCAAGAATAGTTAGTAG
* * * *
1183211 GAATAGCTCTAGTTAAAATTGGTACCTAAATGAAAAAGCCCAAGAATAGCTT-GTAG
1 GGATAGCTTTAGTTGAAATTGGCACCTAAATGAAAAAGCCCAAGAATAG-TTAGTAG
* * ** * * ** *
1183267 GGATAGGTTTAGTTGAAATTAGCATTTAAATAAAAAAGCCCAAGAGTAACTAGTAA
1 GGATAGCTTTAGTTGAAATTGGCACCTAAATGAAAAAGCCCAAGAATAGTTAGTAG
* * * * * * * * * *
1183323 GGATAGCTCTAGTTGAAATTTGCACCCAAATGAGAAAGCCTATGAGTATTTGGTAA
1 GGATAGCTTTAGTTGAAATTGGCACCTAAATGAAAAAGCCCAAGAATAGTTAGTAG
* *
1183379 GGATGGCTCTAGTTGAAATTGGCA
1 GGATAGCTTTAGTTGAAATTGGCA
1183403 TCAAGACAAG
Statistics
Matches: 191, Mismatches: 51, Indels: 10
0.76 0.20 0.04
Matches are distributed among these distances:
55 44 0.23
56 147 0.77
ACGTcount: A:0.37, C:0.12, G:0.24, T:0.27
Consensus pattern (56 bp):
GGATAGCTTTAGTTGAAATTGGCACCTAAATGAAAAAGCCCAAGAATAGTTAGTAG
Found at i:1183305 original size:111 final size:112
Alignment explanation
Indices: 1183096--1183362 Score: 297
Period size: 111 Copynumber: 2.4 Consensus size: 112
1183086 AGTGTTGTAG
* * * * *
1183096 GTAAGGATAGCTTTAGTTAAAATTGGCACCTAAATGAAAATGCTCGAGAATAGTTAGTAGGGATA
1 GTAAGAATAGCTCTAGTTAAAATTGGCACCTAAATGAAAAAGCCCAAGAATAGTTAGTAGGGATA
* * * * * * *
1183161 GTTCTAGTGGAAATTGGCACCTAAGTGAGAAAGCCTAAGAGTAGC-G
66 GTTCTAGTGGAAATTAGCACCTAAATAAAAAAGCCCAAGAGTAACTA
* *
1183207 GTATGAATAGCTCTAGTTAAAATTGGTACCTAAATGAAAAAGCCCAAGAATAGCTT-GTAGGGAT
1 GTAAGAATAGCTCTAGTTAAAATTGGCACCTAAATGAAAAAGCCCAAGAATAG-TTAGTAGGGAT
* **
1183271 AGGTT-TAGTTGAAATTAGCATTTAAATAAAAAAGCCCAAGAGTAACTA
65 A-GTTCTAGTGGAAATTAGCACCTAAATAAAAAAGCCCAAGAGTAACTA
* * * * *
1183319 GTAAGGATAGCTCTAGTTGAAATTTGCACCCAAATGAGAAAGCC
1 GTAAGAATAGCTCTAGTTAAAATTGGCACCTAAATGAAAAAGCC
1183363 TATGAGTATT
Statistics
Matches: 129, Mismatches: 24, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
111 87 0.67
112 42 0.33
ACGTcount: A:0.39, C:0.13, G:0.23, T:0.25
Consensus pattern (112 bp):
GTAAGAATAGCTCTAGTTAAAATTGGCACCTAAATGAAAAAGCCCAAGAATAGTTAGTAGGGATA
GTTCTAGTGGAAATTAGCACCTAAATAAAAAAGCCCAAGAGTAACTA
Found at i:1186178 original size:27 final size:27
Alignment explanation
Indices: 1186110--1186190 Score: 101
Period size: 27 Copynumber: 3.0 Consensus size: 27
1186100 ATTTGGAGAT
*
1186110 AATAACGGGGTTGGAGTATCCCTTCGA-A
1 AATAACGGGGTTGGAGAATCCC--CGATA
*
1186138 AATAACGGGGTTGGAGAATCCCCGATG
1 AATAACGGGGTTGGAGAATCCCCGATA
* *
1186165 ATTAACGGGGTTGGAGCATCCCCGAT
1 AATAACGGGGTTGGAGAATCCCCGAT
1186191 TGTGAAAAAT
Statistics
Matches: 48, Mismatches: 4, Indels: 3
0.87 0.07 0.05
Matches are distributed among these distances:
26 3 0.06
27 24 0.50
28 21 0.44
ACGTcount: A:0.27, C:0.20, G:0.31, T:0.22
Consensus pattern (27 bp):
AATAACGGGGTTGGAGAATCCCCGATA
Found at i:1186238 original size:52 final size:51
Alignment explanation
Indices: 1186174--1186406 Score: 249
Period size: 51 Copynumber: 4.6 Consensus size: 51
1186164 GATTAACGGG
* * * *
1186174 GTTGGAGCATCCCCGATTGTGAAAAATTGGTGTTTTTGGAGATAAAATCAGA
1 GTTGGAGTATCCCCGATTGTGAAAAATTGGTG-TTTTGAAAATAAAATCGGA
** *
1186226 GTTGGAGTATCCCCGATT-AAAGAAAATTGGTGTTTTGAAAATAAAA-CCGA
1 GTTGGAGTATCCCCGATTGTGA-AAAATTGGTGTTTTGAAAATAAAATCGGA
* * *
1186276 GGTTGGAGTATCCTCGATTGTGGAAAATTGGTGTTTCGAAAATAAAATCGGA
1 -GTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTGAAAATAAAATCGGA
* * * * *
1186328 GTCGGAGTATCCCCAATTGTGAAAAATTAGTGTTTT-AGAAATAAAACCGGG
1 GTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTGA-AAATAAAATCGGA
* *
1186379 GTTGGAGTAT-CCCGATTATAAAAAATTG
1 GTTGGAGTATCCCCGATTGTGAAAAATTG
1186407 AGAAACTTAA
Statistics
Matches: 151, Mismatches: 25, Indels: 12
0.80 0.13 0.06
Matches are distributed among these distances:
50 18 0.12
51 103 0.68
52 30 0.20
ACGTcount: A:0.34, C:0.12, G:0.25, T:0.30
Consensus pattern (51 bp):
GTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTGAAAATAAAATCGGA
Found at i:1186361 original size:102 final size:102
Alignment explanation
Indices: 1186173--1186406 Score: 285
Period size: 102 Copynumber: 2.3 Consensus size: 102
1186163 TGATTAACGG
* * * * *
1186173 GGTTGGAGCATCCCCGATTGTGAAAAATTGGTGTTTTTGGAGATAAAATCAGAGTTGGAGTATCC
1 GGTTGGAGTAT-CCCGATTGTGAAAAATTGGTGTTTTCGAAAATAAAATCAGAGTCGGAGTATCC
* *
1186238 CCGATTAAAGAAAATTGGTGTTTT-GAAAATAAAACCGA
65 CCAATTAAAGAAAATTAGTGTTTTAG-AAATAAAACCGA
* *
1186276 GGTTGGAGTATCCTCGATTGTGGAAAATTGGTG-TTTCGAAAATAAAATCGGAGTCGGAGTATCC
1 GGTTGGAGTATCC-CGATTGTGAAAAATTGGTGTTTTCGAAAATAAAATCAGAGTCGGAGTATCC
** *
1186340 CCAATT-GTGAAAAATTAGTGTTTTAGAAATAAAACCGG
65 CCAATTAAAG-AAAATTAGTGTTTTAGAAATAAAACCGA
* *
1186378 GGTTGGAGTATCCCGATTATAAAAAATTG
1 GGTTGGAGTATCCCGATTGTGAAAAATTG
1186407 AGAAACTTAA
Statistics
Matches: 113, Mismatches: 15, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
101 14 0.12
102 70 0.62
103 29 0.26
ACGTcount: A:0.34, C:0.12, G:0.25, T:0.29
Consensus pattern (102 bp):
GGTTGGAGTATCCCGATTGTGAAAAATTGGTGTTTTCGAAAATAAAATCAGAGTCGGAGTATCCC
CAATTAAAGAAAATTAGTGTTTTAGAAATAAAACCGA
Found at i:1188778 original size:13 final size:13
Alignment explanation
Indices: 1188760--1188785 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1188750 ACAAAGATCG
1188760 ATGTATCGATACA
1 ATGTATCGATACA
1188773 ATGTATCGATACA
1 ATGTATCGATACA
1188786 TTCTACAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1188862 original size:19 final size:21
Alignment explanation
Indices: 1188838--1188889 Score: 81
Period size: 21 Copynumber: 2.6 Consensus size: 21
1188828 AGCGATACAC
*
1188838 TGTATCGATACA-TTACT-TA
1 TGTATCGATACATTTACTGAA
1188857 TGTATCGATACATTTACTGAA
1 TGTATCGATACATTTACTGAA
1188878 TGTATCGATACA
1 TGTATCGATACA
1188890 AATTATTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 12 0.40
20 5 0.17
21 13 0.43
ACGTcount: A:0.33, C:0.15, G:0.13, T:0.38
Consensus pattern (21 bp):
TGTATCGATACATTTACTGAA
Found at i:1189545 original size:29 final size:28
Alignment explanation
Indices: 1189500--1189596 Score: 99
Period size: 29 Copynumber: 3.4 Consensus size: 28
1189490 CTAGTTAGTT
*
1189500 ATTTTATATGATCTTAGGTCATTTTAGC
1 ATTTTATATGATTTTAGGTCATTTTAGC
* *
1189528 ATTTTAAATGCATTTTAGGTTCA-TTTAGGTT
1 ATTTTATATG-ATTTTAGG-TCATTTTA-G-C
1189559 ATTTTATATGA-TTTAGGGTCATTTTAGC
1 ATTTTATATGATTTTA-GGTCATTTTAGC
*
1189587 ATTTTCTATG
1 ATTTTATATG
1189597 CATATTAAGG
Statistics
Matches: 57, Mismatches: 6, Indels: 12
0.76 0.08 0.16
Matches are distributed among these distances:
28 18 0.32
29 19 0.33
30 11 0.19
31 9 0.16
ACGTcount: A:0.25, C:0.08, G:0.15, T:0.52
Consensus pattern (28 bp):
ATTTTATATGATTTTAGGTCATTTTAGC
Found at i:1189560 original size:59 final size:59
Alignment explanation
Indices: 1189497--1189622 Score: 193
Period size: 59 Copynumber: 2.1 Consensus size: 59
1189487 GTGCTAGTTA
*
1189497 GTTATTTTATATGATCTTA-GGTCATTTTAGCATTTTAAATGCAT-TTTAGGTTCATTTAG
1 GTTATTTTATATGAT-TTAGGGTCATTTTAGCATTTTAAATGCATATTAAGGTT-ATTTAG
**
1189556 GTTATTTTATATGATTTAGGGTCATTTTAGCATTTTCTATGCATATTAAGGTTATTTAG
1 GTTATTTTATATGATTTAGGGTCATTTTAGCATTTTAAATGCATATTAAGGTTATTTAG
1189615 GTTATTTT
1 GTTATTTT
1189623 TACAATCTAA
Statistics
Matches: 62, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
58 3 0.05
59 52 0.84
60 7 0.11
ACGTcount: A:0.25, C:0.07, G:0.16, T:0.52
Consensus pattern (59 bp):
GTTATTTTATATGATTTAGGGTCATTTTAGCATTTTAAATGCATATTAAGGTTATTTAG
Found at i:1191726 original size:30 final size:31
Alignment explanation
Indices: 1191685--1191752 Score: 84
Period size: 30 Copynumber: 2.2 Consensus size: 31
1191675 ACCACGATTA
* * * * *
1191685 TCACATTTTTATAGCTTTTTTGTGTGCT-TG
1 TCACATCTTTATAGCCTCTCTGTGTGCTATC
1191715 TCACATCTTTATAGCCTCTCTGTGTGCTATC
1 TCACATCTTTATAGCCTCTCTGTGTGCTATC
1191746 TCACATC
1 TCACATC
1191753 CTGTGATTTT
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
30 24 0.75
31 8 0.25
ACGTcount: A:0.16, C:0.24, G:0.13, T:0.47
Consensus pattern (31 bp):
TCACATCTTTATAGCCTCTCTGTGTGCTATC
Found at i:1193726 original size:14 final size:14
Alignment explanation
Indices: 1193669--1193792 Score: 95
Period size: 15 Copynumber: 9.1 Consensus size: 14
1193659 AGGTACAAAG
1193669 TCTA-ATTAAAAACT
1 TCTATATTAAAAA-T
*
1193683 T-TATATGTAAAAAA
1 TCTATAT-TAAAAAT
1193697 T-TA-ATTAAAAAT
1 TCTATATTAAAAAT
1193709 TCTATATATAAAAA-
1 TCTATAT-TAAAAAT
1193723 TCTA-ATTAAAAAT
1 TCTATATTAAAAAT
1193736 TCTATATGTAAAAAGT
1 TCTATAT-TAAAAA-T
1193752 T-TA-ATTAAAAAT
1 TCTATATTAAAAAT
* *
1193764 TCTATTTGTAAAAAG
1 TCTATAT-TAAAAAT
*
1193779 TCTA-GTTAAAAAT
1 TCTATATTAAAAAT
1193792 T
1 T
1193793 TTGTATGTAA
Statistics
Matches: 92, Mismatches: 6, Indels: 25
0.75 0.05 0.20
Matches are distributed among these distances:
12 15 0.16
13 27 0.29
14 18 0.20
15 30 0.33
16 2 0.02
ACGTcount: A:0.51, C:0.06, G:0.05, T:0.39
Consensus pattern (14 bp):
TCTATATTAAAAAT
Found at i:1193734 original size:28 final size:28
Alignment explanation
Indices: 1193665--1193976 Score: 197
Period size: 28 Copynumber: 11.5 Consensus size: 28
1193655 ATTAAGGTAC
1193665 AAAGTCTAATTAAAAACTT-TATATGTAA
1 AAAGTCTAATTAAAAA-TTCTATATGTAA
* *
1193693 AAAAT-TAATTAAAAATTCTATATATAA
1 AAAGTCTAATTAAAAATTCTATATGTAA
1193720 AAA-TCTAATTAAAAATTCTATATGTAA
1 AAAGTCTAATTAAAAATTCTATATGTAA
* *
1193747 AAAGTTTAATTAAAAATTCTATTTGTAA
1 AAAGTCTAATTAAAAATTCTATATGTAA
* * *
1193775 AAAGTCTAGTTAAAAATTTTGTATGT--
1 AAAGTCTAATTAAAAATTCTATATGTAA
* * * * * *
1193801 AAA-TTTGACT-AACAGT-TAGT-TATAA
1 AAAGTCTAATTAAAAATTCTA-TATGTAA
* *
1193826 AAAGTCTAACT-AAAATTTTATATGTAA
1 AAAGTCTAATTAAAAATTCTATATGTAA
* * *
1193853 AAAGTTTAATTAAAAATTTTCTATAGGTAT
1 AAAGTCTAATTAAAAA--TTCTATATGTAA
* * * *
1193883 AGAGTCTCATTAAAAATTCTATGTGTAG
1 AAAGTCTAATTAAAAATTCTATATGTAA
* * * *
1193911 AAA---T--TTAATAATTCCATATATGA
1 AAAGTCTAATTAAAAATTCTATATGTAA
* *
1193934 AAAGT-TGAATTAAAAATTCTTTATCTAA
1 AAAGTCT-AATTAAAAATTCTATATGTAA
* *
1193962 AAGGTTTAATTAAAA
1 AAAGTCTAATTAAAA
1193977 TTTCATGAAA
Statistics
Matches: 219, Mismatches: 47, Indels: 36
0.73 0.16 0.12
Matches are distributed among these distances:
23 19 0.09
24 5 0.02
25 8 0.04
26 16 0.07
27 60 0.27
28 88 0.40
29 1 0.00
30 22 0.10
ACGTcount: A:0.47, C:0.06, G:0.09, T:0.38
Consensus pattern (28 bp):
AAAGTCTAATTAAAAATTCTATATGTAA
Found at i:1193866 original size:27 final size:28
Alignment explanation
Indices: 1193823--1193909 Score: 77
Period size: 30 Copynumber: 3.1 Consensus size: 28
1193813 CAGTTAGTTA
*
1193823 TAAAAAGTCTAACT-AAAATTTTATATG
1 TAAAAAGTCTAATTAAAAATTTTATATG
* *
1193850 TAAAAAGTTTAATTAAAAATTTTCTATAGG
1 TAAAAAGTCTAATTAAAAA-TTT-TATATG
* * * * *
1193880 TATAGAGTCTCATTAAAAATTCTATGTG
1 TAAAAAGTCTAATTAAAAATTTTATATG
1193908 TA
1 TA
1193910 GAAATTTAAT
Statistics
Matches: 47, Mismatches: 10, Indels: 5
0.76 0.16 0.08
Matches are distributed among these distances:
27 12 0.26
28 10 0.21
29 5 0.11
30 20 0.43
ACGTcount: A:0.44, C:0.07, G:0.10, T:0.39
Consensus pattern (28 bp):
TAAAAAGTCTAATTAAAAATTTTATATG
Found at i:1193906 original size:106 final size:105
Alignment explanation
Indices: 1193715--1193906 Score: 255
Period size: 106 Copynumber: 1.8 Consensus size: 105
1193705 AAATTCTATA
* **
1193715 TATAAAAATCTAATTAAAAATTCTATATGTAAAAAGTTTAATTAAAAATTCTATTTGTAAAAAGT
1 TATAAAAATCTAACTAAAAATTCTATATGTAAAAAGTTTAATTAAAAATTCTATAGGTAAAAAGT
*
1193780 CTAGTTAAAAATTTTGTATGTAAATTTGACTAACAGTTAGT
66 CTAGTTAAAAA-TTTCTATGTAAATTTGACTAACAGTTAGT
* * *
1193821 TATAAAAAGTCTAACT-AAAATTTTATATGTAAAAAGTTTAATTAAAAATTTTCTATAGGTATAG
1 TATAAAAA-TCTAACTAAAAATTCTATATGTAAAAAGTTTAATTAAAAA--TTCTATAGGTAAAA
1193885 AGTCTCA-TTAAAAA-TTCTATGT
63 AGTCT-AGTTAAAAATTTCTATGT
1193907 GTAGAAATTT
Statistics
Matches: 75, Mismatches: 7, Indels: 8
0.83 0.08 0.09
Matches are distributed among these distances:
106 46 0.61
107 6 0.08
108 22 0.29
109 1 0.01
ACGTcount: A:0.45, C:0.06, G:0.09, T:0.40
Consensus pattern (105 bp):
TATAAAAATCTAACTAAAAATTCTATATGTAAAAAGTTTAATTAAAAATTCTATAGGTAAAAAGT
CTAGTTAAAAATTTCTATGTAAATTTGACTAACAGTTAGT
Found at i:1205374 original size:52 final size:52
Alignment explanation
Indices: 1205227--1205355 Score: 222
Period size: 52 Copynumber: 2.5 Consensus size: 52
1205217 CGAAATATGA
*
1205227 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACGTCTGGAC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACCTCTGGAC
* * *
1205279 AAATTTGCCTGTATGTATCGATGCATTTCATAGTGTATCGATACCTCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACCTCTGGAC
1205331 AAATTTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
1205356 AAAATCAGTG
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 71 1.00
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.35
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACCTCTGGAC
Found at i:1205465 original size:19 final size:19
Alignment explanation
Indices: 1205441--1205492 Score: 95
Period size: 19 Copynumber: 2.7 Consensus size: 19
1205431 AGTGATACAT
1205441 TGTATCGATACAAAACTTA
1 TGTATCGATACAAAACTTA
*
1205460 TGTATCGATACAACACTTA
1 TGTATCGATACAAAACTTA
1205479 TGTATCGATACAAA
1 TGTATCGATACAAA
1205493 TCGTTGAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.40, C:0.17, G:0.12, T:0.31
Consensus pattern (19 bp):
TGTATCGATACAAAACTTA
Found at i:1221778 original size:20 final size:21
Alignment explanation
Indices: 1221753--1221802 Score: 75
Period size: 20 Copynumber: 2.4 Consensus size: 21
1221743 AGGGTTCAAG
*
1221753 ATCGATACATTCACTT-ATGT
1 ATCGATACATTAACTTGATGT
*
1221773 ATCGATACATTAACTTGTTGT
1 ATCGATACATTAACTTGATGT
1221794 ATCGATACA
1 ATCGATACA
1221803 AACTGTAGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
20 15 0.56
21 12 0.44
ACGTcount: A:0.32, C:0.18, G:0.12, T:0.38
Consensus pattern (21 bp):
ATCGATACATTAACTTGATGT
Found at i:1224135 original size:20 final size:20
Alignment explanation
Indices: 1224112--1224162 Score: 93
Period size: 20 Copynumber: 2.5 Consensus size: 20
1224102 AAGTCCAGAA
*
1224112 GTATCGATACATATTATTTT
1 GTATCGATACATATTACTTT
1224132 GTATCGATACATATTACTTT
1 GTATCGATACATATTACTTT
1224152 GTATCGATACA
1 GTATCGATACA
1224163 ATGTATCGAT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.31, C:0.14, G:0.12, T:0.43
Consensus pattern (20 bp):
GTATCGATACATATTACTTT
Found at i:1224169 original size:13 final size:13
Alignment explanation
Indices: 1224151--1224175 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1224141 CATATTACTT
1224151 TGTATCGATACAA
1 TGTATCGATACAA
1224164 TGTATCGATACA
1 TGTATCGATACA
1224176 TGTTCATTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1224173 original size:33 final size:32
Alignment explanation
Indices: 1224131--1224194 Score: 101
Period size: 33 Copynumber: 2.0 Consensus size: 32
1224121 CATATTATTT
*
1224131 TGTATCGATACATATTACTTTGTATCGATACAA
1 TGTATCGATACATATT-CATTGTATCGATACAA
*
1224164 TGTATCGATACATGTTCATTGTATCGATACA
1 TGTATCGATACATATTCATTGTATCGATACA
1224195 TGAAACTGGC
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 14 0.48
33 15 0.52
ACGTcount: A:0.31, C:0.16, G:0.14, T:0.39
Consensus pattern (32 bp):
TGTATCGATACATATTCATTGTATCGATACAA
Found at i:1224719 original size:23 final size:23
Alignment explanation
Indices: 1224676--1224719 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
1224666 GCATTCAACC
* *
1224676 TTGGGTTATAATCTCTTAAGAAT
1 TTGGGGTATAATCTCTGAAGAAT
1224699 TTGGGGTATAAT-TCTCGAAGA
1 TTGGGGTATAATCTCT-GAAGA
1224720 GATTGGGAGG
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 3 0.17
23 15 0.83
ACGTcount: A:0.30, C:0.09, G:0.23, T:0.39
Consensus pattern (23 bp):
TTGGGGTATAATCTCTGAAGAAT
Found at i:1229010 original size:16 final size:16
Alignment explanation
Indices: 1228986--1229016 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
1228976 AAAAGCTTTC
*
1228986 AAAATTTTTAATAGAA
1 AAAAGTTTTAATAGAA
1229002 AAAAGTTTTAATAGA
1 AAAAGTTTTAATAGA
1229017 GGAAATGTTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.55, C:0.00, G:0.10, T:0.35
Consensus pattern (16 bp):
AAAAGTTTTAATAGAA
Found at i:1230480 original size:13 final size:13
Alignment explanation
Indices: 1230416--1230480 Score: 54
Period size: 13 Copynumber: 5.5 Consensus size: 13
1230406 GAAAACCCAG
1230416 ATGTATCGATACA
1 ATGTATCGATACA
1230429 ATGT-TC--T--A
1 ATGTATCGATACA
1230437 A-GTATCGATAC-
1 ATGTATCGATACA
* *
1230448 ATTTATCGATATA
1 ATGTATCGATACA
*
1230461 ATATATCGATACA
1 ATGTATCGATACA
1230474 ATGTATC
1 ATGTATC
1230481 AATGTAAGGC
Statistics
Matches: 40, Mismatches: 5, Indels: 14
0.68 0.08 0.24
Matches are distributed among these distances:
7 2 0.05
8 4 0.10
10 2 0.05
11 1 0.03
12 10 0.25
13 21 0.52
ACGTcount: A:0.37, C:0.14, G:0.12, T:0.37
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1233073 original size:13 final size:13
Alignment explanation
Indices: 1233055--1233079 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1233045 CATTATGCTT
1233055 TGTATCGATACAA
1 TGTATCGATACAA
1233068 TGTATCGATACA
1 TGTATCGATACA
1233080 TGTTCATTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1233095 original size:32 final size:33
Alignment explanation
Indices: 1233037--1233098 Score: 92
Period size: 32 Copynumber: 1.9 Consensus size: 33
1233027 CATCCAGATA
*
1233037 TATCGATACATTATGCTTTGTATCGATACAATG
1 TATCGATACATTATGCATTGTATCGATACAATG
1233070 TATCGATACATGT-T-CATTGTATCGATACA
1 TATCGATACAT-TATGCATTGTATCGATACA
1233099 CACTCAATTG
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
32 14 0.52
33 12 0.44
34 1 0.04
ACGTcount: A:0.31, C:0.16, G:0.15, T:0.39
Consensus pattern (33 bp):
TATCGATACATTATGCATTGTATCGATACAATG
Found at i:1234092 original size:192 final size:192
Alignment explanation
Indices: 1233765--1234149 Score: 707
Period size: 192 Copynumber: 2.0 Consensus size: 192
1233755 TCGAGGAGAA
*
1233765 AGGACGTAGGTGCCATGTTTAGACCGAACCTCTATAAACACTTGTGTCGAGTTTTCTCTTTTCCC
1 AGGACGTAGGTGCCATGTTTAGACCGAACCTCTATAAACACTTGTGTCAAGTTTTCTCTTTTCCC
*
1233830 TACTCTCTTTATCTTCAAGTTATTTTCGAAACAATTCTTACAAAATATTCAAATTTTGAAAAAGG
66 TACTCTCTTTATCTTCAAGTTATTTTCGAAACAATTCTTACAAAATATTCAAATTTTGAAAAAAG
*
1233895 CTAATTCACCCCCTTTTGGTTCATCCATTCTAGAGCTAACAGATAGAAAAAGGCTTTAATAG
131 CTAATTCACCCCCTCTTGGTTCATCCATTCTAGAGCTAACAGATAGAAAAAGGCTTTAATAG
* *
1233957 AGGACGTAGGTGCCATGTTTAGATCGAACCTCTATAAACACTTGTGTCAAGTTTTCTTTTTTCCC
1 AGGACGTAGGTGCCATGTTTAGACCGAACCTCTATAAACACTTGTGTCAAGTTTTCTCTTTTCCC
*
1234022 TACTCTCTTTATCTTCAAGTTGTTTTCGAAACAATTCTTACAAAATATTCAAATTTTGAAAAAAG
66 TACTCTCTTTATCTTCAAGTTATTTTCGAAACAATTCTTACAAAATATTCAAATTTTGAAAAAAG
*
1234087 CTAATTCACCCCCTCTTGGTTCATCCATTCTAGAGCTAACAGATAGAAAAATGCTTTAATAG
131 CTAATTCACCCCCTCTTGGTTCATCCATTCTAGAGCTAACAGATAGAAAAAGGCTTTAATAG
1234149 A
1 A
1234150 AGAAATGTTG
Statistics
Matches: 186, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
192 186 1.00
ACGTcount: A:0.31, C:0.21, G:0.14, T:0.35
Consensus pattern (192 bp):
AGGACGTAGGTGCCATGTTTAGACCGAACCTCTATAAACACTTGTGTCAAGTTTTCTCTTTTCCC
TACTCTCTTTATCTTCAAGTTATTTTCGAAACAATTCTTACAAAATATTCAAATTTTGAAAAAAG
CTAATTCACCCCCTCTTGGTTCATCCATTCTAGAGCTAACAGATAGAAAAAGGCTTTAATAG
Found at i:1241125 original size:116 final size:113
Alignment explanation
Indices: 1240938--1241157 Score: 293
Period size: 116 Copynumber: 1.9 Consensus size: 113
1240928 TTAGCCTAAT
* * * * *
1240938 ATAATTAAATAAAATAAGCCCAAAATTTAATTAAATAAACACATAGGCTTTATTTTATCTAATGT
1 ATAATTAAATAAAATAAGCCAAAAATTTAATTAAATAAACACATAGGCCTAATTGTATCTAATAT
*
1241003 ATATTTTTTATAAGGCTT-GACCTTAAATTAAATAATTTACGACCCAAC
66 ATATTTTTTATAAGACTTAG-CCTTAAATTAAATAATTTACGACCCAAC
* *
1241051 ATAATTAAATAAAAT-AGGCAAAAATAAATTAATTAATTAAACACAT-GGAACCTAATTGTATCT
1 ATAATTAAATAAAATAAGCCAAAAAT---TTAATTAAATAAACACATAGG--CCTAATTGTATCT
1241114 AATATATATTTTTTATAAGACTTAGCCTTAAATTAAATAATTTA
61 AATATATATTTTTTATAAGACTTAGCCTTAAATTAAATAATTTA
1241158 TAACCTTACC
Statistics
Matches: 93, Mismatches: 8, Indels: 9
0.85 0.07 0.08
Matches are distributed among these distances:
112 8 0.09
113 15 0.16
114 2 0.02
115 17 0.18
116 50 0.54
117 1 0.01
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.36
Consensus pattern (113 bp):
ATAATTAAATAAAATAAGCCAAAAATTTAATTAAATAAACACATAGGCCTAATTGTATCTAATAT
ATATTTTTTATAAGACTTAGCCTTAAATTAAATAATTTACGACCCAAC
Found at i:1242145 original size:11 final size:11
Alignment explanation
Indices: 1242129--1242159 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
1242119 TGACGGCATC
*
1242129 GTCACAAAGTT
1 GTCACAAAATT
1242140 GTCACAAAATT
1 GTCACAAAATT
1242151 GTCACAAAA
1 GTCACAAAA
1242160 AATAATCTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.45, C:0.19, G:0.13, T:0.23
Consensus pattern (11 bp):
GTCACAAAATT
Found at i:1245111 original size:11 final size:11
Alignment explanation
Indices: 1245089--1245121 Score: 59
Period size: 11 Copynumber: 3.1 Consensus size: 11
1245079 TAAATTATTA
1245089 TTTATT-TAAT
1 TTTATTATAAT
1245099 TTTATTATAAT
1 TTTATTATAAT
1245110 TTTATTATAAT
1 TTTATTATAAT
1245121 T
1 T
1245122 AAAAGATAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
10 6 0.27
11 16 0.73
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (11 bp):
TTTATTATAAT
Found at i:1245139 original size:17 final size:18
Alignment explanation
Indices: 1245114--1245147 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
1245104 TATAATTTTA
*
1245114 TTATAATTAAAAGATAAT
1 TTATAATTAAAAAATAAT
1245132 TTAT-ATTAAAAAATAA
1 TTATAATTAAAAAATAA
1245148 AATTTTAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (18 bp):
TTATAATTAAAAAATAAT
Found at i:1247373 original size:2 final size:2
Alignment explanation
Indices: 1247366--1247392 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
1247356 TGCGTTTAAA
1247366 TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC T
1247393 ATATATATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:1247397 original size:2 final size:2
Alignment explanation
Indices: 1247392--1247426 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
1247382 TCTCTCTCTC
1247392 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1247427 CATAATAGAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1248393 original size:13 final size:13
Alignment explanation
Indices: 1248375--1248435 Score: 62
Period size: 13 Copynumber: 5.2 Consensus size: 13
1248365 ATCCAGATGT
*
1248375 ATTGTATTGATAC
1 ATTGTATCGATAC
1248388 ATTGTATCGATAC
1 ATTGTATCGATAC
1248401 A-T-TAT-G-T--
1 ATTGTATCGATAC
*
1248408 TTTGTATCGATAC
1 ATTGTATCGATAC
1248421 ATTGTATCGATAC
1 ATTGTATCGATAC
1248434 AT
1 AT
1248436 GTTCATTGTA
Statistics
Matches: 39, Mismatches: 3, Indels: 12
0.72 0.06 0.22
Matches are distributed among these distances:
8 1 0.03
9 4 0.10
10 2 0.05
11 4 0.10
12 1 0.03
13 27 0.69
ACGTcount: A:0.30, C:0.11, G:0.15, T:0.44
Consensus pattern (13 bp):
ATTGTATCGATAC
Found at i:1248420 original size:33 final size:33
Alignment explanation
Indices: 1248371--1248435 Score: 112
Period size: 33 Copynumber: 2.0 Consensus size: 33
1248361 ATATATCCAG
*
1248371 ATGTATTGTATTGATACATTGTATCGATACATT
1 ATGTATTGTATCGATACATTGTATCGATACATT
*
1248404 ATGTTTTGTATCGATACATTGTATCGATACAT
1 ATGTATTGTATCGATACATTGTATCGATACAT
1248436 GTTCATTGTA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.29, C:0.11, G:0.15, T:0.45
Consensus pattern (33 bp):
ATGTATTGTATCGATACATTGTATCGATACATT
Found at i:1248444 original size:19 final size:19
Alignment explanation
Indices: 1248420--1248475 Score: 67
Period size: 19 Copynumber: 2.9 Consensus size: 19
1248410 TGTATCGATA
*
1248420 CATTGTATCGATACATGTT
1 CATTGTATCGATACATGCT
* *
1248439 CATTGTATTGATACATACT
1 CATTGTATCGATACATGCT
*
1248458 CAATTATATCGATACATG
1 C-ATTGTATCGATACATG
1248476 AAACTGACAG
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
19 17 0.57
20 13 0.43
ACGTcount: A:0.32, C:0.16, G:0.12, T:0.39
Consensus pattern (19 bp):
CATTGTATCGATACATGCT
Found at i:1248548 original size:33 final size:33
Alignment explanation
Indices: 1248506--1248570 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
1248496 AAGTGAAATA
1248506 TATCGATACATG-AGATATTGTATCAATACATTG
1 TATCGATACATGAAGA-ATTGTATCAATACATTG
*
1248539 TATCGATACATGAAGAATTGTATCGATACATT
1 TATCGATACATGAAGAATTGTATCAATACATT
1248571 ATGCCCAACG
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
33 27 0.90
34 3 0.10
ACGTcount: A:0.37, C:0.12, G:0.15, T:0.35
Consensus pattern (33 bp):
TATCGATACATGAAGAATTGTATCAATACATTG
Found at i:1249763 original size:5 final size:5
Alignment explanation
Indices: 1249753--1249777 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
1249743 TGTATTCCTC
1249753 TTTAT TTTAT TTTAT TTTAT TTTAT
1 TTTAT TTTAT TTTAT TTTAT TTTAT
1249778 ATTTGATTCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTAT
Found at i:1251022 original size:33 final size:33
Alignment explanation
Indices: 1250935--1251023 Score: 92
Period size: 33 Copynumber: 2.7 Consensus size: 33
1250925 TTTAAATTAT
* * *
1250935 TTTTATATTATATATATTTATATAAATTTTAATA
1 TTTTATA-TATTTATATTTATATAAATTATAACA
* *
1250969 TTTTA-ATAATTTATAATTATATAGATTATAACA
1 TTTTATAT-ATTTATATTTATATAAATTATAACA
1251002 TATTTATATATTTAT-TTTATAT
1 T-TTTATATATTTATATTTATAT
1251024 TTAAAATTAA
Statistics
Matches: 46, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
32 1 0.02
33 28 0.61
34 15 0.33
35 2 0.04
ACGTcount: A:0.40, C:0.01, G:0.01, T:0.57
Consensus pattern (33 bp):
TTTTATATATTTATATTTATATAAATTATAACA
Found at i:1253389 original size:97 final size:97
Alignment explanation
Indices: 1253288--1253478 Score: 310
Period size: 97 Copynumber: 2.0 Consensus size: 97
1253278 GAGTATCCCT
*
1253288 GATGATGATAATTTAGGCAAAAATAAGATTTAAATCTTGACAAGTTTAAAAATAGGGTTGGAGTA
1 GATGATGATAATTTAAGCAAAAATAAGATTTAAATCTTGACAAGTTTAAAAATAGGGTTGGAGTA
* *
1253353 TCCTCTCGAAAGAATGGGGTAGTAGTATCTTC
66 TCCTCTCAAAAGAATGGGGTAGGAGTATCTTC
* **
1253385 GATGATGATAATTTAAGCAAAAATAAGATTTAAATTTTGATGAGTTTAAAAATAGGGTTGGAGTA
1 GATGATGATAATTTAAGCAAAAATAAGATTTAAATCTTGACAAGTTTAAAAATAGGGTTGGAGTA
* *
1253450 TCCTCTCAAAAGAATTGGGTTGGAGTATC
66 TCCTCTCAAAAGAATGGGGTAGGAGTATC
1253479 CCTGTGAATA
Statistics
Matches: 86, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
97 86 1.00
ACGTcount: A:0.38, C:0.08, G:0.23, T:0.32
Consensus pattern (97 bp):
GATGATGATAATTTAAGCAAAAATAAGATTTAAATCTTGACAAGTTTAAAAATAGGGTTGGAGTA
TCCTCTCAAAAGAATGGGGTAGGAGTATCTTC
Found at i:1260705 original size:27 final size:28
Alignment explanation
Indices: 1260661--1260714 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 28
1260651 TTTAAAAATG
*
1260661 ACTAAAATGATGATTTT-ATCTCTAAAA
1 ACTAAAATGATGATTTTAATATCTAAAA
*
1260688 ACTAAAAT-TTGATGTTTAATATCTAAA
1 ACTAAAATGATGAT-TTTAATATCTAAA
1260715 CTTTTGAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
26 4 0.17
27 11 0.48
28 8 0.35
ACGTcount: A:0.44, C:0.09, G:0.07, T:0.39
Consensus pattern (28 bp):
ACTAAAATGATGATTTTAATATCTAAAA
Found at i:1265100 original size:22 final size:23
Alignment explanation
Indices: 1265075--1265123 Score: 75
Period size: 22 Copynumber: 2.2 Consensus size: 23
1265065 TTTTCATCGA
1265075 GGTTTTAACCC-CTTTGACACTT
1 GGTTTTAACCCTCTTTGACACTT
*
1265097 GG-TTTCACCCTCTTTGACACTT
1 GGTTTTAACCCTCTTTGACACTT
1265119 GGTTT
1 GGTTT
1265124 CACCCAATAC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
21 7 0.29
22 15 0.62
23 2 0.08
ACGTcount: A:0.14, C:0.27, G:0.16, T:0.43
Consensus pattern (23 bp):
GGTTTTAACCCTCTTTGACACTT
Found at i:1265124 original size:22 final size:21
Alignment explanation
Indices: 1265082--1265128 Score: 85
Period size: 22 Copynumber: 2.2 Consensus size: 21
1265072 CGAGGTTTTA
1265082 ACCCCTTTGACACTTGGTTTC
1 ACCCCTTTGACACTTGGTTTC
1265103 ACCCTCTTTGACACTTGGTTTC
1 ACCC-CTTTGACACTTGGTTTC
1265125 ACCC
1 ACCC
1265129 AATACTCTTC
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 4 0.16
22 21 0.84
ACGTcount: A:0.15, C:0.36, G:0.13, T:0.36
Consensus pattern (21 bp):
ACCCCTTTGACACTTGGTTTC
Found at i:1280409 original size:31 final size:31
Alignment explanation
Indices: 1280371--1280480 Score: 100
Period size: 31 Copynumber: 3.5 Consensus size: 31
1280361 ACATTGAATA
1280371 ATGTATCGATACATTTGGGTAAAATTCCCAG
1 ATGTATCGATACATTTGGGTAAAATTCCCAG
** * ** *
1280402 ATGTATCGATACA--AAGTTCAATGTATCGATACA-
1 ATGTATCGATACATTTGGGT-AAAAT-TC---CCAG
1280435 ATGTATCGATACATTTGGGTAAAATTCCCAG
1 ATGTATCGATACATTTGGGTAAAATTCCCAG
1280466 ATGTATCGATACATT
1 ATGTATCGATACATT
1280481 GAATAATGTA
Statistics
Matches: 59, Mismatches: 12, Indels: 16
0.68 0.14 0.18
Matches are distributed among these distances:
29 2 0.03
30 5 0.08
31 30 0.51
33 15 0.25
34 5 0.08
35 2 0.03
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.33
Consensus pattern (31 bp):
ATGTATCGATACATTTGGGTAAAATTCCCAG
Found at i:1280438 original size:13 final size:13
Alignment explanation
Indices: 1280420--1280447 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
1280410 ATACAAAGTT
1280420 CAATGTATCGATA
1 CAATGTATCGATA
1280433 CAATGTATCGATA
1 CAATGTATCGATA
1280446 CA
1 CA
1280448 TTTGGGTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:1280489 original size:64 final size:64
Alignment explanation
Indices: 1280370--1280498 Score: 215
Period size: 64 Copynumber: 2.0 Consensus size: 64
1280360 TACATTGAAT
*
1280370 AATGTATCGATACATTTGGGTAAAATTCCCAGATGTATCGATACAAAGTTCAATGTATCGATAC
1 AATGTATCGATACATTTGGGTAAAATTCCCAGATGTATCGATACAAAGATCAATGTATCGATAC
**
1280434 AATGTATCGATACATTTGGGTAAAATTCCCAGATGTATCGATACATTGAAT-AATGTATCGATAC
1 AATGTATCGATACATTTGGGTAAAATTCCCAGATGTATCGATACAAAG-ATCAATGTATCGATAC
1280498 A
1 A
1280499 TTTCCTTGGC
Statistics
Matches: 61, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
64 60 0.98
65 1 0.02
ACGTcount: A:0.36, C:0.15, G:0.17, T:0.32
Consensus pattern (64 bp):
AATGTATCGATACATTTGGGTAAAATTCCCAGATGTATCGATACAAAGATCAATGTATCGATAC
Found at i:1281544 original size:48 final size:49
Alignment explanation
Indices: 1281333--1282489 Score: 648
Period size: 48 Copynumber: 24.9 Consensus size: 49
1281323 CGAAGAATGA
* * * * * * *
1281333 CAATGTGCTTATTCATGGCCAACGACATTAGACTTGAAGAAGAA--TGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
* * * * * * * *
1281380 CAATGTGCTGA-ACAAGGTCAGTGACATTGGGCTTAGGAAAGTTAAAGATGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTT---AAAGATGAAGGTGC
** * **
1281431 CAATATGCTGATTCAAGGCCAATGATATCAGACTTAAAGATGAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
* * * * * *
1281480 CAATGTGTTGATTCAAGGCCAGCAACATTGGTCATAAAGA-CAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
* * * * * *
1281528 CGATATACTGATTCAAGGCCAGTGATATTAGAC-TCAAGATGAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
* * * * *
1281576 CAATGTGTTGATTCAAGGCCAGCAACATTGGTCTTAGAGAT-AAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
* * * *
1281624 CGATATGCTGATTCAAGGCCAGCGATATCGGACTTAAAGATGAAGATGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
*
1281673 CAATGTGCTGATTCAAGGCC-GACGACATTGGACTTAAAGATGGTTAAGGTGC
1 CAATATGCTGATTCAAGGCCAG-CGACATTGGACTTAAAGAT-G--AAGGTGC
* * * *
1281725 CAATGTGCTGATTCAAGGCCAACGACATCGGTCTTAAAGATGAAGGTTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGG-TGC
* * *
1281775 CAATATGCTGATTCAAGGCCTGCGATATTGGGC-T-----T----GTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
* * * * *
1281814 CAATGTGCTGATTCAATGCCAGCGACATTGGTCTTAAAGA-CAAGATGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
* *
1281862 CAATATGCTGATTCAAGGCCAACGATATTAGG-C-T-----T--A--TGC
1 CAATATGCTGATTCAAGGCCAGCGACATT-GGACTTAAAGATGAAGGTGC
* * * * * * *
1281901 CAATGTGCTGATTCAAAGCTAGTGACATTGGTCTTAGAGA-CAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
* * * ** *
1281949 CAATATGTTGATTCAAGGCTAGCGATATCAGACTTAAAGATGAAGATGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
* * *
1281998 CAATGTGCTGATTCAAGGCCAGCAACATTAGACTTAAAGATGGTTAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGAT-G--AAGGTGC
* * *
1282050 CAATGTGCTGATTCAAGGCCAACGACA-TCGATCTTAAAGATGAAGGTTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGA-CTTAAAGATGAAGG-TGC
** * *
1282100 CAATATGCTGATTCAAGGCCAATGATATTGGGC-T-----T----GTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
* * * *
1282139 CAATATGCTGATTCAAGGTCAGCGACATTGGTCTTAAAGA-CAAGATGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
* * *
1282187 CAATATGCTGATTCAAAGCCAGCG--A-T--A-TT-AAGCT-TA--TGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
* * * * * *
1282226 CAATGTGCTGATTCAATGCTAGTGACATT-GATCTTAAAGA-CAAGATGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGA-CTTAAAGATGAAGGTGC
* * * * * *
1282274 TAATATGCTAATTCAAGGTCAACGATATTGGGC-T-----T--A--TGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
* * * * * *
1282313 CAATGTGTTGATTCAAGGCCAGTGACATTGGTCTTAGAGA-CAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
* *
1282361 CAATATGTTGATTCAAGGCCAGCGATATTGGACTT---G-T--A----C
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
* * *
1282400 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGA-CAAGATGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
* *
1282448 CAATATGCTGATTCAAGGCCAGTGACATTGGTCTTAAAGATG
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATG
1282490 CCATGGAGTT
Statistics
Matches: 852, Mismatches: 168, Indels: 178
0.71 0.14 0.15
Matches are distributed among these distances:
38 2 0.00
39 172 0.20
40 6 0.01
41 7 0.01
42 4 0.00
43 2 0.00
44 3 0.00
45 4 0.00
46 23 0.03
47 17 0.02
48 287 0.34
49 146 0.17
50 60 0.07
51 20 0.02
52 99 0.12
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.26
Consensus pattern (49 bp):
CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
Found at i:1281764 original size:101 final size:98
Alignment explanation
Indices: 1281333--1282489 Score: 553
Period size: 87 Copynumber: 12.4 Consensus size: 98
1281323 CGAAGAATGA
* * * * * *
1281333 CAATGTGCTTATTCATGGCCAACGACATTAGACTTGAAGAAGAA--TGCCAATGTGCTGA-ACAA
1 CAATGTGCTGATTCAAGGCCAGCGACATTAGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAA
* * * * *
1281395 GGTCAGTGACATTGGGCTTAGGAAAGTTAAAGATGC
66 GGCCAGCGACATTGGACTTA--AGAGTT-AAGGTGC
* ** * * *
1281431 CAATATGCTGATTCAAGGCCAATGATATCAGACTTAAAGATGAAGGTGCCAATGTGTTGATTCAA
1 CAATGTGCTGATTCAAGGCCAGCGACATTAGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAA
* * * **
1281496 GGCCAGCAACATTGGTCATAA-AGACAAGGTGC
66 GGCCAGCGACATTGGACTTAAGAGTTAAGGTGC
* * * * * * *
1281528 CGATATACTGATTCAAGGCCAGTGATATTAGAC-TCAAGATGAAGGTGCCAATGTGTTGATTCAA
1 CAATGTGCTGATTCAAGGCCAGCGACATTAGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAA
* * *
1281592 GGCCAGCAACATTGGTCTT-AGAGATAAGGTGC
66 GGCCAGCGACATTGGACTTAAGAGTTAAGGTGC
* * * ** *
1281624 CGATATGCTGATTCAAGGCCAGCGATATCGGACTTAAAGATGAAGATGCCAATGTGCTGATTCAA
1 CAATGTGCTGATTCAAGGCCAGCGACATTAGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAA
1281689 GGCC-GACGACATTGGACTTAAAGATGGTTAAGGTGC
66 GGCCAG-CGACATTGGACTT-AAGA--GTTAAGGTGC
* ** * *
1281725 CAATGTGCTGATTCAAGGCCAACGACATCGGTCTTAAAGATGAAGGTTGCCAATATGCTGATTCA
1 CAATGTGCTGATTCAAGGCCAGCGACATTAGACTTAAAGATGAAGG-TGCCAATGTGCTGATTCA
* * *
1281790 AGGCCTGCGATATTGG------G-CTT---GTGC
65 AGGCCAGCGACATTGGACTTAAGAGTTAAGGTGC
* * * * * *
1281814 CAATGTGCTGATTCAATGCCAGCGACATTGGTCTTAAAGA-CAAGATGCCAATATGCTGATTCAA
1 CAATGTGCTGATTCAAGGCCAGCGACATTAGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAA
*
1281878 GGCCAACG--A-T--A-TT-AG-GCTT-A--TGC
66 GGCCAGCGACATTGGACTTAAGAG-TTAAGGTGC
* * * * * * * * *
1281901 CAATGTGCTGATTCAAAGCTAGTGACATTGGTCTTAGAGA-CAAGGTGCCAATATGTTGATTCAA
1 CAATGTGCTGATTCAAGGCCAGCGACATTAGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAA
* * ** * *
1281965 GGCTAGCGATATCAGACTTAA-AGATGAAGATGC
66 GGCCAGCGACATTGGACTTAAGAG-TTAAGGTGC
*
1281998 CAATGTGCTGATTCAAGGCCAGCAACATTAGACTTAAAGATGGTTAAGGTGCCAATGTGCTGATT
1 CAATGTGCTGATTCAAGGCCAGCGACATTAGACTTAAAGAT-G--AAGGTGCCAATGTGCTGATT
* * *
1282063 CAAGGCCAACGACA-TCGATCTTAA-AGATGAAGGTTGC
63 CAAGGCCAGCGACATTGGA-CTTAAGAG-TTAAGG-TGC
* ** * * * *
1282100 CAATATGCTGATTCAAGGCCAATGATATTGGGC-T-----T----GTGCCAATATGCTGATTCAA
1 CAATGTGCTGATTCAAGGCCAGCGACATTAGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAA
* * ** *
1282155 GGTCAGCGACATTGGTCTTAA-AGACAAGATGC
66 GGCCAGCGACATTGGACTTAAGAGTTAAGGTGC
* * * *
1282187 CAATATGCTGATTCAAAGCCAGCG--A-T--A-TT-AAGCT-TA--TGCCAATGTGCTGATTCAA
1 CAATGTGCTGATTCAAGGCCAGCGACATTAGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAA
* * * ** *
1282242 TGCTAGTGACATT-GATCTTAA-AGACAAGATGC
66 GGCCAGCGACATTGGA-CTTAAGAGTTAAGGTGC
* * * * * * * * *
1282274 TAATATGCTAATTCAAGGTCAACGATATTGGGC-T-----T--A--TGCCAATGTGTTGATTCAA
1 CAATGTGCTGATTCAAGGCCAGCGACATTAGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAA
* * **
1282329 GGCCAGTGACATTGGTCTT-AGAGACAAGGTGC
66 GGCCAGCGACATTGGACTTAAGAGTTAAGGTGC
* * * *
1282361 CAATATGTTGATTCAAGGCCAGCGATATTGGACTT---G-T--A----CCAATGTGCTGATTCAA
1 CAATGTGCTGATTCAAGGCCAGCGACATTAGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAA
** *
1282416 GGCCAGCGACATTGGACTTAA-AGACAAGATGC
66 GGCCAGCGACATTGGACTTAAGAGTTAAGGTGC
* * * *
1282448 CAATATGCTGATTCAAGGCCAGTGACATTGGTCTTAAAGATG
1 CAATGTGCTGATTCAAGGCCAGCGACATTAGACTTAAAGATG
1282490 CCATGGAGTT
Statistics
Matches: 870, Mismatches: 129, Indels: 126
0.77 0.11 0.11
Matches are distributed among these distances:
82 1 0.00
84 2 0.00
85 2 0.00
86 4 0.00
87 324 0.37
88 10 0.01
89 80 0.09
90 4 0.00
91 1 0.00
92 4 0.00
93 2 0.00
94 3 0.00
95 3 0.00
96 89 0.10
97 114 0.13
98 38 0.04
99 4 0.00
100 15 0.02
101 110 0.13
102 59 0.07
103 1 0.00
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.26
Consensus pattern (98 bp):
CAATGTGCTGATTCAAGGCCAGCGACATTAGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAA
GGCCAGCGACATTGGACTTAAGAGTTAAGGTGC
Found at i:1281826 original size:39 final size:39
Alignment explanation
Indices: 1281772--1281916 Score: 128
Period size: 39 Copynumber: 3.5 Consensus size: 39
1281762 AGATGAAGGT
*
1281772 TGCCAATATGCTGATTCAAGGCCTGCGATATTGGGCTTG
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTG
* * * *
1281811 TGCCAATGTGCTGATTCAATGCCAGCGACATTGGTCTTAAAGACAAG
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTT--------G
* * *
1281858 ATGCCAATATGCTGATTCAAGGCCAACGATATTAGGCTTA
1 -TGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTG
*
1281898 TGCCAATGTGCTGATTCAA
1 TGCCAATATGCTGATTCAA
1281917 AGCTAGTGAC
Statistics
Matches: 84, Mismatches: 13, Indels: 18
0.73 0.11 0.16
Matches are distributed among these distances:
39 51 0.61
47 1 0.01
48 32 0.38
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (39 bp):
TGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTG
Found at i:1282075 original size:325 final size:325
Alignment explanation
Indices: 1281476--1282301 Score: 1213
Period size: 325 Copynumber: 2.5 Consensus size: 325
1281466 AAAGATGAAG
* * * * * *
1281476 GTGCCAATGTGTTGATTCAAGGCCAGCAACATTGGTCATAAAGACAAGGTGCCGATATACTGATT
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGATGCCAATATGCTGATT
* * * * * **
1281541 CAAGGCCAGTGATATTAGACTCAAGATGAAGGTGCCAATGTGTTGATTCAAGGCCAGCAACATTG
66 CAAGGCCAGCGATATTAGGCT-----T--A--TGCCAATGTGCTGATTCAAAGCTAGTGACATTG
* * *
1281606 GTCTTAGAGATAAGGTGCCGATATGCTGATTCAAGGCCAGCGATATCGGACTTAAAGATGAAGAT
122 GTCTTAGAGACAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATCAGACTTAAAGATGAAGAT
* *
1281671 GCCAATGTGCTGATTCAAGGCCGACGACATTGGACTTAAAGATGGTTAAGGTGCCAATGTGCTGA
187 GCCAATGTGCTGATTCAAGGCCGACAACATTAGACTTAAAGATGGTTAAGGTGCCAATGTGCTGA
* **
1281736 TTCAAGGCCAACGACATCGGTCTTAAAGATGAAGGTTGCCAATATGCTGATTCAAGGCCTGCGAT
252 TTCAAGGCCAACGACATCGATCTTAAAGATGAAGGTTGCCAATATGCTGATTCAAGGCCAACGAT
1281801 ATTGGGCTT
317 ATTGGGCTT
*
1281810 GTGCCAATGTGCTGATTCAATGCCAGCGACATTGGTCTTAAAGACAAGATGCCAATATGCTGATT
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGATGCCAATATGCTGATT
*
1281875 CAAGGCCAACGATATTAGGCTTATGCCAATGTGCTGATTCAAAGCTAGTGACATTGGTCTTAGAG
66 CAAGGCCAGCGATATTAGGCTTATGCCAATGTGCTGATTCAAAGCTAGTGACATTGGTCTTAGAG
* *
1281940 ACAAGGTGCCAATATGTTGATTCAAGGCTAGCGATATCAGACTTAAAGATGAAGATGCCAATGTG
131 ACAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATCAGACTTAAAGATGAAGATGCCAATGTG
1282005 CTGATTCAAGGCC-AGCAACATTAGACTTAAAGATGGTTAAGGTGCCAATGTGCTGATTCAAGGC
196 CTGATTCAAGGCCGA-CAACATTAGACTTAAAGATGGTTAAGGTGCCAATGTGCTGATTCAAGGC
*
1282069 CAACGACATCGATCTTAAAGATGAAGGTTGCCAATATGCTGATTCAAGGCCAATGATATTGGGCT
260 CAACGACATCGATCTTAAAGATGAAGGTTGCCAATATGCTGATTCAAGGCCAACGATATTGGGCT
1282134 T
325 T
* *
1282135 GTGCCAATATGCTGATTCAAGGTCAGCGACATTGGTCTTAAAGACAAGATGCCAATATGCTGATT
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGATGCCAATATGCTGATT
* * * * *
1282200 CAAAGCCAGCGATATTAAGCTTATGCCAATGTGCTGATTCAATGCTAGTGACATTGATCTTAAAG
66 CAAGGCCAGCGATATTAGGCTTATGCCAATGTGCTGATTCAAAGCTAGTGACATTGGTCTTAGAG
* * * * *
1282265 ACAAGATGCTAATATGCTAATTCAAGGTCAACGATAT
131 ACAAGGTGCCAATATGCTGATTCAAGGCCAGCGATAT
1282302 TGGGCTTATG
Statistics
Matches: 449, Mismatches: 42, Indels: 11
0.89 0.08 0.02
Matches are distributed among these distances:
324 1 0.00
325 370 0.82
327 1 0.00
329 1 0.00
334 76 0.17
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.26
Consensus pattern (325 bp):
GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGATGCCAATATGCTGATT
CAAGGCCAGCGATATTAGGCTTATGCCAATGTGCTGATTCAAAGCTAGTGACATTGGTCTTAGAG
ACAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATCAGACTTAAAGATGAAGATGCCAATGTG
CTGATTCAAGGCCGACAACATTAGACTTAAAGATGGTTAAGGTGCCAATGTGCTGATTCAAGGCC
AACGACATCGATCTTAAAGATGAAGGTTGCCAATATGCTGATTCAAGGCCAACGATATTGGGCTT
Found at i:1282086 original size:52 final size:48
Alignment explanation
Indices: 1281942--1282121 Score: 207
Period size: 49 Copynumber: 3.6 Consensus size: 48
1281932 TCTTAGAGAC
* * * *
1281942 AAGGTGCCAATATGTTGATTCAAGGCTAGCGATATCAGACTTAAAGATG
1 AAGGTGCCAATATGCTGATTCAAGGCCAACGACATC-GACTTAAAGATG
* * * * *
1281991 AAGATGCCAATGTGCTGATTCAAGGCCAGCAACATTAGACTTAAAGATGG
1 AAGGTGCCAATATGCTGATTCAAGGCCAACGACA-TCGACTTAAAGAT-G
*
1282041 TTAAGGTGCCAATGTGCTGATTCAAGGCCAACGACATCGATCTTAAAGATG
1 --AAGGTGCCAATATGCTGATTCAAGGCCAACGACATCGA-CTTAAAGATG
1282092 AAGGTTGCCAATATGCTGATTCAAGGCCAA
1 AAGG-TGCCAATATGCTGATTCAAGGCCAA
1282122 TGATATTGGG
Statistics
Matches: 113, Mismatches: 12, Indels: 11
0.83 0.09 0.08
Matches are distributed among these distances:
49 43 0.38
50 26 0.23
51 4 0.04
52 40 0.35
ACGTcount: A:0.34, C:0.18, G:0.24, T:0.24
Consensus pattern (48 bp):
AAGGTGCCAATATGCTGATTCAAGGCCAACGACATCGACTTAAAGATG
Found at i:1282169 original size:39 final size:39
Alignment explanation
Indices: 1282097--1282430 Score: 146
Period size: 39 Copynumber: 7.9 Consensus size: 39
1282087 AGATGAAGGT
** *
1282097 TGCCAATATGCTGATTCAAGGCCAATGATATTGGGCTTG
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGGCTTG
* *
1282136 TGCCAATATGCTGATTCAAGGTCAGCGACATTGGTCTTAAAGACAAG
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGGCTT--------G
* * ** *
1282183 ATGCCAATATGCTGATTCAAAGCCAGCGATATTAAGCTTA
1 -TGCCAATATGCTGATTCAAGGCCAGCGACATTGGGCTTG
* * * * **
1282223 TGCCAATGTGCTGATTCAATGCTAGTGACATTGATCTTAAAGACAAG
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGGCTT--------G
* * * * * *
1282270 ATGCTAATATGCTAATTCAAGGTCAACGATATTGGGCTTA
1 -TGCCAATATGCTGATTCAAGGCCAGCGACATTGGGCTTG
* * * *
1282310 TGCCAATGTGTTGATTCAAGGCCAGTGACATTGGTCTTAGAGACAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGGCTT---------G
* * *
1282358 TGCCAATATGTTGATTCAAGGCCAGCGATATTGGACTTG
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGGCTTG
* *
1282397 TACCAATGTGCTGATTCAAGGCCAGCGACATTGG
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGG
1282431 ACTTAAAGAC
Statistics
Matches: 218, Mismatches: 50, Indels: 54
0.68 0.16 0.17
Matches are distributed among these distances:
39 124 0.57
47 1 0.00
48 93 0.43
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.28
Consensus pattern (39 bp):
TGCCAATATGCTGATTCAAGGCCAGCGACATTGGGCTTG
Found at i:1282235 original size:87 final size:87
Alignment explanation
Indices: 1282047--1282483 Score: 559
Period size: 87 Copynumber: 5.0 Consensus size: 87
1282037 ATGGTTAAGG
* * * * *
1282047 TGCCAATGTGCTGATTCAAGGCCAACGACATCGATCTTAAAGATGAAGGTTGCCAATATGCTGAT
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGA-CAA-GATGCCAATATGCTGAT
** *
1282112 TCAAGGCCAATGATATTGGGCTTG
64 TCAAGGCCAGCGATATTGGGCTTA
* *
1282136 TGCCAATATGCTGATTCAAGGTCAGCGACATTGGTCTTAAAGACAAGATGCCAATATGCTGATTC
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGATGCCAATATGCTGATTC
* **
1282201 AAAGCCAGCGATATTAAGCTTA
66 AAGGCCAGCGATATTGGGCTTA
* * * * * *
1282223 TGCCAATGTGCTGATTCAATGCTAGTGACATTGATCTTAAAGACAAGATGCTAATATGCTAATTC
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGATGCCAATATGCTGATTC
* *
1282288 AAGGTCAACGATATTGGGCTTA
66 AAGGCCAGCGATATTGGGCTTA
* * * * *
1282310 TGCCAATGTGTTGATTCAAGGCCAGTGACATTGGTCTTAGAGACAAGGTGCCAATATGTTGATTC
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGATGCCAATATGCTGATTC
* *
1282375 AAGGCCAGCGATATTGGACTTG
66 AAGGCCAGCGATATTGGGCTTA
* *
1282397 TACCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGACAAGATGCCAATATGCTGATTC
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGATGCCAATATGCTGATTC
* * *
1282462 AAGGCCAGTGACATTGGTCTTA
66 AAGGCCAGCGATATTGGGCTTA
1282484 AAGATGCCAT
Statistics
Matches: 298, Mismatches: 50, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
87 258 0.87
88 2 0.01
89 38 0.13
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (87 bp):
TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGATGCCAATATGCTGATTC
AAGGCCAGCGATATTGGGCTTA
Found at i:1282627 original size:33 final size:33
Alignment explanation
Indices: 1282483--1283230 Score: 495
Period size: 34 Copynumber: 22.8 Consensus size: 33
1282473 CATTGGTCTT
* * * *
1282483 AAAGATGCCATGGAGTTGTGGACTT-ACAGGAA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAAGAA
* * * *
1282515 AAAGGGATGCCACAGAGGTGTGGGCTTAAAAGGGAA
1 AAA-GG-TGCCACGGAGTTGTGGACTTAAAA-AGAA
* * **
1282551 AAGGGTGCCACAGAGTCATGGACTTAAAAAG-A
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAAGAA
* *
1282583 AAAGGTTCCACGGAGTTGTGGATTTAAAAAGAA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAAGAA
* * *
1282616 CAAGGTGCCACGGAGTTATAGACTT-AAAAGAAA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAAG-AA
* * *
1282649 AAAGATGCCACGGGGTTATGGACTT-AAAAG--
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAAGAA
*
1282679 ---GGTGCCACGGAGTTATGGACTTAAAAA-AA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAAGAA
* * * *
1282708 AAAGAGTGTCACGGAGTTATGGGCTTAAAAGGAA
1 AAAG-GTGCCACGGAGTTGTGGACTTAAAAAGAA
* *
1282742 AAAGAGTGCCA--GAGTTGTGGGCTTTAAAAGGAA
1 AAAG-GTGCCACGGAGTTGTGGAC-TTAAAAAGAA
* * *
1282775 CAAGGTGCCACGGAGTTGTGGACTT-ACAGGAA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAAGAA
* * *
1282807 AAAGGGATGCCATGGAGGTGTGGGCTTAAAAAGGAA
1 AAA-GG-TGCCACGGAGTTGTGGACTTAAAAA-GAA
* *
1282843 TAAA-GTGCCACGGAGTTGTGGACTT-ACAGGAA
1 -AAAGGTGCCACGGAGTTGTGGACTTAAAAAGAA
* * * *
1282875 AATGGGATGCCATGGAGGTGTGGGCTTAAAAAGGAA
1 AA-AGG-TGCCACGGAGTTGTGGACTTAAAAA-GAA
* *
1282911 CAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAAGAA
*
1282944 AATAGAGTGCCACGGAGTTATGGACTT-AAAAG--
1 AA-AG-GTGCCACGGAGTTGTGGACTTAAAAAGAA
* *
1282976 ---GGTGCCACGGAGTTATGGACTTAAAAGGAAA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAAG-AA
**
1283007 AAAAATGCCACGGAGTTGTGCG-CTTTAAAAAGAAA
1 AAAGGTGCCACGGAGTTGTG-GAC-TTAAAAAG-AA
* * *
1283042 AAAGATGCCACAGAGTTGTGGACTTTGAAAAGAA
1 AAAGGTGCCACGGAGTTGTGGAC-TTAAAAAGAA
* * ** *
1283076 AAAGGTGCCACAGAGTCGTGGACTT---TGGGA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAAGAA
* * * * ** *
1283106 AGAGATGCCACTGAGTCGTGGACTT-TGAGGAA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAAGAA
* *
1283138 AAAGAGTGCCACAGAGTTGTGGACTTAAAAGGAA
1 AAAG-GTGCCACGGAGTTGTGGACTTAAAAAGAA
* * *
1283172 AAAGAGTGCCATGGAGTTGTGGGCTTAAAAGGAA
1 AAAG-GTGCCACGGAGTTGTGGACTTAAAAAGAA
* *
1283206 AAAGATGCCACGGAGTTGTGAACTT
1 AAAGGTGCCACGGAGTTGTGGACTT
1283231 TAAAGGGTGC
Statistics
Matches: 579, Mismatches: 94, Indels: 85
0.76 0.12 0.11
Matches are distributed among these distances:
27 41 0.07
28 9 0.02
30 24 0.04
31 2 0.00
32 68 0.12
33 135 0.23
34 215 0.37
35 69 0.12
36 13 0.02
37 3 0.01
ACGTcount: A:0.36, C:0.13, G:0.32, T:0.20
Consensus pattern (33 bp):
AAAGGTGCCACGGAGTTGTGGACTTAAAAAGAA
Found at i:1282692 original size:60 final size:60
Alignment explanation
Indices: 1282549--1282739 Score: 206
Period size: 60 Copynumber: 3.1 Consensus size: 60
1282539 CTTAAAAGGG
* * * * * * *
1282549 AAAAGGGTGCCACAGAGTCATGGACTTAAAAAGAAAAG-GTTCCACGGAGTTGTGGATTT
1 AAAAGGGTGCCACGGAGTTATAGACTTAAAAAAAAAAGAGTGCCACGGAGTTATGGACTT
*
1282608 AAAAAGAACAAGGTGCCACGGAGTTATAGACTTAAAAGAAAAAAGA-TGCCACGGGGTTATGGAC
1 -AAAAG-----GGTGCCACGGAGTTATAGACTTAAAA-AAAAAAGAGTGCCACGGAGTTATGGAC
1282672 TT
59 TT
* * *
1282674 AAAAGGGTGCCACGGAGTTATGGACTTAAAAAAAAAAGAGTGTCACGGAGTTATGGGCTT
1 AAAAGGGTGCCACGGAGTTATAGACTTAAAAAAAAAAGAGTGCCACGGAGTTATGGACTT
1282734 AAAAGG
1 AAAAGG
1282740 AAAAAGAGTG
Statistics
Matches: 111, Mismatches: 12, Indels: 16
0.80 0.09 0.12
Matches are distributed among these distances:
59 8 0.07
60 53 0.48
65 28 0.25
66 22 0.20
ACGTcount: A:0.39, C:0.13, G:0.28, T:0.20
Consensus pattern (60 bp):
AAAAGGGTGCCACGGAGTTATAGACTTAAAAAAAAAAGAGTGCCACGGAGTTATGGACTT
Found at i:1282982 original size:27 final size:27
Alignment explanation
Indices: 1282950--1283003 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
1282940 GGAAAATAGA
1282950 GTGCCACGGAGTTATGGACTTAAAAGG
1 GTGCCACGGAGTTATGGACTTAAAAGG
1282977 GTGCCACGGAGTTATGGACTTAAAAGG
1 GTGCCACGGAGTTATGGACTTAAAAGG
1283004 AAAAAAAATG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.30, C:0.15, G:0.33, T:0.22
Consensus pattern (27 bp):
GTGCCACGGAGTTATGGACTTAAAAGG
Found at i:1283163 original size:63 final size:63
Alignment explanation
Indices: 1283044--1283163 Score: 179
Period size: 64 Copynumber: 1.9 Consensus size: 63
1283034 AAAAGAAAAA
*
1283044 AGATGCCACAGAGTTGTGGACTTTGAAAAGAAAAAGGTGCCACAGAGTCGTGGACTTTGGGAAG
1 AGATGCCACAGAGTCGTGGACTTTG-AAAGAAAAAGGTGCCACAGAGTCGTGGACTTTGGGAAG
* * *
1283108 AGATGCCACTGAGTCGTGGACTTTG-AGGAAAAAGAGTGCCACAGAGTTGTGGACTT
1 AGATGCCACAGAGTCGTGGACTTTGAAAGAAAAAG-GTGCCACAGAGTCGTGGACTT
1283164 AAAAGGAAAA
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
62 8 0.16
63 20 0.39
64 23 0.45
ACGTcount: A:0.31, C:0.15, G:0.33, T:0.22
Consensus pattern (63 bp):
AGATGCCACAGAGTCGTGGACTTTGAAAGAAAAAGGTGCCACAGAGTCGTGGACTTTGGGAAG
Found at i:1283275 original size:157 final size:161
Alignment explanation
Indices: 1282971--1283290 Score: 405
Period size: 166 Copynumber: 2.0 Consensus size: 161
1282961 TTATGGACTT
* *
1282971 AAAAGGGTGCCACGGAGTTATGGACTTAAAAGGAAAAAAAATGCCACGGAGTTGTGCGCTTTAAA
1 AAAAGAGTGCCACAGAGTTATGGACTTAAAAGGAAAAAAAATGCCACGGAGTTGTGCGCTTTAAA
*
1283036 AAGAAAAAAGATGCCACAGAGTTGTGGACTTTGAAAAGAAAAAGGTGCCACAGAGTCGTGGACTT
66 AAGAAAAAAGATGCCACAGAGTTGTGAACTTT-AAAAG----AGGTGCCACAGAGTCGTGGACTT
* * *
1283101 TGGGAAGAGATGCCACTGAGTCGTGGACTTTGAGGA
126 TGGAAAAAGATGCCACTGACTCGTGGACTTTGAGGA
* * * * *
1283137 AAAAGAGTGCCACAGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCATGGAGTTGTGGGC-TT-AA
1 AAAAGAGTGCCACAGAGTTATGGACTTAAAAGGAAAAAAAATGCCACGGAGTTGTGCGCTTTAAA
* * * *
1283200 AAGGAAAAAGATGCCACGGAGTTGTGAACTTT-AAAG-GGTGCCACAGAGTTGTGGACTTTTGAA
66 AAGAAAAAAGATGCCACAGAGTTGTGAACTTTAAAAGAGGTGCCACAGAGTCGTGGACTTTGGAA
* * *
1283263 AAAGATGTCACTGACTTGTGGGCTTTGA
131 AAAGATGCCACTGACTCGTGGACTTTGA
1283291 AAGGTGAGGA
Statistics
Matches: 136, Mismatches: 18, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
157 47 0.35
162 4 0.03
164 31 0.23
165 2 0.01
166 52 0.38
ACGTcount: A:0.35, C:0.13, G:0.30, T:0.22
Consensus pattern (161 bp):
AAAAGAGTGCCACAGAGTTATGGACTTAAAAGGAAAAAAAATGCCACGGAGTTGTGCGCTTTAAA
AAGAAAAAAGATGCCACAGAGTTGTGAACTTTAAAAGAGGTGCCACAGAGTCGTGGACTTTGGAA
AAAGATGCCACTGACTCGTGGACTTTGAGGA
Found at i:1284746 original size:21 final size:19
Alignment explanation
Indices: 1284721--1284780 Score: 72
Period size: 17 Copynumber: 3.2 Consensus size: 19
1284711 ATCTGGACCC
*
1284721 TTTTTGTTGTTGTTGTTGTT
1 TTTTTTTTGTTGTT-TTGTT
1284741 TTTTTTTTGTTTGTTTTG-T
1 TTTTTTTTG-TTGTTTTGTT
1284760 TTTTTTTT-TTGTTTT-TT
1 TTTTTTTTGTTGTTTTGTT
1284777 TTTT
1 TTTT
1284781 GCGGATGATG
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
17 12 0.32
19 9 0.24
20 11 0.30
21 5 0.14
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (19 bp):
TTTTTTTTGTTGTTTTGTT
Found at i:1284748 original size:23 final size:22
Alignment explanation
Indices: 1284721--1284778 Score: 75
Period size: 21 Copynumber: 2.6 Consensus size: 22
1284711 ATCTGGACCC
1284721 TTTTTG-TTGTTGTTGTTGTTTTT
1 TTTTTGTTTGTT-TTGTT-TTTTT
1284744 TTTTTGTTTGTTTTG-TTTTTT
1 TTTTTGTTTGTTTTGTTTTTTT
*
1284765 TTTTTGTTTTTTTT
1 TTTTTGTTTGTTTT
1284779 TTGCGGATGA
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
21 18 0.55
22 1 0.03
23 9 0.27
24 5 0.15
ACGTcount: A:0.00, C:0.00, G:0.16, T:0.84
Consensus pattern (22 bp):
TTTTTGTTTGTTTTGTTTTTTT
Found at i:1284775 original size:9 final size:9
Alignment explanation
Indices: 1284721--1284778 Score: 57
Period size: 9 Copynumber: 6.6 Consensus size: 9
1284711 ATCTGGACCC
*
1284721 TTTTTGTTG
1 TTTTTGTTT
*
1284730 TTGTTGTTGT
1 TTTTTGTT-T
1284740 TTTTT-TTT
1 TTTTTGTTT
*
1284748 TGTTTGTTT
1 TTTTTGTTT
*
1284757 TGTTT-TTT
1 TTTTTGTTT
1284765 TTTTTGTTT
1 TTTTTGTTT
1284774 TTTTT
1 TTTTT
1284779 TTGCGGATGA
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
8 12 0.29
9 25 0.61
10 4 0.10
ACGTcount: A:0.00, C:0.00, G:0.16, T:0.84
Consensus pattern (9 bp):
TTTTTGTTT
Found at i:1299798 original size:35 final size:35
Alignment explanation
Indices: 1299752--1299852 Score: 186
Period size: 35 Copynumber: 2.9 Consensus size: 35
1299742 AAAGTGATTG
1299752 AGAGGTTCTATCTTAGCCTTTGTAAAAGATAGAGA
1 AGAGGTTCTATCTTAGCCTTTGTAAAAGATAGAGA
1299787 AGAGGTTCTATCTTAGCCTTTGTAAAAGATAGAGA
1 AGAGGTTCTATCTTAGCCTTTGTAAAAGATAGAGA
*
1299822 AGAGGTTCTATCTTAGCCTTCG-AAAAGATAG
1 AGAGGTTCTATCTTAGCCTTTGTAAAAGATAG
1299853 TGTTGTAAGG
Statistics
Matches: 65, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
34 9 0.14
35 56 0.86
ACGTcount: A:0.34, C:0.13, G:0.23, T:0.31
Consensus pattern (35 bp):
AGAGGTTCTATCTTAGCCTTTGTAAAAGATAGAGA
Found at i:1303782 original size:20 final size:22
Alignment explanation
Indices: 1303752--1303795 Score: 74
Period size: 20 Copynumber: 2.1 Consensus size: 22
1303742 TGATTTCCCG
1303752 TGTGAATGTATCGATACA-ATT
1 TGTGAATGTATCGATACATATT
1303773 TGTG-ATGTATCGATACATATT
1 TGTGAATGTATCGATACATATT
1303794 TG
1 TG
1303796 AAAAATATAG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 13 0.59
21 9 0.41
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.41
Consensus pattern (22 bp):
TGTGAATGTATCGATACATATT
Found at i:1303868 original size:13 final size:13
Alignment explanation
Indices: 1303850--1303875 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1303840 CAAGTTTTTG
1303850 TGTATCGATACAT
1 TGTATCGATACAT
1303863 TGTATCGATACAT
1 TGTATCGATACAT
1303876 ACTTGGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1303900 original size:19 final size:18
Alignment explanation
Indices: 1303830--1303900 Score: 53
Period size: 19 Copynumber: 4.0 Consensus size: 18
1303820 TACAAGCCAA
*
1303830 TGTATCGATACAAGTTTTTG
1 TGTATCGATACAA--TTTGG
1303850 TGTATCGATAC-A--T--
1 TGTATCGATACAATTTGG
*
1303863 TGTATCGATACATACTTGG
1 TGTATCGATACA-ATTTGG
1303882 TGTATCGATACAAGTTTGG
1 TGTATCGATACAA-TTTGG
1303901 CTACTGCCAA
Statistics
Matches: 43, Mismatches: 1, Indels: 15
0.73 0.02 0.25
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 1 0.02
18 1 0.02
19 17 0.40
20 11 0.26
ACGTcount: A:0.27, C:0.13, G:0.21, T:0.39
Consensus pattern (18 bp):
TGTATCGATACAATTTGG
Found at i:1306169 original size:33 final size:33
Alignment explanation
Indices: 1306132--1306198 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1306122 TTCAACGATT
1306132 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
1306165 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
1306198 T
1 T
1306199 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:1306170 original size:13 final size:13
Alignment explanation
Indices: 1306152--1306176 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1306142 CATAAAATGT
1306152 TGTATCGATACAA
1 TGTATCGATACAA
1306165 TGTATCGATACA
1 TGTATCGATACA
1306177 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1306257 original size:13 final size:13
Alignment explanation
Indices: 1306239--1306263 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1306229 ATTACTCAAA
1306239 TGTATCGATACAT
1 TGTATCGATACAT
1306252 TGTATCGATACA
1 TGTATCGATACA
1306264 CCGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1306328 original size:52 final size:52
Alignment explanation
Indices: 1306272--1306391 Score: 213
Period size: 52 Copynumber: 2.3 Consensus size: 52
1306262 CACCGATCTT
* *
1306272 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATCTGCCCAGATGTATCGATACACTATAAAA
*
1306324 TGTATCGATACATGCAGGCAAATCTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATCTGCCCAGATGTATCGATACACTATAAAA
1306376 TGTATCGATACATGCA
1 TGTATCGATACATGCA
1306392 AGTAACTTTT
Statistics
Matches: 65, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 65 1.00
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.28
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATCTGCCCAGATGTATCGATACACTATAAAA
Found at i:1309540 original size:21 final size:20
Alignment explanation
Indices: 1309511--1309553 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
1309501 GACTAGTGTC
* *
1309511 GGGACTGCCCGGTTGTGACCT
1 GGGACTG-CCGGTCGCGACCT
*
1309532 GGGAGTGCCGGTCGCGACCT
1 GGGACTGCCGGTCGCGACCT
1309552 GG
1 GG
1309554 TGGTGCTGCC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.09, C:0.28, G:0.44, T:0.19
Consensus pattern (20 bp):
GGGACTGCCGGTCGCGACCT
Found at i:1310013 original size:13 final size:13
Alignment explanation
Indices: 1309995--1310020 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1309985 ATAATCACCC
1309995 TGTATCGATACAA
1 TGTATCGATACAA
1310008 TGTATCGATACAA
1 TGTATCGATACAA
1310021 AGAAAAATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1312116 original size:15 final size:15
Alignment explanation
Indices: 1312096--1312126 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1312086 ATTTCTTGTG
*
1312096 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
1312111 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
1312126 G
1 G
1312127 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:1316113 original size:20 final size:22
Alignment explanation
Indices: 1316083--1316126 Score: 74
Period size: 20 Copynumber: 2.1 Consensus size: 22
1316073 TGATTTCCCG
1316083 TGTGAATGTATCGATACA-ATT
1 TGTGAATGTATCGATACATATT
1316104 TGTG-ATGTATCGATACATATT
1 TGTGAATGTATCGATACATATT
1316125 TG
1 TG
1316127 AAAAATATAG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 13 0.59
21 9 0.41
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.41
Consensus pattern (22 bp):
TGTGAATGTATCGATACATATT
Found at i:1316189 original size:13 final size:13
Alignment explanation
Indices: 1316171--1316196 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1316161 CAAGTTTTTG
1316171 TGTATCGATACAT
1 TGTATCGATACAT
1316184 TGTATCGATACAT
1 TGTATCGATACAT
1316197 ACTTGGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1316221 original size:19 final size:18
Alignment explanation
Indices: 1316151--1316221 Score: 53
Period size: 19 Copynumber: 4.0 Consensus size: 18
1316141 TACAAGCCAA
*
1316151 TGTATCGATACAAGTTTTTG
1 TGTATCGATACAA--TTTGG
1316171 TGTATCGATAC-A--T--
1 TGTATCGATACAATTTGG
*
1316184 TGTATCGATACATACTTGG
1 TGTATCGATACA-ATTTGG
1316203 TGTATCGATACAAGTTTGG
1 TGTATCGATACAA-TTTGG
1316222 CTACTGCCAA
Statistics
Matches: 43, Mismatches: 1, Indels: 15
0.73 0.02 0.25
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 1 0.02
18 1 0.02
19 17 0.40
20 11 0.26
ACGTcount: A:0.27, C:0.13, G:0.21, T:0.39
Consensus pattern (18 bp):
TGTATCGATACAATTTGG
Found at i:1317126 original size:29 final size:29
Alignment explanation
Indices: 1317051--1317291 Score: 189
Period size: 29 Copynumber: 8.2 Consensus size: 29
1317041 AAATTTTTTA
* * *
1317051 AAAGTCCATAACTCAGTGGC-ACCTTTCTT
1 AAAGTCCACAACTTAGTGGCAACC-TTCTC
* * * *
1317080 AAAATTCACAACTCAGTGGAAACCTTCTC
1 AAAGTCCACAACTTAGTGGCAACCTTCTC
** *
1317109 AAAGTCCATTACTTAGTGGCAACCATCTC
1 AAAGTCCACAACTTAGTGGCAACCTTCTC
* * * *
1317138 AAAGCCCATAA-TTGAGTGGCATCCCTTTTC
1 AAAGTCCACAACTT-AGTGGCA-ACCTTCTC
* * * * *
1317168 AAAGTCCATAACTCAATCGCACCCTTTCTC
1 AAAGTCCACAACTTAGTGGCAACC-TTCTC
* *
1317198 AAAGTCCACAACTCAGTGGCACCCTTCTC
1 AAAGTCCACAACTTAGTGGCAACCTTCTC
* *
1317227 AAAGTTCACAACTTAGTGGCAACCTTCTT
1 AAAGTCCACAACTTAGTGGCAACCTTCTC
* *
1317256 AAAGTCCACAAGTTAGTGGCACCCTTTCTC
1 AAAGTCCACAACTTAGTGGCAACC-TTCTC
*
1317286 TAAGTC
1 AAAGTC
1317292 TACACGAGCT
Statistics
Matches: 172, Mismatches: 34, Indels: 11
0.79 0.16 0.05
Matches are distributed among these distances:
28 2 0.01
29 112 0.65
30 57 0.33
31 1 0.01
ACGTcount: A:0.30, C:0.29, G:0.13, T:0.27
Consensus pattern (29 bp):
AAAGTCCACAACTTAGTGGCAACCTTCTC
Found at i:1317274 original size:118 final size:116
Alignment explanation
Indices: 1317046--1317291 Score: 305
Period size: 118 Copynumber: 2.1 Consensus size: 116
1317036 AGAGAAAATT
* * * * *
1317046 TTTTAAAAGTCCATAACTCAGTGGCACCTTTCTTAAAATTCACAACTCAGTGGAAACCTTCTCAA
1 TTTTCAAAGTCCATAACTCAATCGCACCTTTCTCAAAATCCACAACTCAGTGGAAACCTTCTCAA
** *
1317111 AGTCCATTACTTAGTGGCAACCATCTCAAAGCCCATAATTGAGTGGCATCCC
66 AGTCCACAACTTAGTGGCAACCATCTCAAAGCCCACAATTGAGTGGCA-CCC
* * *
1317163 TTTTCAAAGTCCATAACTCAATCGCACCCTTTCTCAAAGTCCACAACTCAGTGGCACCCTTCTCA
1 TTTTCAAAGTCCATAACTCAATCGCA-CCTTTCTCAAAATCCACAACTCAGTGGAAACCTTCTCA
* * * *
1317228 AAGTTCACAACTTAGTGGCAACCTTCTTAAAGTCCACAAGTT-AGTGGCACCC
65 AAGTCCACAACTTAGTGGCAACCATCTCAAAGCCCACAA-TTGAGTGGCACCC
*
1317280 TTTCTCTAAGTC
1 TTT-TCAAAGTC
1317292 TACACGAGCT
Statistics
Matches: 110, Mismatches: 16, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
117 29 0.26
118 79 0.72
119 2 0.02
ACGTcount: A:0.30, C:0.29, G:0.13, T:0.28
Consensus pattern (116 bp):
TTTTCAAAGTCCATAACTCAATCGCACCTTTCTCAAAATCCACAACTCAGTGGAAACCTTCTCAA
AGTCCACAACTTAGTGGCAACCATCTCAAAGCCCACAATTGAGTGGCACCC
Found at i:1317498 original size:97 final size:93
Alignment explanation
Indices: 1317262--1317503 Score: 227
Period size: 93 Copynumber: 2.6 Consensus size: 93
1317252 TCTTAAAGTC
* * * * *
1317262 CACAAGTTAGTGG--CACCCTTTCTCTAAGTCTACACGAGCTGGTGGCATTCTTTCTCAAAGTCC
1 CACAAGTTAGTGGTAAACCC-TTCTCAAAGTCCACACGAGCTAGTGGCATCCTTTCTCAAAGTCC
* * *
1317325 GTACAAGCTGGCGGCACCTAAAAGGCCCA
65 GTACAAGCTGACGACACCTAAAAGGCCAA
* * ** * * *
1317354 CACAAGTTAGTGGTAAACCTTTCTCCAAGTCCACACGAGCTTCTGGCATCCTTTTTCGAAGTTCG
1 CACAAGTTAGTGGTAAACCCTTCTCAAAGTCCACACGAGCTAGTGGCATCCTTTCTCAAAGTCCG
* ** *
1317419 TACGAGCTGACGATTCCTAAAATGCCAA
66 TACAAGCTGACGACACCTAAAAGGCCAA
* * *
1317447 CACAAGTTGGTGGCACTCAAACCCTTCTCAAAGTCCACATGAGCTAGTGGCAACCTT
1 CACAAGTTAGTGG---T-AAACCCTTCTCAAAGTCCACACGAGCTAGTGGCATCCTT
1317504 CCCTCAAGTC
Statistics
Matches: 120, Mismatches: 24, Indels: 7
0.79 0.16 0.05
Matches are distributed among these distances:
92 13 0.11
93 70 0.58
94 3 0.03
96 1 0.01
97 33 0.28
ACGTcount: A:0.26, C:0.29, G:0.20, T:0.25
Consensus pattern (93 bp):
CACAAGTTAGTGGTAAACCCTTCTCAAAGTCCACACGAGCTAGTGGCATCCTTTCTCAAAGTCCG
TACAAGCTGACGACACCTAAAAGGCCAA
Found at i:1317902 original size:19 final size:20
Alignment explanation
Indices: 1317859--1317909 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
1317849 CACACCAAGA
*
1317859 TGTATCGATACATATTGCTT
1 TGTATCGATACATATTGCAT
*
1317879 TGTATCGATACATGTT-CAT
1 TGTATCGATACATATTGCAT
*
1317898 TGTATTGATACA
1 TGTATCGATACA
1317910 CATTAAAATA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 13 0.46
20 15 0.54
ACGTcount: A:0.27, C:0.14, G:0.16, T:0.43
Consensus pattern (20 bp):
TGTATCGATACATATTGCAT
Found at i:1318014 original size:20 final size:20
Alignment explanation
Indices: 1317971--1318019 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
1317961 ATTGATACAT
* * *
1317971 TGTATCGACACATGGAGGAT
1 TGTATCGATACATGGAGAAA
*
1317991 TGTATCGATACATGGTGAAA
1 TGTATCGATACATGGAGAAA
1318011 TGTATCGAT
1 TGTATCGAT
1318020 TGAGCCCAAC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.31, C:0.12, G:0.27, T:0.31
Consensus pattern (20 bp):
TGTATCGATACATGGAGAAA
Found at i:1318308 original size:34 final size:35
Alignment explanation
Indices: 1318269--1318340 Score: 92
Period size: 34 Copynumber: 2.1 Consensus size: 35
1318259 AATTTCTACA
* *
1318269 TTTCAAAGAGCTTTTGTACT-CTTTGTTCTTATTC
1 TTTCAAAGAGCATTTGTACTCCTTTGTGCTTATTC
** *
1318303 TTTCAAAGCTCATTTGTATTCCTTTGTGCTTATTC
1 TTTCAAAGAGCATTTGTACTCCTTTGTGCTTATTC
1318338 TTT
1 TTT
1318341 TCACAAACAC
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
34 16 0.50
35 16 0.50
ACGTcount: A:0.17, C:0.18, G:0.11, T:0.54
Consensus pattern (35 bp):
TTTCAAAGAGCATTTGTACTCCTTTGTGCTTATTC
Found at i:1328156 original size:49 final size:49
Alignment explanation
Indices: 1328042--1328264 Score: 198
Period size: 52 Copynumber: 4.4 Consensus size: 49
1328032 GATAAAAAGA
* * * * * *
1328042 ATGCCAATGTGCTAATTCAAGGCCAACGACATTGG-GTTAAGGAATGTTAAAG
1 ATGCCAATATGCTGATTCAAGGCCAACAACATCGGACTTAAAG-ATG---AAG
* * * *
1328094 ATGCCAATATGCTGATTCAAGGTCAACAATATCGGACGTAAATATGAAG
1 ATGCCAATATGCTGATTCAAGGCCAACAACATCGGACTTAAAGATGAAG
* * *
1328143 ATGCCAATGTGCTGATTCAAGGCCGACAACATTGGACTTAAAGATGGTTAAG
1 ATGCCAATATGCTGATTCAAGGCCAACAACATCGGACTTAAAGAT-G--AAG
* * * *
1328195 GTGCCAATGTGCTG-TTCAAGGCCAACGACATCGGTCTTAAAGATGAAG
1 ATGCCAATATGCTGATTCAAGGCCAACAACATCGGACTTAAAGATGAAG
* *
1328243 GTGCCAATATGCTGATTTAAGG
1 ATGCCAATATGCTGATTCAAGG
1328265 TCAGCGATAT
Statistics
Matches: 142, Mismatches: 24, Indels: 13
0.79 0.13 0.07
Matches are distributed among these distances:
48 16 0.11
49 47 0.33
50 2 0.01
51 26 0.18
52 48 0.34
53 3 0.02
ACGTcount: A:0.33, C:0.17, G:0.25, T:0.25
Consensus pattern (49 bp):
ATGCCAATATGCTGATTCAAGGCCAACAACATCGGACTTAAAGATGAAG
Found at i:1328166 original size:101 final size:99
Alignment explanation
Indices: 1328042--1328278 Score: 260
Period size: 100 Copynumber: 2.4 Consensus size: 99
1328032 GATAAAAAGA
* *
1328042 ATGCCAATGTGCTAATTCAAGGCCAACGACATTGGGTTAAGGAAT-GTTAAAGATGCCAATATGC
1 ATGCCAATGTGCTGATTCAAGGCCAACGACATTGGGTTAAAG-ATGGTT-AAGATGCCAATATGC
* * *
1328106 TGATTCAAGGTCAACAATATCGGACGTAAATATGAAG
64 TG-TTCAAGGCCAACAACATCGGACGTAAAGATGAAG
* * * * *
1328143 ATGCCAATGTGCTGATTCAAGGCCGACAACATTGGACTTAAAGATGGTTAAGGTGCCAATGTGCT
1 ATGCCAATGTGCTGATTCAAGGCCAACGACATTGG-GTTAAAGATGGTTAAGATGCCAATATGCT
* * *
1328208 GTTCAAGGCCAACGACATCGGTCTTAAAGATGAAG
65 GTTCAAGGCCAACAACATCGGACGTAAAGATGAAG
* * * * * *
1328243 GTGCCAATATGCTGATTTAAGGTCAGCGATATTGGG
1 ATGCCAATGTGCTGATTCAAGGCCAACGACATTGGG
1328279 CTTGTACCAA
Statistics
Matches: 112, Mismatches: 22, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
100 55 0.49
101 49 0.44
102 8 0.07
ACGTcount: A:0.32, C:0.17, G:0.25, T:0.25
Consensus pattern (99 bp):
ATGCCAATGTGCTGATTCAAGGCCAACGACATTGGGTTAAAGATGGTTAAGATGCCAATATGCTG
TTCAAGGCCAACAACATCGGACGTAAAGATGAAG
Found at i:1328309 original size:39 final size:39
Alignment explanation
Indices: 1328243--1328664 Score: 209
Period size: 39 Copynumber: 9.9 Consensus size: 39
1328233 AAAGATGAAG
* * *
1328243 GTGCCAATATGCTGATTTAAGGTCAGCGATATTGGGCTT
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGGCTT
* * *
1328282 GTACCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAATAT
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGGC-----T-T
*
1328327 GAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTT
1 ----GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGGCTT
* * *
1328370 GTGCCAATGTGCTGAGTCAAGGCCAGCGACATTGGTCTTAAAGACATG
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGG-------G-C-TT
** *
1328418 GTGCCAATATGCTGATTCAAGGATAGCGATATTGGGCTT
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGGCTT
* * *
1328457 GTGCCAATGTGCTGATTCAAGGCTAGCGACATTGGTCTT
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGGCTT
* * *
1328496 AAAGACAAGTTGCCAATATGCTGATTCAAGGCCAACAATATTGGGCTT
1 --------G-TGCCAATATGCTGATTCAAGGCCAGCGACATTGGGCTT
** * ** * *
1328544 ACGCCAATGTGCTGAGAC-A-GCCAGCGACTTTGGTCTT
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGGCTT
* *
1328581 AAAGATAAAGGTTCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
1 ---G-T----G--CCAATATGCTGATTCAAGGCCAGCGACATTGGGCTT
* * *
1328630 CTGCCAATGTGCTTATTCAAGGCCAGCGACATTGG
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGG
1328665 TCTTAAAGAT
Statistics
Matches: 291, Mismatches: 52, Indels: 80
0.69 0.12 0.19
Matches are distributed among these distances:
37 13 0.04
38 1 0.00
39 141 0.48
40 1 0.00
41 2 0.01
43 1 0.00
44 2 0.01
45 3 0.01
46 1 0.00
47 14 0.05
48 64 0.22
49 48 0.16
ACGTcount: A:0.27, C:0.20, G:0.26, T:0.27
Consensus pattern (39 bp):
GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGGCTT
Found at i:1328446 original size:48 final size:48
Alignment explanation
Indices: 1328370--1328707 Score: 176
Period size: 39 Copynumber: 7.6 Consensus size: 48
1328360 TATTGGGCTT
* * *
1328370 GTGCCAATGTGCTGAGTCAAGGCCAGCGACATTGGTCTTAAAGACATG
1 GTGCCAATATGCTGATTCAAGGCTAGCGACATTGGTCTTAAAGACATG
* * *
1328418 GTGCCAATATGCTGATTCAAGGATAGCGATATTGG-------G-C-TT
1 GTGCCAATATGCTGATTCAAGGCTAGCGACATTGGTCTTAAAGACATG
* *
1328457 GTGCCAATGTGCTGATTCAAGGCTAGCGACATTGGTCTTAAAGACAAG
1 GTGCCAATATGCTGATTCAAGGCTAGCGACATTGGTCTTAAAGACATG
* * * * * *
1328505 TTGCCAATATGCTGATTCAAGGCCAACAATATTGGGCTT----AC---
1 GTGCCAATATGCTGATTCAAGGCTAGCGACATTGGTCTTAAAGACATG
* ** * * * *
1328546 --GCCAATGTGCTGAGAC-A-GCCAGCGACTTTGGTCTTAAAGATAAAG
1 GTGCCAATATGCTGATTCAAGGCTAGCGACATTGGTCTTAAAGA-CATG
* * * *
1328591 GTTCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT-----C---
1 GTGCCAATATGCTGATTCAAGGCTAGCGACATTGGTCTTAAAGACATG
* * * * *
1328631 -TGCCAATGTGCTTATTCAAGGCCAGCGACATTGGTCTTAAAGATAAAG
1 GTGCCAATATGCTGATTCAAGGCTAGCGACATTGGTCTTAAAGA-CATG
*
1328679 GTGCCAATATGCTGATTCAAGGCCAGCGA
1 GTGCCAATATGCTGATTCAAGGCTAGCGA
1328708 TATTAGACTT
Statistics
Matches: 216, Mismatches: 43, Indels: 61
0.68 0.13 0.19
Matches are distributed among these distances:
37 13 0.06
38 1 0.00
39 79 0.37
40 1 0.00
41 2 0.01
44 2 0.01
46 1 0.00
47 13 0.06
48 63 0.29
49 41 0.19
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.26
Consensus pattern (48 bp):
GTGCCAATATGCTGATTCAAGGCTAGCGACATTGGTCTTAAAGACATG
Found at i:1328717 original size:88 final size:88
Alignment explanation
Indices: 1328195--1328711 Score: 756
Period size: 88 Copynumber: 5.9 Consensus size: 88
1328185 GATGGTTAAG
* * *
1328195 GTGCCAATGTGCTG-TTCAAGGCCAACGACATCGGTCTTAAAGATGAAGGTGCCAATATGCTGAT
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGAT
* *
1328259 TTAAGGTCAGCGATATTGGGCTT
66 TCAAGGCCAGCGATATTGGGCTT
* * *
1328282 GTACCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAATATGAAGGTGCCAATATGCTGAT
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGAT
1328347 TCAAGGCCAGCGATATTGGGCTT
66 TCAAGGCCAGCGATATTGGGCTT
* * *
1328370 GTGCCAATGTGCTGAGTCAAGGCCAGCGACATTGGTCTTAAAGA-CATGGTGCCAATATGCTGAT
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGAT
**
1328434 TCAAGGATAGCGATATTGGGCTT
66 TCAAGGCCAGCGATATTGGGCTT
* * *
1328457 GTGCCAATGTGCTGATTCAAGGCTAGCGACATTGGTCTTAAAGA-CAAGTTGCCAATATGCTGAT
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGAT
* *
1328521 TCAAGGCCAACAATATTGGGCTT
66 TCAAGGCCAGCGATATTGGGCTT
** ** * *
1328544 ACGCCAATGTGCTGAGAC-A-GCCAGCGACTTTGGTCTTAAAGATAAAGGTTCCAATATGCTGAT
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGAT
*
1328607 TCAAGGCCAGCGATATTGGACTT
66 TCAAGGCCAGCGATATTGGGCTT
* *
1328630 CTGCCAATGTGCTTATTCAAGGCCAGCGACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGAT
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGAT
1328695 TCAAGGCCAGCGATATT
66 TCAAGGCCAGCGATATT
1328712 AGACTTAGAA
Statistics
Matches: 386, Mismatches: 40, Indels: 7
0.89 0.09 0.02
Matches are distributed among these distances:
85 21 0.05
86 51 0.13
87 146 0.38
88 168 0.44
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.27
Consensus pattern (88 bp):
GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGAT
TCAAGGCCAGCGATATTGGGCTT
Found at i:1328824 original size:29 final size:28
Alignment explanation
Indices: 1328744--1328836 Score: 89
Period size: 28 Copynumber: 3.2 Consensus size: 28
1328734 AACTTATGTT
* *
1328744 TTTGAAAGGGTTG-CACGAACTTGTGTGC
1 TTTGAAAGGG-TGCCACCAACTTGTGAGC
* * * *
1328772 TTTTAAAGGTTGCCACTAACTTGTGGGC
1 TTTGAAAGGGTGCCACCAACTTGTGAGC
*
1328800 TTTGAAAGTGGTGCCACCGACTTGTGAGC
1 TTTGAAAG-GGTGCCACCAACTTGTGAGC
1328829 TTTTGAAA
1 -TTTGAAA
1328837 AGTGAGGAAA
Statistics
Matches: 53, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
27 2 0.04
28 28 0.53
29 16 0.30
30 7 0.13
ACGTcount: A:0.23, C:0.16, G:0.28, T:0.33
Consensus pattern (28 bp):
TTTGAAAGGGTGCCACCAACTTGTGAGC
Found at i:1329131 original size:219 final size:219
Alignment explanation
Indices: 1328748--1329174 Score: 683
Period size: 219 Copynumber: 1.9 Consensus size: 219
1328738 TATGTTTTTG
* * * * *
1328748 AAAGGGTTGCACGAACTTGTGTGCTTTTAAAGGTTGCCACTAACTTGTGGGCTTTGAAAGTGGTG
1 AAAGGGTTGCACCAACTTGTATGCTTTTAAACGTTGCCACTAACTTGTGAGCTTTGAAAGGGGTG
*
1328813 CCACCGACTTGTGAGCTTTTGAAAAGTGAGGAAAGCCTAATCCTTAACAGGCAGATCAAGGGTGA
66 CCACCGACTTGTGAGCTTTTGAAAAGTGAGGAAAGCCTAATCCTTAACAGGCAGATCAAGGGCGA
*
1328878 ACTCTCCCACACATGATGTGCCACAACCAACGAATTTGGAGCTAACGATGATGAAAATACCAACG
131 ACTCTCCCACACATGATGTGCCACAACCAACGAATTTGGAGCTAACGATGATGAAAATAACAACG
**
1328943 TGCTGCTTCGAAGTGGACTTTTAA
196 TGCTAATTCGAAGTGGACTTTTAA
* * * *
1328967 AAAGGGTTGCACCAACTTGTATGGTTTTGAACGTTGCTACTGACTTGTGAGCTTTGAAAGGGGTG
1 AAAGGGTTGCACCAACTTGTATGCTTTTAAACGTTGCCACTAACTTGTGAGCTTTGAAAGGGGTG
* * **
1329032 CCACCGACTTGTGGGCTTTTGAAAAGTGAGGAATGCCTAATCCTTAGTAGGCAGATCAAGGGCGA
66 CCACCGACTTGTGAGCTTTTGAAAAGTGAGGAAAGCCTAATCCTTAACAGGCAGATCAAGGGCGA
* *
1329097 ACTCTCCCATACATGATGTGCCACAACTAACGAATTTGGAGCTAACGATGATGAAAATAACAACG
131 ACTCTCCCACACATGATGTGCCACAACCAACGAATTTGGAGCTAACGATGATGAAAATAACAACG
1329162 TGCTAATTCGAAG
196 TGCTAATTCGAAG
1329175 CTAGCAACAT
Statistics
Matches: 189, Mismatches: 19, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
219 189 1.00
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.26
Consensus pattern (219 bp):
AAAGGGTTGCACCAACTTGTATGCTTTTAAACGTTGCCACTAACTTGTGAGCTTTGAAAGGGGTG
CCACCGACTTGTGAGCTTTTGAAAAGTGAGGAAAGCCTAATCCTTAACAGGCAGATCAAGGGCGA
ACTCTCCCACACATGATGTGCCACAACCAACGAATTTGGAGCTAACGATGATGAAAATAACAACG
TGCTAATTCGAAGTGGACTTTTAA
Found at i:1329903 original size:49 final size:49
Alignment explanation
Indices: 1329741--1330103 Score: 219
Period size: 49 Copynumber: 7.4 Consensus size: 49
1329731 TAAAGAATGT
* * * * ** *
1329741 CAATGTGCTGATTCATGGTCAGCGACATTAGACTTGAAGATGAGAAGAATGC
1 CAATATGCTGATTCAAGGCCAACGACATCGGACTTAAAGAT--GAAG-ATGC
* * *
1329793 CAATTTGCTGATTCAAGGCCAATGACATTCGG--TTAAGGAATGTTAAAGATGC
1 CAATATGCTGATTCAAGGCCAACGACA-TCGGACTTAAAG-ATG---AAGATGC
* * *
1329845 CAATATGCTGATTCGAGGCCAACGATATCGGACTTAAAAATGAAGATGC
1 CAATATGCTGATTCAAGGCCAACGACATCGGACTTAAAGATGAAGATGC
* * * ** * *
1329894 CAATGTGCTGATTGAAGACCGGCGACATTGGACTTAAAGATGGTTAAGGTGC
1 CAATATGCTGATTCAAGGCCAACGACATCGGACTTAAAGAT-G--AAGATGC
* * * *
1329946 CAATGTGCTGATTCAAGGCCAACGACATCGGTCTTAAAGTTGAAGGTGC
1 CAATATGCTGATTCAAGGCCAACGACATCGGACTTAAAGATGAAGATGC
* ** * * *
1329995 CAATATGCTGATTCAAGGCTAGTGATATTGGGCTT---G-T----A--C
1 CAATATGCTGATTCAAGGCCAACGACATCGGACTTAAAGATGAAGATGC
* * * * * *
1330034 CAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAATATGAAGGTGC
1 CAATATGCTGATTCAAGGCCAACGACATCGGACTTAAAGATGAAGATGC
1330083 CAATATGCTGATTCAAGGCCA
1 CAATATGCTGATTCAAGGCCA
1330104 GCGATATTGG
Statistics
Matches: 243, Mismatches: 48, Indels: 43
0.73 0.14 0.13
Matches are distributed among these distances:
39 31 0.13
43 1 0.00
45 1 0.00
46 1 0.00
49 95 0.39
50 2 0.01
51 9 0.04
52 94 0.39
53 9 0.04
ACGTcount: A:0.31, C:0.17, G:0.26, T:0.26
Consensus pattern (49 bp):
CAATATGCTGATTCAAGGCCAACGACATCGGACTTAAAGATGAAGATGC
Done.