Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007930.1 Hibiscus syriacus cultivar Beakdansim tig00110338_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 2280901
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 7 of 12
Found at i:1061638 original size:26 final size:26
Alignment explanation
Indices: 1061598--1061708 Score: 131
Period size: 26 Copynumber: 4.3 Consensus size: 26
1061588 ATTACTAATC
1061598 ATTATTAAATCATTA-T-T-ATCATT
1 ATTATTAAATCATTATTATAATCATT
*
1061621 ATTATTAAATCATTATTATAATTATT
1 ATTATTAAATCATTATTATAATCATT
* *
1061647 ATTACTAAATCATTATTATAATGATT
1 ATTATTAAATCATTATTATAATCATT
* *
1061673 ATTATCAAATCATTACTA-AATCATAT
1 ATTATTAAATCATTATTATAATCAT-T
1061699 AATTATTAAA
1 -ATTATTAAA
1061709 AAAATCTTAT
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
23 15 0.20
24 1 0.01
25 6 0.08
26 45 0.60
27 8 0.11
ACGTcount: A:0.44, C:0.08, G:0.01, T:0.47
Consensus pattern (26 bp):
ATTATTAAATCATTATTATAATCATT
Found at i:1061687 original size:23 final size:23
Alignment explanation
Indices: 1061570--1061696 Score: 98
Period size: 23 Copynumber: 5.3 Consensus size: 23
1061560 ATTAATAATA
*
1061570 AATCATTATTATCCAATCATTACT
1 AATCATTATTATCAAATCATTA-T
1061594 AATCATTA-T-T-AAATCATTAT
1 AATCATTATTATCAAATCATTAT
* *
1061614 TATCATTATTATTAAATCATTAT
1 AATCATTATTATCAAATCATTAT
* *
1061637 TATAATTATTATTACTAAATCATTATTAT
1 AATCATTATTA-T-C-AAATC---ATTAT
*
1061666 AATGATTATTATCAAATCATTACT
1 AATCATTATTATCAAATCATTA-T
1061690 AAATCAT
1 -AATCAT
1061697 ATAATTATTA
Statistics
Matches: 85, Mismatches: 7, Indels: 21
0.75 0.06 0.19
Matches are distributed among these distances:
20 8 0.09
21 9 0.11
22 2 0.02
23 25 0.29
24 10 0.12
25 5 0.06
26 10 0.12
27 1 0.01
28 1 0.01
29 14 0.16
ACGTcount: A:0.42, C:0.12, G:0.01, T:0.46
Consensus pattern (23 bp):
AATCATTATTATCAAATCATTAT
Found at i:1062043 original size:23 final size:23
Alignment explanation
Indices: 1061963--1062145 Score: 131
Period size: 23 Copynumber: 7.8 Consensus size: 23
1061953 TTACTTAATC
* * *
1061963 ATTAATATAAAATCATTA-AATA
1 ATTATTATCAAATCATTATTATA
* * *
1061985 ATAATAAT-AAATTATTATTATTA
1 ATTATTATCAAATCATTATTA-TA
* *
1062008 ATAATTA-CTAAATCATTATTATC
1 ATTATTATC-AAATCATTATTATA
1062031 ATTATTATCAAATCATTATTATA
1 ATTATTATCAAATCATTATTATA
*
1062054 ATGATTATTACTAAATCATTATTATAA
1 ATTATTA-T-C-AAATCATTATTAT-A
* *
1062081 TGATTATTATCAAATAATTACTA-A
1 --ATTATTATCAAATCATTATTATA
* * * *
1062105 ATCATTGTTAAATCATTATTATC
1 ATTATTATCAAATCATTATTATA
1062128 ATTATTATCAAATCATTA
1 ATTATTATCAAATCATTA
1062146 CTAAATCATC
Statistics
Matches: 126, Mismatches: 23, Indels: 23
0.73 0.13 0.13
Matches are distributed among these distances:
21 8 0.06
22 22 0.17
23 49 0.39
24 14 0.11
25 1 0.01
26 23 0.18
27 2 0.02
28 1 0.01
29 6 0.05
ACGTcount: A:0.46, C:0.08, G:0.02, T:0.44
Consensus pattern (23 bp):
ATTATTATCAAATCATTATTATA
Found at i:1062045 original size:14 final size:14
Alignment explanation
Indices: 1062028--1062100 Score: 75
Period size: 14 Copynumber: 5.5 Consensus size: 14
1062018 AATCATTATT
1062028 ATCATTATTATCAA
1 ATCATTATTATCAA
1062042 ATCATTATTAT--A
1 ATCATTATTATCAA
*
1062054 ATGATTATTA-CTAA
1 ATCATTATTATC-AA
1062068 ATCATTATTAT--A
1 ATCATTATTATCAA
*
1062080 ATGATTATTATCAA
1 ATCATTATTATCAA
*
1062094 ATAATTA
1 ATCATTA
1062101 CTAAATCATT
Statistics
Matches: 49, Mismatches: 4, Indels: 12
0.75 0.06 0.18
Matches are distributed among these distances:
12 21 0.43
14 28 0.57
ACGTcount: A:0.44, C:0.08, G:0.03, T:0.45
Consensus pattern (14 bp):
ATCATTATTATCAA
Found at i:1062060 original size:26 final size:26
Alignment explanation
Indices: 1062022--1062154 Score: 131
Period size: 26 Copynumber: 5.4 Consensus size: 26
1062012 TTACTAAATC
*
1062022 ATTATTATCATTATTATCAAATCATT
1 ATTATAATCATTATTATCAAATCATT
*
1062048 ATTATAATGATTATTA-CTAAATCATT
1 ATTATAATCATTATTATC-AAATCATT
* *
1062074 ATTATAATGATTATTATCAAATAATT
1 ATTATAATCATTATTATCAAATCATT
* *
1062100 ACTA-AATCATT-GT-T-AAATCATT
1 ATTATAATCATTATTATCAAATCATT
1062122 A-T-T-ATCATTATTATCAAATCATT
1 ATTATAATCATTATTATCAAATCATT
*
1062145 ACTA-AATCAT
1 ATTATAATCAT
1062155 CAAATCATTA
Statistics
Matches: 90, Mismatches: 8, Indels: 19
0.77 0.07 0.16
Matches are distributed among these distances:
20 6 0.07
21 2 0.02
22 9 0.10
23 10 0.11
24 2 0.02
25 12 0.13
26 48 0.53
27 1 0.01
ACGTcount: A:0.42, C:0.11, G:0.02, T:0.45
Consensus pattern (26 bp):
ATTATAATCATTATTATCAAATCATT
Found at i:1062399 original size:60 final size:60
Alignment explanation
Indices: 1062311--1062427 Score: 207
Period size: 60 Copynumber: 1.9 Consensus size: 60
1062301 TTACATAAAT
* *
1062311 TCAAATCATTAAATATTAATAATAATTTCATTATTACTGATCATTACTAAATAATTACTA
1 TCAAAACATTAAATATTAATAATAATTTCATTATTACTAATCATTACTAAATAATTACTA
*
1062371 TCAAAACATTAAATATTAATAATGATTTCATTATTACTAATCATTACTAAATAATTA
1 TCAAAACATTAAATATTAATAATAATTTCATTATTACTAATCATTACTAAATAATTA
1062428 TTATAATTTT
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
60 54 1.00
ACGTcount: A:0.46, C:0.11, G:0.02, T:0.41
Consensus pattern (60 bp):
TCAAAACATTAAATATTAATAATAATTTCATTATTACTAATCATTACTAAATAATTACTA
Found at i:1062427 original size:21 final size:21
Alignment explanation
Indices: 1062343--1062427 Score: 54
Period size: 21 Copynumber: 4.2 Consensus size: 21
1062333 TAATTTCATT
*
1062343 ATTACTGATCATTACTAAATA
1 ATTACTAATCATTACTAAATA
**
1062364 ATTACT-ATCAAAACATTAAAT-
1 ATTACTAATCATTAC--TAAATA
* * * *
1062385 ATTAATAATGATT--T-CATT
1 ATTACTAATCATTACTAAATA
1062403 ATTACTAATCATTACTAAATA
1 ATTACTAATCATTACTAAATA
1062424 ATTA
1 ATTA
1062428 TTATAATTTT
Statistics
Matches: 46, Mismatches: 11, Indels: 14
0.65 0.15 0.20
Matches are distributed among these distances:
17 2 0.04
18 12 0.26
20 7 0.15
21 17 0.37
22 8 0.17
ACGTcount: A:0.46, C:0.12, G:0.02, T:0.40
Consensus pattern (21 bp):
ATTACTAATCATTACTAAATA
Found at i:1062497 original size:21 final size:21
Alignment explanation
Indices: 1062472--1062520 Score: 98
Period size: 21 Copynumber: 2.3 Consensus size: 21
1062462 TGATTATCAA
1062472 ATCATTACTAAATCAAATTAT
1 ATCATTACTAAATCAAATTAT
1062493 ATCATTACTAAATCAAATTAT
1 ATCATTACTAAATCAAATTAT
1062514 ATCATTA
1 ATCATTA
1062521 TTATAAACCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.47, C:0.14, G:0.00, T:0.39
Consensus pattern (21 bp):
ATCATTACTAAATCAAATTAT
Found at i:1065521 original size:26 final size:25
Alignment explanation
Indices: 1065464--1065522 Score: 64
Period size: 26 Copynumber: 2.3 Consensus size: 25
1065454 CTAATATTAC
*
1065464 TAATAATGATTTAATAATTATTATT
1 TAATAATGATTTAATAATTATAATT
* * *
1065489 AATATAATGATTTGATATTTAATAATT
1 TA-ATAATGATTTAATAATT-ATAATT
1065516 TAATAAT
1 TAATAAT
1065523 AATATGATTT
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
25 1 0.04
26 20 0.74
27 6 0.22
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (25 bp):
TAATAATGATTTAATAATTATAATT
Found at i:1065670 original size:21 final size:20
Alignment explanation
Indices: 1065649--1065706 Score: 71
Period size: 21 Copynumber: 2.9 Consensus size: 20
1065639 TTATTTTTTA
1065649 AAATATCAAACAAATTTGTT
1 AAATATCAAACAAATTTGTT
* *
1065669 AATTAATCAATCAAATTTGTT
1 AAAT-ATCAAACAAATTTGTT
* *
1065690 AAATATAAAATAAATTT
1 AAATATCAAACAAATTT
1065707 AAATATCAAA
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
20 13 0.42
21 18 0.58
ACGTcount: A:0.52, C:0.07, G:0.03, T:0.38
Consensus pattern (20 bp):
AAATATCAAACAAATTTGTT
Found at i:1065813 original size:19 final size:21
Alignment explanation
Indices: 1065775--1065826 Score: 69
Period size: 17 Copynumber: 2.7 Consensus size: 21
1065765 AAATTAAGCA
1065775 AAATATTTTTTAAACAACAAT
1 AAATATTTTTTAAACAACAAT
1065796 AAATA-TTTTTAAAC-ACAAT
1 AAATATTTTTTAAACAACAAT
1065815 --AT-TTTTTTAAAC
1 AAATATTTTTTAAAC
1065827 GGGAATAACA
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
17 11 0.37
19 5 0.17
20 9 0.30
21 5 0.17
ACGTcount: A:0.48, C:0.10, G:0.00, T:0.42
Consensus pattern (21 bp):
AAATATTTTTTAAACAACAAT
Found at i:1066381 original size:28 final size:28
Alignment explanation
Indices: 1066284--1066374 Score: 155
Period size: 28 Copynumber: 3.2 Consensus size: 28
1066274 ATTTTGTATA
1066284 TAATATAATATATAACTTAAACTAACAAAC
1 TAATAT-A-ATATAACTTAAACTAACAAAC
1066314 TAATATAATATAACTTAAACTAACAAAC
1 TAATATAATATAACTTAAACTAACAAAC
*
1066342 TAATATAATATAACTTAAACTAACATAC
1 TAATATAATATAACTTAAACTAACAAAC
1066370 TAATA
1 TAATA
1066375 ATTTATACTA
Statistics
Matches: 60, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
28 53 0.88
29 1 0.02
30 6 0.10
ACGTcount: A:0.56, C:0.13, G:0.00, T:0.31
Consensus pattern (28 bp):
TAATATAATATAACTTAAACTAACAAAC
Found at i:1066384 original size:21 final size:21
Alignment explanation
Indices: 1066351--1066394 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
1066341 CTAATATAAT
1066351 ATAACTTAAACTAAC-ATACTA
1 ATAACTTAAACTAACGA-ACTA
* *
1066372 ATAATTTATACTAACGAACTA
1 ATAACTTAAACTAACGAACTA
1066393 AT
1 AT
1066395 TAAACCCTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 19 0.95
22 1 0.05
ACGTcount: A:0.50, C:0.16, G:0.02, T:0.32
Consensus pattern (21 bp):
ATAACTTAAACTAACGAACTA
Found at i:1066906 original size:29 final size:29
Alignment explanation
Indices: 1066864--1066922 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 29
1066854 AACCAAAATG
*
1066864 CATGTCGCTCAGATGCCTTGGCGACCTAC
1 CATGTCGCTCAGATGCCCTGGCGACCTAC
* *
1066893 CATGTCGTTTAGATGCCCTGGCGACCTAC
1 CATGTCGCTCAGATGCCCTGGCGACCTAC
1066922 C
1 C
1066923 CATTGGACGT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.17, C:0.34, G:0.24, T:0.25
Consensus pattern (29 bp):
CATGTCGCTCAGATGCCCTGGCGACCTAC
Found at i:1069827 original size:228 final size:229
Alignment explanation
Indices: 1069422--1069913 Score: 871
Period size: 229 Copynumber: 2.1 Consensus size: 229
1069412 GTTATATTGT
* * *
1069422 AAAATATCTATCATTTTTATAAAAGTGTCTATACTTATTTCACTGTGAAAATATATTTATTATTA
1 AAAATATATATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAACATATTTATTATTA
*
1069487 TCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAA
66 TATTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAA
1069552 TAATTTTGTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGG-AAACATGAAACACTATTAA
131 TAATTTTGTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAA
1069616 AAAAAATTGAAACATAAATTACATAACTTTAAAA
196 AAAAAATTGAAACATAAATTACATAACTTTAAAA
*
1069650 AAAGTATATATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGGAAAACATATTTATTATT
1 AAAATATATATCATTTTTATAAAAGTGTCCATACTTATTTCACTGT-GAAAACATATTTATTATT
* *
1069715 ATATTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAATTATC-AAATAATCAA
65 ATATTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAA
* *
1069779 ATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAATATGAAACACTATTA
130 ATAATTTTGTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTA
1069844 AAAAAAATTGAAACATAAATTACATAACTTTAAAAA
195 AAAAAAATTGAAACATAAATTACATAACTTT-AAAA
1069880 AAAATATATATCATTTTTATAAAAGTGTCCATAC
1 AAAATATATATCATTTTTATAAAAGTGTCCATAC
1069914 GTATAAAAGT
Statistics
Matches: 251, Mismatches: 10, Indels: 4
0.95 0.04 0.02
Matches are distributed among these distances:
228 97 0.39
229 117 0.47
230 37 0.15
ACGTcount: A:0.45, C:0.07, G:0.08, T:0.40
Consensus pattern (229 bp):
AAAATATATATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAACATATTTATTATTA
TATTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAA
TAATTTTGTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAA
AAAAAATTGAAACATAAATTACATAACTTTAAAA
Found at i:1070360 original size:181 final size:182
Alignment explanation
Indices: 1069983--1070456 Score: 675
Period size: 181 Copynumber: 2.6 Consensus size: 182
1069973 CGATCCAAAT
* * * *
1069983 AAAAAATGTGTCGATCCAAAACGATATAACAGGTAAAACTATGACAAAACCGGTATA-GAAATGA
1 AAAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGT-TACAAAATGA
* * * * *
1070047 TAAAACCGGTAAAGCGCTACCGGATACATTTAAAGTGTCGGTACTTTAATATAAGGATCGACACT
65 TAAAACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGACACT
* *
1070112 TCGTGAATTTAAAAAAGAAGCAGTTTTAAATCCTATAAAGTGTCGATACTTTT
130 TCGTGAATTTAAAAAAGAAGCAGTTTTAAAGCCTATAAAGTGTCGATACTTTA
*
1070165 AAAAAATGTATCGATCCAAAACGATATACCAGGTAAAAATATGATAAAACCGGTTACAAAATGAT
1 AAAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTTACAAAATGAT
* * *
1070230 AAAACCTGTAAAACGTTACCGGATATATTGAAAGTGTCGATACTTT-ATTTAAGGATCGACACTT
66 AAAACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGACACTT
* * ** *
1070294 TGTGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAATGTGTCGATACTTTA
131 CGTGAATTTAAAAAAGAAGCAGTTTTAAAGCCTATAAAGTGTCGATACTTTA
* * *
1070346 AAAAAATATATCGATCCACAACGATATAACAGGTAAAAATATGATAAAACCAG-TATCAAAATGA
1 AAAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTTA-CAAAATGA
* * *
1070410 TTAAACCGGTAAAATGATACCGGATATATTGAAAGTGTTGATACTTT
65 TAAAACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTT
1070457 CGTAAGTACG
Statistics
Matches: 262, Mismatches: 28, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
180 2 0.01
181 163 0.62
182 97 0.37
ACGTcount: A:0.42, C:0.14, G:0.17, T:0.27
Consensus pattern (182 bp):
AAAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTTACAAAATGAT
AAAACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGACACTT
CGTGAATTTAAAAAAGAAGCAGTTTTAAAGCCTATAAAGTGTCGATACTTTA
Found at i:1071666 original size:58 final size:58
Alignment explanation
Indices: 1071576--1071692 Score: 225
Period size: 58 Copynumber: 2.0 Consensus size: 58
1071566 TTGTTAAAAA
*
1071576 ATGTAGCATTAAAAGGGTGAATTTATTAATTAAACACCTTAAGGAGAAGGGTCAGTTG
1 ATGTAGCATTAAAAGAGTGAATTTATTAATTAAACACCTTAAGGAGAAGGGTCAGTTG
1071634 ATGTAGCATTAAAAGAGTGAATTTATTAATTAAACACCTTAAGGAGAAGGGTCAGTTG
1 ATGTAGCATTAAAAGAGTGAATTTATTAATTAAACACCTTAAGGAGAAGGGTCAGTTG
1071692 A
1 A
1071693 ATGTGCTGGG
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
58 58 1.00
ACGTcount: A:0.39, C:0.09, G:0.23, T:0.29
Consensus pattern (58 bp):
ATGTAGCATTAAAAGAGTGAATTTATTAATTAAACACCTTAAGGAGAAGGGTCAGTTG
Found at i:1072707 original size:21 final size:21
Alignment explanation
Indices: 1072683--1072726 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
1072673 AAGACAATCA
1072683 AGAGTCGAAGAGAAACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
* *
1072704 AGAGTCGAAGATACACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
1072725 AG
1 AG
1072727 GCATAAGGGG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.41, C:0.11, G:0.32, T:0.16
Consensus pattern (21 bp):
AGAGTCGAAGAGAAACTTGAG
Found at i:1072802 original size:33 final size:33
Alignment explanation
Indices: 1072760--1072825 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
1072750 AAATAGATGG
*
1072760 AGTGGTGAAAGAAGTAGAGGTGTTGAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
* *
1072793 AGTGGTGAAAGAAGTTGGGGTGTTAAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
1072826 TATTAAGATG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.29, C:0.00, G:0.48, T:0.23
Consensus pattern (33 bp):
AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
Found at i:1074644 original size:19 final size:19
Alignment explanation
Indices: 1074620--1074668 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
1074610 AATGTAGGGT
1074620 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
1074639 TAATTTTGTATACGATTTA
1 TAATTTTGTATAAGATTTA
*
1074658 TATTTTTGTAT
1 TAATTTTGTAT
1074669 GTGAATATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.31, C:0.02, G:0.10, T:0.57
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:1075483 original size:198 final size:198
Alignment explanation
Indices: 1074787--1075954 Score: 2201
Period size: 198 Copynumber: 5.9 Consensus size: 198
1074777 CAATATGGCC
*
1074787 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCG-AAC
1074852 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
65 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
*
1074917 GAATATGTCTAAATAATGTGTCGACACTATTTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAA
130 GAATATGTCTAAATAATGTGTCGACACT-TTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAA
1074982 TGGAA
194 TGGAA
*
1074987 AATAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAACC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAACC
1075052 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAG
*
1075117 AATATGTCTAAATAATGTGTCGACACTATTTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACT-TTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAAT
1075182 GGAA
195 GGAA
*
1075186 AACATGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAACC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAACC
1075251 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAG
1075316 AATATGTCTAAATAATGTGTCGACACTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAATG
131 AATATGTCTAAATAATGTGTCGACACTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAATG
1075381 GAA
196 GAA
*
1075384 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCAATCCCAAAAACATCGAACC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAACC
1075449 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAG
*
1075514 AATATGTCTAAATAATGTGTCGACACTTTTTAGTTGGTGTCGATATTTTTGGTCCAGAATGAATG
131 AATATGTCTAAATAATGTGTCGACACTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAATG
1075579 GAA
196 GAA
1075582 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAACC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAACC
1075647 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAG
* *
1075712 AATATCTCTAAATAATGTGTCGACACTTTTTAGTTGGTGTCGATATTTTTGGTCCAGAATGAATG
131 AATATGTCTAAATAATGTGTCGACACTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAATG
1075777 GAA
196 GAA
* *
1075780 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCAAACC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAACC
1075845 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAG
*
1075910 AATATGTCTAAATAATGTGTCGATACTTTTTAGTTTGTGTCGATA
131 AATATGTCTAAATAATGTGTCGACACTTTTTAGTTTGTGTCGATA
1075955 CTAATTTAAA
Statistics
Matches: 953, Mismatches: 15, Indels: 2
0.98 0.02 0.00
Matches are distributed among these distances:
198 601 0.63
199 292 0.31
200 60 0.06
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (198 bp):
AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAACC
CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAG
AATATGTCTAAATAATGTGTCGACACTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAATG
GAA
Found at i:1077426 original size:12 final size:12
Alignment explanation
Indices: 1077409--1077467 Score: 91
Period size: 12 Copynumber: 4.9 Consensus size: 12
1077399 GGTCGCAGAA
*
1077409 GATGAAGCTGAC
1 GATGAAGATGAC
1077421 GATGAAGATGAC
1 GATGAAGATGAC
*
1077433 GATGATGATGAC
1 GATGAAGATGAC
*
1077445 GATGAAGCTGAC
1 GATGAAGATGAC
1077457 GATGAAGATGA
1 GATGAAGATGA
1077468 TGACGATGAT
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 42 1.00
ACGTcount: A:0.37, C:0.10, G:0.34, T:0.19
Consensus pattern (12 bp):
GATGAAGATGAC
Found at i:1077430 original size:6 final size:6
Alignment explanation
Indices: 1077406--1077497 Score: 67
Period size: 6 Copynumber: 15.3 Consensus size: 6
1077396 AGCGGTCGCA
* * * * * *
1077406 GAAGAT GAAGCT GACGAT GAAGAT GACGAT GATGAT GACGAT GAAGCT
1 GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT
* * * * * * *
1077454 GACGAT GAAGAT GATGAC GATGAT GATGAT TATGAT GAAGAT GA
1 GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GA
1077498 TGATCCAAAC
Statistics
Matches: 68, Mismatches: 18, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
6 68 1.00
ACGTcount: A:0.38, C:0.08, G:0.33, T:0.22
Consensus pattern (6 bp):
GAAGAT
Found at i:1077456 original size:36 final size:36
Alignment explanation
Indices: 1077409--1077479 Score: 124
Period size: 36 Copynumber: 2.0 Consensus size: 36
1077399 GGTCGCAGAA
*
1077409 GATGAAGCTGACGATGAAGATGACGATGATGATGAC
1 GATGAAGCTGACGATGAAGATGACGACGATGATGAC
*
1077445 GATGAAGCTGACGATGAAGATGATGACGATGATGA
1 GATGAAGCTGACGATGAAGATGACGACGATGATGA
1077480 TGATTATGAT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.37, C:0.10, G:0.34, T:0.20
Consensus pattern (36 bp):
GATGAAGCTGACGATGAAGATGACGACGATGATGAC
Found at i:1077478 original size:12 final size:12
Alignment explanation
Indices: 1077417--1077501 Score: 89
Period size: 12 Copynumber: 7.1 Consensus size: 12
1077407 AAGATGAAGC
*
1077417 TGACGATGAAGA
1 TGACGATGATGA
1077429 TGACGATGATGA
1 TGACGATGATGA
* *
1077441 TGACGATGAAGC
1 TGACGATGATGA
*
1077453 TGACGATGAAGA
1 TGACGATGATGA
* *
1077465 TGATGACGATGA
1 TGACGATGATGA
* *
1077477 TGATGATTATGA
1 TGACGATGATGA
*
1077489 TGAAGATGATGA
1 TGACGATGATGA
1077501 T
1 T
1077502 CCAAACAAGT
Statistics
Matches: 62, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 62 1.00
ACGTcount: A:0.36, C:0.07, G:0.32, T:0.25
Consensus pattern (12 bp):
TGACGATGATGA
Found at i:1077488 original size:9 final size:9
Alignment explanation
Indices: 1077421--1077501 Score: 72
Period size: 9 Copynumber: 9.0 Consensus size: 9
1077411 TGAAGCTGAC
*
1077421 GATGAAGAT
1 GATGATGAT
*
1077430 GACGATGAT
1 GATGATGAT
*
1077439 GATGACGAT
1 GATGATGAT
* * *
1077448 GAAGCTGAC
1 GATGATGAT
*
1077457 GATGAAGAT
1 GATGATGAT
*
1077466 GATGACGAT
1 GATGATGAT
1077475 GATGATGAT
1 GATGATGAT
* *
1077484 TATGATGAA
1 GATGATGAT
1077493 GATGATGAT
1 GATGATGAT
1077502 CCAAACAAGT
Statistics
Matches: 54, Mismatches: 18, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
9 54 1.00
ACGTcount: A:0.37, C:0.06, G:0.32, T:0.25
Consensus pattern (9 bp):
GATGATGAT
Found at i:1078725 original size:16 final size:16
Alignment explanation
Indices: 1078693--1078726 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
1078683 TATCCACAAC
* *
1078693 AAAGTGTCGATTTAAA
1 AAAGTGTCGACTGAAA
1078709 AAAGTGTCGACTGAAA
1 AAAGTGTCGACTGAAA
1078725 AA
1 AA
1078727 TGTAATAGAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.47, C:0.09, G:0.21, T:0.24
Consensus pattern (16 bp):
AAAGTGTCGACTGAAA
Found at i:1079118 original size:23 final size:23
Alignment explanation
Indices: 1079087--1079149 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
1079077 ATAGGTAAAA
*
1079087 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
1079110 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
1079133 ATATAATGTAATAGGTA
1 ATATAATGTAATAGGTA
1079150 ATGGTTATAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.37, C:0.05, G:0.21, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:1079157 original size:23 final size:23
Alignment explanation
Indices: 1079087--1079159 Score: 85
Period size: 23 Copynumber: 3.2 Consensus size: 23
1079077 ATAGGTAAAA
* **
1079087 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAATGCTT
*
1079110 ATATAATGTAATAGGT-ATCGTTT
1 ATATAATGTAATAGGTAAT-GCTT
*
1079133 ATATAATGTAATAGGTAATGGTT
1 ATATAATGTAATAGGTAATGCTT
1079156 ATAT
1 ATAT
1079160 TGTAAAGTAT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
23 41 0.95
24 2 0.05
ACGTcount: A:0.36, C:0.04, G:0.21, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAATGCTT
Found at i:1079549 original size:23 final size:23
Alignment explanation
Indices: 1079518--1079590 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
1079508 ATAGGTAAAA
*
1079518 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
1079541 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
1079564 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
1079587 ATAT
1 ATAT
1079591 TGTAAAGTAT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.34, C:0.04, G:0.22, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:1079695 original size:431 final size:431
Alignment explanation
Indices: 1078885--1079934 Score: 1948
Period size: 431 Copynumber: 2.4 Consensus size: 431
1078875 GTTAATGTTG
* *
1078885 TTAAATT-TAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTT--T
1 TTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTT-TTGCA
*
1078947 AATGAAATTATTAAATTAATATTGTTGGTGGAAAACATGAAACACTA-TT-AAAAAAATTGAAAC
65 AATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACA-TACTTAAAAAAAATTGAAAC
* *
1079010 ATAAATTACATAACTTTTAAAAAAAATATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATA
129 ATAAATTACATATC-TTTAAAAAAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATA
1079075 TAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAAT
193 TAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAAT
1079140 GTAATAGGTAATGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCTATACTTTTTTCA
258 GTAATAGGTAATGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCTATACTTTTTTCA
1079205 CTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTAT
323 CTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTAT
1079270 AGGCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
388 AGGCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
1079314 TTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTTTGCAA
1 TTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTTTGCAA
1079379 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACATACTTAAAAAAAATTGAAACAT
66 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACATACTTAAAAAAAATTGAAACAT
*
1079444 AAATTACATATCTTTAAAAAAAGTATCGATCCTTTTTATAAAAAGTATTGACACTTTCAATATAA
131 AAATTACATATCTTTAAAAAAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAA
1079509 TAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTA
196 TAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTA
*
1079574 ATAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCTATACTTTTTTCACTG
261 ATAGGTAATGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCTATACTTTTTTCACTG
1079639 TGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGG
326 TGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGG
1079704 CGTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
391 CGTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
* *
1079745 TTAAATTAAAAATTCTTAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
1 TTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTTTGCAA
*
1079810 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACATACTTAAAAAAAATTGAAACGT
66 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACATACTTAAAAAAAATTGAAACAT
1079875 AAATTACATATCTTTAAAAAAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAA
131 AAATTACATATCTTTAAAAAAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAA
1079935 CATATTATAA
Statistics
Matches: 605, Mismatches: 11, Indels: 8
0.97 0.02 0.01
Matches are distributed among these distances:
429 9 0.01
430 52 0.09
431 517 0.85
432 27 0.04
ACGTcount: A:0.41, C:0.08, G:0.11, T:0.40
Consensus pattern (431 bp):
TTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTTTGCAA
ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACATACTTAAAAAAAATTGAAACAT
AAATTACATATCTTTAAAAAAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAA
TAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTA
ATAGGTAATGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCTATACTTTTTTCACTG
TGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGG
CGTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
Found at i:1080279 original size:183 final size:182
Alignment explanation
Indices: 1079971--1080463 Score: 869
Period size: 183 Copynumber: 2.7 Consensus size: 182
1079961 GCAATGCTAT
*
1079971 CGGTATAAATATACCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGATACTTTTTAATATT
1 CGGTATAAATATACCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATT
*
1080036 GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACATTGTCAAAAAGTGTCGACA
66 GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACATT-TAAAAAAGTGTCGACA
* *
1080101 TTTACACATCGGAACCCATAATTATATTGTAATAGATAATTTTGTAATATAAC
130 TTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATATAAC
*
1080154 CGGTATAAATATACCGATTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATT
1 CGGTATAAATATACCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATT
* *
1080219 GTGTCGGTACTTTATGTCCAGATTGAAAGAAAAATATGTCGATACGATTTAAAAAAGTGTCGACA
66 GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATAC-ATTTAAAAAAGTGTCGACA
*
1080284 TTTACACATCGGAACCCAGATTTATAATGTAATAGATAATTTTGTAATATAAC
130 TTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATATAAC
* *
1080337 CGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTCTAATATT
1 CGGTATAAATATACCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATT
1080402 GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTTAAAAAAGTGTCG
66 GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATA-CATTTAAAAAAGTGTCG
1080464 GTAATTTTAA
Statistics
Matches: 295, Mismatches: 13, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
183 291 0.99
184 4 0.01
ACGTcount: A:0.34, C:0.15, G:0.17, T:0.33
Consensus pattern (182 bp):
CGGTATAAATATACCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATT
GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACATTTAAAAAAGTGTCGACAT
TTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATATAAC
Found at i:1082960 original size:25 final size:25
Alignment explanation
Indices: 1082932--1082996 Score: 85
Period size: 25 Copynumber: 2.6 Consensus size: 25
1082922 ATATCATTAA
1082932 ATTTAGGTATGTACAATAACTACAT
1 ATTTAGGTATGTACAATAACTACAT
****
1082957 ATTTAGGTATGTTTGTTAACTACAT
1 ATTTAGGTATGTACAATAACTACAT
*
1082982 ATTTAGGTATATACA
1 ATTTAGGTATGTACA
1082997 TCTTTTGAGT
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.35, C:0.09, G:0.14, T:0.42
Consensus pattern (25 bp):
ATTTAGGTATGTACAATAACTACAT
Found at i:1083375 original size:23 final size:23
Alignment explanation
Indices: 1083344--1083416 Score: 92
Period size: 23 Copynumber: 3.2 Consensus size: 23
1083334 ATAGGTAAAA
* *
1083344 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGATT
* *
1083367 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGATT
* *
1083390 ATATAATATAATAGGTAGTGATT
1 ATATAATGTAATAGGTAGCGATT
1083413 ATAT
1 ATAT
1083417 TGTAAAGTAT
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 43 1.00
ACGTcount: A:0.37, C:0.04, G:0.19, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGATT
Found at i:1083728 original size:25 final size:25
Alignment explanation
Indices: 1083690--1083739 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
1083680 AAATCAATTA
*
1083690 AACATTGTTGTGGGCACATTATTTG
1 AACATTGTTATGGGCACATTATTTG
*
1083715 AACATTGTTATGGGTACATTATTTG
1 AACATTGTTATGGGCACATTATTTG
1083740 GAAAAATAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.26, C:0.10, G:0.22, T:0.42
Consensus pattern (25 bp):
AACATTGTTATGGGCACATTATTTG
Found at i:1084147 original size:18 final size:18
Alignment explanation
Indices: 1084126--1084162 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
1084116 GTAATTGGAG
1084126 TTTGAATTTAAATTTCAA
1 TTTGAATTTAAATTTCAA
* *
1084144 TTTGAGTTTGAATTTCAA
1 TTTGAATTTAAATTTCAA
1084162 T
1 T
1084163 ATATATTTCG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.32, C:0.05, G:0.11, T:0.51
Consensus pattern (18 bp):
TTTGAATTTAAATTTCAA
Found at i:1084170 original size:24 final size:24
Alignment explanation
Indices: 1084118--1084164 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
1084108 TTTCATATGT
* *
1084118 AATTGGAGTTTGAATTTAAATTTC
1 AATTTGAGTTTGAATTTAAATATC
*
1084142 AATTTGAGTTTGAATTTCAATAT
1 AATTTGAGTTTGAATTTAAATAT
1084165 ATATTTCGGC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.34, C:0.04, G:0.15, T:0.47
Consensus pattern (24 bp):
AATTTGAGTTTGAATTTAAATATC
Found at i:1084476 original size:39 final size:39
Alignment explanation
Indices: 1084433--1084519 Score: 156
Period size: 39 Copynumber: 2.2 Consensus size: 39
1084423 TCCGATGCTC
*
1084433 ATCAAAATCCAAAGCTCATATGGTGCCAAGCAAAAGGAA
1 ATCAAAATCCAAAGCTCATATGATGCCAAGCAAAAGGAA
*
1084472 ATCAAAATCCAAATCTCATATGATGCCAAGCAAAAGGAA
1 ATCAAAATCCAAAGCTCATATGATGCCAAGCAAAAGGAA
1084511 ATCAAAATC
1 ATCAAAATC
1084520 TACAACTTGA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 46 1.00
ACGTcount: A:0.48, C:0.21, G:0.14, T:0.17
Consensus pattern (39 bp):
ATCAAAATCCAAAGCTCATATGATGCCAAGCAAAAGGAA
Found at i:1084971 original size:23 final size:23
Alignment explanation
Indices: 1084940--1085002 Score: 81
Period size: 23 Copynumber: 2.7 Consensus size: 23
1084930 ATAGGTAAAA
*
1084940 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* * *
1084963 ATATAATGTAATAGATATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
*
1084986 ATATAATGCAATAGGTA
1 ATATAATGTAATAGGTA
1085003 ATGGTTATAT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.38, C:0.06, G:0.19, T:0.37
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:1085010 original size:23 final size:23
Alignment explanation
Indices: 1084961--1085012 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
1084951 TAGGTAGCGC
* *
1084961 TTATATAATGTAATAGATATCGT
1 TTATATAATGCAATAGATATCGG
*
1084984 TTATATAATGCAATAGGTAAT-GG
1 TTATATAATGCAATAGAT-ATCGG
1085007 TTATAT
1 TTATAT
1085013 TGTAAAGTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 23 0.92
24 2 0.08
ACGTcount: A:0.38, C:0.04, G:0.15, T:0.42
Consensus pattern (23 bp):
TTATATAATGCAATAGATATCGG
Found at i:1085402 original size:23 final size:23
Alignment explanation
Indices: 1085371--1085443 Score: 92
Period size: 23 Copynumber: 3.2 Consensus size: 23
1085361 ATAGGTAAAA
*
1085371 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* * *
1085394 ATATAATGTAATAAGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
1085417 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
1085440 ATAT
1 ATAT
1085444 TGTAAAGTAT
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 42 1.00
ACGTcount: A:0.36, C:0.04, G:0.21, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:1085832 original size:23 final size:23
Alignment explanation
Indices: 1085801--1085873 Score: 110
Period size: 23 Copynumber: 3.2 Consensus size: 23
1085791 ATAGGTAAAA
*
1085801 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
*
1085824 ATATAATGTAATAGGTAGCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
1085847 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
1085870 ATAT
1 ATAT
1085874 TGTAAAGTAT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.34, C:0.04, G:0.23, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:1085939 original size:430 final size:431
Alignment explanation
Indices: 1084738--1086224 Score: 2764
Period size: 430 Copynumber: 3.5 Consensus size: 431
1084728 GTTAATGTTG
* *
1084738 TTAAATT-TAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
1 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
*
1084802 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTGTT-AAAAAAATTGAAACAT
66 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACAT
*
1084866 AGATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAA
131 AAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAA
* *
1084931 TAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGATATCGTTTATATAATGCA
196 TAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTA
* * *
1084996 ATAGGTAATGGTTATATTGTAAAGTATCTATTCTTTTTATAAAAGTGTCCATACTTTTTTCATTG
261 ATAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTG
*
1085061 TGGAAAACATTAATTTAAGGTTATCCTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGG
326 TGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGG
1085126 CGTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
391 CGTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
*
1085167 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAATACAATCAAATAATTTTTTGTGCAA
1 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
1085232 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACAT
66 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACAT
1085297 AAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAA
131 AAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAA
*
1085362 TAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAAGTATCGTTTATATAATGTA
196 TAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTA
1085427 ATAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTG
261 ATAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTG
1085492 TGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGG
326 TGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGG
* *
1085557 CGTTTAATGATTTATTTTTTATGTTACGATATATATTATTA
391 CGTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
1085598 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
1 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
*
1085663 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAATACTATT-AAAAAAATTGAAACAT
66 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACAT
*
1085727 AAATTACATAACTTTAAAAGAAATATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAA
131 AAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAA
*
1085792 TAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAATGTA
196 TAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTA
1085857 ATAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTG
261 ATAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTG
*
1085922 TGGAAAACATTAATTTAAGGTTATATTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGG
326 TGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGG
1085987 CGTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
391 CGTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
*
1086028 TTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
1 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
*
1086093 ATGAAATTATTAAATTAATATTCTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACAT
66 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACAT
*
1086158 AAATTACATAACTTTAAAAGAAGTATCGATCATTTTTATAAAAAGTATGGACACTTTCAATATAA
131 AAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAA
1086223 TA
196 TA
1086225 TAATGTAATA
Statistics
Matches: 1028, Mismatches: 27, Indels: 4
0.97 0.03 0.00
Matches are distributed among these distances:
429 7 0.01
430 522 0.51
431 499 0.49
ACGTcount: A:0.41, C:0.08, G:0.12, T:0.39
Consensus pattern (431 bp):
TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACAT
AAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAA
TAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTA
ATAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTG
TGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGG
CGTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
Found at i:1087292 original size:6 final size:6
Alignment explanation
Indices: 1087281--1087319 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
1087271 TCTCGTCTCG
* * *
1087281 GGTCGT GGTCGT GGTCGT GGTGGT GGTGGT GGTGGT GGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGT
1087320 TAAGAAACAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.00, C:0.08, G:0.59, T:0.33
Consensus pattern (6 bp):
GGTCGT
Found at i:1087298 original size:12 final size:12
Alignment explanation
Indices: 1087281--1087319 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
1087271 TCTCGTCTCG
*
1087281 GGTCGTGGTCGT
1 GGTCGTGGTGGT
1087293 GGTCGTGGTGGT
1 GGTCGTGGTGGT
*
1087305 GGTGGTGGTGGT
1 GGTCGTGGTGGT
1087317 GGT
1 GGT
1087320 TAAGAAACAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.00, C:0.08, G:0.59, T:0.33
Consensus pattern (12 bp):
GGTCGTGGTGGT
Found at i:1087305 original size:3 final size:3
Alignment explanation
Indices: 1087285--1087319 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
1087275 GTCTCGGGTC
* *
1087285 GTG GTC GTG GTC GTG GTG GTG GTG GTG GTG GTG GT
1 GTG GTG GTG GTG GTG GTG GTG GTG GTG GTG GTG GT
1087320 TAAGAAACAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.00, C:0.06, G:0.60, T:0.34
Consensus pattern (3 bp):
GTG
Found at i:1087423 original size:20 final size:20
Alignment explanation
Indices: 1087393--1087501 Score: 92
Period size: 20 Copynumber: 5.3 Consensus size: 20
1087383 ACTATCGCAA
1087393 CGAATTTGGAAAATCGCAACG
1 CGAA-TTGGAAAATCGCAACG
1087414 CGAATTGGAAAATCGCAACG
1 CGAATTGGAAAATCGCAACG
* ** * *
1087434 CGATTTTCAACTATCGTAACG
1 CGAATTGGAA-AATCGCAACG
* *
1087455 CAAAATGGAAAATCGCAACG
1 CGAATTGGAAAATCGCAACG
* ** *
1087475 CGATTTTCAACTATCGCAACG
1 CGAATTGGAA-AATCGCAACG
1087496 CGAATT
1 CGAATT
1087502 TGCGATAGTG
Statistics
Matches: 67, Mismatches: 19, Indels: 4
0.74 0.21 0.04
Matches are distributed among these distances:
20 36 0.54
21 31 0.46
ACGTcount: A:0.37, C:0.22, G:0.19, T:0.22
Consensus pattern (20 bp):
CGAATTGGAAAATCGCAACG
Found at i:1087464 original size:41 final size:41
Alignment explanation
Indices: 1087405--1087496 Score: 157
Period size: 41 Copynumber: 2.2 Consensus size: 41
1087395 AATTTGGAAA
* *
1087405 ATCGCAACGCGAATTGGAAAATCGCAACGCGATTTTCAACT
1 ATCGCAACGCAAAATGGAAAATCGCAACGCGATTTTCAACT
*
1087446 ATCGTAACGCAAAATGGAAAATCGCAACGCGATTTTCAACT
1 ATCGCAACGCAAAATGGAAAATCGCAACGCGATTTTCAACT
1087487 ATCGCAACGC
1 ATCGCAACGC
1087497 GAATTTGCGA
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 47 1.00
ACGTcount: A:0.36, C:0.25, G:0.18, T:0.21
Consensus pattern (41 bp):
ATCGCAACGCAAAATGGAAAATCGCAACGCGATTTTCAACT
Found at i:1096078 original size:32 final size:31
Alignment explanation
Indices: 1096037--1096150 Score: 183
Period size: 32 Copynumber: 3.6 Consensus size: 31
1096027 CATAGTTGAC
1096037 GGACTAAAATCGAACTGGAGTTAACGACTGAG
1 GGACTAAAATCGAAC-GGAGTTAACGACTGAG
1096069 GGACTAAAATCGAACGAGAGTTAACGACTGAG
1 GGACTAAAATCGAACG-GAGTTAACGACTGAG
*
1096101 GGACTAAAATCGAACGGGAGTTAACGACTAAG
1 GGACTAAAATCGAAC-GGAGTTAACGACTGAG
*
1096133 GGACTAAAATCAAACGGA
1 GGACTAAAATCGAACGGA
1096151 TCGATAATGT
Statistics
Matches: 78, Mismatches: 2, Indels: 5
0.92 0.02 0.06
Matches are distributed among these distances:
31 4 0.05
32 73 0.94
33 1 0.01
ACGTcount: A:0.41, C:0.16, G:0.27, T:0.16
Consensus pattern (31 bp):
GGACTAAAATCGAACGGAGTTAACGACTGAG
Found at i:1106283 original size:22 final size:23
Alignment explanation
Indices: 1106255--1106312 Score: 82
Period size: 22 Copynumber: 2.5 Consensus size: 23
1106245 GTAGGACCAT
1106255 TATGTCCCGAAGGACCACTGT-A
1 TATGTCCCGAAGGACCACTGTCA
*
1106277 TATGTCCCAAAGGACCACTGTCCA
1 TATGTCCCGAAGGACCACTGT-CA
*
1106301 TATGTTCCGAAG
1 TATGTCCCGAAG
1106313 AACATAGGTA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
22 20 0.65
24 11 0.35
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.24
Consensus pattern (23 bp):
TATGTCCCGAAGGACCACTGTCA
Found at i:1106704 original size:2 final size:2
Alignment explanation
Indices: 1106697--1106733 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
1106687 ACTTATGTAA
1106697 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1106734 CCACTTATAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1119450 original size:77 final size:77
Alignment explanation
Indices: 1119357--1119506 Score: 291
Period size: 77 Copynumber: 1.9 Consensus size: 77
1119347 GTGTATGGAA
1119357 ATATTATAATTTAATTCTAAAATGATATTATATTATTAAAAATCTATAATAAATATAGATAGAAA
1 ATATTATAATTTAATTCTAAAATGATATTATATTATTAAAAATCTATAATAAATATAGATAGAAA
1119422 TGAGCTAAAATG
66 TGAGCTAAAATG
*
1119434 ATATTATAATTTAATTCTAAAATGATATTATATTATTAAAAATCTATAATAAATATAGATTGAAA
1 ATATTATAATTTAATTCTAAAATGATATTATATTATTAAAAATCTATAATAAATATAGATAGAAA
1119499 TGAGCTAA
66 TGAGCTAA
1119507 TATAAAAAGT
Statistics
Matches: 72, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
77 72 1.00
ACGTcount: A:0.50, C:0.04, G:0.07, T:0.39
Consensus pattern (77 bp):
ATATTATAATTTAATTCTAAAATGATATTATATTATTAAAAATCTATAATAAATATAGATAGAAA
TGAGCTAAAATG
Found at i:1119787 original size:14 final size:14
Alignment explanation
Indices: 1119745--1119789 Score: 58
Period size: 14 Copynumber: 3.3 Consensus size: 14
1119735 ATAAAATGTG
1119745 TTTCACTCAAAATA
1 TTTCACTCAAAATA
1119759 TTTC-C-CGAAAATA
1 TTTCACTC-AAAATA
*
1119772 TTTCACTCAGAATA
1 TTTCACTCAAAATA
1119786 TTTC
1 TTTC
1119790 TTGGAAAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
12 1 0.04
13 11 0.41
14 14 0.52
15 1 0.04
ACGTcount: A:0.36, C:0.22, G:0.04, T:0.38
Consensus pattern (14 bp):
TTTCACTCAAAATA
Found at i:1121067 original size:22 final size:22
Alignment explanation
Indices: 1121016--1121071 Score: 85
Period size: 22 Copynumber: 2.5 Consensus size: 22
1121006 TTTCATTGTG
*
1121016 GAACCGGTCCAGGAAGCTTCTA
1 GAACCGGTCTAGGAAGCTTCTA
1121038 GAACCGGTCTAGGAAGCTTCTA
1 GAACCGGTCTAGGAAGCTTCTA
* *
1121060 GGATCGGTCTAG
1 GAACCGGTCTAG
1121072 TCAAAATGGT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.25, C:0.23, G:0.30, T:0.21
Consensus pattern (22 bp):
GAACCGGTCTAGGAAGCTTCTA
Found at i:1131394 original size:20 final size:20
Alignment explanation
Indices: 1131371--1131415 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
1131361 CCGAATCCAA
*
1131371 TCAACATAAACCGATATGAG
1 TCAACATAAACCGACATGAG
* * *
1131391 TCAACCTGAACCGACCTGAG
1 TCAACATAAACCGACATGAG
1131411 TCAAC
1 TCAAC
1131416 CTGAACCGGT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.38, C:0.29, G:0.16, T:0.18
Consensus pattern (20 bp):
TCAACATAAACCGACATGAG
Found at i:1131475 original size:31 final size:33
Alignment explanation
Indices: 1131440--1131500 Score: 83
Period size: 31 Copynumber: 1.9 Consensus size: 33
1131430 CCCGTTCACC
1131440 TTGACCTAAA-CCGTTAACT-TTAAC-TTGAACG
1 TTGACC-AAACCCGTTAACTGTTAACATTGAACG
*
1131471 TTGACCAAACCCGTTGACTGTTAACATTGA
1 TTGACCAAACCCGTTAACTGTTAACATTGA
1131501 CCAAAAAGAC
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
30 3 0.12
31 14 0.54
32 5 0.19
33 4 0.15
ACGTcount: A:0.31, C:0.23, G:0.15, T:0.31
Consensus pattern (33 bp):
TTGACCAAACCCGTTAACTGTTAACATTGAACG
Found at i:1131585 original size:21 final size:21
Alignment explanation
Indices: 1131559--1131650 Score: 130
Period size: 21 Copynumber: 4.4 Consensus size: 21
1131549 CCTTAGTTCA
* *
1131559 AATTCGAAGTTCGTTTTTTTG
1 AATTCGAAGTTCGTTTTGTCG
*
1131580 AATTCGAAATTCGTTTTGTCG
1 AATTCGAAGTTCGTTTTGTCG
*
1131601 AATTCGAAGTTCATTTTGTCG
1 AATTCGAAGTTCGTTTTGTCG
* *
1131622 AATTCGAAGTTCGTTTTTTCA
1 AATTCGAAGTTCGTTTTGTCG
1131643 AATTCGAA
1 AATTCGAA
1131651 CCCGAAATCC
Statistics
Matches: 63, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 63 1.00
ACGTcount: A:0.25, C:0.13, G:0.17, T:0.45
Consensus pattern (21 bp):
AATTCGAAGTTCGTTTTGTCG
Found at i:1135109 original size:21 final size:21
Alignment explanation
Indices: 1135072--1135111 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
1135062 AAAAATTACT
*
1135072 TAAAACATTATTATTTTTATC
1 TAAAACATAATTATTTTTATC
1135093 TAAAACATCAATT-TTTTTA
1 TAAAACAT-AATTATTTTTA
1135112 AATATTTCTG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 14 0.82
22 3 0.18
ACGTcount: A:0.40, C:0.10, G:0.00, T:0.50
Consensus pattern (21 bp):
TAAAACATAATTATTTTTATC
Found at i:1135162 original size:22 final size:22
Alignment explanation
Indices: 1135137--1135196 Score: 77
Period size: 21 Copynumber: 2.8 Consensus size: 22
1135127 AATGAATAAT
1135137 AATAACAAAACCGGTAGAAAAA
1 AATAACAAAACCGGTAGAAAAA
* * *
1135159 AATAATAAAATCGGTA-TAAAA
1 AATAACAAAACCGGTAGAAAAA
*
1135180 TATAACAAAACCGGTAG
1 AATAACAAAACCGGTAG
1135197 CGCTTTACCA
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
21 17 0.55
22 14 0.45
ACGTcount: A:0.58, C:0.12, G:0.13, T:0.17
Consensus pattern (22 bp):
AATAACAAAACCGGTAGAAAAA
Found at i:1143089 original size:10 final size:10
Alignment explanation
Indices: 1143071--1143102 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
1143061 TTATATATAT
1143071 TCTAATTTAA
1 TCTAATTTAA
*
1143081 TCTACTTTAA
1 TCTAATTTAA
1143091 TCTAATTTAA
1 TCTAATTTAA
1143101 TC
1 TC
1143103 ATTAAAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.34, C:0.16, G:0.00, T:0.50
Consensus pattern (10 bp):
TCTAATTTAA
Found at i:1143236 original size:10 final size:10
Alignment explanation
Indices: 1143201--1143240 Score: 53
Period size: 10 Copynumber: 4.0 Consensus size: 10
1143191 ATCTATATTG
1143201 TAATTTAATC
1 TAATTTAATC
* * *
1143211 TACTTCAATA
1 TAATTTAATC
1143221 TAATTTAATC
1 TAATTTAATC
1143231 TAATTTAATC
1 TAATTTAATC
1143241 ATTAAAAATA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
10 24 1.00
ACGTcount: A:0.40, C:0.12, G:0.00, T:0.47
Consensus pattern (10 bp):
TAATTTAATC
Found at i:1148652 original size:21 final size:21
Alignment explanation
Indices: 1148626--1148675 Score: 82
Period size: 21 Copynumber: 2.4 Consensus size: 21
1148616 GAGAGCGTGT
1148626 GTGCATCGATGTACTATTAAG
1 GTGCATCGATGTACTATTAAG
* *
1148647 GTGCATTGGTGTACTATTAAG
1 GTGCATCGATGTACTATTAAG
1148668 GTGCATCG
1 GTGCATCG
1148676 GTACATTGTG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.24, C:0.14, G:0.28, T:0.34
Consensus pattern (21 bp):
GTGCATCGATGTACTATTAAG
Found at i:1148817 original size:65 final size:64
Alignment explanation
Indices: 1148741--1148896 Score: 206
Period size: 65 Copynumber: 2.4 Consensus size: 64
1148731 TACACTTGGG
* * *
1148741 GTGCATCGGTACACTAATTACATTCGATGTTTCAA-AAGAGCCAGGAGTGCATCGATGCATGATA
1 GTGCATCGGTACACAAAATACATTCGATGTTTCAATAA-AGCCAAGAGTGCATCGATGCATGA-A
1148805 T
64 T
* * * ** *
1148806 GTGTATCGGTACACAAAATGCATTGGATGTTTCAATAAATTCAAGAGTGCATCGATGCATGACT
1 GTGCATCGGTACACAAAATACATTCGATGTTTCAATAAAGCCAAGAGTGCATCGATGCATGAAT
1148870 GTGCATCGGTACACAAAATACATTCGA
1 GTGCATCGGTACACAAAATACATTCGA
1148897 AACAGGGTGT
Statistics
Matches: 78, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
64 25 0.32
65 51 0.65
66 2 0.03
ACGTcount: A:0.33, C:0.18, G:0.22, T:0.28
Consensus pattern (64 bp):
GTGCATCGGTACACAAAATACATTCGATGTTTCAATAAAGCCAAGAGTGCATCGATGCATGAAT
Found at i:1151066 original size:15 final size:16
Alignment explanation
Indices: 1151046--1151079 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
1151036 CATAATTAGA
1151046 TTAAAA-AAAACAATT
1 TTAAAACAAAACAATT
1151061 TTAAAATCAAAACAATT
1 TTAAAA-CAAAACAATT
1151078 TT
1 TT
1151080 TTTTATTTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.35
17 11 0.65
ACGTcount: A:0.59, C:0.09, G:0.00, T:0.32
Consensus pattern (16 bp):
TTAAAACAAAACAATT
Found at i:1151548 original size:44 final size:43
Alignment explanation
Indices: 1151496--1151598 Score: 127
Period size: 44 Copynumber: 2.4 Consensus size: 43
1151486 TGCACAGCAG
* * * *
1151496 AGTGTATCGATGCACCTTCAA-GGAATGCATTGGTGCACATTCAT
1 AGTGTATCGATGCACATTCAATGG-ATACATCGGTACACATTC-T
* *
1151540 AGTGTATCGATGCATATTCAATGGATACATCGGTACACTTTCT
1 AGTGTATCGATGCACATTCAATGGATACATCGGTACACATTCT
1151583 AGTGTATCGATGCACA
1 AGTGTATCGATGCACA
1151599 GTGCACAAAA
Statistics
Matches: 51, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
43 16 0.31
44 33 0.65
45 2 0.04
ACGTcount: A:0.28, C:0.19, G:0.21, T:0.31
Consensus pattern (43 bp):
AGTGTATCGATGCACATTCAATGGATACATCGGTACACATTCT
Found at i:1152431 original size:21 final size:21
Alignment explanation
Indices: 1152407--1152446 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
1152397 CAACGCTCCC
*
1152407 TCGTCAACAACCAATACCCCA
1 TCGTCAACAACCAACACCCCA
1152428 TCGTCAACAACCAACACCC
1 TCGTCAACAACCAACACCC
1152447 ACAAAGCAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.38, C:0.45, G:0.05, T:0.12
Consensus pattern (21 bp):
TCGTCAACAACCAACACCCCA
Found at i:1153388 original size:34 final size:36
Alignment explanation
Indices: 1153350--1153434 Score: 90
Period size: 34 Copynumber: 2.5 Consensus size: 36
1153340 TATACTTGTA
*
1153350 ATATTTTATTTATATGTCTATTATTATT-TTACA-T
1 ATATTTTATTTATATGTCGATTATTATTATTACATT
* *
1153384 ATATTTTA-AT-TAT-TCGATTATTTTTATTACATT
1 ATATTTTATTTATATGTCGATTATTATTATTACATT
*
1153417 ATATATATATTTATATGT
1 ATAT-TTTATTTATATGT
1153435 TTTCTTTTTA
Statistics
Matches: 40, Mismatches: 5, Indels: 9
0.74 0.09 0.17
Matches are distributed among these distances:
31 10 0.25
32 8 0.20
33 6 0.15
34 11 0.28
35 1 0.03
36 3 0.08
37 1 0.03
ACGTcount: A:0.32, C:0.05, G:0.04, T:0.60
Consensus pattern (36 bp):
ATATTTTATTTATATGTCGATTATTATTATTACATT
Found at i:1153483 original size:31 final size:31
Alignment explanation
Indices: 1153439--1153504 Score: 87
Period size: 31 Copynumber: 2.1 Consensus size: 31
1153429 ATATGTTTTC
* *
1153439 TTTTTACTTTATTTATTTATTTTAATTTTAT
1 TTTTTACTCTATTTATTTATTTTAACTTTAT
* * *
1153470 TTTTTCCTCTATTTTTTTATTTTTACTTTAT
1 TTTTTACTCTATTTATTTATTTTAACTTTAT
1153501 TTTT
1 TTTT
1153505 ATTTCCTTGA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.17, C:0.08, G:0.00, T:0.76
Consensus pattern (31 bp):
TTTTTACTCTATTTATTTATTTTAACTTTAT
Found at i:1153501 original size:19 final size:20
Alignment explanation
Indices: 1153464--1153504 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
1153454 TTTATTTTAA
*
1153464 TTTTATTTTTTCCTCTATTT
1 TTTTATTTTTTACTCTATTT
*
1153484 TTTTA-TTTTTACTTTATTT
1 TTTTATTTTTTACTCTATTT
1153503 TT
1 TT
1153505 ATTTCCTTGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 14 0.74
20 5 0.26
ACGTcount: A:0.12, C:0.10, G:0.00, T:0.78
Consensus pattern (20 bp):
TTTTATTTTTTACTCTATTT
Found at i:1153538 original size:7 final size:7
Alignment explanation
Indices: 1153521--1153554 Score: 54
Period size: 7 Copynumber: 5.1 Consensus size: 7
1153511 TTGAGGTTCA
1153521 TTTTA-T
1 TTTTATT
1153527 TTTTATT
1 TTTTATT
1153534 TTTTATT
1 TTTTATT
1153541 TTTTA-T
1 TTTTATT
1153547 TTTTATT
1 TTTTATT
1153554 T
1 T
1153555 GTTCATTGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
6 11 0.42
7 15 0.58
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (7 bp):
TTTTATT
Found at i:1153539 original size:13 final size:13
Alignment explanation
Indices: 1153521--1153554 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
1153511 TTGAGGTTCA
1153521 TTTTA-TTTTTATT
1 TTTTATTTTTTA-T
1153534 TTTTATTTTTTAT
1 TTTTATTTTTTAT
1153547 TTTTATTT
1 TTTTATTT
1153555 GTTCATTGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 14 0.70
14 6 0.30
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (13 bp):
TTTTATTTTTTAT
Found at i:1153683 original size:9 final size:9
Alignment explanation
Indices: 1153641--1153712 Score: 56
Period size: 9 Copynumber: 7.8 Consensus size: 9
1153631 TTATTCCTTG
1153641 TTATTTTCT
1 TTATTTTCT
*
1153650 TTATATT-T
1 TTATTTTCT
* *
1153658 TTATCTTCACG
1 TTAT-TT-TCT
1153669 TTATTTTCT
1 TTATTTTCT
*
1153678 TTATTTCCT
1 TTATTTTCT
1153687 TTGATTTTCT
1 TT-ATTTTCT
* *
1153697 CTATTTTAT
1 TTATTTTCT
1153706 TTATTTT
1 TTATTTT
1153713 TATTTTTTTC
Statistics
Matches: 48, Mismatches: 11, Indels: 8
0.72 0.16 0.12
Matches are distributed among these distances:
8 5 0.10
9 30 0.62
10 9 0.19
11 4 0.08
ACGTcount: A:0.15, C:0.12, G:0.03, T:0.69
Consensus pattern (9 bp):
TTATTTTCT
Found at i:1164209 original size:43 final size:43
Alignment explanation
Indices: 1164162--1164314 Score: 234
Period size: 43 Copynumber: 3.6 Consensus size: 43
1164152 TGAAGGGGCC
* *
1164162 ATCCACGATTTCAACTCTACGACGGAGGATATCGTACCCACAC
1 ATCCACGATTTCAACTCCACGACGGAGGATATCGTACCCACAA
** * *
1164205 ATCCACGATTTCAACTCCACGATAGAGGATATTGTACCCATAA
1 ATCCACGATTTCAACTCCACGACGGAGGATATCGTACCCACAA
*
1164248 ATCCACGATTTCAACTCCACGACGGAGGATATCGTGCCCACAA
1 ATCCACGATTTCAACTCCACGACGGAGGATATCGTACCCACAA
*
1164291 ATCCACGATTTCAACTTCACGACG
1 ATCCACGATTTCAACTCCACGACG
1164315 AAGAATATTG
Statistics
Matches: 98, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 98 1.00
ACGTcount: A:0.31, C:0.31, G:0.16, T:0.22
Consensus pattern (43 bp):
ATCCACGATTTCAACTCCACGACGGAGGATATCGTACCCACAA
Found at i:1164323 original size:86 final size:86
Alignment explanation
Indices: 1164162--1164331 Score: 261
Period size: 86 Copynumber: 2.0 Consensus size: 86
1164152 TGAAGGGGCC
* *
1164162 ATCCACGATTTCAACTCTACGACGGAGGATATCGTACCCACACATCCACGATTTCAACTCCACGA
1 ATCCACGATTTCAACTCCACGACGGAGGATATCGTACCCACAAATCCACGATTTCAACTCCACGA
* *
1164227 TAGAGGATATTGTACCCATAA
66 GAGAGAATATTGTACCCATAA
* *
1164248 ATCCACGATTTCAACTCCACGACGGAGGATATCGTGCCCACAAATCCACGATTTCAACTTCACGA
1 ATCCACGATTTCAACTCCACGACGGAGGATATCGTACCCACAAATCCACGATTTCAACTCCACGA
*
1164313 CGA-AGAATATTGTGCCCAT
66 -GAGAGAATATTGTACCCAT
1164332 CTACATAAGA
Statistics
Matches: 76, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
86 75 0.99
87 1 0.01
ACGTcount: A:0.32, C:0.29, G:0.16, T:0.23
Consensus pattern (86 bp):
ATCCACGATTTCAACTCCACGACGGAGGATATCGTACCCACAAATCCACGATTTCAACTCCACGA
GAGAGAATATTGTACCCATAA
Found at i:1165245 original size:20 final size:20
Alignment explanation
Indices: 1165219--1165278 Score: 63
Period size: 19 Copynumber: 3.1 Consensus size: 20
1165209 TCGTCCATTG
1165219 ATATTATATAATATATTTAT
1 ATATTATATAATATATTTAT
*
1165239 TTATTATA-AACTATA-TTAT
1 ATATTATATAA-TATATTTAT
* *
1165258 ATAATATAT-ATATATATAT
1 ATATTATATAATATATTTAT
1165277 AT
1 AT
1165279 CATTTGTTTA
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
18 4 0.12
19 18 0.55
20 11 0.33
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.52
Consensus pattern (20 bp):
ATATTATATAATATATTTAT
Found at i:1165257 original size:12 final size:12
Alignment explanation
Indices: 1165219--1165278 Score: 60
Period size: 12 Copynumber: 5.3 Consensus size: 12
1165209 TCGTCCATTG
1165219 ATATTATATAAT
1 ATATTATATAAT
1165231 ATATT-TAT--T
1 ATATTATATAAT
1165240 -TATTATA-AACT
1 ATATTATATAA-T
1165251 ATATTATATAAT
1 ATATTATATAAT
1165263 ATA-TATATATAT
1 ATATTATATA-AT
1165275 ATAT
1 ATAT
1165279 CATTTGTTTA
Statistics
Matches: 40, Mismatches: 0, Indels: 15
0.73 0.00 0.27
Matches are distributed among these distances:
8 4 0.10
9 3 0.08
11 10 0.25
12 21 0.52
13 2 0.05
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.52
Consensus pattern (12 bp):
ATATTATATAAT
Found at i:1166632 original size:19 final size:18
Alignment explanation
Indices: 1166608--1166672 Score: 85
Period size: 19 Copynumber: 3.5 Consensus size: 18
1166598 ATATGTTTTC
* *
1166608 TTTTTACTTTATTTATTTA
1 TTTTTA-TTTTTTTCTTTA
*
1166627 TTTTTATTTTTTTCCTCTA
1 TTTTTATTTTTTT-CTTTA
1166646 TTTTTATTTTTTTCTTTA
1 TTTTTATTTTTTTCTTTA
1166664 TTTTTATTT
1 TTTTTATTT
1166673 CCTTGAGTTT
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
18 19 0.46
19 22 0.54
ACGTcount: A:0.14, C:0.08, G:0.00, T:0.78
Consensus pattern (18 bp):
TTTTTATTTTTTTCTTTA
Found at i:1166634 original size:6 final size:6
Alignment explanation
Indices: 1166623--1166724 Score: 75
Period size: 6 Copynumber: 16.2 Consensus size: 6
1166613 ACTTTATTTA
*
1166623 TTTATT TTTATT TTT-TT CCTCTATT TTTATT TTT-TT CTTTATT TTTATT
1 TTTATT TTTATT TTTATT --TTTATT TTTATT TTTATT -TTTATT TTTATT
* * *
1166672 TCCTTGAGT TTCA-T TTTATT TTTATTT TTTATT TTTATT TCTTGTT TTTATT
1 T--TT-ATT TTTATT TTTATT TTTA-TT TTTATT TTTATT T-TTATT TTTATT
1166724 T
1 T
1166725 GTTCATTGAT
Statistics
Matches: 78, Mismatches: 7, Indels: 22
0.73 0.07 0.21
Matches are distributed among these distances:
5 8 0.10
6 47 0.60
7 16 0.21
8 4 0.05
9 3 0.04
ACGTcount: A:0.13, C:0.08, G:0.03, T:0.76
Consensus pattern (6 bp):
TTTATT
Found at i:1166709 original size:19 final size:18
Alignment explanation
Indices: 1166603--1166724 Score: 84
Period size: 19 Copynumber: 6.4 Consensus size: 18
1166593 TATATATATG
* *
1166603 TTTTCTTTTTACTTTATTT
1 TTTTATTTTTA-TTTTTTT
*
1166622 ATTTATTTTTATTTTTTT
1 TTTTATTTTTATTTTTTT
* *
1166640 CCTCTATTTTTATTTTTTT
1 -TTTTATTTTTATTTTTTT
* **
1166659 CTTTATTTTTATTTCCTTGAG
1 TTTTATTTTTATTT--TT-TT
*
1166680 TTTCA-TTTTATTTTTATT
1 TTTTATTTTTATTTTT-TT
*
1166698 TTTTATTTTTATTTCTTGT
1 TTTTATTTTTATTT-TTTT
1166717 TTTTATTT
1 TTTTATTT
1166725 GTTCATTGAT
Statistics
Matches: 82, Mismatches: 15, Indels: 12
0.75 0.14 0.11
Matches are distributed among these distances:
18 25 0.30
19 42 0.51
20 12 0.15
21 3 0.04
ACGTcount: A:0.13, C:0.08, G:0.02, T:0.76
Consensus pattern (18 bp):
TTTTATTTTTATTTTTTT
Found at i:1166875 original size:19 final size:18
Alignment explanation
Indices: 1166843--1166886 Score: 52
Period size: 19 Copynumber: 2.4 Consensus size: 18
1166833 TATCTTCGCG
* *
1166843 TTATTTTTTTTATTTCCT
1 TTATTTTTTCTATTTCAT
*
1166861 TTATTTTTCTCTATTTTAT
1 TTATTTTT-TCTATTTCAT
1166880 TTATTTT
1 TTATTTT
1166887 CATTTTTTTC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
18 8 0.36
19 14 0.64
ACGTcount: A:0.14, C:0.09, G:0.00, T:0.77
Consensus pattern (18 bp):
TTATTTTTTCTATTTCAT
Found at i:1170372 original size:20 final size:21
Alignment explanation
Indices: 1170333--1170372 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
1170323 GAAGCTTTAA
* *
1170333 GATCATCAATTTTCTTTTGAT
1 GATCATCAATTTACTCTTGAT
1170354 GATCATC-ATTTACTCTTGA
1 GATCATCAATTTACTCTTGA
1170373 AAGTAAATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.25, C:0.17, G:0.10, T:0.47
Consensus pattern (21 bp):
GATCATCAATTTACTCTTGAT
Found at i:1171721 original size:21 final size:21
Alignment explanation
Indices: 1171665--1171721 Score: 87
Period size: 21 Copynumber: 2.7 Consensus size: 21
1171655 GGGAGCATGT
1171665 GTGCATCGGTGCACTATCAAG
1 GTGCATCGGTGCACTATCAAG
* *
1171686 GTACATCAGTGCACTATCAAG
1 GTGCATCGGTGCACTATCAAG
*
1171707 GTGCATCGGTACACT
1 GTGCATCGGTGCACT
1171722 GTGTATAAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.26, C:0.25, G:0.25, T:0.25
Consensus pattern (21 bp):
GTGCATCGGTGCACTATCAAG
Found at i:1171925 original size:64 final size:65
Alignment explanation
Indices: 1171795--1171929 Score: 186
Period size: 65 Copynumber: 2.1 Consensus size: 65
1171785 TCGGTACACT
*
1171795 ATTCGATGTTTCAAAAGAGCAAGGAGTGCATCAATGAATGGTATGTGCATCGGTATACAAAATGC
1 ATTCGATGTTTCAAAAGAGCAAGGAGTGCATCAATGAATGGTATGTGCATCGGTACACAAAATGC
* * * *
1171860 ATTCGATGTTTCAATAA-ATTCAA-GAGTGCATCGATGCATGG-CTGTGCATCGGTACACAAAAT
1 ATTCGATGTTTCAA-AAGA-GCAAGGAGTGCATCAATGAATGGTATGTGCATCGGTACACAAAAT
1171922 GC
64 GC
1171924 ATTCGA
1 ATTCGA
1171930 AATAGGGTGT
Statistics
Matches: 63, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
64 27 0.43
65 31 0.49
66 5 0.08
ACGTcount: A:0.33, C:0.16, G:0.23, T:0.27
Consensus pattern (65 bp):
ATTCGATGTTTCAAAAGAGCAAGGAGTGCATCAATGAATGGTATGTGCATCGGTACACAAAATGC
Found at i:1172800 original size:13 final size:13
Alignment explanation
Indices: 1172782--1172824 Score: 54
Period size: 13 Copynumber: 3.4 Consensus size: 13
1172772 AAATTTAAGT
1172782 TTTTTTATAAATA
1 TTTTTTATAAATA
1172795 TTTTTTAT-AAT-
1 TTTTTTATAAATA
*
1172806 TTTTTTAAATAATA
1 TTTTTTATA-AATA
1172820 TTTTT
1 TTTTT
1172825 ATTATTAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
11 7 0.27
12 3 0.12
13 11 0.42
14 5 0.19
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (13 bp):
TTTTTTATAAATA
Found at i:1180240 original size:12 final size:12
Alignment explanation
Indices: 1180223--1180254 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
1180213 TAGTGGGTTT
1180223 AATGTTAGTATA
1 AATGTTAGTATA
1180235 AATGTTAGTATA
1 AATGTTAGTATA
*
1180247 TATGTTAG
1 AATGTTAG
1180255 GGAGTTTATA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.38, C:0.00, G:0.19, T:0.44
Consensus pattern (12 bp):
AATGTTAGTATA
Found at i:1180504 original size:19 final size:19
Alignment explanation
Indices: 1180469--1180511 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
1180459 TATGTTCTGG
* *
1180469 TATGTTTATTTTGATAATT
1 TATGTTTATTATGATAATA
1180488 TATGTTTATTGAT-ATAATA
1 TATGTTTATT-ATGATAATA
1180507 TATGT
1 TATGT
1180512 AGTGATAGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 20 0.95
20 1 0.05
ACGTcount: A:0.30, C:0.00, G:0.12, T:0.58
Consensus pattern (19 bp):
TATGTTTATTATGATAATA
Found at i:1180635 original size:17 final size:15
Alignment explanation
Indices: 1180576--1180631 Score: 94
Period size: 15 Copynumber: 3.7 Consensus size: 15
1180566 ATGCGAGTAT
*
1180576 TGCATGTATATGTTT
1 TGCATGTATATGTTC
1180591 TGCATGTATATGTTC
1 TGCATGTATATGTTC
1180606 TGCATGTATATGTTC
1 TGCATGTATATGTTC
*
1180621 TGCATGAATAT
1 TGCATGTATAT
1180632 ATGTGTTTAG
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 39 1.00
ACGTcount: A:0.23, C:0.11, G:0.20, T:0.46
Consensus pattern (15 bp):
TGCATGTATATGTTC
Found at i:1181301 original size:45 final size:45
Alignment explanation
Indices: 1181242--1181361 Score: 125
Period size: 45 Copynumber: 2.7 Consensus size: 45
1181232 GGTCTGAACA
* * *
1181242 TAATGAACCTGAAATTGATGAAGCAGGACCAGT-TGAACCAGAAAT
1 TAATGAACCCGAAATTGATGAACCAGAACCA-TCTGAACCAGAAAT
* * * * *
1181287 TAGTGAGCCCGAAATTAATGAACCAGAACCATCTGAGCTAGAAAT
1 TAATGAACCCGAAATTGATGAACCAGAACCATCTGAACCAGAAAT
** *
1181332 TAATGAACTTGAAATTGATGAACCATAACC
1 TAATGAACCCGAAATTGATGAACCAGAACC
1181362 TCCTGAGGTG
Statistics
Matches: 60, Mismatches: 14, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
44 1 0.02
45 59 0.98
ACGTcount: A:0.42, C:0.17, G:0.19, T:0.22
Consensus pattern (45 bp):
TAATGAACCCGAAATTGATGAACCAGAACCATCTGAACCAGAAAT
Found at i:1183354 original size:31 final size:31
Alignment explanation
Indices: 1183287--1183346 Score: 97
Period size: 29 Copynumber: 2.0 Consensus size: 31
1183277 CAATTTAAGG
*
1183287 CAAAATGGTTTTTGGACTTGAATTGAATTTA
1 CAAAATGGTATTTGGACTTGAATTGAATTTA
1183318 CAAAAT-GTATTTGGACTT-AATTGAATTTA
1 CAAAATGGTATTTGGACTTGAATTGAATTTA
1183347 TTCAAAATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
29 11 0.39
30 11 0.39
31 6 0.21
ACGTcount: A:0.35, C:0.07, G:0.17, T:0.42
Consensus pattern (31 bp):
CAAAATGGTATTTGGACTTGAATTGAATTTA
Found at i:1183541 original size:21 final size:21
Alignment explanation
Indices: 1183515--1183556 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
1183505 ATTTGAATAT
*
1183515 TATGAAGGGGTATCGATTCCC
1 TATGAAGGGGTACCGATTCCC
1183536 TATGAAGGGGTACCGATTCCC
1 TATGAAGGGGTACCGATTCCC
1183557 CCCATTCTAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (21 bp):
TATGAAGGGGTACCGATTCCC
Found at i:1186150 original size:31 final size:31
Alignment explanation
Indices: 1186083--1186142 Score: 97
Period size: 29 Copynumber: 2.0 Consensus size: 31
1186073 CAATTTAAGG
*
1186083 CAAAATGGTTTTTGGACTTGAATTGAATTTA
1 CAAAATGGTATTTGGACTTGAATTGAATTTA
1186114 CAAAAT-GTATTTGGACTT-AATTGAATTTA
1 CAAAATGGTATTTGGACTTGAATTGAATTTA
1186143 TTCAAAATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
29 11 0.39
30 11 0.39
31 6 0.21
ACGTcount: A:0.35, C:0.07, G:0.17, T:0.42
Consensus pattern (31 bp):
CAAAATGGTATTTGGACTTGAATTGAATTTA
Found at i:1186241 original size:18 final size:19
Alignment explanation
Indices: 1186207--1186253 Score: 69
Period size: 18 Copynumber: 2.5 Consensus size: 19
1186197 AATGTTTTTA
*
1186207 TGAATAGTAATTTACTATT
1 TGAACAGTAATTTACTATT
1186226 TGAACAGTAA-TTACTATT
1 TGAACAGTAATTTACTATT
*
1186244 TGAACTGTAA
1 TGAACAGTAA
1186254 AATCACTGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
18 17 0.65
19 9 0.35
ACGTcount: A:0.38, C:0.09, G:0.13, T:0.40
Consensus pattern (19 bp):
TGAACAGTAATTTACTATT
Found at i:1186404 original size:21 final size:21
Alignment explanation
Indices: 1186378--1186419 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
1186368 ATTTGAATAT
1186378 TATGAAGGGGTATCGATTCCC
1 TATGAAGGGGTATCGATTCCC
*
1186399 TATGAAGGGGTATTGATTCCC
1 TATGAAGGGGTATCGATTCCC
1186420 CCCATTCTAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.24, C:0.17, G:0.29, T:0.31
Consensus pattern (21 bp):
TATGAAGGGGTATCGATTCCC
Found at i:1187028 original size:13 final size:13
Alignment explanation
Indices: 1187021--1187091 Score: 90
Period size: 13 Copynumber: 5.5 Consensus size: 13
1187011 CTGTTATTAA
*
1187021 ATATTGTTACTGC
1 ATATTGTTATTGC
*
1187034 ATAATGTTATTGC
1 ATATTGTTATTGC
1187047 ATATTGTTCA-TGC
1 ATATTGTT-ATTGC
* *
1187060 ATAATGTTATTAC
1 ATATTGTTATTGC
1187073 ATATTGTTATTGC
1 ATATTGTTATTGC
1187086 ATATTG
1 ATATTG
1187092 GAATAATTGA
Statistics
Matches: 49, Mismatches: 7, Indels: 4
0.82 0.12 0.07
Matches are distributed among these distances:
12 1 0.02
13 47 0.96
14 1 0.02
ACGTcount: A:0.28, C:0.10, G:0.14, T:0.48
Consensus pattern (13 bp):
ATATTGTTATTGC
Found at i:1187050 original size:26 final size:26
Alignment explanation
Indices: 1187012--1187088 Score: 111
Period size: 26 Copynumber: 3.0 Consensus size: 26
1187002 CTAACAATAC
*
1187012 TGTTATTAAATATTGTTACTGCATAA
1 TGTTATTACATATTGTTACTGCATAA
*
1187038 TGTTATTGCATATTGTT-CATGCATAA
1 TGTTATTACATATTGTTAC-TGCATAA
*
1187064 TGTTATTACATATTGTTATTGCATA
1 TGTTATTACATATTGTTACTGCATA
1187089 TTGGAATAAT
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
25 1 0.02
26 44 0.98
ACGTcount: A:0.30, C:0.09, G:0.13, T:0.48
Consensus pattern (26 bp):
TGTTATTACATATTGTTACTGCATAA
Found at i:1187786 original size:16 final size:17
Alignment explanation
Indices: 1187760--1187809 Score: 59
Period size: 16 Copynumber: 3.0 Consensus size: 17
1187750 TCAAAACTGC
1187760 CATTATGTTTTAGATTGA
1 CATT-TGTTTTAGATTGA
*
1187778 C-TTTGTTTTAGCTTG-
1 CATTTGTTTTAGATTGA
*
1187793 CATTTGTTTTAAATTGA
1 CATTTGTTTTAGATTGA
1187810 TTGGAGCTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
15 1 0.04
16 23 0.85
17 2 0.07
18 1 0.04
ACGTcount: A:0.22, C:0.08, G:0.16, T:0.54
Consensus pattern (17 bp):
CATTTGTTTTAGATTGA
Found at i:1190120 original size:15 final size:13
Alignment explanation
Indices: 1190100--1190171 Score: 76
Period size: 12 Copynumber: 5.4 Consensus size: 13
1190090 TCCCATTTGT
1190100 TTATTTATTTATTTA
1 TTATTTA-TTA-TTA
1190115 TTATTTATTATTA
1 TTATTTATTATTA
1190128 TTATATTAATTATTA
1 TTAT-TT-ATTATTA
*
1190143 TTA-GTATTATTA
1 TTATTTATTATTA
*
1190155 TTA-TTATTGTTA
1 TTATTTATTATTA
1190167 TTATT
1 TTATT
1190172 CATATTATAA
Statistics
Matches: 51, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
12 20 0.39
13 9 0.18
14 5 0.10
15 17 0.33
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.67
Consensus pattern (13 bp):
TTATTTATTATTA
Found at i:1190125 original size:3 final size:3
Alignment explanation
Indices: 1190112--1190171 Score: 77
Period size: 3 Copynumber: 19.7 Consensus size: 3
1190102 ATTTATTTAT
*
1190112 TTA TTA TTTA TTA TTA TTA -TA TTAA TTA TTA TTA GTA TTA TTA TTA
1 TTA TTA -TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA
*
1190158 TTA TTG TTA TTA TT
1 TTA TTA TTA TTA TT
1190172 CATATTATAA
Statistics
Matches: 50, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
2 2 0.04
3 42 0.84
4 6 0.12
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:1190134 original size:18 final size:18
Alignment explanation
Indices: 1190100--1190167 Score: 72
Period size: 18 Copynumber: 3.9 Consensus size: 18
1190090 TCCCATTTGT
1190100 TTATTTA-T-TTATT-TA
1 TTATTTATTATTATTATA
1190115 TTATTTATTATTATTATA
1 TTATTTATTATTATTATA
* *
1190133 TTAATTATTATTAGTATTA
1 TTATTTATTATTATTA-TA
*
1190152 TTA-TTATTATTGTTAT
1 TTATTTATTATTATTAT
1190168 TATTCATATT
Statistics
Matches: 45, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
15 7 0.16
16 1 0.02
17 6 0.13
18 26 0.58
19 5 0.11
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (18 bp):
TTATTTATTATTATTATA
Found at i:1208158 original size:29 final size:29
Alignment explanation
Indices: 1208121--1208254 Score: 166
Period size: 30 Copynumber: 4.7 Consensus size: 29
1208111 CGGGTGACAA
* *
1208121 TTTGAGAATTAATTCGAAATGGGTGATAT
1 TTTGGGAATTAATTCGAAATAGGTGATAT
*
1208150 TTTGGGAATTAATTCGAAATAGGTGCTAT
1 TTTGGGAATTAATTCGAAATAGGTGATAT
* *
1208179 TTTGGGAATTTAATTCGAAAAAGGTGCTAT
1 TTTGGGAA-TTAATTCGAAATAGGTGATAT
*
1208209 TTTGGGAATTTAATTCG-AA-A-GTGATAA
1 TTTGGGAA-TTAATTCGAAATAGGTGATAT
*
1208236 TTTGGGAATTAATTTGAAA
1 TTTGGGAATTAATTCGAAA
1208255 ATGATGCTAT
Statistics
Matches: 96, Mismatches: 7, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
26 7 0.07
27 15 0.16
28 1 0.01
29 36 0.38
30 37 0.39
ACGTcount: A:0.34, C:0.04, G:0.23, T:0.38
Consensus pattern (29 bp):
TTTGGGAATTAATTCGAAATAGGTGATAT
Found at i:1208194 original size:30 final size:28
Alignment explanation
Indices: 1208121--1208295 Score: 174
Period size: 29 Copynumber: 6.1 Consensus size: 28
1208111 CGGGTGACAA
* * *
1208121 TTTGAGAATTAATTCGAAATGGGTGATAT
1 TTTGGGAATTAATTCGAAA-AGGTGCTAT
1208150 TTTGGGAATTAATTCGAAATAGGTGCTAT
1 TTTGGGAATTAATTCGAAA-AGGTGCTAT
1208179 TTTGGGAATTTAATTCGAAAAAGGTGCTAT
1 TTTGGGAA-TTAATTCG-AAAAGGTGCTAT
* *
1208209 TTTGGGAATTTAATTCG-AAA-GTGATAA
1 TTTGGGAA-TTAATTCGAAAAGGTGCTAT
* *
1208236 TTTGGGAATTAATTTGAAAATGATGCTAT
1 TTTGGGAATTAATTCGAAAA-GGTGCTAT
* * **
1208265 TTTGGTAATTATTTTAAAAAGGTTGCTAT
1 TTTGGGAATTAATTCGAAAAGG-TGCTAT
1208294 TT
1 TT
1208296 CTGTAAAATG
Statistics
Matches: 127, Mismatches: 13, Indels: 12
0.84 0.09 0.08
Matches are distributed among these distances:
26 7 0.06
27 16 0.13
28 4 0.03
29 63 0.50
30 34 0.27
31 3 0.02
ACGTcount: A:0.33, C:0.05, G:0.22, T:0.41
Consensus pattern (28 bp):
TTTGGGAATTAATTCGAAAAGGTGCTAT
Found at i:1211295 original size:19 final size:19
Alignment explanation
Indices: 1211252--1211288 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
1211242 AGGGGTGAAT
1211252 AAGCAATAATTTGATTAGG
1 AAGCAATAATTTGATTAGG
1211271 AAGCAATAATTTGATTAG
1 AAGCAATAATTTGATTAG
1211289 TGTGCAAATG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.43, C:0.05, G:0.19, T:0.32
Consensus pattern (19 bp):
AAGCAATAATTTGATTAGG
Found at i:1212026 original size:17 final size:16
Alignment explanation
Indices: 1212004--1212072 Score: 61
Period size: 15 Copynumber: 4.3 Consensus size: 16
1211994 CCGTGTCCCG
*
1212004 ACCCGGATGTTACGGGT
1 ACCCGGATATT-CGGGT
*
1212021 ACCCGG-TAATCGGGT
1 ACCCGGATATTCGGGT
* *
1212036 ACCCGAATTTTGCGGGT
1 ACCCGGATATT-CGGGT
*
1212053 ACCCGG-TAATCGGGT
1 ACCCGGATATTCGGGT
1212068 ACCCG
1 ACCCG
1212073 ATACCCGGTT
Statistics
Matches: 42, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
15 20 0.48
16 6 0.14
17 16 0.38
ACGTcount: A:0.19, C:0.28, G:0.32, T:0.22
Consensus pattern (16 bp):
ACCCGGATATTCGGGT
Found at i:1212036 original size:15 final size:15
Alignment explanation
Indices: 1212016--1212072 Score: 69
Period size: 15 Copynumber: 3.7 Consensus size: 15
1212006 CCGGATGTTA
1212016 CGGGTACCCGGTAAT
1 CGGGTACCCGGTAAT
* **
1212031 CGGGTACCCGAATTTT
1 CGGGTACCCG-GTAAT
1212047 GCGGGTACCCGGTAAT
1 -CGGGTACCCGGTAAT
1212063 CGGGTACCCG
1 CGGGTACCCG
1212073 ATACCCGGTT
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
15 20 0.59
16 4 0.12
17 10 0.29
ACGTcount: A:0.18, C:0.28, G:0.33, T:0.21
Consensus pattern (15 bp):
CGGGTACCCGGTAAT
Found at i:1212040 original size:32 final size:32
Alignment explanation
Indices: 1212004--1212073 Score: 113
Period size: 32 Copynumber: 2.2 Consensus size: 32
1211994 CCGTGTCCCG
*
1212004 ACCCGGATGTTACGGGTACCCGGTAATCGGGT
1 ACCCGAATGTTACGGGTACCCGGTAATCGGGT
* *
1212036 ACCCGAATTTTGCGGGTACCCGGTAATCGGGT
1 ACCCGAATGTTACGGGTACCCGGTAATCGGGT
1212068 ACCCGA
1 ACCCGA
1212074 TACCCGGTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.20, C:0.27, G:0.31, T:0.21
Consensus pattern (32 bp):
ACCCGAATGTTACGGGTACCCGGTAATCGGGT
Found at i:1212580 original size:20 final size:20
Alignment explanation
Indices: 1212552--1212600 Score: 80
Period size: 20 Copynumber: 2.5 Consensus size: 20
1212542 CTTACCTTTG
1212552 TATCGGTACCATATGAACAA
1 TATCGGTACCATATGAACAA
* *
1212572 TATCAGTACCATATGAATAA
1 TATCGGTACCATATGAACAA
1212592 TATCGGTAC
1 TATCGGTAC
1212601 TGTTCATGAG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (20 bp):
TATCGGTACCATATGAACAA
Found at i:1214290 original size:31 final size:31
Alignment explanation
Indices: 1214244--1214332 Score: 78
Period size: 29 Copynumber: 2.9 Consensus size: 31
1214234 AAATTGCATG
*
1214244 TTCAAAATGTTTGGGGACTAATTTAGAATAAA
1 TTCAAAA-ATTTGGGGACTAATTTAGAATAAA
* *
1214276 TGTC-AAAATTTGGGGA-TGAAATTA-AA-ATA
1 T-TCAAAAATTTGGGGACT-AATTTAGAATAAA
**
1214305 TTCAAAAATTTGAAGACTAATTTAGAAT
1 TTCAAAAATTTGGGGACTAATTTAGAAT
1214333 GATAATTATA
Statistics
Matches: 45, Mismatches: 6, Indels: 13
0.70 0.09 0.20
Matches are distributed among these distances:
28 2 0.04
29 18 0.40
30 6 0.13
31 13 0.29
32 4 0.09
33 2 0.04
ACGTcount: A:0.44, C:0.06, G:0.17, T:0.34
Consensus pattern (31 bp):
TTCAAAAATTTGGGGACTAATTTAGAATAAA
Found at i:1214323 original size:60 final size:60
Alignment explanation
Indices: 1214259--1214375 Score: 175
Period size: 60 Copynumber: 1.9 Consensus size: 60
1214249 AATGTTTGGG
*
1214259 GACTAATTTAGAAT-A-AATGTCAAAATTTGGGGATGAAATTAAAATATTCAAAAATTTGAA
1 GACTAATTTAGAATGATAAT-T-AAAATTTAGGGATGAAATTAAAATATTCAAAAATTTGAA
* *
1214319 GACTAATTTAGAATGATAATTATAATTTAGGGATGAAATTAAAATATTTAAAAATTT
1 GACTAATTTAGAATGATAATTAAAATTTAGGGATGAAATTAAAATATTCAAAAATTT
1214376 ACGGATTAAT
Statistics
Matches: 52, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
60 47 0.90
61 2 0.04
62 3 0.06
ACGTcount: A:0.48, C:0.03, G:0.14, T:0.35
Consensus pattern (60 bp):
GACTAATTTAGAATGATAATTAAAATTTAGGGATGAAATTAAAATATTCAAAAATTTGAA
Found at i:1214375 original size:29 final size:29
Alignment explanation
Indices: 1214280--1214393 Score: 81
Period size: 29 Copynumber: 3.9 Consensus size: 29
1214270 AATAAATGTC
* *
1214280 AAAATTTGGGGATGAAATTAAAATATTCA
1 AAAATTTAGGGATGAAATTAAAATATTTA
* * *
1214309 AAAATTT-GAAGACT-AATTTAGAATGATAATT-
1 AAAATTTAG-GGA-TGAAATTA-AA--ATATTTA
*
1214340 ATAATTTAGGGATGAAATTAAAATATTTA
1 AAAATTTAGGGATGAAATTAAAATATTTA
* * *
1214369 AAAATTTACGGATTAATTTAAAATA
1 AAAATTTAGGGATGAAATTAAAATA
1214394 AACGTCATAC
Statistics
Matches: 65, Mismatches: 12, Indels: 16
0.70 0.13 0.17
Matches are distributed among these distances:
28 6 0.09
29 35 0.54
30 6 0.09
31 13 0.20
32 5 0.08
ACGTcount: A:0.49, C:0.03, G:0.13, T:0.35
Consensus pattern (29 bp):
AAAATTTAGGGATGAAATTAAAATATTTA
Found at i:1221429 original size:18 final size:18
Alignment explanation
Indices: 1221385--1221432 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
1221375 TTTTTAAAGA
*
1221385 AAATATATAAATATTTTAC
1 AAATATAT-AATATTATAC
*
1221404 -AATTTATAATATTATAC
1 AAATATATAATATTATAC
1221421 AAATATATAATA
1 AAATATATAATA
1221433 AGGACAATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
17 9 0.36
18 16 0.64
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (18 bp):
AAATATATAATATTATAC
Found at i:1222344 original size:69 final size:69
Alignment explanation
Indices: 1222267--1222396 Score: 233
Period size: 69 Copynumber: 1.9 Consensus size: 69
1222257 GTTATATATC
*
1222267 GACTAAAATTCTATTTGATAATTAAATTAGATTTTATTACAATTATGTATGAATTTGTTACAATT
1 GACTAAAATTCTATTTGATAATTAAACTAGATTTTATTACAATTATGTATGAATTTGTTACAATT
1222332 TACT
66 TACT
* *
1222336 GACTAAAATTCTATTTGATAATTAAACTAGATTTTGTTACAATTGTGTATGAATTTGTTAC
1 GACTAAAATTCTATTTGATAATTAAACTAGATTTTATTACAATTATGTATGAATTTGTTAC
1222397 GATTACAAAT
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
69 58 1.00
ACGTcount: A:0.36, C:0.08, G:0.11, T:0.45
Consensus pattern (69 bp):
GACTAAAATTCTATTTGATAATTAAACTAGATTTTATTACAATTATGTATGAATTTGTTACAATT
TACT
Found at i:1222926 original size:32 final size:32
Alignment explanation
Indices: 1222885--1222954 Score: 113
Period size: 32 Copynumber: 2.2 Consensus size: 32
1222875 GTTGTGCGCA
* * *
1222885 TCATCTTCAATCTCTTACATAACACACTCATT
1 TCATCTTCAATATCTTACACAACAAACTCATT
1222917 TCATCTTCAATATCTTACACAACAAACTCATT
1 TCATCTTCAATATCTTACACAACAAACTCATT
1222949 TCATCT
1 TCATCT
1222955 AACCAAAAGC
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.33, C:0.30, G:0.00, T:0.37
Consensus pattern (32 bp):
TCATCTTCAATATCTTACACAACAAACTCATT
Found at i:1225256 original size:22 final size:22
Alignment explanation
Indices: 1225231--1225273 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
1225221 TGAGGGAGCC
1225231 AATTCTACAACATACACTGGTT
1 AATTCTACAACATACACTGGTT
1225253 AATTCTACAACATACACTGGT
1 AATTCTACAACATACACTGGT
1225274 AATCTGAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.37, C:0.23, G:0.09, T:0.30
Consensus pattern (22 bp):
AATTCTACAACATACACTGGTT
Found at i:1227574 original size:23 final size:23
Alignment explanation
Indices: 1227548--1227608 Score: 77
Period size: 23 Copynumber: 2.7 Consensus size: 23
1227538 CTCGTATAAA
*
1227548 TGCACCGAAGTGCCACGTAGAAT
1 TGCACCGAAGTGCCACGAAGAAT
* **
1227571 TGCACCGAAGTACCGTGAAGAAT
1 TGCACCGAAGTGCCACGAAGAAT
*
1227594 TACACCGAAGTGCCA
1 TGCACCGAAGTGCCA
1227609 TATAAAATGT
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.33, C:0.26, G:0.25, T:0.16
Consensus pattern (23 bp):
TGCACCGAAGTGCCACGAAGAAT
Found at i:1232677 original size:23 final size:23
Alignment explanation
Indices: 1232651--1232705 Score: 92
Period size: 23 Copynumber: 2.4 Consensus size: 23
1232641 AAATGCATCA
1232651 AAGTGCCATGTAGAATTGCACCG
1 AAGTGCCATGTAGAATTGCACCG
**
1232674 AAGTGCCGCGTAGAATTGCACCG
1 AAGTGCCATGTAGAATTGCACCG
1232697 AAGTGCCAT
1 AAGTGCCAT
1232706 ATAAAATGTC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.29, C:0.24, G:0.27, T:0.20
Consensus pattern (23 bp):
AAGTGCCATGTAGAATTGCACCG
Found at i:1233978 original size:24 final size:20
Alignment explanation
Indices: 1233921--1233983 Score: 63
Period size: 20 Copynumber: 2.9 Consensus size: 20
1233911 TTCCCCTTGA
*
1233921 AGTGCATCGATGCATTCTAC
1 AGTGCATCGATGCATCCTAC
*
1233941 AGTGTATCGATGCATCCCTTAAC
1 AGTGCATCGATGCAT-CC-T-AC
1233964 ATGTGCATCGATGCACTCCT
1 A-GTGCATCGATGCA-TCCT
1233984 TATGCATTAA
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
20 14 0.40
21 1 0.03
22 1 0.03
23 4 0.11
24 14 0.40
25 1 0.03
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.30
Consensus pattern (20 bp):
AGTGCATCGATGCATCCTAC
Found at i:1233984 original size:24 final size:22
Alignment explanation
Indices: 1233921--1233985 Score: 71
Period size: 24 Copynumber: 2.9 Consensus size: 22
1233911 TTCCCCTTGA
*
1233921 AGTGCATCGATGCATTC-T-AC
1 AGTGCATCGATGCATCCTTAAC
*
1233941 AGTGTATCGATGCATCCCTTAAC
1 AGTGCATCGATGCAT-CCTTAAC
1233964 ATGTGCATCGATGCACTCCTTA
1 A-GTGCATCGATGCA-TCCTTA
1233986 TGCATTAATT
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
20 14 0.38
21 1 0.03
22 1 0.03
23 3 0.08
24 17 0.46
25 1 0.03
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.31
Consensus pattern (22 bp):
AGTGCATCGATGCATCCTTAAC
Found at i:1234948 original size:34 final size:34
Alignment explanation
Indices: 1234903--1235023 Score: 116
Period size: 34 Copynumber: 3.4 Consensus size: 34
1234893 GATTTTTTAA
*
1234903 AAAATTCTAAAAGTTTGATATTATTTTTAACTTC
1 AAAATTTTAAAAGTTTGATATTATTTTTAACTTC
** * * * *
1234937 AAAATTTTAAAAAATTAATATATTTTTTTCAAATTTGTTA
1 AAAATTTTAAAAGTTTGATAT-TATTTTT--AA---CTTC
1234977 AAAATTTCTAAAAGTTTGATATTATTTTTAACTTC
1 AAAATTT-TAAAAGTTTGATATTATTTTTAACTTC
1235012 AAAATTTTAAAA
1 AAAATTTTAAAA
1235024 AATTTAATAT
Statistics
Matches: 67, Mismatches: 13, Indels: 14
0.71 0.14 0.15
Matches are distributed among these distances:
34 22 0.33
35 15 0.22
37 2 0.03
38 2 0.03
40 15 0.22
41 11 0.16
ACGTcount: A:0.43, C:0.06, G:0.04, T:0.47
Consensus pattern (34 bp):
AAAATTTTAAAAGTTTGATATTATTTTTAACTTC
Found at i:1235022 original size:75 final size:74
Alignment explanation
Indices: 1234883--1235039 Score: 260
Period size: 75 Copynumber: 2.1 Consensus size: 74
1234873 CATGTCGTTT
* *
1234883 TTTTTCTTCAGATTTTTTAAAAAATTCTAAAAGTTTGATATTATTTTTAACTTCAAAATTTTAAA
1 TTTTT-TTCAAATTTGTTAAAAAATTCTAAAAGTTTGATATTATTTTTAACTTCAAAATTTTAAA
1234948 AAATTAATATA
65 AAATTAA-ATA
*
1234959 TTTTTTTCAAATTTGTTAAAAATTTCTAAAAGTTTGATATTATTTTTAACTTCAAAATTTTAAAA
1 TTTTTTTCAAATTTGTTAAAAAATTCTAAAAGTTTGATATTATTTTTAACTTCAAAATTTTAAAA
*
1235024 AATTTAATA
66 AATTAAATA
1235033 TTTTTTT
1 TTTTTTT
1235040 GATTTTATTA
Statistics
Matches: 77, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
74 10 0.13
75 62 0.81
76 5 0.06
ACGTcount: A:0.39, C:0.06, G:0.04, T:0.52
Consensus pattern (74 bp):
TTTTTTTCAAATTTGTTAAAAAATTCTAAAAGTTTGATATTATTTTTAACTTCAAAATTTTAAAA
AATTAAATA
Found at i:1239128 original size:72 final size:71
Alignment explanation
Indices: 1239000--1239168 Score: 275
Period size: 72 Copynumber: 2.4 Consensus size: 71
1238990 AATATGATCA
*
1239000 TCTTTTGATATTTTGAATAATGACGGCTTCCTTTTTTGTTTATGATTATATTTGAATGTGTATCA
1 TCTTTTGATATTTTGAATAATGATGGCTTCCTTTTTTGTTTATGATTATATTTGAATGTGTATCA
1239065 CTCACT
66 CTCACT
* * * *
1239071 TGTTTTGATATTCTGAATGATGATGGCTTCCCTTTTTTGTTTATGCTTATATTTGAATGTGTATC
1 TCTTTTGATATTTTGAATAATGATGGCTT-CCTTTTTTGTTTATGATTATATTTGAATGTGTATC
1239136 ACTCACT
65 ACTCACT
*
1239143 TCTTTTGATATTTTGAATTATGATGG
1 TCTTTTGATATTTTGAATAATGATGG
1239169 TTTCTTTGAC
Statistics
Matches: 89, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
71 25 0.28
72 64 0.72
ACGTcount: A:0.21, C:0.12, G:0.16, T:0.51
Consensus pattern (71 bp):
TCTTTTGATATTTTGAATAATGATGGCTTCCTTTTTTGTTTATGATTATATTTGAATGTGTATCA
CTCACT
Done.