Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009602.1 Hibiscus syriacus cultivar Beakdansim tig00116982_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: 1420948
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 6 of 6
Found at i:1142744 original size:2 final size:2
Alignment explanation
Indices: 1142737--1142764 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
1142727 GATGATGTCA
1142737 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1142765 TCTGGTTAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1145811 original size:56 final size:56
Alignment explanation
Indices: 1145722--1145876 Score: 247
Period size: 57 Copynumber: 2.8 Consensus size: 56
1145712 ATGGACACTT
* * *
1145722 TGTGTGCAAGAACTAAGAAATTCATAATGAGTTTATGAATTTTCGCATGGGAACTG
1 TGTGTGCAAAAACTAAGAAATTTATAATAAGTTTATGAATTTTCGCATGGGAACTG
* *
1145778 TGTGTGCAAAAACTAAGAAATTTATAATAAGTTTATGAATTTTTCGTATGGGCACTG
1 TGTGTGCAAAAACTAAGAAATTTATAATAAGTTTATGAA-TTTTCGCATGGGAACTG
*
1145835 TGTGTGCAAAAACTAAGAAATTTATAATAAATTTATGAATTT
1 TGTGTGCAAAAACTAAGAAATTTATAATAAGTTTATGAATTT
1145877 CCATATGGGC
Statistics
Matches: 92, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
56 39 0.42
57 53 0.58
ACGTcount: A:0.37, C:0.08, G:0.19, T:0.35
Consensus pattern (56 bp):
TGTGTGCAAAAACTAAGAAATTTATAATAAGTTTATGAATTTTCGCATGGGAACTG
Found at i:1145849 original size:57 final size:56
Alignment explanation
Indices: 1145712--1145889 Score: 257
Period size: 56 Copynumber: 3.2 Consensus size: 56
1145702 TGATTACCAA
* * * * * *
1145712 ATGGACACTTTGTGTGCAAGAACTAAGAAATTCATAATGAGTTTATGAATTTTCGC
1 ATGGGCACTGTGTGTGCAAAAACTAAGAAATTTATAATAAGTTTATGAATTTTCGT
*
1145768 ATGGGAACTGTGTGTGCAAAAACTAAGAAATTTATAATAAGTTTATGAATTTTTCGT
1 ATGGGCACTGTGTGTGCAAAAACTAAGAAATTTATAATAAGTTTATGAA-TTTTCGT
* * *
1145825 ATGGGCACTGTGTGTGCAAAAACTAAGAAATTTATAATAAATTTATGAATTTCCAT
1 ATGGGCACTGTGTGTGCAAAAACTAAGAAATTTATAATAAGTTTATGAATTTTCGT
1145881 ATGGGCACT
1 ATGGGCACT
1145890 ACGTATACAA
Statistics
Matches: 110, Mismatches: 11, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
56 57 0.52
57 53 0.48
ACGTcount: A:0.36, C:0.11, G:0.19, T:0.34
Consensus pattern (56 bp):
ATGGGCACTGTGTGTGCAAAAACTAAGAAATTTATAATAAGTTTATGAATTTTCGT
Found at i:1146030 original size:45 final size:45
Alignment explanation
Indices: 1145981--1146271 Score: 458
Period size: 45 Copynumber: 6.5 Consensus size: 45
1145971 GAAATAAAAG
*
1145981 ATTAAAGGCATGAAAGGATGCCATAAATGAAATGCATAACGGAGC
1 ATTAAAGGCATGAAAGGATGCCATAAATGAAATGCATAACGGTGC
* *
1146026 ATTAAAGGCTTGAAAGGATGCCATAAATGAATTGCATAACGGTGC
1 ATTAAAGGCATGAAAGGATGCCATAAATGAAATGCATAACGGTGC
* *
1146071 ATTAAAGGCATGAAAGGATTCCATAAATGAAATGCATAACCGTGC
1 ATTAAAGGCATGAAAGGATGCCATAAATGAAATGCATAACGGTGC
*
1146116 ATTAAAGGCATGAAAGGATGTCATAAAT-AAATGCATAACGGTGC
1 ATTAAAGGCATGAAAGGATGCCATAAATGAAATGCATAACGGTGC
* **
1146160 ATTAAAGGCATGAAAGGATGCCATAAATGTAATGCATAACGGTTA
1 ATTAAAGGCATGAAAGGATGCCATAAATGAAATGCATAACGGTGC
** * *
1146205 ATTAAAGGTTTGAAATGATGCCATAAATGAAATGCATATCGGTGC
1 ATTAAAGGCATGAAAGGATGCCATAAATGAAATGCATAACGGTGC
1146250 ATTAAAGGCATGAAAGGATGCC
1 ATTAAAGGCATGAAAGGATGCC
1146272 CTTAATAAAA
Statistics
Matches: 221, Mismatches: 24, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
44 42 0.19
45 179 0.81
ACGTcount: A:0.41, C:0.13, G:0.23, T:0.23
Consensus pattern (45 bp):
ATTAAAGGCATGAAAGGATGCCATAAATGAAATGCATAACGGTGC
Found at i:1146170 original size:19 final size:19
Alignment explanation
Indices: 1146104--1146170 Score: 53
Period size: 19 Copynumber: 3.2 Consensus size: 19
1146094 TAAATGAAAT
*
1146104 GCATAACCGTGCATTAAAG
1 GCATAACGGTGCATTAAAG
* *
1146123 GCATGAAAGGATGTCATAAATAAAT
1 GCAT-AACGG-TG-CAT---TAAAG
1146148 GCATAACGGTGCATTAAAG
1 GCATAACGGTGCATTAAAG
1146167 GCAT
1 GCAT
1146171 GAAAGGATGC
Statistics
Matches: 37, Mismatches: 5, Indels: 12
0.69 0.09 0.22
Matches are distributed among these distances:
19 12 0.32
20 3 0.08
21 2 0.05
22 6 0.16
23 2 0.05
24 4 0.11
25 8 0.22
ACGTcount: A:0.40, C:0.15, G:0.22, T:0.22
Consensus pattern (19 bp):
GCATAACGGTGCATTAAAG
Found at i:1146229 original size:134 final size:135
Alignment explanation
Indices: 1145981--1146271 Score: 460
Period size: 134 Copynumber: 2.2 Consensus size: 135
1145971 GAAATAAAAG
*
1145981 ATTAAAGGCATGAAAGGATGCCATAAATGAAATGCATAACGGAGCATTAAAGGCTTGAAAGGATG
1 ATTAAAGGCATGAAAGGATGCCATAAATGAAATGCATAACGGAGCATTAAAGGCATGAAAGGATG
* *
1146046 CCATAAATGAATTGCATAACGGTGCATTAAAGGCATGAAAGGATTCCATAAATGAAATGCATAAC
66 CCATAAATGAATTGCATAACGGTGAATTAAAGGCATGAAAGGATGCCATAAATGAAATGCATAAC
1146111 CGTGC
131 CGTGC
* *
1146116 ATTAAAGGCATGAAAGGATGTCATAAAT-AAATGCATAACGGTGCATTAAAGGCATGAAAGGATG
1 ATTAAAGGCATGAAAGGATGCCATAAATGAAATGCATAACGGAGCATTAAAGGCATGAAAGGATG
* ** * *
1146180 CCATAAATGTAA-TGCATAACGGTTAATTAAAGGTTTGAAATGATGCCATAAATGAAATGCATAT
66 CCATAAATG-AATTGCATAACGGTGAATTAAAGGCATGAAAGGATGCCATAAATGAAATGCATAA
*
1146244 CGGTGC
130 CCGTGC
1146250 ATTAAAGGCATGAAAGGATGCC
1 ATTAAAGGCATGAAAGGATGCC
1146272 CTTAATAAAA
Statistics
Matches: 143, Mismatches: 12, Indels: 3
0.91 0.08 0.02
Matches are distributed among these distances:
134 114 0.80
135 29 0.20
ACGTcount: A:0.41, C:0.13, G:0.23, T:0.23
Consensus pattern (135 bp):
ATTAAAGGCATGAAAGGATGCCATAAATGAAATGCATAACGGAGCATTAAAGGCATGAAAGGATG
CCATAAATGAATTGCATAACGGTGAATTAAAGGCATGAAAGGATGCCATAAATGAAATGCATAAC
CGTGC
Found at i:1149284 original size:1 final size:1
Alignment explanation
Indices: 1149278--1149312 Score: 52
Period size: 1 Copynumber: 35.0 Consensus size: 1
1149268 CTTTTGCCTC
* *
1149278 TTTTTTTCTTTTTCTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1149313 CCCTACCCTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
1 30 1.00
ACGTcount: A:0.00, C:0.06, G:0.00, T:0.94
Consensus pattern (1 bp):
T
Found at i:1149295 original size:14 final size:14
Alignment explanation
Indices: 1149276--1149313 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
1149266 CTCTTTTGCC
1149276 TCTTTTTTTCTTTT
1 TCTTTTTTTCTTTT
*
1149290 TCTTTTTTTTTTTT
1 TCTTTTTTTCTTTT
*
1149304 TTTTTTTTTC
1 TCTTTTTTTC
1149314 CCTACCCTTC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (14 bp):
TCTTTTTTTCTTTT
Found at i:1149452 original size:18 final size:18
Alignment explanation
Indices: 1149429--1149468 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
1149419 TACAATGCCT
*
1149429 TTATCATAGTATTAGTTA
1 TTATCATAGTATGAGTTA
* *
1149447 TTATCATTGTATGATTTA
1 TTATCATAGTATGAGTTA
1149465 TTAT
1 TTAT
1149469 TCGTGGCAGA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.30, C:0.05, G:0.10, T:0.55
Consensus pattern (18 bp):
TTATCATAGTATGAGTTA
Found at i:1150584 original size:37 final size:37
Alignment explanation
Indices: 1150534--1150691 Score: 196
Period size: 37 Copynumber: 4.1 Consensus size: 37
1150524 CAAGTAAGAT
1150534 TTGAGTTTGTGATCAATTAGTTACGAAATGAGTATTC
1 TTGAGTTTGTGATCAATTAGTTACGAAATGAGTATTC
*
1150571 TTGAGTTTGTGATCAATTAGTTATGAAATGAGTATTC
1 TTGAGTTTGTGATCAATTAGTTACGAAATGAGTATTC
1150608 TTGATTGTCATGTATGTATGAT-AATTA--TACGAAATGAGTATTC
1 TTGA--G---T-T-TG--TGATCAATTAGTTACGAAATGAGTATTC
*
1150651 TTGAGTTTGTGATCAATTAGTTATGAAATGAGTATTC
1 TTGAGTTTGTGATCAATTAGTTACGAAATGAGTATTC
1150688 TTGA
1 TTGA
1150692 TTGTCATGTA
Statistics
Matches: 106, Mismatches: 3, Indels: 24
0.80 0.02 0.18
Matches are distributed among these distances:
34 4 0.04
35 5 0.05
36 2 0.02
37 60 0.57
38 1 0.01
39 1 0.01
41 1 0.01
42 1 0.01
43 20 0.19
44 2 0.02
45 5 0.05
46 4 0.04
ACGTcount: A:0.30, C:0.06, G:0.21, T:0.42
Consensus pattern (37 bp):
TTGAGTTTGTGATCAATTAGTTACGAAATGAGTATTC
Found at i:1150648 original size:43 final size:41
Alignment explanation
Indices: 1150591--1150717 Score: 156
Period size: 41 Copynumber: 3.1 Consensus size: 41
1150581 GATCAATTAG
1150591 TTATGAAATGAGTATTCTTGATTGTCATGTATGTATGATAA
1 TTATGAAATGAGTATTCTTGATTGTCATGTATGTATGATAA
* ** *
1150632 TTATACGAAATGAGTATTCTTGA--GT-TTGTGATCAAT--TAG
1 TTAT--GAAATGAGTATTCTTGATTGTCATGT-ATGTATGATAA
1150671 TTATGAAATGAGTATTCTTGATTGTCATGTATGTATGATAA
1 TTATGAAATGAGTATTCTTGATTGTCATGTATGTATGATAA
1150712 TTATGA
1 TTATGA
1150718 TAATACCTTT
Statistics
Matches: 70, Mismatches: 8, Indels: 16
0.74 0.09 0.17
Matches are distributed among these distances:
37 17 0.24
39 12 0.17
40 6 0.09
41 18 0.26
43 17 0.24
ACGTcount: A:0.31, C:0.06, G:0.20, T:0.43
Consensus pattern (41 bp):
TTATGAAATGAGTATTCTTGATTGTCATGTATGTATGATAA
Found at i:1150653 original size:80 final size:80
Alignment explanation
Indices: 1150555--1150715 Score: 322
Period size: 80 Copynumber: 2.0 Consensus size: 80
1150545 ATCAATTAGT
1150555 TACGAAATGAGTATTCTTGAGTTTGTGATCAATTAGTTATGAAATGAGTATTCTTGATTGTCATG
1 TACGAAATGAGTATTCTTGAGTTTGTGATCAATTAGTTATGAAATGAGTATTCTTGATTGTCATG
1150620 TATGTATGATAATTA
66 TATGTATGATAATTA
1150635 TACGAAATGAGTATTCTTGAGTTTGTGATCAATTAGTTATGAAATGAGTATTCTTGATTGTCATG
1 TACGAAATGAGTATTCTTGAGTTTGTGATCAATTAGTTATGAAATGAGTATTCTTGATTGTCATG
1150700 TATGTATGATAATTA
66 TATGTATGATAATTA
1150715 T
1 T
1150716 GATAATACCT
Statistics
Matches: 81, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
80 81 1.00
ACGTcount: A:0.31, C:0.06, G:0.20, T:0.43
Consensus pattern (80 bp):
TACGAAATGAGTATTCTTGAGTTTGTGATCAATTAGTTATGAAATGAGTATTCTTGATTGTCATG
TATGTATGATAATTA
Found at i:1150788 original size:18 final size:19
Alignment explanation
Indices: 1150747--1150785 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
1150737 TTGGTTCACA
1150747 GAATGTAAGATTACCAGTGG
1 GAATGTAAGATTACCAG-GG
*
1150767 GAATGTAAGATTATCAGGG
1 GAATGTAAGATTACCAGGG
1150786 AATAGGATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 2 0.11
20 16 0.89
ACGTcount: A:0.36, C:0.08, G:0.31, T:0.26
Consensus pattern (19 bp):
GAATGTAAGATTACCAGGG
Found at i:1154154 original size:31 final size:31
Alignment explanation
Indices: 1154115--1154187 Score: 92
Period size: 31 Copynumber: 2.4 Consensus size: 31
1154105 GTCGAGTGGT
* * *
1154115 CAATTTGTTATAAATCGATAAAGTTAGTGAC
1 CAATTTGTTACAAATAGATAAAGATAGTGAC
* * *
1154146 TAATTTGTTACAAATAGATAACGATGGTGAC
1 CAATTTGTTACAAATAGATAAAGATAGTGAC
1154177 CAATTTGTTAC
1 CAATTTGTTAC
1154188 TTTTGAAACA
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.37, C:0.11, G:0.16, T:0.36
Consensus pattern (31 bp):
CAATTTGTTACAAATAGATAAAGATAGTGAC
Found at i:1160084 original size:2 final size:2
Alignment explanation
Indices: 1160077--1160109 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
1160067 CCTTAATCAA
1160077 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 A
1160110 AATAATAATT
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:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1162771 original size:21 final size:21
Alignment explanation
Indices: 1162745--1162823 Score: 131
Period size: 21 Copynumber: 3.8 Consensus size: 21
1162735 ACTAGTGGCA
1162745 GGTGCATGGATGCACTGCAGG
1 GGTGCATGGATGCACTGCAGG
*
1162766 GGTGCATGGATGCACTGCAAG
1 GGTGCATGGATGCACTGCAGG
* *
1162787 GGTGTATGGATGCACTGTAGG
1 GGTGCATGGATGCACTGCAGG
1162808 GGTGCATGGATGCACT
1 GGTGCATGGATGCACT
1162824 TTGACACCCT
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 53 1.00
ACGTcount: A:0.20, C:0.16, G:0.41, T:0.23
Consensus pattern (21 bp):
GGTGCATGGATGCACTGCAGG
Found at i:1166661 original size:22 final size:22
Alignment explanation
Indices: 1166636--1166699 Score: 74
Period size: 22 Copynumber: 2.9 Consensus size: 22
1166626 ATATGAAATT
*
1166636 TGTCTCGAAGGACCTATGTATA
1 TGTCCCGAAGGACCTATGTATA
* * * *
1166658 TGTCCCGACGAACCTCTGTATT
1 TGTCCCGAAGGACCTATGTATA
*
1166680 TGTCCCGAATGACCTATGTA
1 TGTCCCGAAGGACCTATGTA
1166700 ACCCTCGACT
Statistics
Matches: 33, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.23, C:0.25, G:0.20, T:0.31
Consensus pattern (22 bp):
TGTCCCGAAGGACCTATGTATA
Found at i:1166833 original size:21 final size:24
Alignment explanation
Indices: 1166789--1166836 Score: 66
Period size: 21 Copynumber: 2.1 Consensus size: 24
1166779 TTCATGTATT
1166789 TATATCATTTCTCTTGTAATCACA
1 TATATCATTTCTCTTGTAATCACA
*
1166813 TATATC-TTT-TCTT-TTATCACA
1 TATATCATTTCTCTTGTAATCACA
1166834 TAT
1 TAT
1166837 CACATGTACA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 10 0.43
22 4 0.17
23 3 0.13
24 6 0.26
ACGTcount: A:0.27, C:0.19, G:0.02, T:0.52
Consensus pattern (24 bp):
TATATCATTTCTCTTGTAATCACA
Found at i:1168888 original size:70 final size:70
Alignment explanation
Indices: 1168729--1168864 Score: 218
Period size: 70 Copynumber: 1.9 Consensus size: 70
1168719 GAGGAGTCCC
* * * * *
1168729 GATACTCTATAAACAATACCGATACTACGATTGTATTTTATCTAGATTTCTTCATCAGTTCATTT
1 GATACTCTATAAACAATATCAATACTACCATTGTATTTTATCCAAATTTCTTCATCAGTTCATTT
1168794 GTATA
66 GTATA
*
1168799 GATACTCTATAAACAATATCAATACTACCATTGTATTTTATCCAAATTTTTTCATCAGTTCATTT
1 GATACTCTATAAACAATATCAATACTACCATTGTATTTTATCCAAATTTCTTCATCAGTTCATTT
1168864 G
66 G
1168865 GTATTGTATT
Statistics
Matches: 60, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
70 60 1.00
ACGTcount: A:0.32, C:0.18, G:0.08, T:0.42
Consensus pattern (70 bp):
GATACTCTATAAACAATATCAATACTACCATTGTATTTTATCCAAATTTCTTCATCAGTTCATTT
GTATA
Found at i:1174605 original size:21 final size:21
Alignment explanation
Indices: 1174580--1174641 Score: 74
Period size: 21 Copynumber: 2.9 Consensus size: 21
1174570 TTAACATTAG
1174580 TACGAAAGTGTCTTACACTAA
1 TACGAAAGTGTCTTACACTAA
*
1174601 TACGAAAGTG-CATTCGCACTAA
1 TACGAAAGTGTC-TT-ACACTAA
1174623 TAC-AAAGTGTCTTAGCACT
1 TACGAAAGTGTCTTA-CACT
1174642 GCATAGATCG
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
20 1 0.03
21 24 0.69
22 10 0.29
ACGTcount: A:0.35, C:0.21, G:0.16, T:0.27
Consensus pattern (21 bp):
TACGAAAGTGTCTTACACTAA
Found at i:1177105 original size:24 final size:24
Alignment explanation
Indices: 1177078--1177141 Score: 66
Period size: 24 Copynumber: 2.8 Consensus size: 24
1177068 CTTCGATGCA
*
1177078 TAAGGAGTGCATCGATGCACACGT
1 TAAGGAGTGCATCGATGCACACGG
1177102 TAAGG-GATGCATCGAT--ACACGG
1 TAAGGAG-TGCATCGATGCACACGG
*
1177124 T-AGGA-TGTATCGATGCAC
1 TAAGGAGTGCATCGATGCAC
1177142 TTCAAGGGGA
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
20 8 0.24
21 3 0.09
22 8 0.24
23 1 0.03
24 14 0.41
ACGTcount: A:0.30, C:0.19, G:0.30, T:0.22
Consensus pattern (24 bp):
TAAGGAGTGCATCGATGCACACGG
Found at i:1178071 original size:5 final size:5
Alignment explanation
Indices: 1178062--1178693 Score: 1207
Period size: 5 Copynumber: 126.6 Consensus size: 5
1178052 GTGTGATAGC
* *
1178062 ATGAC ATGAC ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT
1 ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT
1178112 ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT
1 ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT
1178162 ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT
1 ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT
1178212 ATGAT ATGAT ATGAT ATGAT ATGAT ATG-- ATGAT ATGAT ATGAT ATGAT
1 ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT
1178260 ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT
1 ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT
1178310 ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT
1 ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT
1178360 ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT
1 ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT
1178410 ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGATAT ATGAT
1 ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATG--AT ATGAT
1178462 ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT AT-AT ATGAT ATGAT ATGAT
1 ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT
1178511 ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT
1 ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT
1178561 ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT
1 ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT
1178611 ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT
1 ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT
1178661 ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATG
1 ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATG
1178694 TTCATGCATG
Statistics
Matches: 621, Mismatches: 1, Indels: 10
0.98 0.00 0.02
Matches are distributed among these distances:
3 3 0.00
4 4 0.01
5 609 0.98
7 5 0.01
ACGTcount: A:0.40, C:0.00, G:0.20, T:0.40
Consensus pattern (5 bp):
ATGAT
Found at i:1181036 original size:49 final size:49
Alignment explanation
Indices: 1180958--1181582 Score: 839
Period size: 49 Copynumber: 12.8 Consensus size: 49
1180948 AGTCAGTGCC
* * * *
1180958 AATGCATCGTTATGCATTTAA-TTCACATTAGTGGCACCTTTCTGCTAAA
1 AATGCACCATTATGCATTTAACTT-GCATTAGTGGCACCTTTCTGCCAAA
* *
1181007 AATGCATCATTATGCATTTAACTCGCATTAGTGGCACCTTTCTGCCAAA
1 AATGCACCATTATGCATTTAACTTGCATTAGTGGCACCTTTCTGCCAAA
* * *
1181056 AATGCACCATTATGGATTTAACTTCCATTAGTGGCACCTTTCTACCAAA
1 AATGCACCATTATGCATTTAACTTGCATTAGTGGCACCTTTCTGCCAAA
* * * **
1181105 AATGCACCATTATGCATTTAAATTGCATTAGTGGCACATTTATATC-AA
1 AATGCACCATTATGCATTTAACTTGCATTAGTGGCACCTTTCTGCCAAA
**
1181153 AATGCACCATTATGCATTTAACTTGCATTAGTGATACCTTTCTGCCAAA
1 AATGCACCATTATGCATTTAACTTGCATTAGTGGCACCTTTCTGCCAAA
* *
1181202 AATGCATCATTATGCATTTAACTTGCATTAGTGGCACATTT-TAGCCAAA
1 AATGCACCATTATGCATTTAACTTGCATTAGTGGCACCTTTCT-GCCAAA
* *
1181251 AATGCACCATTATGCATTTAACTTGTATTAGTGGCACGTTTCTGCC-AA
1 AATGCACCATTATGCATTTAACTTGCATTAGTGGCACCTTTCTGCCAAA
* *
1181299 AATGCATCATTATGCATTTAACTCGCATTAGTGGCACCTTTCTG-CAAA
1 AATGCACCATTATGCATTTAACTTGCATTAGTGGCACCTTTCTGCCAAA
* * * *
1181347 AATGCACCATTATTCATTTAATTTGCATTAGTGGAACCTTTTTGCCAAA
1 AATGCACCATTATGCATTTAACTTGCATTAGTGGCACCTTTCTGCCAAA
* * * * *
1181396 AATGCACCATTATGAATTTAAATTGCACTACTGGCACATTTCTGCCAAA
1 AATGCACCATTATGCATTTAACTTGCATTAGTGGCACCTTTCTGCCAAA
* ** *
1181445 AATGCATCATTATGCATTTAACTTGCATTAGTGATACATTT-TGCCAAA
1 AATGCACCATTATGCATTTAACTTGCATTAGTGGCACCTTTCTGCCAAA
* * *
1181493 AATGCATCATTATGCATTTAACTTGCATTAGTAGCACATTTCTGCCAAA
1 AATGCACCATTATGCATTTAACTTGCATTAGTGGCACCTTTCTGCCAAA
*
1181542 AATGCACCATTATGCATTTAACTTGCATTAATGGCACCTTT
1 AATGCACCATTATGCATTTAACTTGCATTAGTGGCACCTTT
1181583 ATGCATTTAA
Statistics
Matches: 508, Mismatches: 61, Indels: 14
0.87 0.10 0.02
Matches are distributed among these distances:
47 1 0.00
48 169 0.33
49 336 0.66
50 2 0.00
ACGTcount: A:0.31, C:0.21, G:0.13, T:0.35
Consensus pattern (49 bp):
AATGCACCATTATGCATTTAACTTGCATTAGTGGCACCTTTCTGCCAAA
Found at i:1181201 original size:97 final size:98
Alignment explanation
Indices: 1180958--1181582 Score: 850
Period size: 97 Copynumber: 6.4 Consensus size: 98
1180948 AGTCAGTGCC
* * * * *
1180958 AATGCATCGTTATGCATTTAA-TTCACATTAGTGGCACCTTTCTGCTAAAAATGCATCATTATGC
1 AATGCACCATTATGCATTTAACTT-GCATTAGTGACACCTTTCTGCCAAAAATGCATCATTATGC
* *
1181022 ATTTAACTCGCATTAGTGGCACCTTTCTGCCAAA
65 ATTTAACTTGCATTAGTGGCACATTTCTGCCAAA
* * * * *
1181056 AATGCACCATTATGGATTTAACTTCCATTAGTGGCACCTTTCTACCAAAAATGCACCATTATGCA
1 AATGCACCATTATGCATTTAACTTGCATTAGTGACACCTTTCTGCCAAAAATGCATCATTATGCA
* * **
1181121 TTTAAATTGCATTAGTGGCACATTTATATC-AA
66 TTTAACTTGCATTAGTGGCACATTTCTGCCAAA
*
1181153 AATGCACCATTATGCATTTAACTTGCATTAGTGATACCTTTCTGCCAAAAATGCATCATTATGCA
1 AATGCACCATTATGCATTTAACTTGCATTAGTGACACCTTTCTGCCAAAAATGCATCATTATGCA
1181218 TTTAACTTGCATTAGTGGCACATTT-TAGCCAAA
66 TTTAACTTGCATTAGTGGCACATTTCT-GCCAAA
* * *
1181251 AATGCACCATTATGCATTTAACTTGTATTAGTGGCACGTTTCTGCC-AAAATGCATCATTATGCA
1 AATGCACCATTATGCATTTAACTTGCATTAGTGACACCTTTCTGCCAAAAATGCATCATTATGCA
* *
1181315 TTTAACTCGCATTAGTGGCACCTTTCTG-CAAA
66 TTTAACTTGCATTAGTGGCACATTTCTGCCAAA
* * * * *
1181347 AATGCACCATTATTCATTTAATTTGCATTAGTGGA-ACCTTTTTGCCAAAAATGCACCATTATGA
1 AATGCACCATTATGCATTTAACTTGCATTAGT-GACACCTTTCTGCCAAAAATGCATCATTATGC
* * *
1181411 ATTTAAATTGCACTACTGGCACATTTCTGCCAAA
65 ATTTAACTTGCATTAGTGGCACATTTCTGCCAAA
* * *
1181445 AATGCATCATTATGCATTTAACTTGCATTAGTGATACATTT-TGCCAAAAATGCATCATTATGCA
1 AATGCACCATTATGCATTTAACTTGCATTAGTGACACCTTTCTGCCAAAAATGCATCATTATGCA
*
1181509 TTTAACTTGCATTAGTAGCACATTTCTGCCAAA
66 TTTAACTTGCATTAGTGGCACATTTCTGCCAAA
* *
1181542 AATGCACCATTATGCATTTAACTTGCATTAATGGCACCTTT
1 AATGCACCATTATGCATTTAACTTGCATTAGTGACACCTTT
1181583 ATGCATTTAA
Statistics
Matches: 463, Mismatches: 56, Indels: 17
0.86 0.10 0.03
Matches are distributed among these distances:
96 43 0.09
97 256 0.55
98 162 0.35
99 2 0.00
ACGTcount: A:0.31, C:0.21, G:0.13, T:0.35
Consensus pattern (98 bp):
AATGCACCATTATGCATTTAACTTGCATTAGTGACACCTTTCTGCCAAAAATGCATCATTATGCA
TTTAACTTGCATTAGTGGCACATTTCTGCCAAA
Found at i:1181223 original size:146 final size:146
Alignment explanation
Indices: 1180958--1181578 Score: 845
Period size: 146 Copynumber: 4.3 Consensus size: 146
1180948 AGTCAGTGCC
* * * * *
1180958 AATGCATCGTTATGCATTT-AATTCACATTAGTGGCACCTTTCTGCTAAAAATGCATCATTATGC
1 AATGCACCATTATGCATTTAAATT-GCATTAGTGGCACATTTCTGC-CAAAATGCATCATTATGC
* * *
1181022 ATTTAACTCGCATTAGTGGCACCTTTCTGCCAAAAATGCACCATTATGGATTTAACTTCCATTAG
64 ATTTAACTCGCATTAGTGACACCTTTCTGCCAAAAATGCACCATTATGCATTTAACTTGCATTAG
*
1181087 TGGCACCTTTCTACCAAA
129 TGGCACATTTCTACCAAA
* ** *
1181105 AATGCACCATTATGCATTTAAATTGCATTAGTGGCACATTTATATCAAAATGCACCATTATGCAT
1 AATGCACCATTATGCATTTAAATTGCATTAGTGGCACATTTCTGCCAAAATGCATCATTATGCAT
* * *
1181170 TTAACTTGCATTAGTGATACCTTTCTGCCAAAAATGCATCATTATGCATTTAACTTGCATTAGTG
66 TTAACTCGCATTAGTGACACCTTTCTGCCAAAAATGCACCATTATGCATTTAACTTGCATTAGTG
1181235 GCACATTT-TAGCCAAA
131 GCACATTTCTA-CCAAA
* * *
1181251 AATGCACCATTATGCATTTAACTTGTATTAGTGGCACGTTTCTGCCAAAATGCATCATTATGCAT
1 AATGCACCATTATGCATTTAAATTGCATTAGTGGCACATTTCTGCCAAAATGCATCATTATGCAT
* * *
1181316 TTAACTCGCATTAGTGGCACCTTTCTG-CAAAAATGCACCATTATTCATTTAATTTGCATTAGTG
66 TTAACTCGCATTAGTGACACCTTTCTGCCAAAAATGCACCATTATGCATTTAACTTGCATTAGTG
* * * *
1181380 GAACCTTTTTGCCAAA
131 GCACATTTCTACCAAA
* * *
1181396 AATGCACCATTATGAATTTAAATTGCACTACTGGCACATTTCTGCCAAAAATGCATCATTATGCA
1 AATGCACCATTATGCATTTAAATTGCATTAGTGGCACATTTCTGCC-AAAATGCATCATTATGCA
* * * *
1181461 TTTAACTTGCATTAGTGATACATTT-TGCCAAAAATGCATCATTATGCATTTAACTTGCATTAGT
65 TTTAACTCGCATTAGTGACACCTTTCTGCCAAAAATGCACCATTATGCATTTAACTTGCATTAGT
* *
1181525 AGCACATTTCTGCCAAA
130 GGCACATTTCTACCAAA
* *
1181542 AATGCACCATTATGCATTTAACTTGCATTAATGGCAC
1 AATGCACCATTATGCATTTAAATTGCATTAGTGGCAC
1181579 CTTTATGCAT
Statistics
Matches: 416, Mismatches: 53, Indels: 11
0.87 0.11 0.02
Matches are distributed among these distances:
145 89 0.21
146 290 0.70
147 33 0.08
148 4 0.01
ACGTcount: A:0.31, C:0.21, G:0.13, T:0.35
Consensus pattern (146 bp):
AATGCACCATTATGCATTTAAATTGCATTAGTGGCACATTTCTGCCAAAATGCATCATTATGCAT
TTAACTCGCATTAGTGACACCTTTCTGCCAAAAATGCACCATTATGCATTTAACTTGCATTAGTG
GCACATTTCTACCAAA
Found at i:1181579 original size:30 final size:30
Alignment explanation
Indices: 1181545--1181601 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
1181535 TGCCAAAAAT
1181545 GCACCATTATGCATTTAACTTGCATTAATG
1 GCACCATTATGCATTTAACTTGCATTAATG
* *
1181575 GCACCTTTATGCATTTAACTTTCATTA
1 GCACCATTATGCATTTAACTTGCATTA
1181602 TAGAGCAGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.28, C:0.21, G:0.11, T:0.40
Consensus pattern (30 bp):
GCACCATTATGCATTTAACTTGCATTAATG
Found at i:1211711 original size:23 final size:23
Alignment explanation
Indices: 1211678--1211721 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
1211668 AATCACCCCA
* *
1211678 TCCCCTTCCCCGACCTTTCTGCC
1 TCCCCTACCCCAACCTTTCTGCC
1211701 TCCCCTACCCCAACCTTTCTG
1 TCCCCTACCCCAACCTTTCTG
1211722 GTTCTAGCCT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.09, C:0.55, G:0.07, T:0.30
Consensus pattern (23 bp):
TCCCCTACCCCAACCTTTCTGCC
Found at i:1213091 original size:35 final size:35
Alignment explanation
Indices: 1213045--1213131 Score: 97
Period size: 34 Copynumber: 2.5 Consensus size: 35
1213035 CTCATCAAAT
* ** *
1213045 TAAAACGTGAATTGGGCTTCA-GATTCCAGTGCACA
1 TAAAACGTGAATTGGGCTT-ATGACTAAAATGCACA
* *
1213080 TAAAACGTGAATTAGGC-TATGGCTAAAATGCACA
1 TAAAACGTGAATTGGGCTTATGACTAAAATGCACA
1213114 TAAAACGTGAATTGGGCT
1 TAAAACGTGAATTGGGCT
1213132 AAACGTGAAA
Statistics
Matches: 43, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
33 1 0.02
34 26 0.60
35 16 0.37
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (35 bp):
TAAAACGTGAATTGGGCTTATGACTAAAATGCACA
Found at i:1216758 original size:22 final size:23
Alignment explanation
Indices: 1216732--1216774 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
1216722 AAATGACCGA
1216732 AAAATATGCCA-AAAGATAAAGG
1 AAAATATGCCATAAAGATAAAGG
* *
1216754 AAAATGTGTCATAAAGATAAA
1 AAAATATGCCATAAAGATAAA
1216775 TAAAAACGTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 9 0.50
23 9 0.50
ACGTcount: A:0.58, C:0.07, G:0.16, T:0.19
Consensus pattern (23 bp):
AAAATATGCCATAAAGATAAAGG
Found at i:1216780 original size:23 final size:23
Alignment explanation
Indices: 1216743--1216813 Score: 79
Period size: 23 Copynumber: 3.0 Consensus size: 23
1216733 AAATATGCCA
**
1216743 AAAGATAAAGGAAAATGTGTCAT
1 AAAGATAAATAAAAATGTGTCAT
* * *
1216766 AAAGATAAATAAAAACGTATCTT
1 AAAGATAAATAAAAATGTGTCAT
*
1216789 AAAGATAAATAAAAAATATGTCAT
1 AAAGATAAAT-AAAAATGTGTCAT
1216813 A
1 A
1216814 TAAATAGATT
Statistics
Matches: 38, Mismatches: 9, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
23 28 0.74
24 10 0.26
ACGTcount: A:0.58, C:0.06, G:0.13, T:0.24
Consensus pattern (23 bp):
AAAGATAAATAAAAATGTGTCAT
Found at i:1221730 original size:42 final size:42
Alignment explanation
Indices: 1221684--1221768 Score: 125
Period size: 42 Copynumber: 2.0 Consensus size: 42
1221674 TATGTAACAC
*
1221684 GAATTGTTAACTTATCAAAATACATAAAATGATATTAATACA
1 GAATTGTTAACATATCAAAATACATAAAATGATATTAATACA
* * * *
1221726 GAATTGTTGACATGTTAAAATACATAAAATGGTATTAATACA
1 GAATTGTTAACATATCAAAATACATAAAATGATATTAATACA
1221768 G
1 G
1221769 GGATTGCCAG
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.47, C:0.08, G:0.12, T:0.33
Consensus pattern (42 bp):
GAATTGTTAACATATCAAAATACATAAAATGATATTAATACA
Found at i:1224981 original size:58 final size:58
Alignment explanation
Indices: 1224919--1225032 Score: 142
Period size: 58 Copynumber: 2.0 Consensus size: 58
1224909 ATAGAAATGG
* * * * *
1224919 TTTTTAATTATATA-CTATATTTTGTTGAGTATCTCGA-TTATTAAAAGTTATAAAATA
1 TTTTTTATTATAGAGCTATATTTTGTTGAGT-CCTCCAGTTATTAAAAATTATAAAATA
* *
1224976 TTTTTTATTATAGAGTTTTATTTTGTTGAGTCCTCCAGTTATTAAAAATTATAAAAT
1 TTTTTTATTATAGAGCTATATTTTGTTGAGTCCTCCAGTTATTAAAAATTATAAAAT
1225033 GATCATTTAA
Statistics
Matches: 48, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
57 16 0.33
58 32 0.67
ACGTcount: A:0.34, C:0.06, G:0.10, T:0.50
Consensus pattern (58 bp):
TTTTTTATTATAGAGCTATATTTTGTTGAGTCCTCCAGTTATTAAAAATTATAAAATA
Found at i:1229528 original size:18 final size:20
Alignment explanation
Indices: 1229500--1229536 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
1229490 TTAAATTATT
1229500 AATACTCAATTA-TTTTTTA
1 AATACTCAATTAGTTTTTTA
1229519 AATACT-AATTAGTTTTTT
1 AATACTCAATTAGTTTTTT
1229537 TTGGTTCGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.35, C:0.08, G:0.03, T:0.54
Consensus pattern (20 bp):
AATACTCAATTAGTTTTTTA
Found at i:1230559 original size:43 final size:43
Alignment explanation
Indices: 1230498--1230752 Score: 411
Period size: 43 Copynumber: 5.9 Consensus size: 43
1230488 ACAACTTTTC
* *
1230498 AAACTGTAAGGCTTACCCTTGTACACAGCAAAGGGACCTGGGG
1 AAACTGTAAGGCTTACCCTTGCACACAGCAAAGGAACCTGGGG
*
1230541 AAACTGTAAGGCTTACCCTTGCACACAGCAAAAGAACCTGGGG
1 AAACTGTAAGGCTTACCCTTGCACACAGCAAAGGAACCTGGGG
* *
1230584 AAACTGTAAGGCTTACCCTTGCACACAACAAAGGGACCTGGGG
1 AAACTGTAAGGCTTACCCTTGCACACAGCAAAGGAACCTGGGG
* *
1230627 AAACTGTAAGGCTTACCCTTGCACACAACAAAGGAACTTGGGG
1 AAACTGTAAGGCTTACCCTTGCACACAGCAAAGGAACCTGGGG
* * *
1230670 AAACTGTAAGGCTTACCATTGCAAACAGCAAAGGGACCTGGGG
1 AAACTGTAAGGCTTACCCTTGCACACAGCAAAGGAACCTGGGG
*
1230713 AAACTGTAAGGCTTACCCTTGCACACAGTAAAGGAACCTG
1 AAACTGTAAGGCTTACCCTTGCACACAGCAAAGGAACCTG
1230753 TTGTAACAGT
Statistics
Matches: 195, Mismatches: 17, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 195 1.00
ACGTcount: A:0.34, C:0.24, G:0.25, T:0.18
Consensus pattern (43 bp):
AAACTGTAAGGCTTACCCTTGCACACAGCAAAGGAACCTGGGG
Found at i:1236937 original size:31 final size:31
Alignment explanation
Indices: 1236895--1236961 Score: 116
Period size: 31 Copynumber: 2.2 Consensus size: 31
1236885 TTAACGTTTC
*
1236895 AATGATTATATCTTAATTAAAACAAAATAAA
1 AATGATCATATCTTAATTAAAACAAAATAAA
*
1236926 AATGATCATATCTTAATTAAAACAAAATGAA
1 AATGATCATATCTTAATTAAAACAAAATAAA
1236957 AATGA
1 AATGA
1236962 CTACAAATTA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.57, C:0.07, G:0.06, T:0.30
Consensus pattern (31 bp):
AATGATCATATCTTAATTAAAACAAAATAAA
Found at i:1237123 original size:41 final size:41
Alignment explanation
Indices: 1237066--1237147 Score: 137
Period size: 41 Copynumber: 2.0 Consensus size: 41
1237056 AATCCCCGAT
*
1237066 TCTCTACCTCTCTCCGTCGCTAGTCGTTTAATCAAACTTAG
1 TCTCTACCTCTCTCCGTCGCTAGTCATTTAATCAAACTTAG
* *
1237107 TCTCTACCTCTCTCCGTTGTTAGTCATTTAATCAAACTTAG
1 TCTCTACCTCTCTCCGTCGCTAGTCATTTAATCAAACTTAG
1237148 GGCTAGTCAT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.21, C:0.29, G:0.11, T:0.39
Consensus pattern (41 bp):
TCTCTACCTCTCTCCGTCGCTAGTCATTTAATCAAACTTAG
Found at i:1237159 original size:24 final size:24
Alignment explanation
Indices: 1237127--1237173 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
1237117 TCTCCGTTGT
1237127 TAGTCATTTAATCAAACTTAGGGC
1 TAGTCATTTAATCAAACTTAGGGC
1237151 TAGTCATTTAATCAAACTTAGGG
1 TAGTCATTTAATCAAACTTAGGG
1237174 TGTGTTTAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.34, C:0.15, G:0.17, T:0.34
Consensus pattern (24 bp):
TAGTCATTTAATCAAACTTAGGGC
Found at i:1237205 original size:14 final size:15
Alignment explanation
Indices: 1237186--1237216 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
1237176 TGTTTAATAA
1237186 TTGAAAAATATT-TT
1 TTGAAAAATATTATT
1237200 TTGAAAAATATTATT
1 TTGAAAAATATTATT
1237215 TT
1 TT
1237217 ATTTTACTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 12 0.75
15 4 0.25
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.52
Consensus pattern (15 bp):
TTGAAAAATATTATT
Found at i:1237278 original size:41 final size:42
Alignment explanation
Indices: 1237233--1237318 Score: 95
Period size: 42 Copynumber: 2.1 Consensus size: 42
1237223 CTATATCGAG
* *
1237233 TAGTTAGAAAATA-TATT-TAATAAATATTTTTCAGTATTTGA
1 TAGTT-GAAAATATTATTATAAAAAACATTTTTCAGTATTTGA
* * * *
1237274 TAGTTGTAATTATTTTTATAAAAAACATTTTTCAGTTTTTGA
1 TAGTTGAAAATATTATTATAAAAAACATTTTTCAGTATTTGA
1237316 TAG
1 TAG
1237319 CTGTAATTGA
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
40 5 0.14
41 8 0.22
42 24 0.65
ACGTcount: A:0.37, C:0.03, G:0.10, T:0.49
Consensus pattern (42 bp):
TAGTTGAAAATATTATTATAAAAAACATTTTTCAGTATTTGA
Found at i:1237731 original size:19 final size:19
Alignment explanation
Indices: 1237685--1237723 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
1237675 TTAATAATGA
*
1237685 TTAATATTAATCTATATAT
1 TTAATATTAATATATATAT
1237704 TTAATATTAATATA-ATAT
1 TTAATATTAATATATATAT
1237722 TT
1 TT
1237724 TAGTATTATG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 6 0.32
19 13 0.68
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.54
Consensus pattern (19 bp):
TTAATATTAATATATATAT
Found at i:1238048 original size:30 final size:30
Alignment explanation
Indices: 1238014--1238094 Score: 126
Period size: 30 Copynumber: 2.7 Consensus size: 30
1238004 TTTTAAAAAA
*
1238014 ATATAATTCATTTTACATAAAACAATTTTT
1 ATATAATTCATTTTACATAAAACAATTTTC
* *
1238044 ATATAATTCATTTTACGTAAAATAATTTTC
1 ATATAATTCATTTTACATAAAACAATTTTC
*
1238074 AAATAATTCATTTTACATAAA
1 ATATAATTCATTTTACATAAA
1238095 TTATTTTTCA
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 46 1.00
ACGTcount: A:0.44, C:0.10, G:0.01, T:0.44
Consensus pattern (30 bp):
ATATAATTCATTTTACATAAAACAATTTTC
Found at i:1238100 original size:14 final size:15
Alignment explanation
Indices: 1238018--1238108 Score: 64
Period size: 15 Copynumber: 6.1 Consensus size: 15
1238008 AAAAAAATAT
1238018 AATTCATTTTACATA
1 AATTCATTTTACATA
* *
1238033 AA-ACAATTTT-TATA
1 AATTC-ATTTTACATA
*
1238047 TAATTCATTTTACGTA
1 -AATTCATTTTACATA
* * *
1238063 AAATAATTTT-CAAA
1 AATTCATTTTACATA
1238077 TAATTCATTTTACATA
1 -AATTCATTTTACATA
*
1238093 AATT-ATTTTTCATA
1 AATTCATTTTACATA
1238107 AA
1 AA
1238109 ACATTTTTAA
Statistics
Matches: 57, Mismatches: 13, Indels: 13
0.69 0.16 0.16
Matches are distributed among these distances:
14 17 0.30
15 34 0.60
16 6 0.11
ACGTcount: A:0.43, C:0.10, G:0.01, T:0.46
Consensus pattern (15 bp):
AATTCATTTTACATA
Found at i:1238103 original size:30 final size:30
Alignment explanation
Indices: 1238016--1238104 Score: 117
Period size: 30 Copynumber: 3.0 Consensus size: 30
1238006 TTAAAAAAAT
* *
1238016 ATAATTCATTTTACATAAAACAATTTTT-AT
1 ATAATTCATTTTACATAAAA-TATTTTTCAA
* *
1238046 ATAATTCATTTTACGTAAAATAATTTTCAA
1 ATAATTCATTTTACATAAAATATTTTTCAA
*
1238076 ATAATTCATTTTACATAAATTATTTTTCA
1 ATAATTCATTTTACATAAAATATTTTTCA
1238105 TAAAACATTT
Statistics
Matches: 51, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
29 5 0.10
30 46 0.90
ACGTcount: A:0.42, C:0.10, G:0.01, T:0.47
Consensus pattern (30 bp):
ATAATTCATTTTACATAAAATATTTTTCAA
Found at i:1239171 original size:14 final size:14
Alignment explanation
Indices: 1239134--1239161 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
1239124 CGCCACTCGC
1239134 ATCGAAGCCTGCCT
1 ATCGAAGCCTGCCT
1239148 ATCGAAGCCTGCCT
1 ATCGAAGCCTGCCT
1239162 CGTCAAGCCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.36, G:0.21, T:0.21
Consensus pattern (14 bp):
ATCGAAGCCTGCCT
Found at i:1245906 original size:2 final size:2
Alignment explanation
Indices: 1245899--1245976 Score: 156
Period size: 2 Copynumber: 39.0 Consensus size: 2
1245889 AACAATTTGA
1245899 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1245941 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1245977 TTTTTGAAAA
Statistics
Matches: 76, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 76 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1258323 original size:24 final size:23
Alignment explanation
Indices: 1258296--1258355 Score: 54
Period size: 21 Copynumber: 2.7 Consensus size: 23
1258286 TACCCCATAG
1258296 GGTACTGATACCCCTATACAAAGA
1 GGTACTGATACCCCTATACAAA-A
* *
1258320 GGTA-TCGATA--CCTATCCCAAA
1 GGTACT-GATACCCCTATACAAAA
*
1258341 GGTACCGATACCCCT
1 GGTACTGATACCCCT
1258356 TATGTTAATT
Statistics
Matches: 29, Mismatches: 3, Indels: 9
0.71 0.07 0.22
Matches are distributed among these distances:
21 9 0.31
22 8 0.28
23 4 0.14
24 8 0.28
ACGTcount: A:0.32, C:0.30, G:0.17, T:0.22
Consensus pattern (23 bp):
GGTACTGATACCCCTATACAAAA
Found at i:1259039 original size:20 final size:20
Alignment explanation
Indices: 1259014--1259059 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
1259004 TAAATCGTTG
1259014 TGCAAATATTTTCAATTTTC
1 TGCAAATATTTTCAATTTTC
1259034 TGCAAATATTTTCAATTTTC
1 TGCAAATATTTTCAATTTTC
*
1259054 TTCAAA
1 TGCAAA
1259060 AGCTTCCACC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.33, C:0.15, G:0.04, T:0.48
Consensus pattern (20 bp):
TGCAAATATTTTCAATTTTC
Found at i:1264201 original size:82 final size:83
Alignment explanation
Indices: 1263979--1264178 Score: 258
Period size: 83 Copynumber: 2.4 Consensus size: 83
1263969 CAAAATGGTA
* * * *
1263979 ACTTTAGCAGCGTTTTTATATAAACGTCGTAATAGGGTTAATATATAGTGGTATTTTTCCAACAA
1 ACTTTAGCGGCGTTTTTATATAAATGTCGTAATAGGGTTCATCTATAGTGGTATTTTTCCAACAA
*
1264044 ACGCCACAATAGAGTAGT
66 ACGCCACAATAGAATAGT
* * * *
1264062 ACTTTAGCGGGGTTTTTACATAAATGTCATAATAGGGTTCATCTATAGTGGCATTTTT-CAACAA
1 ACTTTAGCGGCGTTTTTATATAAATGTCGTAATAGGGTTCATCTATAGTGGTATTTTTCCAACAA
* * * *
1264126 ATGTCGCAATAGAATATT
66 ACGCCACAATAGAATAGT
* *
1264144 ACTTTAGCGGCGTTTTTATAAAAATGCCGTAATAG
1 ACTTTAGCGGCGTTTTTATATAAATGTCGTAATAG
1264179 ATTCCATCTT
Statistics
Matches: 99, Mismatches: 18, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
82 49 0.49
83 50 0.51
ACGTcount: A:0.33, C:0.14, G:0.18, T:0.35
Consensus pattern (83 bp):
ACTTTAGCGGCGTTTTTATATAAATGTCGTAATAGGGTTCATCTATAGTGGTATTTTTCCAACAA
ACGCCACAATAGAATAGT
Found at i:1264219 original size:82 final size:82
Alignment explanation
Indices: 1263979--1264220 Score: 200
Period size: 82 Copynumber: 2.9 Consensus size: 82
1263969 CAAAATGGTA
* * * * * * * * * * *
1263979 ACTTTAGCAGCGTTTTTATATAAACGTCGTAATAGGGTTAATATATAGTGGTATTTTTCCAACAA
1 ACTTTAGCGGCGTTTTTACAAAAATGCCATAATAGGATTCATCTATAGCGGCATTTTT-CAACAA
* *
1264044 ACGCCACAATAGAGTAGT
65 ACGCCGCAATAGAATAGT
* * * * *
1264062 ACTTTAGCGGGGTTTTTACATAAATGTCATAATAGGGTTCATCTATAGTGGCATTTTTCAACAAA
1 ACTTTAGCGGCGTTTTTACAAAAATGCCATAATAGGATTCATCTATAGCGGCATTTTTCAACAAA
* * *
1264127 TGTCGCAATAGAATATT
66 CGCCGCAATAGAATAGT
* * * **
1264144 ACTTTAGCGGCGTTTTTATAAAAATGCCGTAATA-GATTCCATCTTTAGCGGTGTTTTT-ATACA
1 ACTTTAGCGGCGTTTTTACAAAAATGCCATAATAGGATT-CATCTATAGCGGCATTTTTCA-ACA
*
1264207 AACGCCGTAATAGA
64 AACGCCGCAATAGA
1264221 GTTCATATAT
Statistics
Matches: 131, Mismatches: 26, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
81 4 0.03
82 77 0.59
83 50 0.38
ACGTcount: A:0.32, C:0.15, G:0.18, T:0.35
Consensus pattern (82 bp):
ACTTTAGCGGCGTTTTTACAAAAATGCCATAATAGGATTCATCTATAGCGGCATTTTTCAACAAA
CGCCGCAATAGAATAGT
Found at i:1264242 original size:41 final size:40
Alignment explanation
Indices: 1264099--1264242 Score: 103
Period size: 41 Copynumber: 3.5 Consensus size: 40
1264089 CATAATAGGG
* * * *
1264099 TTCATCTATAGTGGCATTTTTCA-ACAAATGTCGCAATAGA
1 TTCATATATAGCGGCATTTTT-ATACAAATGCCGTAATAGA
* * * *
1264139 AT-ATTACTTTAGCGGCGTTTTTATAAAAATGCCGTAATAGA
1 TTCA-TA-TATAGCGGCATTTTTATACAAATGCCGTAATAGA
* * ** *
1264180 TTCCATCTTTAGCGGTGTTTTTATACAAACGCCGTAATAGA
1 TT-CATATATAGCGGCATTTTTATACAAATGCCGTAATAGA
*
1264221 GTTCATATATAGTGGCATTTTT
1 -TTCATATATAGCGGCATTTTT
1264243 TTTTCAATAA
Statistics
Matches: 80, Mismatches: 18, Indels: 11
0.73 0.17 0.10
Matches are distributed among these distances:
39 1 0.01
40 3 0.04
41 72 0.90
42 3 0.04
43 1 0.01
ACGTcount: A:0.30, C:0.15, G:0.17, T:0.38
Consensus pattern (40 bp):
TTCATATATAGCGGCATTTTTATACAAATGCCGTAATAGA
Found at i:1267869 original size:84 final size:85
Alignment explanation
Indices: 1267769--1267949 Score: 265
Period size: 84 Copynumber: 2.1 Consensus size: 85
1267759 ATTTATCTTT
* * * *
1267769 ATAAACACCGCTAAATACACAGTCAATAGCGGTGTTTTCAAAGACAAATGCCGC-AATACACAGT
1 ATAAACGCCGCCAAATACAAAGTCAATAGCGGCGTTTTCAAAGACAAATGCCGCAAATACACAGT
*
1267833 TAATAGCGGCGTTTTCAAAG
66 CAATAGCGGCGTTTTCAAAG
* * *
1267853 ATAAATGCCGCCAAATACAAAGTCAATAGCGGCGTTTTCAAAGACAAATGTCGCTAAATACAGAG
1 ATAAACGCCGCCAAATACAAAGTCAATAGCGGCGTTTTCAAAGACAAATGCCGC-AAATACACAG
*
1267918 TCAATCGCGGCGTTTTCAAAG
65 TCAATAGCGGCGTTTTCAAAG
1267939 ATAAACGCCGC
1 ATAAACGCCGC
1267950 TGCTACTAAT
Statistics
Matches: 85, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
84 48 0.56
86 37 0.44
ACGTcount: A:0.38, C:0.22, G:0.19, T:0.22
Consensus pattern (85 bp):
ATAAACGCCGCCAAATACAAAGTCAATAGCGGCGTTTTCAAAGACAAATGCCGCAAATACACAGT
CAATAGCGGCGTTTTCAAAG
Found at i:1267884 original size:43 final size:43
Alignment explanation
Indices: 1267776--1267949 Score: 235
Period size: 43 Copynumber: 4.1 Consensus size: 43
1267766 TTTATAAACA
* *
1267776 CCGCTAAATACACAGTCAATAGCGGTGTTTTCAAAGACAAATG
1 CCGCCAAATACACAGTCAATAGCGGCGTTTTCAAAGACAAATG
* *
1267819 CCG-C-AATACACAGTTAATAGCGGCGTTTTCAAAGATAAATG
1 CCGCCAAATACACAGTCAATAGCGGCGTTTTCAAAGACAAATG
*
1267860 CCGCCAAATACAAAGTCAATAGCGGCGTTTTCAAAGACAAATG
1 CCGCCAAATACACAGTCAATAGCGGCGTTTTCAAAGACAAATG
* * * * * *
1267903 TCGCTAAATACAGAGTCAATCGCGGCGTTTTCAAAGATAAACG
1 CCGCCAAATACACAGTCAATAGCGGCGTTTTCAAAGACAAATG
1267946 CCGC
1 CCGC
1267950 TGCTACTAAT
Statistics
Matches: 115, Mismatches: 14, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
41 37 0.32
42 1 0.01
43 77 0.67
ACGTcount: A:0.36, C:0.22, G:0.20, T:0.22
Consensus pattern (43 bp):
CCGCCAAATACACAGTCAATAGCGGCGTTTTCAAAGACAAATG
Found at i:1268554 original size:43 final size:43
Alignment explanation
Indices: 1268502--1268686 Score: 244
Period size: 43 Copynumber: 4.3 Consensus size: 43
1268492 TTATCTTTAT
* * *
1268502 AAACACCGCTAAATACACAGTAAATAGCGGCGTTTTCAAAGAC
1 AAACGCCGCTAAATACAAAGTCAATAGCGGCGTTTTCAAAGAC
* * * *
1268545 AAACGCCGCTAAATACATAGTTAATAGCGGCATTTTCAAAGAT
1 AAACGCCGCTAAATACAAAGTCAATAGCGGCGTTTTCAAAGAC
* * *
1268588 AAATGCCGCCAAATACAAAGTCAATAGCGGAGTTTTCAAAGAC
1 AAACGCCGCTAAATACAAAGTCAATAGCGGCGTTTTCAAAGAC
* * * *
1268631 AAACGTCGCTAAATACAGAGTCAATCGCGGCGTTTTCAAAGAT
1 AAACGCCGCTAAATACAAAGTCAATAGCGGCGTTTTCAAAGAC
1268674 AAACGCCGCTAAA
1 AAACGCCGCTAAA
1268687 CCTCAACACC
Statistics
Matches: 122, Mismatches: 20, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 122 1.00
ACGTcount: A:0.40, C:0.22, G:0.18, T:0.21
Consensus pattern (43 bp):
AAACGCCGCTAAATACAAAGTCAATAGCGGCGTTTTCAAAGAC
Found at i:1269115 original size:20 final size:19
Alignment explanation
Indices: 1269072--1269120 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
1269062 AAAAAAGGTT
*
1269072 TTGTTATTTTTAATTTAAA
1 TTGTTGTTTTTAATTTAAA
* *
1269091 TTGTTGTTTTTGATTTAAT
1 TTGTTGTTTTTAATTTAAA
1269110 TATGTTGTTTT
1 T-TGTTGTTTT
1269121 CAATGAAAAC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
19 17 0.65
20 9 0.35
ACGTcount: A:0.20, C:0.00, G:0.12, T:0.67
Consensus pattern (19 bp):
TTGTTGTTTTTAATTTAAA
Found at i:1281141 original size:452 final size:455
Alignment explanation
Indices: 1280289--1281201 Score: 1644
Period size: 452 Copynumber: 2.0 Consensus size: 455
1280279 TCATGGATCG
*
1280289 ATCGAAGAAGAATATTGGTGCCTATACATCCTCCGTCGTGGCTACATGCTTCGAGTGATTCCAAA
1 ATCGAAGAAGAATATTGGTGCCTATACATCCTCCG-CGTGGCTACACGCTTCGAGTGATTCCAAA
1280354 CCACTGAGGCCGAGGAAAAGTTCAAGGCCTTGCAGAAACGACAAGTTTACTTGGAGGATAACTTT
65 CCACTGAGGCCGAGG-AAAGTTCAAGGCCTTGCAGAAACGACAAGTTTACTTGGAGGATAACTTT
1280419 TTCTTCCCTGAAGCTGGCAAAGAACCGTTTGGGCTGGAAGTAATGGACATCGTCCAGAAGCACAA
129 TTCTTCCCTGAA---GGCAAAGAACCGTTTGGGCTGGAAGTAATGGACATCGTCCAGAAGCACAA
1280484 GTGGGAGAAATTCGCCCAATACCCAAAGGCGGTGGCGCCAGCCATGGTCTGAGAGTTTATGCCCA
191 GTGGGAGAAATTC-CCCAATACCCAAAGGCGGTGGCGCCAGCCATGGTCTGAGAGTTTATGCCCA
1280549 CCTAGGCGTCCCATCTCAACACTGTGTACATTAGAGGAAATCCATCTGGTTCATTCCTTCGGCCT
255 CCTAGGCGTCCCATCTCAACACTGTGTACATTAGAGGAAATCCATCTGGTTCATTCCTTCGGCCT
1280614 TAAACCGATACTTTAAACTTGGCAAGGTAGAGGATCAACATAAAAAAGTTCTTACCGAGGAAGAT
320 TAAACCGATACTTTAAACTTGGCAAGGTAGAGGATCAACATAAAAAAGTTCTTACCGAGGAAGAT
*
1280679 TCAGAGACATACGATGGTGTGCTGGAGGATTTTTGTTTTGGCTGGGCAAAG-TTGAAGGGAATGT
385 TCAGAGACATACGATGGTGTGCTGGAGGATTTTTGTTTCGGCTGGGCAAAGTTTGAAGGGAATGT
1280743 GCCCAA
450 GCCCAA
1280749 ATCGAAGAAGAATATTGGTGCCTATACATCCT-C-CGTGGCTACACGCTTCGAGTGATTCCAAAC
1 ATCGAAGAAGAATATTGGTGCCTATACATCCTCCGCGTGGCTACACGCTTCGAGTGATTCCAAAC
1280812 CA-T-ATGGCCGAGG-AAGTTCAAGGCCTTGCAGAAACGACAAGTTTACTTGGAGGATAACTTTT
66 CACTGA-GGCCGAGGAAAGTTCAAGGCCTTGCAGAAACGACAAGTTTACTTGGAGGATAACTTTT
1280874 TCTTCCCTGAA-GCAAAGAACCGTTTGGGCTGGAAGTAATGGACATCGTCCAGAAGCACAAGTGG
130 TCTTCCCTGAAGGCAAAGAACCGTTTGGGCTGGAAGTAATGGACATCGTCCAGAAGCACAAGTGG
1280938 GAGAAATT-CCCAATACCCAAAGGCGGTGGCGCCAGCCATGGTCTGAGAGTTTTATGCCCACCTA
195 GAGAAATTCCCCAATACCCAAAGGCGGTGGCGCCAGCCATGGTCTGAGAG-TTTATGCCCACCTA
1281002 GGCGTCCCATCTCAACACACTGTGTACATTAGAGGGAAATCCATCTGGTTCATTCCTTCGGCCTT
259 GGCGTCCCATCTC-A-ACACTGTGTACATTAGA-GGAAATCCATCTGGTTCATTCCTTCGGCCTT
*
1281067 AAACCGATACTTTAAACTTGGCAAGGTAGAGGATCAACATAAAAAAGTTCTTGCCGAGGAAGATT
321 AAACCGATACTTTAAACTTGGCAAGGTAGAGGATCAACATAAAAAAGTTCTTACCGAGGAAGATT
1281132 CAGAGACATACGATGGTGTGCTGGAGGATTTTTGTTTCGGCTGGGCAAAGTTTGAAGGGAATGTG
386 CAGAGACATACGATGGTGTGCTGGAGGATTTTTGTTTCGGCTGGGCAAAGTTTGAAGGGAATGTG
1281197 CCCAA
451 CCCAA
1281202 CCGAAAGCGT
Statistics
Matches: 444, Mismatches: 3, Indels: 19
0.95 0.01 0.04
Matches are distributed among these distances:
448 41 0.09
449 27 0.06
450 62 0.14
451 17 0.04
452 144 0.32
453 19 0.04
454 60 0.14
455 1 0.00
456 9 0.02
457 31 0.07
459 1 0.00
460 32 0.07
ACGTcount: A:0.29, C:0.22, G:0.25, T:0.24
Consensus pattern (455 bp):
ATCGAAGAAGAATATTGGTGCCTATACATCCTCCGCGTGGCTACACGCTTCGAGTGATTCCAAAC
CACTGAGGCCGAGGAAAGTTCAAGGCCTTGCAGAAACGACAAGTTTACTTGGAGGATAACTTTTT
CTTCCCTGAAGGCAAAGAACCGTTTGGGCTGGAAGTAATGGACATCGTCCAGAAGCACAAGTGGG
AGAAATTCCCCAATACCCAAAGGCGGTGGCGCCAGCCATGGTCTGAGAGTTTATGCCCACCTAGG
CGTCCCATCTCAACACTGTGTACATTAGAGGAAATCCATCTGGTTCATTCCTTCGGCCTTAAACC
GATACTTTAAACTTGGCAAGGTAGAGGATCAACATAAAAAAGTTCTTACCGAGGAAGATTCAGAG
ACATACGATGGTGTGCTGGAGGATTTTTGTTTCGGCTGGGCAAAGTTTGAAGGGAATGTGCCCAA
Found at i:1289729 original size:2 final size:2
Alignment explanation
Indices: 1289722--1289746 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1289712 ATGTTTAGTT
1289722 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 T
1289747 GATTTATGGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1302396 original size:16 final size:16
Alignment explanation
Indices: 1302375--1302409 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
1302365 TTTTACGGAT
1302375 GTATTTTACAGAATAA
1 GTATTTTACAGAATAA
1302391 GTATTTTACAGAATAA
1 GTATTTTACAGAATAA
1302407 GTA
1 GTA
1302410 ATTAAATATC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.43, C:0.06, G:0.14, T:0.37
Consensus pattern (16 bp):
GTATTTTACAGAATAA
Found at i:1304105 original size:30 final size:30
Alignment explanation
Indices: 1304069--1304129 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
1304059 ATTAATATTA
*
1304069 TGCATCGATACGCTATAGTAACTGCTACAG
1 TGCATCGATACGCTACAGTAACTGCTACAG
*
1304099 TGCATCGATACGCTACATTAACTGCTACAG
1 TGCATCGATACGCTACAGTAACTGCTACAG
1304129 T
1 T
1304130 AACTTCCAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.28
Consensus pattern (30 bp):
TGCATCGATACGCTACAGTAACTGCTACAG
Found at i:1304581 original size:47 final size:44
Alignment explanation
Indices: 1304509--1304634 Score: 128
Period size: 47 Copynumber: 2.8 Consensus size: 44
1304499 ATAAAAATCT
*
1304509 CTTACCATT-TATCTCATAAGATCGTAAGCTTATTTTACCAAAATA
1 CTTACCATTAT-TC-CATAAGCTCGTAAGCTTATTTTACCAAAATA
* * *
1304554 CTTACCATTTAAATTCCATAAGCTCGTAAGCTTATTTTTCTAATATA
1 CTTACCA-TT--ATTCCATAAGCTCGTAAGCTTATTTTACCAAAATA
* * * *
1304601 CTTGCCATTATTTCGTAAGCTCATAAGCTTATTT
1 CTTACCATTATTCCATAAGCTCGTAAGCTTATTT
1304635 GCATGGTTAC
Statistics
Matches: 69, Mismatches: 8, Indels: 9
0.80 0.09 0.10
Matches are distributed among these distances:
44 22 0.32
45 7 0.10
46 4 0.06
47 33 0.48
48 2 0.03
49 1 0.01
ACGTcount: A:0.31, C:0.20, G:0.08, T:0.41
Consensus pattern (44 bp):
CTTACCATTATTCCATAAGCTCGTAAGCTTATTTTACCAAAATA
Found at i:1304797 original size:40 final size:40
Alignment explanation
Indices: 1304739--1304820 Score: 146
Period size: 40 Copynumber: 2.0 Consensus size: 40
1304729 ACCGTAGTGC
*
1304739 TACACATAAGGTCTTGCCCACCATATACACCAAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCAAAGTGTAT
*
1304779 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCAAAGTGTAT
1304819 TA
1 TA
1304821 TAAACCTGCA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.34, C:0.27, G:0.15, T:0.24
Consensus pattern (40 bp):
TACACATAAGGTCGTGCCCACCATATACACCAAAGTGTAT
Found at i:1310486 original size:21 final size:22
Alignment explanation
Indices: 1310460--1310504 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 22
1310450 TCTTCGAACA
* *
1310460 TTTTCATCTTTC-TTTTCTTCT
1 TTTTCATCATTCATTTTATTCT
1310481 TTTTCATCATTCATTTTATTCT
1 TTTTCATCATTCATTTTATTCT
1310503 TT
1 TT
1310505 GAAAGTTAGG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 11 0.52
22 10 0.48
ACGTcount: A:0.11, C:0.20, G:0.00, T:0.69
Consensus pattern (22 bp):
TTTTCATCATTCATTTTATTCT
Found at i:1311978 original size:30 final size:30
Alignment explanation
Indices: 1311937--1312003 Score: 107
Period size: 30 Copynumber: 2.2 Consensus size: 30
1311927 ACCATTAGCA
1311937 TTAAAACCTATTATGTAATTTATATATATT
1 TTAAAACCTATTATGTAATTTATATATATT
* * *
1311967 TTAAAATCTATTATGTCATTTATATATTTT
1 TTAAAACCTATTATGTAATTTATATATATT
1311997 TTAAAAC
1 TTAAAAC
1312004 TAAAGGTAGG
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.39, C:0.07, G:0.03, T:0.51
Consensus pattern (30 bp):
TTAAAACCTATTATGTAATTTATATATATT
Found at i:1318706 original size:16 final size:16
Alignment explanation
Indices: 1318682--1318722 Score: 73
Period size: 16 Copynumber: 2.6 Consensus size: 16
1318672 GATCGATTTT
1318682 GGATCGGGTCAATATC
1 GGATCGGGTCAATATC
*
1318698 GGGTCGGGTCAATATC
1 GGATCGGGTCAATATC
1318714 GGATCGGGT
1 GGATCGGGT
1318723 GATTTGGGTC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.20, C:0.17, G:0.39, T:0.24
Consensus pattern (16 bp):
GGATCGGGTCAATATC
Found at i:1318793 original size:32 final size:31
Alignment explanation
Indices: 1318696--1318789 Score: 120
Period size: 31 Copynumber: 3.0 Consensus size: 31
1318686 CGGGTCAATA
* *
1318696 TCGGGTCGGGTCAATATCGGATCGGGTGATT
1 TCGGGTCGGATCAATATCGGATCGGTTGATT
* *
1318727 T-GGGTCGGGAT-AATACCAGATCGGTTAGATT
1 TCGGGTC-GGATCAATATCGGATCGGTT-GATT
1318758 TCGGGTCGGATCAATATCGGATCGGTTGATT
1 TCGGGTCGGATCAATATCGGATCGGTTGATT
1318789 T
1 T
1318790 TCGGTTTAGG
Statistics
Matches: 53, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
30 17 0.32
31 18 0.34
32 18 0.34
ACGTcount: A:0.20, C:0.15, G:0.34, T:0.31
Consensus pattern (31 bp):
TCGGGTCGGATCAATATCGGATCGGTTGATT
Found at i:1323742 original size:16 final size:16
Alignment explanation
Indices: 1323724--1323807 Score: 69
Period size: 16 Copynumber: 5.2 Consensus size: 16
1323714 GTTAAAATTT
*
1323724 GGTTCGGGTTTCTTTT
1 GGTTCGGGTTTCTTTC
***
1323740 GGTTTATGTTTCTTTC
1 GGTTCGGGTTTCTTTC
* *
1323756 GGTTCGAGTTGCTTTC
1 GGTTCGGGTTTCTTTC
**
1323772 GGTTCGGGTTAGTTTC
1 GGTTCGGGTTTCTTTC
* * *
1323788 GGTTTGGGTTGCTATC
1 GGTTCGGGTTTCTTTC
1323804 GGTT
1 GGTT
1323808 TTGCTAAATT
Statistics
Matches: 53, Mismatches: 15, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
16 53 1.00
ACGTcount: A:0.05, C:0.13, G:0.32, T:0.50
Consensus pattern (16 bp):
GGTTCGGGTTTCTTTC
Found at i:1325668 original size:29 final size:29
Alignment explanation
Indices: 1325580--1325669 Score: 101
Period size: 29 Copynumber: 3.1 Consensus size: 29
1325570 TAATAAACAT
* **
1325580 TTAAAGTACAAAAACAGAAAATTAAATTA
1 TTAAAATACAAAAACAGAAAATTAAAGGA
* *
1325609 TTAAAATAGCAAAAACAGACATTTAAAGGA
1 TTAAAATA-CAAAAACAGAAAATTAAAGGA
*
1325639 TTAAAATA-ATAAAACAGAAAATTAAGGGA
1 TTAAAATACA-AAAACAGAAAATTAAAGGA
1325668 TT
1 TT
1325670 GATCAGAAAT
Statistics
Matches: 51, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
28 1 0.02
29 25 0.49
30 25 0.49
ACGTcount: A:0.59, C:0.07, G:0.11, T:0.23
Consensus pattern (29 bp):
TTAAAATACAAAAACAGAAAATTAAAGGA
Found at i:1326585 original size:39 final size:40
Alignment explanation
Indices: 1326504--1326608 Score: 158
Period size: 39 Copynumber: 2.6 Consensus size: 40
1326494 AGGTTGAACA
*
1326504 AGTTCTTCTCATTATGAACTTCTTCTTCTTCTTAGTTCGATG
1 AGTTCTTCTCATTATGAAC-TC-TCTTCTTCCTAGTTCGATG
* *
1326546 AGTTCTTCTCATTATGAACTCT-TTCTTCCTCGTTGGATG
1 AGTTCTTCTCATTATGAACTCTCTTCTTCCTAGTTCGATG
1326585 AGTTCTTCTCATTATGAACTCTCT
1 AGTTCTTCTCATTATGAACTCTCT
1326609 ATTGAGAATG
Statistics
Matches: 59, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
39 36 0.61
40 2 0.03
41 2 0.03
42 19 0.32
ACGTcount: A:0.17, C:0.23, G:0.12, T:0.48
Consensus pattern (40 bp):
AGTTCTTCTCATTATGAACTCTCTTCTTCCTAGTTCGATG
Found at i:1326888 original size:117 final size:117
Alignment explanation
Indices: 1326546--1327149 Score: 1005
Period size: 117 Copynumber: 5.2 Consensus size: 117
1326536 TAGTTCGATG
*
1326546 AGTTCTTCTCATTATGAAC-TCTTTCTTCCTCGTTGGATGAGTTCTTCTCATTATGAACTCTCTA
1 AGTTCTTCTCATTATGAACTTC-TTCTTCCTCGTTGGATGAGTTCTTCTCATTATGAACTCTCCA
* * **
1326610 TTGAGAATGTTGGTCCACCTCCTTCCATGATGGAATCAAACCAAGGTTGAACA
65 TTGAAAATGTTGATCCACCTCCTTCTGTGATGGAATCAAACCAAGGTTGAACA
1326663 AGTTCTTCTCATTATGAACTTCTTCTTCCTCGTTGGATGAG-TCTTCTCATTATGAACTCTCCAT
1 AGTTCTTCTCATTATGAACTTCTTCTTCCTCGTTGGATGAGTTCTTCTCATTATGAACTCTCCAT
* *
1326727 TGAAAATGTTGATCCACCTCCTTCTGTGATGGAATCAAAGCAAGGTTAAACA
66 TGAAAATGTTGATCCACCTCCTTCTGTGATGGAATCAAACCAAGGTTGAACA
* * * * *
1326779 AGTTCTTATCATTATGAACTTATTCTTTCTCATTGGATGAGTTCTTCTCATTATGAAATCTCCAT
1 AGTTCTTCTCATTATGAACTTCTTCTTCCTCGTTGGATGAGTTCTTCTCATTATGAACTCTCCAT
** *
1326844 TGAAAATGTTGATCCATTTCCTTCTGTGATGGAATCGAACCAAGGTTGAACA
66 TGAAAATGTTGATCCACCTCCTTCTGTGATGGAATCAAACCAAGGTTGAACA
*
1326896 AGTTCTTCTTATTATGAACTTCTTCTTCCTCGTTGGATGAGTTCTTCTCATTATGAACTCTCCAT
1 AGTTCTTCTCATTATGAACTTCTTCTTCCTCGTTGGATGAGTTCTTCTCATTATGAACTCTCCAT
* *
1326961 TGAAAATGTTAATCCACCTCTTTCTGTGATGGAATCAAACCAAGGTTGAACA
66 TGAAAATGTTGATCCACCTCCTTCTGTGATGGAATCAAACCAAGGTTGAACA
*
1327013 AGTTCTTCTCATTATGAACTTCTTCTTCCTCATTGGATGAGTTCTTCTCATTATGAACTCTCCAT
1 AGTTCTTCTCATTATGAACTTCTTCTTCCTCGTTGGATGAGTTCTTCTCATTATGAACTCTCCAT
*
1327078 TGAAAATGTTGATCCACCTCTTTCTGTGATGGAATCAAACCAAGGTTGAACA
66 TGAAAATGTTGATCCACCTCCTTCTGTGATGGAATCAAACCAAGGTTGAACA
1327130 AGTTCTTCTCATTATGAACT
1 AGTTCTTCTCATTATGAACT
1327150 CTCCATTGGA
Statistics
Matches: 454, Mismatches: 31, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
116 105 0.23
117 347 0.76
118 2 0.00
ACGTcount: A:0.26, C:0.21, G:0.15, T:0.38
Consensus pattern (117 bp):
AGTTCTTCTCATTATGAACTTCTTCTTCCTCGTTGGATGAGTTCTTCTCATTATGAACTCTCCAT
TGAAAATGTTGATCCACCTCCTTCTGTGATGGAATCAAACCAAGGTTGAACA
Found at i:1327390 original size:42 final size:41
Alignment explanation
Indices: 1327334--1327452 Score: 184
Period size: 42 Copynumber: 2.9 Consensus size: 41
1327324 TTATCATCTA
* *
1327334 GATCGAAAGGCTTACAGATGACCCGAAGGATTTAAGCATCAT
1 GATCGAAAGACTTACTGATGACCCGAAGGATTTAA-CATCAT
*
1327376 GATCGATAGACTTACTGATGACCCGAAGGATTTACACATCAT
1 GATCGAAAGACTTACTGATGACCCGAAGGATTTA-ACATCAT
*
1327418 GATCGAAAGACTTACTGATGATCCGAAGGATTTAA
1 GATCGAAAGACTTACTGATGACCCGAAGGATTTAA
1327453 AAATCAAGAA
Statistics
Matches: 71, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
41 1 0.01
42 69 0.97
43 1 0.01
ACGTcount: A:0.35, C:0.18, G:0.22, T:0.24
Consensus pattern (41 bp):
GATCGAAAGACTTACTGATGACCCGAAGGATTTAACATCAT
Found at i:1327440 original size:19 final size:19
Alignment explanation
Indices: 1327374--1327440 Score: 53
Period size: 19 Copynumber: 3.3 Consensus size: 19
1327364 TTTAAGCATC
*
1327374 ATGATCGATAGACTTACTG
1 ATGATCGAAAGACTTACTG
* * * *
1327393 ATGACCCGAAGGATTTACACATC
1 ATGA-TCGAAAGACTT--AC-TG
1327416 ATGATCGAAAGACTTACTG
1 ATGATCGAAAGACTTACTG
1327435 ATGATC
1 ATGATC
1327441 CGAAGGATTT
Statistics
Matches: 35, Mismatches: 9, Indels: 8
0.67 0.17 0.15
Matches are distributed among these distances:
19 11 0.31
20 9 0.26
22 10 0.29
23 5 0.14
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.27
Consensus pattern (19 bp):
ATGATCGAAAGACTTACTG
Found at i:1328557 original size:30 final size:31
Alignment explanation
Indices: 1328512--1328584 Score: 85
Period size: 30 Copynumber: 2.4 Consensus size: 31
1328502 AAGACCCCGA
* * * *
1328512 AAACTATCCAGAGGTCATAAAGAACCTCGGT
1 AAACTGTCCATAGGTCACAAAGAACCTAGGT
* *
1328543 -AACTGTCCATAGGTCCCGAAGAACCTAGGT
1 AAACTGTCCATAGGTCACAAAGAACCTAGGT
1328573 AAACTGTCCATA
1 AAACTGTCCATA
1328585 TGCCTCAAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
30 24 0.69
31 11 0.31
ACGTcount: A:0.36, C:0.25, G:0.19, T:0.21
Consensus pattern (31 bp):
AAACTGTCCATAGGTCACAAAGAACCTAGGT
Found at i:1331445 original size:54 final size:54
Alignment explanation
Indices: 1331363--1331518 Score: 240
Period size: 54 Copynumber: 2.9 Consensus size: 54
1331353 TAATCACTGG
* **
1331363 TTCGTAAAACATTTGACAACACATTCATCCTTTCCTGTATCTTCTGCCCAGATT
1 TTCGTAAAACATTTGACAACACATTCATCATTTCCTGTGGCTTCTGCCCAGATT
* * * * *
1331417 TTCGTAAAAAAATTGACAACACATTCATCATTTCTTGTGGCTTATGTCCAGATT
1 TTCGTAAAACATTTGACAACACATTCATCATTTCCTGTGGCTTCTGCCCAGATT
1331471 TTCGTAAAACATTTGACAACACATTCATCATTTCCTGTGGCTTCTGCC
1 TTCGTAAAACATTTGACAACACATTCATCATTTCCTGTGGCTTCTGCC
1331519 TATATTTCTT
Statistics
Matches: 89, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
54 89 1.00
ACGTcount: A:0.28, C:0.24, G:0.12, T:0.37
Consensus pattern (54 bp):
TTCGTAAAACATTTGACAACACATTCATCATTTCCTGTGGCTTCTGCCCAGATT
Found at i:1332953 original size:10 final size:10
Alignment explanation
Indices: 1332938--1332982 Score: 65
Period size: 10 Copynumber: 4.5 Consensus size: 10
1332928 TTATTACTTA
1332938 TTCTTTTTTT
1 TTCTTTTTTT
1332948 TTCTTTTTTCT
1 TTCTTTTTT-T
1332959 TTC-TTTTTT
1 TTCTTTTTTT
*
1332968 TTCTTCTTTT
1 TTCTTTTTTT
1332978 TTCTT
1 TTCTT
1332983 CCTTCTTTGA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
9 4 0.12
10 24 0.75
11 4 0.12
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (10 bp):
TTCTTTTTTT
Found at i:1332954 original size:7 final size:7
Alignment explanation
Indices: 1332944--1332982 Score: 51
Period size: 7 Copynumber: 5.3 Consensus size: 7
1332934 CTTATTCTTT
1332944 TTTTTTC
1 TTTTTTC
1332951 TTTTTTC
1 TTTTTTC
*
1332958 TTTCTTTT
1 TTT-TTTC
1332966 TTTTCTTC
1 TTTT-TTC
1332974 TTTTTTC
1 TTTTTTC
1332981 TT
1 TT
1332983 CCTTCTTTGA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
7 16 0.57
8 12 0.43
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (7 bp):
TTTTTTC
Found at i:1332966 original size:12 final size:11
Alignment explanation
Indices: 1332941--1332979 Score: 60
Period size: 11 Copynumber: 3.5 Consensus size: 11
1332931 TTACTTATTC
1332941 TTTTTTTTTCT
1 TTTTTTTTTCT
*
1332952 TTTTTCTTTCT
1 TTTTTTTTTCT
1332963 TTTTTTTCTTCT
1 TTTTTTT-TTCT
1332975 TTTTT
1 TTTTT
1332980 CTTCCTTCTT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
11 16 0.64
12 9 0.36
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (11 bp):
TTTTTTTTTCT
Found at i:1332969 original size:13 final size:12
Alignment explanation
Indices: 1332922--1332990 Score: 59
Period size: 12 Copynumber: 5.5 Consensus size: 12
1332912 ATCTTCCTCA
*
1332922 TTCTTTTTATTAC
1 TTCTTTTT-TTTC
* *
1332935 TTATTCTTTTTTT
1 TTCTT-TTTTTTC
*
1332948 TTCTTTTTTCT-
1 TTCTTTTTTTTC
1332959 TTCTTTTTTTTC
1 TTCTTTTTTTTC
1332971 TTCTTTTTTCTTCC
1 TTCTTTTTT-TT-C
1332985 TTCTTT
1 TTCTTT
1332991 GAGTGTAGTA
Statistics
Matches: 46, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
11 10 0.22
12 14 0.30
13 12 0.26
14 10 0.22
ACGTcount: A:0.04, C:0.17, G:0.00, T:0.78
Consensus pattern (12 bp):
TTCTTTTTTTTC
Found at i:1338538 original size:29 final size:28
Alignment explanation
Indices: 1338506--1338598 Score: 89
Period size: 29 Copynumber: 3.2 Consensus size: 28
1338496 TAATAAACAT
* **
1338506 TTAAAGTACAAAAACAGAAAATTAAATTA
1 TTAAAATA-AAAAACAGAAAATTAAAGGA
*
1338535 TTAAAATAGTAAAAACAG-ACATGTAAAGGA
1 TTAAAATA--AAAAACAGAAAAT-TAAAGGA
*
1338565 TTAAAATAATAAAACAGAAAATTAAGGGA
1 TTAAAATAA-AAAACAGAAAATTAAAGGA
1338594 TTAAA
1 TTAAA
1338599 CAAAAATTTT
Statistics
Matches: 53, Mismatches: 7, Indels: 8
0.78 0.10 0.12
Matches are distributed among these distances:
28 1 0.02
29 28 0.53
30 24 0.45
ACGTcount: A:0.60, C:0.05, G:0.12, T:0.23
Consensus pattern (28 bp):
TTAAAATAAAAAACAGAAAATTAAAGGA
Found at i:1338551 original size:30 final size:30
Alignment explanation
Indices: 1338515--1338598 Score: 100
Period size: 30 Copynumber: 2.8 Consensus size: 30
1338505 TTTAAAGTAC
** *
1338515 AAAAACAGAAAATTAAATTATTAAAATAGT
1 AAAAACAGAAAATTAAAGGATTAAAATAAT
*
1338545 AAAAACAG-ACATGTAAAGGATTAAAATAAT
1 AAAAACAGAAAAT-TAAAGGATTAAAATAAT
*
1338575 -AAAACAGAAAATTAAGGGATTAAA
1 AAAAACAGAAAATTAAAGGATTAAA
1338599 CAAAAATTTT
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
29 21 0.46
30 25 0.54
ACGTcount: A:0.62, C:0.05, G:0.12, T:0.21
Consensus pattern (30 bp):
AAAAACAGAAAATTAAAGGATTAAAATAAT
Found at i:1340056 original size:3 final size:3
Alignment explanation
Indices: 1340038--1340096 Score: 91
Period size: 3 Copynumber: 19.7 Consensus size: 3
1340028 TCATGTAAAC
* * *
1340038 ATA ATA TTA GTA ATA ATA ATA TTA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1340086 ATA ATA ATA AT
1 ATA ATA ATA AT
1340097 GTAAATCCGG
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 51 1.00
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (3 bp):
ATA
Found at i:1343233 original size:19 final size:19
Alignment explanation
Indices: 1343209--1343247 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
1343199 CGAAACGACA
1343209 GTTGTTAAATTAGTCCGTT
1 GTTGTTAAATTAGTCCGTT
1343228 GTTGTTAAATTAGTCCGTT
1 GTTGTTAAATTAGTCCGTT
1343247 G
1 G
1343248 CTAGGGACTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.21, C:0.10, G:0.23, T:0.46
Consensus pattern (19 bp):
GTTGTTAAATTAGTCCGTT
Found at i:1349439 original size:7 final size:8
Alignment explanation
Indices: 1349412--1349436 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
1349402 GAGTATTATT
1349412 AATTATAA
1 AATTATAA
1349420 AATTATAA
1 AATTATAA
1349428 AATTATAA
1 AATTATAA
1349436 A
1 A
1349437 TTACTCAACA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (8 bp):
AATTATAA
Found at i:1353145 original size:15 final size:15
Alignment explanation
Indices: 1353127--1353172 Score: 67
Period size: 15 Copynumber: 3.1 Consensus size: 15
1353117 TTTTTTTAGT
*
1353127 TTAATTGGTTTAGGG
1 TTAAGTGGTTTAGGG
1353142 TTAAGTGGTTTA-GG
1 TTAAGTGGTTTAGGG
*
1353156 TTAAGTGATTTAGGG
1 TTAAGTGGTTTAGGG
1353171 TT
1 TT
1353173 CAAGGTTAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
14 13 0.46
15 15 0.54
ACGTcount: A:0.22, C:0.00, G:0.33, T:0.46
Consensus pattern (15 bp):
TTAAGTGGTTTAGGG
Found at i:1353157 original size:14 final size:14
Alignment explanation
Indices: 1353121--1353169 Score: 62
Period size: 14 Copynumber: 3.4 Consensus size: 14
1353111 TTTAGGTTTT
* *
1353121 TTTAGTTTAATTGG
1 TTTAGGTTAAGTGG
1353135 TTTAGGGTTAAGTGG
1 TTTA-GGTTAAGTGG
*
1353150 TTTAGGTTAAGTGA
1 TTTAGGTTAAGTGG
1353164 TTTAGG
1 TTTAGG
1353170 GTTCAAGGTT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
14 19 0.61
15 12 0.39
ACGTcount: A:0.22, C:0.00, G:0.31, T:0.47
Consensus pattern (14 bp):
TTTAGGTTAAGTGG
Found at i:1356592 original size:44 final size:44
Alignment explanation
Indices: 1356381--1357119 Score: 361
Period size: 44 Copynumber: 16.9 Consensus size: 44
1356371 TGAAAAAATC
* * * * * * *
1356381 GATCCACCTCATTCTGTGATGGAATCGAACGAGATGTCGATGAT
1 GATCCACCTCCTTCTGTGATGGAATCGAGCAAAAAGTTGATGCT
* * *
1356425 GATCTACCTCCTTCTGTGATAGAATCAAGCAAAAAGTTGAT-CT
1 GATCCACCTCCTTCTGTGATGGAATCGAGCAAAAAGTTGATGCT
* * * * * * * *
1356468 GATCCAACTTCATCTGCGATGGATTTGAACGAAAAA-ATG-T-CT
1 GATCCACCTCCTTCTGTGATGGAATCGAGC-AAAAAGTTGATGCT
* * * * * * *
1356510 -ATTCATCTCCTTCTGTGATAGAATCGAACGAGATGTTGATGCT
1 GATCCACCTCCTTCTGTGATGGAATCGAGCAAAAAGTTGATGCT
* * *
1356553 GATCTACCTCCTTCTGTGATAGAATCGAGCAAAAAGTTGATGTT
1 GATCCACCTCCTTCTGTGATGGAATCGAGCAAAAAGTTGATGCT
* ** * * ***
1356597 GATCCAACTCCTTCTACGATGGATTTGAGCGAAAATA-AAAATG-T
1 GATCCACCTCCTTCTGTGATGGAATCGAGC-AAAA-AGTTGATGCT
* * * *
1356641 CAATCCACCTCCTTCTTTGATGGAATC-A--AAAGAGACATTGGTGCT
1 -GATCCACCTCCTTCTGTGATGGAATCGAGCAAA-A-A-GTTGATGCT
* * * *
1356686 GATCTACCTCCTT-TGTGATAGAATCGAGCTAAAAGTTAATGCT
1 GATCCACCTCCTTCTGTGATGGAATCGAGCAAAAAGTTGATGCT
* * * * * ***
1356729 GATTCAACTCCTTCTGCGATGGATTTGAGCGAAAATA-AAAATG-T
1 GATCCACCTCCTTCTGTGATGGAATCGAGC-AAAA-AGTTGATGCT
*
1356773 CGATCCACCTCCTTCTGTGATGGAATCGA--AAGAGATA-TTGGTGCT
1 -GATCCACCTCCTTCTGTGATGGAATCGAGCAA-A-A-AGTTGATGCT
* * * *
1356818 GATCTACCTCCTTTTGTGATAGAATCGAGCAAAAAGTTGATGTT
1 GATCCACCTCCTTCTGTGATGGAATCGAGCAAAAAGTTGATGCT
* * * * *
1356862 GATCCAACTCCTTCTGTTATGGATTTGAGCGAAATAA-ATG-T-C-
1 GATCCACCTCCTTCTGTGATGGAATCGAGC-AAA-AAGTTGATGCT
* * * * * * *
1356904 GACCCATCTCCTTCTGTGATGGAATCAAACATAATGTTGATGTT
1 GATCCACCTCCTTCTGTGATGGAATCGAGCAAAAAGTTGATGCT
** * * *
1356948 GATATACCTCATTCTGTGATAGAATCGAGCAAAAAATTGATGCT
1 GATCCACCTCCTTCTGTGATGGAATCGAGCAAAAAGTTGATGCT
* * * ***
1356992 GATCCAACTCCTTCTGCGATGGATTCGAGCAAAATA-AAAATG-T
1 GATCCACCTCCTTCTGTGATGGAATCGAGCAAAA-AGTTGATGCT
* * * * *
1357035 CGATCCACCTCCTTCTGTGATGGAATCAAACGAGATGTTGATGCT
1 -GATCCACCTCCTTCTGTGATGGAATCGAGCAAAAAGTTGATGCT
* * * * *
1357080 GATCTACCTCATTCTGTGATAGATTCGAGCAAACAGTTGA
1 GATCCACCTCCTTCTGTGATGGAATCGAGCAAAAAGTTGA
1357120 ACAATATCTT
Statistics
Matches: 503, Mismatches: 157, Indels: 70
0.69 0.22 0.10
Matches are distributed among these distances:
40 3 0.01
41 30 0.06
42 32 0.06
43 54 0.11
44 308 0.61
45 68 0.14
46 8 0.02
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.30
Consensus pattern (44 bp):
GATCCACCTCCTTCTGTGATGGAATCGAGCAAAAAGTTGATGCT
Found at i:1356749 original size:132 final size:132
Alignment explanation
Indices: 1356336--1357119 Score: 1037
Period size: 132 Copynumber: 6.0 Consensus size: 132
1356326 TTGATGATAT
* * * *
1356336 TGATCCAACTCCGTATGCGATGGATTTGAGCGAAATGAAAAA-ATCGATCCACCTCATTCTGTGA
1 TGATCCAACTCCTTCTGCGATGGATTTGAGCGAAAT-AAAAATGTCGATCCACCTCCTTCTGTGA
* * * * *
1356400 TGGAATCGAACGAGATGTCGATGATGATCTACCTCCTTCTGTGATAGAATCAAGCAAAAAGTTGA
65 TGGAATCAAAAGAGATGTTGATGCTGATCTACCTCCTTCTGTGATAGAATCGAGCAAAAAGTTGA
1356465 T-C
130 TGC
* * * * * *
1356467 TGATCCAACTTCATCTGCGATGGATTTGAACG--A-AAAAATGTCTATTCATCTCCTTCTGTGAT
1 TGATCCAACTCCTTCTGCGATGGATTTGAGCGAAATAAAAATGTCGATCCACCTCCTTCTGTGAT
* * *
1356529 AGAATCGAACGAGATGTTGATGCTGATCTACCTCCTTCTGTGATAGAATCGAGCAAAAAGTTGAT
66 GGAATCAAAAGAGATGTTGATGCTGATCTACCTCCTTCTGTGATAGAATCGAGCAAAAAGTTGAT
*
1356594 GT
131 GC
* * *
1356596 TGATCCAACTCCTTCTACGATGGATTTGAGCGAAAATAAAAATGTCAATCCACCTCCTTCTTTGA
1 TGATCCAACTCCTTCTGCGATGGATTTGAGCG-AAATAAAAATGTCGATCCACCTCCTTCTGTGA
** * * *
1356661 TGGAATCAAAAGAGACATTGGTGCTGATCTACCTCCTT-TGTGATAGAATCGAGCTAAAAGTTAA
65 TGGAATCAAAAGAGATGTTGATGCTGATCTACCTCCTTCTGTGATAGAATCGAGCAAAAAGTTGA
1356725 TGC
130 TGC
*
1356728 TGATTCAACTCCTTCTGCGATGGATTTGAGCGAAAATAAAAATGTCGATCCACCTCCTTCTGTGA
1 TGATCCAACTCCTTCTGCGATGGATTTGAGCG-AAATAAAAATGTCGATCCACCTCCTTCTGTGA
* * * *
1356793 TGGAATCGAAAGAGATATTGGTGCTGATCTACCTCCTTTTGTGATAGAATCGAGCAAAAAGTTGA
65 TGGAATCAAAAGAGATGTTGATGCTGATCTACCTCCTTCTGTGATAGAATCGAGCAAAAAGTTGA
*
1356858 TGT
130 TGC
** * *
1356861 TGATCCAACTCCTTCTGTTATGGATTTGAGCGAAAT--AAATGTCGACCCATCTCCTTCTGTGAT
1 TGATCCAACTCCTTCTGCGATGGATTTGAGCGAAATAAAAATGTCGATCCACCTCCTTCTGTGAT
* * * * *
1356924 GGAATCAAACATA-ATGTTGATGTTGATATACCTCATTCTGTGATAGAATCGAGCAAAAAATTGA
66 GGAATCAAA-AGAGATGTTGATGCTGATCTACCTCCTTCTGTGATAGAATCGAGCAAAAAGTTGA
1356988 TGC
130 TGC
* *
1356991 TGATCCAACTCCTTCTGCGATGGATTCGAGCAAAATAAAAATGTCGATCCACCTCCTTCTGTGAT
1 TGATCCAACTCCTTCTGCGATGGATTTGAGCGAAATAAAAATGTCGATCCACCTCCTTCTGTGAT
* * * *
1357056 GGAATCAAACGAGATGTTGATGCTGATCTACCTCATTCTGTGATAGATTCGAGCAAACAGTTGA
66 GGAATCAAAAGAGATGTTGATGCTGATCTACCTCCTTCTGTGATAGAATCGAGCAAAAAGTTGA
1357120 ACAATATCTT
Statistics
Matches: 574, Mismatches: 68, Indels: 21
0.87 0.10 0.03
Matches are distributed among these distances:
127 5 0.01
128 79 0.14
129 29 0.05
130 111 0.19
131 31 0.05
132 208 0.36
133 111 0.19
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.30
Consensus pattern (132 bp):
TGATCCAACTCCTTCTGCGATGGATTTGAGCGAAATAAAAATGTCGATCCACCTCCTTCTGTGAT
GGAATCAAAAGAGATGTTGATGCTGATCTACCTCCTTCTGTGATAGAATCGAGCAAAAAGTTGAT
GC
Found at i:1357573 original size:36 final size:36
Alignment explanation
Indices: 1357482--1357556 Score: 123
Period size: 36 Copynumber: 2.1 Consensus size: 36
1357472 CTCAAGCAAT
* *
1357482 AAAACTCGTTTCAAGGGAAACTGTCTCAAGAGAGAC
1 AAAAGTCGTTTCAAGAGAAACTGTCTCAAGAGAGAC
*
1357518 AAAAGTCATTTCAAGAGAAACTGTCTCAAGAGAGAC
1 AAAAGTCGTTTCAAGAGAAACTGTCTCAAGAGAGAC
1357554 AAA
1 AAA
1357557 CTTTGTTTCA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.44, C:0.17, G:0.20, T:0.19
Consensus pattern (36 bp):
AAAAGTCGTTTCAAGAGAAACTGTCTCAAGAGAGAC
Found at i:1357793 original size:21 final size:21
Alignment explanation
Indices: 1357762--1357815 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
1357752 TATGGATGGC
*
1357762 TCGAAGGACTTATCATCA-TGT
1 TCGAAAGACTTATCAT-ATTGT
*
1357783 TTGAAAGACTTATCATATTGT
1 TCGAAAGACTTATCATATTGT
1357804 TCGAAAGACTTA
1 TCGAAAGACTTA
1357816 CAGATGACCC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
20 1 0.03
21 28 0.97
ACGTcount: A:0.33, C:0.15, G:0.17, T:0.35
Consensus pattern (21 bp):
TCGAAAGACTTATCATATTGT
Found at i:1357971 original size:39 final size:39
Alignment explanation
Indices: 1357917--1358432 Score: 753
Period size: 39 Copynumber: 13.2 Consensus size: 39
1357907 TAGTTTCTTT
* * * *
1357917 AAATCTTTTGTTTCGAGGGAAACTGTCTCAAGCTAGATA
1 AAATCTTCTGTTTCGAGGGAAACTATCTCAAGCGAGACA
1357956 AAATCTTCTGTTTCGAGGGAAACTATCTCAAGCGAGACA
1 AAATCTTCTGTTTCGAGGGAAACTATCTCAAGCGAGACA
1357995 AAATCTTCTGTTTCGAGGGAAACTATCTCAAGCGAGACA
1 AAATCTTCTGTTTCGAGGGAAACTATCTCAAGCGAGACA
* * * *
1358034 AACTCTTATGTTTCAAAGGAAACTATCTCAAGCGAGACA
1 AAATCTTCTGTTTCGAGGGAAACTATCTCAAGCGAGACA
* *
1358073 AAATTTTCTGTTTCGAGGGAAACTATCTCAAGTGAGACA
1 AAATCTTCTGTTTCGAGGGAAACTATCTCAAGCGAGACA
* * *
1358112 AAATGTTCTGTTTCAAGGGAAACTATCTCCAGCGAGACA
1 AAATCTTCTGTTTCGAGGGAAACTATCTCAAGCGAGACA
** *
1358151 AAATCTTCTGTTTTAAGGGAAACTATCTCAAGCAAGACA
1 AAATCTTCTGTTTCGAGGGAAACTATCTCAAGCGAGACA
* *
1358190 AAATCTTTTGTTTCGAGGGAAACTATCTCAAGCGAGATA
1 AAATCTTCTGTTTCGAGGGAAACTATCTCAAGCGAGACA
*
1358229 AAATCTTCTGTTTCGAGGGACACTATCTCAAGCGAGACA
1 AAATCTTCTGTTTCGAGGGAAACTATCTCAAGCGAGACA
*
1358268 AAATCTTCTGTTTCGAGGGAAACTATCTCAAGCGAGATA
1 AAATCTTCTGTTTCGAGGGAAACTATCTCAAGCGAGACA
*
1358307 AAATCTTCTGTTTCAAGGGAAACTATCTCAAGCGAGACA
1 AAATCTTCTGTTTCGAGGGAAACTATCTCAAGCGAGACA
* * * * * *
1358346 AAATATTCTATTTCAAGGGAAACCATATCAAGTGAGACA
1 AAATCTTCTGTTTCGAGGGAAACTATCTCAAGCGAGACA
* * *
1358385 AAATCTTTTGTTTCAAGGGAAACTATCTCAAGCGAGATA
1 AAATCTTCTGTTTCGAGGGAAACTATCTCAAGCGAGACA
*
1358424 TAATCTTCT
1 AAATCTTCT
1358433 TTAAAAATAA
Statistics
Matches: 429, Mismatches: 48, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 429 1.00
ACGTcount: A:0.35, C:0.18, G:0.19, T:0.28
Consensus pattern (39 bp):
AAATCTTCTGTTTCGAGGGAAACTATCTCAAGCGAGACA
Found at i:1358524 original size:76 final size:75
Alignment explanation
Indices: 1358435--1358596 Score: 229
Period size: 76 Copynumber: 2.1 Consensus size: 75
1358425 AATCTTCTTT
* * *
1358435 AAAAATAATCTTGAGTGAAATGAAATGTCTTCTTTCGAGTAAAAATTGTCCCAAGCT-AGACAAA
1 AAAAACAATCTTGAGTCAAATGAAATGTCTTCTTTCGAGT-AAAACTGTCCCAAG-TGAGACAAA
*
1358499 -TCTTCTTTTAAG
64 GT-ATCTTTTAAG
*
1358511 AAAAACAATCTTGAGTCAAATGAAATGTCTTCTTTCGAGTAAAACTGTCTCAAGTGAGACAAAGT
1 AAAAACAATCTTGAGTCAAATGAAATGTCTTCTTTCGAGTAAAACTGTCCCAAGTGAGACAAAGT
*
1358576 ATGTTTTAAG
66 ATCTTTTAAG
1358586 AAAAACAATCT
1 AAAAACAATCT
1358597 CAAGTGAGAT
Statistics
Matches: 78, Mismatches: 6, Indels: 5
0.88 0.07 0.06
Matches are distributed among these distances:
74 1 0.01
75 38 0.49
76 39 0.50
ACGTcount: A:0.40, C:0.14, G:0.15, T:0.31
Consensus pattern (75 bp):
AAAAACAATCTTGAGTCAAATGAAATGTCTTCTTTCGAGTAAAACTGTCCCAAGTGAGACAAAGT
ATCTTTTAAG
Found at i:1358555 original size:39 final size:39
Alignment explanation
Indices: 1358436--1358555 Score: 88
Period size: 39 Copynumber: 3.1 Consensus size: 39
1358426 ATCTTCTTTA
* *
1358436 AAAATAATCTTGAGTGAAATGAAATGTCTTCTTTCGAGT
1 AAAACAATCTTGAGTCAAATGAAATGTCTTCTTTCGAGT
*** * * ** *
1358475 -AAA-AA--TTGTCCCAAGCTAGACAA-ATCTTCTTTTAAGA
1 AAAACAATCTTGAGTCAA-AT-GA-AATGTCTTCTTTCGAGT
1358512 AAAACAATCTTGAGTCAAATGAAATGTCTTCTTTCGAGT
1 AAAACAATCTTGAGTCAAATGAAATGTCTTCTTTCGAGT
1358551 AAAAC
1 AAAAC
1358556 TGTCTCAAGT
Statistics
Matches: 56, Mismatches: 17, Indels: 16
0.63 0.19 0.18
Matches are distributed among these distances:
35 5 0.09
36 1 0.02
37 14 0.25
38 10 0.18
39 19 0.34
40 1 0.02
41 6 0.11
ACGTcount: A:0.39, C:0.15, G:0.14, T:0.32
Consensus pattern (39 bp):
AAAACAATCTTGAGTCAAATGAAATGTCTTCTTTCGAGT
Found at i:1359000 original size:26 final size:26
Alignment explanation
Indices: 1358967--1359027 Score: 122
Period size: 26 Copynumber: 2.3 Consensus size: 26
1358957 GATTGTCCTA
1358967 TTTGAAAATGTTTTATTTCTTTTTAT
1 TTTGAAAATGTTTTATTTCTTTTTAT
1358993 TTTGAAAATGTTTTATTTCTTTTTAT
1 TTTGAAAATGTTTTATTTCTTTTTAT
1359019 TTTGAAAAT
1 TTTGAAAAT
1359028 ATGGAAAATT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 35 1.00
ACGTcount: A:0.26, C:0.03, G:0.08, T:0.62
Consensus pattern (26 bp):
TTTGAAAATGTTTTATTTCTTTTTAT
Found at i:1366095 original size:101 final size:99
Alignment explanation
Indices: 1365936--1366122 Score: 243
Period size: 101 Copynumber: 1.9 Consensus size: 99
1365926 TTGAACGTAT
* * * *
1365936 TCCCCTTGAACTTGAAGACATTGTTCATATGGGTTTTAAACTTACTGGTGTGTCGAAGGCATCTT
1 TCCCCTAGAACTTGAAGACATAGTTCATATGGGTTTTAAAATTACTGATGTG-CGAAGGCATCTT
**
1366001 CATATTGAGGTTGAAGAAGTTAGCAAATGAATATC
65 CATATTGAGGTCAAAGAAGTTAGCAAATGAATATC
*
1366036 TCCCCTAGAACTTGAAGGCATAGTGTCATATGGGTATTTAACAGATTACT-ATGTG-GAAGGCAT
1 TCCCCTAGAACTTGAAGACATAGT-TCATATGGGT-TTTAA-A-ATTACTGATGTGCGAAGGCAT
*
1366099 CTTTATATTGAGGTCAAAGAAGTT
62 CTTCATATTGAGGTCAAAGAAGTT
1366123 GGTAGATGGA
Statistics
Matches: 75, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
100 21 0.28
101 39 0.52
102 5 0.07
103 5 0.07
104 5 0.07
ACGTcount: A:0.30, C:0.14, G:0.22, T:0.33
Consensus pattern (99 bp):
TCCCCTAGAACTTGAAGACATAGTTCATATGGGTTTTAAAATTACTGATGTGCGAAGGCATCTTC
ATATTGAGGTCAAAGAAGTTAGCAAATGAATATC
Found at i:1367199 original size:169 final size:170
Alignment explanation
Indices: 1366812--1367286 Score: 501
Period size: 169 Copynumber: 2.8 Consensus size: 170
1366802 TGGAAATAAT
* * *
1366812 GGAACTATTCACGTCAACCTTATTTATGTTTGATGGGACGAGACACTATGACATGCCAGAGATTC
1 GGAACTATTCACATCAACCCTATTTATGTTTGATGGGACGAGACACTATGACATGACAGAGATTC
* * *
1366877 TCTAAAACCTTTGAAAACCACTTCTTATGGAACGAGCCTTTCATTTTTTTTTAGAATTTATCTGC
66 TCTAAAACCTTTGAAAACCACTTCTTATGGAACGAGCC-TT-ATTTTTTGTCACAATTTATCTGC
* * * * * * *
1366942 ATATTTCAATCAATTATATATAGATATGATGTTTCTAGTTGG
129 ATATTTCAATAAATTACATACAGATATGATGTTGCTAATCGA
* *
1366984 GGAACTATTCACATCAACTCTATTTATGTTTGATGGGACAAGACACTATGACATGACAGAGATTC
1 GGAACTATTCACATCAACCCTATTTATGTTTGATGGGACGAGACACTATGACATGACAGAGATTC
* *** * *
1367049 TCTAAACACCTTTGGAAAGTGCTTCTTGTGGAACGAGCC-T-TTTTTTGTCACAATTTATCTTCA
66 TCTAAA-ACCTTTGAAAACCACTTCTTATGGAACGAGCCTTATTTTTTGTCACAATTTATCTGCA
* * * *
1367112 TATTTCATTAAATTACATGCATATATGTTGTTGGC-AATCGA
130 TATTTCAATAAATTACATACAGATATGATGTT-GCTAATCGA
* * ** *
1367153 GGAACTATTCACTTCAACCCTATTTATATTAAATGGGACGAGACACTATGATATGACAGAGATTC
1 GGAACTATTCACATCAACCCTATTTATGTTTGATGGGACGAGACACTATGACATGACAGAGATTC
* **** * * * * *
1367218 TTTGAAAA-GAGGGAAAA-CACTTCTTGTGGAACTAGTCTTTTGTTTTTGTCAGAATTTATCTGC
66 TCT-AAAACCTTTGAAAACCACTTCTTATGGAACGAGCCTTAT-TTTTTGTCACAATTTATCTGC
1367281 ATATTT
129 ATATTT
1367287 TAGTCAAGTA
Statistics
Matches: 253, Mismatches: 44, Indels: 14
0.81 0.14 0.05
Matches are distributed among these distances:
167 16 0.06
168 5 0.02
169 109 0.43
170 29 0.11
171 1 0.00
172 66 0.26
173 27 0.11
ACGTcount: A:0.30, C:0.17, G:0.17, T:0.37
Consensus pattern (170 bp):
GGAACTATTCACATCAACCCTATTTATGTTTGATGGGACGAGACACTATGACATGACAGAGATTC
TCTAAAACCTTTGAAAACCACTTCTTATGGAACGAGCCTTATTTTTTGTCACAATTTATCTGCAT
ATTTCAATAAATTACATACAGATATGATGTTGCTAATCGA
Found at i:1368758 original size:13 final size:13
Alignment explanation
Indices: 1368752--1368821 Score: 63
Period size: 13 Copynumber: 5.5 Consensus size: 13
1368742 CATAAACACT
1368752 AAACATAATACAA
1 AAACATAATACAA
*
1368765 AAACATAATATAA
1 AAACATAATACAA
*
1368778 AGACATAATA-AA
1 AAACATAATACAA
* *
1368790 AAAGCA-AACAAAA
1 AAA-CATAATACAA
* *
1368803 AAACTTAATATAA
1 AAACATAATACAA
1368816 AAACAT
1 AAACAT
1368822 TATAAAATAT
Statistics
Matches: 46, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
12 8 0.17
13 38 0.83
ACGTcount: A:0.69, C:0.11, G:0.03, T:0.17
Consensus pattern (13 bp):
AAACATAATACAA
Found at i:1374400 original size:31 final size:31
Alignment explanation
Indices: 1374365--1374428 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
1374355 AAAACATAAT
**
1374365 ATATGACCACTTTCTTTTTTATATAATTAAG
1 ATATGACCACTTTCGGTTTTATATAATTAAG
* *
1374396 ATATGATCACTTTCGGTTTTATTTAATTAAG
1 ATATGACCACTTTCGGTTTTATATAATTAAG
1374427 AT
1 AT
1374429 GTGGTCAACA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.31, C:0.11, G:0.09, T:0.48
Consensus pattern (31 bp):
ATATGACCACTTTCGGTTTTATATAATTAAG
Found at i:1375386 original size:14 final size:11
Alignment explanation
Indices: 1375358--1375388 Score: 62
Period size: 11 Copynumber: 2.8 Consensus size: 11
1375348 ATTTTTGAAT
1375358 CCACCACCCGC
1 CCACCACCCGC
1375369 CCACCACCCGC
1 CCACCACCCGC
1375380 CCACCACCC
1 CCACCACCC
1375389 ATGATGGGTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.19, C:0.74, G:0.06, T:0.00
Consensus pattern (11 bp):
CCACCACCCGC
Found at i:1378109 original size:23 final size:22
Alignment explanation
Indices: 1378073--1378141 Score: 66
Period size: 23 Copynumber: 3.0 Consensus size: 22
1378063 CACCACAGCT
* *
1378073 CGTATAATTTCACCTAAGTGCCA
1 CGTAGAATTGCACC-AAGTGCCA
* * *
1378096 CTTAGAATTGCACCGGAGTGCCG
1 CGTAGAATTGCACC-AAGTGCCA
1378119 CGTAGAATTGCACCATAGTGCCA
1 CGTAGAATTGCACCA-AGTGCCA
1378142 TATAATAATG
Statistics
Matches: 36, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.28, C:0.26, G:0.22, T:0.25
Consensus pattern (22 bp):
CGTAGAATTGCACCAAGTGCCA
Found at i:1378282 original size:103 final size:103
Alignment explanation
Indices: 1378157--1378374 Score: 391
Period size: 103 Copynumber: 2.1 Consensus size: 103
1378147 TAATGTCCAT
* *
1378157 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCATCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
* *
1378222 GACCTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACCTCACACATATTCCAAAGAATACATATATATCCCG
1378260 AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
*
1378325 TACCTCACACATATTCCAAAGAATACATATATATCCCG
66 GACCTCACACATATTCCAAAGAATACATATATATCCCG
1378363 AAGGACCACATA
1 AAGGACCACATA
1378375 GACCCTCTAC
Statistics
Matches: 110, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
103 110 1.00
ACGTcount: A:0.38, C:0.25, G:0.12, T:0.25
Consensus pattern (103 bp):
AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
GACCTCACACATATTCCAAAGAATACATATATATCCCG
Found at i:1378885 original size:20 final size:20
Alignment explanation
Indices: 1378860--1378917 Score: 89
Period size: 20 Copynumber: 2.9 Consensus size: 20
1378850 TTTTTCATTA
*
1378860 TGGGGGAATCGGTTCCCCCC
1 TGGGGGTATCGGTTCCCCCC
*
1378880 TGGGGGTATCGGTTCTCCCC
1 TGGGGGTATCGGTTCCCCCC
*
1378900 TGGGGGTATCGATTCCCC
1 TGGGGGTATCGGTTCCCC
1378918 TCTAGCATTC
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.09, C:0.31, G:0.34, T:0.26
Consensus pattern (20 bp):
TGGGGGTATCGGTTCCCCCC
Found at i:1378969 original size:21 final size:21
Alignment explanation
Indices: 1378945--1378987 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
1378935 TCATATTCGT
* *
1378945 TTGAGGGGGGATCGATTCCCC
1 TTGAAGGGGGACCGATTCCCC
* *
1378966 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGGACCGATTCCCC
1378987 T
1 T
1378988 AGCCCAGAAA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.16, C:0.26, G:0.30, T:0.28
Consensus pattern (21 bp):
TTGAAGGGGGACCGATTCCCC
Found at i:1385079 original size:23 final size:23
Alignment explanation
Indices: 1385053--1385097 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
1385043 AAGTTCCACT
1385053 TAGAATTGCACCGGAGTGCCGTG
1 TAGAATTGCACCGGAGTGCCGTG
*
1385076 TAGAATTGCACCGTAGTGCCGT
1 TAGAATTGCACCGGAGTGCCGT
1385098 ATAATAATGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.22, C:0.22, G:0.31, T:0.24
Consensus pattern (23 bp):
TAGAATTGCACCGGAGTGCCGTG
Found at i:1385283 original size:103 final size:103
Alignment explanation
Indices: 1385104--1385329 Score: 418
Period size: 103 Copynumber: 2.2 Consensus size: 103
1385094 CCGTATAATA
*
1385104 ATGT-CCATAAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGT
1 ATGTCCCA-AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGT
1385168 GTCTCACCAGACCTCACACATGTTCCAAAGAATACATAT
65 GTCTCACCAGACCTCACACATGTTCCAAAGAATACATAT
1385207 ATGTCCCAAAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTG
1 ATGTCCCAAAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTG
1385272 TCTCACCAGACCTCACACATGTTCCAAAGAATACATAT
66 TCTCACCAGACCTCACACATGTTCCAAAGAATACATAT
*
1385310 ATGTCCCGAAGGACCACATA
1 ATGTCCCAAAGGACCACATA
1385330 GACCCTCTAC
Statistics
Matches: 120, Mismatches: 2, Indels: 2
0.97 0.02 0.02
Matches are distributed among these distances:
103 117 0.98
104 3 0.03
ACGTcount: A:0.37, C:0.25, G:0.13, T:0.25
Consensus pattern (103 bp):
ATGTCCCAAAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTG
TCTCACCAGACCTCACACATGTTCCAAAGAATACATAT
Found at i:1385848 original size:19 final size:20
Alignment explanation
Indices: 1385811--1385848 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
1385801 TTTTTCATTA
*
1385811 TGGGGGAATCGGTTCCCCCC
1 TGGGGGAATCGATTCCCCCC
*
1385831 TGGGGGTATCGATTCCCC
1 TGGGGGAATCGATTCCCC
1385849 TCTAGCATTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.11, C:0.32, G:0.34, T:0.24
Consensus pattern (20 bp):
TGGGGGAATCGATTCCCCCC
Found at i:1385900 original size:21 final size:21
Alignment explanation
Indices: 1385876--1385918 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
1385866 TCATATTCGT
* *
1385876 TTGAGGGGGGATCGATTCCCC
1 TTGAAGGGGGACCGATTCCCC
* *
1385897 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGGACCGATTCCCC
1385918 T
1 T
1385919 AGCCCAGAAA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.16, C:0.26, G:0.30, T:0.28
Consensus pattern (21 bp):
TTGAAGGGGGACCGATTCCCC
Found at i:1388132 original size:3 final size:3
Alignment explanation
Indices: 1388124--1388158 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
1388114 CAGTTTTCTT
1388124 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1388159 TAAATAAATA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:1389553 original size:29 final size:30
Alignment explanation
Indices: 1389505--1389563 Score: 77
Period size: 29 Copynumber: 2.0 Consensus size: 30
1389495 AGGGCTGTAA
1389505 ATTTTAATATTTTATATTTTAATC-CTATT
1 ATTTTAATATTTTATATTTTAATCACTATT
* *
1389534 ATTTTAAT-TTTATATGTTTTAGTCACTATT
1 ATTTTAATATTT-TATATTTTAATCACTATT
1389564 TAATTGCAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
28 3 0.12
29 18 0.69
30 5 0.19
ACGTcount: A:0.29, C:0.07, G:0.03, T:0.61
Consensus pattern (30 bp):
ATTTTAATATTTTATATTTTAATCACTATT
Found at i:1389627 original size:12 final size:11
Alignment explanation
Indices: 1389610--1389644 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
1389600 TTCAATATGT
1389610 TTTAATTATTA
1 TTTAATTATTA
1389621 CTTTAATTATTA
1 -TTTAATTATTA
*
1389633 TTTTATTATTA
1 TTTAATTATTA
1389644 T
1 T
1389645 ATTAGCCATA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 11 0.50
12 11 0.50
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (11 bp):
TTTAATTATTA
Found at i:1391845 original size:15 final size:15
Alignment explanation
Indices: 1391812--1391848 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
1391802 ATATTTAACT
*
1391812 GGGCGGGCGGATGTA
1 GGGCGGGCGGATGCA
*
1391827 GGGCGGGCGGATGCG
1 GGGCGGGCGGATGCA
1391842 GGGCGGG
1 GGGCGGG
1391849 TAATGTCTCG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.08, C:0.16, G:0.68, T:0.08
Consensus pattern (15 bp):
GGGCGGGCGGATGCA
Found at i:1392650 original size:14 final size:12
Alignment explanation
Indices: 1392603--1392649 Score: 76
Period size: 12 Copynumber: 3.9 Consensus size: 12
1392593 GTCTACTGGT
* *
1392603 AAATGCTCTATA
1 AAATTCTCTCTA
1392615 AAATTCTCTCTA
1 AAATTCTCTCTA
1392627 AAATTCTCTCTA
1 AAATTCTCTCTA
1392639 AAATTCTCTCT
1 AAATTCTCTCT
1392650 CCCGTTCTCT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 33 1.00
ACGTcount: A:0.34, C:0.23, G:0.02, T:0.40
Consensus pattern (12 bp):
AAATTCTCTCTA
Found at i:1393897 original size:42 final size:42
Alignment explanation
Indices: 1393850--1393969 Score: 104
Period size: 41 Copynumber: 2.9 Consensus size: 42
1393840 GCATTTCTTT
*
1393850 AACAAACGCCGCGATAGAGTAGTAATTTAGTGGCGTTTTTTGC
1 AACAAACGCCGCGATAGAGTAGT-ATTTAGTGGCGTTTTTTCC
* * * *
1393893 -ACAAACGCCACAATAGGGTTGT-TTATAGTGGCG-TTTTTCC
1 AACAAACGCCGCGATAGAGTAGTATT-TAGTGGCGTTTTTTCC
* ** *
1393933 AATAAATACCGCGATAAAG-AGTACTTTAGTGGCGTTT
1 AACAAACGCCGCGATAGAGTAGTA-TTTAGTGGCGTTT
1393970 GTTATAAAAA
Statistics
Matches: 59, Mismatches: 13, Indels: 11
0.71 0.16 0.13
Matches are distributed among these distances:
40 10 0.17
41 27 0.46
42 22 0.37
ACGTcount: A:0.29, C:0.17, G:0.23, T:0.31
Consensus pattern (42 bp):
AACAAACGCCGCGATAGAGTAGTATTTAGTGGCGTTTTTTCC
Found at i:1394416 original size:22 final size:22
Alignment explanation
Indices: 1394388--1394435 Score: 87
Period size: 22 Copynumber: 2.2 Consensus size: 22
1394378 TGTTTCACTA
1394388 CTTTCGAATAGAAAAATAATAG
1 CTTTCGAATAGAAAAATAATAG
*
1394410 CTTTCGAATAGGAAAATAATAG
1 CTTTCGAATAGAAAAATAATAG
1394432 CTTT
1 CTTT
1394436 TGAAAATGTG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.44, C:0.10, G:0.15, T:0.31
Consensus pattern (22 bp):
CTTTCGAATAGAAAAATAATAG
Found at i:1398481 original size:16 final size:16
Alignment explanation
Indices: 1398450--1398483 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
1398440 CTTGCTCCCA
1398450 TAAAATTTTATCAATT
1 TAAAATTTTATCAATT
1398466 TAAAAGTTTTAT-AATT
1 TAAAA-TTTTATCAATT
1398482 TA
1 TA
1398484 GGACTGATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 11 0.65
17 6 0.35
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.50
Consensus pattern (16 bp):
TAAAATTTTATCAATT
Found at i:1401141 original size:14 final size:14
Alignment explanation
Indices: 1401122--1401149 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
1401112 ACTTTTTTAT
1401122 TGGGAAAAATTGAG
1 TGGGAAAAATTGAG
1401136 TGGGAAAAATTGAG
1 TGGGAAAAATTGAG
1401150 GGAAAAAAGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.00, G:0.36, T:0.21
Consensus pattern (14 bp):
TGGGAAAAATTGAG
Found at i:1401154 original size:12 final size:13
Alignment explanation
Indices: 1401123--1401156 Score: 52
Period size: 14 Copynumber: 2.6 Consensus size: 13
1401113 CTTTTTTATT
1401123 GGGAAAAATTGAG
1 GGGAAAAATTGAG
1401136 TGGGAAAAATTGA-
1 -GGGAAAAATTGAG
1401149 GGGAAAAA
1 GGGAAAAA
1401157 AGGGTGGAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 8 0.40
14 12 0.60
ACGTcount: A:0.50, C:0.00, G:0.35, T:0.15
Consensus pattern (13 bp):
GGGAAAAATTGAG
Found at i:1401952 original size:45 final size:43
Alignment explanation
Indices: 1401871--1401975 Score: 140
Period size: 44 Copynumber: 2.4 Consensus size: 43
1401861 AGTTTAGATA
* *
1401871 TTTTGCGGCATTTGTATTAATAAACGCCGCTATATACCAGACC
1 TTTTGCGGCATTTGTATCAATAAACGCCGCTATATACCAAACC
*
1401914 TTTTTGCGGCGTTTGTATCCCAA-AAACGCCGCTATATACCAAACC
1 -TTTTGCGGCATTTGTAT--CAATAAACGCCGCTATATACCAAACC
*
1401959 TATTGCGGCATTTGTAT
1 TTTTGCGGCATTTGTAT
1401976 GCGAAAAATG
Statistics
Matches: 54, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
44 31 0.57
45 21 0.39
46 2 0.04
ACGTcount: A:0.26, C:0.24, G:0.17, T:0.33
Consensus pattern (43 bp):
TTTTGCGGCATTTGTATCAATAAACGCCGCTATATACCAAACC
Found at i:1415496 original size:21 final size:21
Alignment explanation
Indices: 1415470--1415515 Score: 83
Period size: 21 Copynumber: 2.2 Consensus size: 21
1415460 GCCCAGGATT
1415470 GTCGAGTGCAGCGAAGAGGGC
1 GTCGAGTGCAGCGAAGAGGGC
*
1415491 GTCGAGTGCAGCGACGAGGGC
1 GTCGAGTGCAGCGAAGAGGGC
1415512 GTCG
1 GTCG
1415516 CTAGGTTCGG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.20, C:0.22, G:0.48, T:0.11
Consensus pattern (21 bp):
GTCGAGTGCAGCGAAGAGGGC
Found at i:1420651 original size:14 final size:15
Alignment explanation
Indices: 1420627--1420669 Score: 54
Period size: 14 Copynumber: 3.0 Consensus size: 15
1420617 TTTTTTATTT
1420627 TTTTAA-ATAAAATA
1 TTTTAATATAAAATA
* *
1420641 TTTT-ATTTAAACTA
1 TTTTAATATAAAATA
1420655 TTTTAATATAAAATA
1 TTTTAATATAAAATA
1420670 ATAATATAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
13 1 0.04
14 14 0.61
15 8 0.35
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (15 bp):
TTTTAATATAAAATA
Found at i:1420695 original size:24 final size:23
Alignment explanation
Indices: 1420661--1420705 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
1420651 ACTATTTTAA
*
1420661 TATAAAATAATAATATAATATATT
1 TATAAAATAATAAAAT-ATATATT
*
1420685 TATAAATTAATAAAATATATA
1 TATAAAATAATAAAATATATA
1420706 CTTGGAAAAG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 5 0.26
24 14 0.74
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (23 bp):
TATAAAATAATAAAATATATATT
Done.