Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007905.1 Hibiscus syriacus cultivar Beakdansim tig00110299_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: 2946335
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 9 of 14
Found at i:1712528 original size:3 final size:3
Alignment explanation
Indices: 1712522--1712554 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
1712512 TCATCACTCG
1712522 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
1712555 TTATAGACTC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
CTT
Found at i:1724111 original size:20 final size:20
Alignment explanation
Indices: 1724086--1724127 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
1724076 ACTGAAGGAA
1724086 GTATCGATACCATAGGAGGG
1 GTATCGATACCATAGGAGGG
1724106 GTATCGATACCATAGGAGGG
1 GTATCGATACCATAGGAGGG
1724126 GT
1 GT
1724128 GCCAATAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.29, C:0.14, G:0.36, T:0.21
Consensus pattern (20 bp):
GTATCGATACCATAGGAGGG
Found at i:1727507 original size:22 final size:19
Alignment explanation
Indices: 1727478--1727529 Score: 61
Period size: 19 Copynumber: 2.6 Consensus size: 19
1727468 CCACCCTTAC
1727478 GGTA-CGATACCTCTACACTA
1 GGTATCGATACC-CTAC-CTA
*
1727498 GGGTATCGATACCCTTCCTA
1 -GGTATCGATACCCTACCTA
1727518 GGTATCGATACC
1 GGTATCGATACC
1727530 AAAATTAGCT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
19 12 0.41
20 3 0.10
21 7 0.24
22 7 0.24
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (19 bp):
GGTATCGATACCCTACCTA
Found at i:1727801 original size:21 final size:22
Alignment explanation
Indices: 1727777--1727819 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 22
1727767 CCTTATGCCT
*
1727777 TAAAACTTATTTATACA-TATA
1 TAAAACTTATTTAAACACTATA
* *
1727798 TAAACCTTCTTTAAACACTATA
1 TAAAACTTATTTAAACACTATA
1727820 ACACTTCATT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.44, C:0.16, G:0.00, T:0.40
Consensus pattern (22 bp):
TAAAACTTATTTAAACACTATA
Found at i:1730832 original size:14 final size:14
Alignment explanation
Indices: 1730813--1730839 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
1730803 TTCACAGTTC
1730813 ACGGTACTGTTCAT
1 ACGGTACTGTTCAT
1730827 ACGGTACTGTTCA
1 ACGGTACTGTTCA
1730840 CTGTTCATAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.22, G:0.22, T:0.33
Consensus pattern (14 bp):
ACGGTACTGTTCAT
Found at i:1731772 original size:16 final size:17
Alignment explanation
Indices: 1731743--1731774 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
1731733 TATATAATTA
1731743 TATTTTATAAAAATATG
1 TATTTTATAAAAATATG
1731760 TATTTTA-AAAAATAT
1 TATTTTATAAAAATAT
1731775 TAATAATTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (17 bp):
TATTTTATAAAAATATG
Found at i:1735766 original size:34 final size:34
Alignment explanation
Indices: 1735728--1735828 Score: 119
Period size: 34 Copynumber: 3.1 Consensus size: 34
1735718 CAGTTGAGAT
1735728 TAAACAAACCCATATTGAAATTTCACAGAAACTA
1 TAAACAAACCCATATTGAAATTTCACAGAAACTA
1735762 TAAACAAA---ATCA--GAAA--TCGA-AGAAACTA
1 TAAACAAACCCAT-ATTGAAATTTC-ACAGAAACTA
*
1735790 TAAACAAACCCAGATTGAAATTTCACAGAAACTA
1 TAAACAAACCCATATTGAAATTTCACAGAAACTA
1735824 TAAAC
1 TAAAC
1735829 GAAATCAGAA
Statistics
Matches: 56, Mismatches: 1, Indels: 20
0.73 0.01 0.26
Matches are distributed among these distances:
28 18 0.32
29 1 0.02
30 5 0.09
31 3 0.05
32 5 0.09
33 1 0.02
34 23 0.41
ACGTcount: A:0.53, C:0.19, G:0.08, T:0.20
Consensus pattern (34 bp):
TAAACAAACCCATATTGAAATTTCACAGAAACTA
Found at i:1735825 original size:62 final size:62
Alignment explanation
Indices: 1735728--1735847 Score: 213
Period size: 62 Copynumber: 1.9 Consensus size: 62
1735718 CAGTTGAGAT
*
1735728 TAAACAAACCCATATTGAAATTTCACAGAAACTATAAACAAAATCAGAAATCGAAGAAACTA
1 TAAACAAACCCAGATTGAAATTTCACAGAAACTATAAACAAAATCAGAAATCGAAGAAACTA
* *
1735790 TAAACAAACCCAGATTGAAATTTCACAGAAACTATAAACGAAATCAGAAATCGCAGAA
1 TAAACAAACCCAGATTGAAATTTCACAGAAACTATAAACAAAATCAGAAATCGAAGAA
1735848 GTGAAATAAG
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
62 55 1.00
ACGTcount: A:0.53, C:0.18, G:0.10, T:0.18
Consensus pattern (62 bp):
TAAACAAACCCAGATTGAAATTTCACAGAAACTATAAACAAAATCAGAAATCGAAGAAACTA
Found at i:1735847 original size:28 final size:27
Alignment explanation
Indices: 1735753--1735847 Score: 82
Period size: 28 Copynumber: 3.2 Consensus size: 27
1735743 TGAAATTTCA
1735753 CAGAAACTATAAACAAAATCAGAAATCG
1 CAGAAACTATAAAC-AAATCAGAAATCG
* * *
1735781 AAGAAACTATAAACAAACCCAGATTGAAATTTCA
1 CAGAAACTATAAACAAA-TC--A--GAAA--TCG
1735815 CAGAAACTATAAACGAAATCAGAAATCG
1 CAGAAACTATAAAC-AAATCAGAAATCG
1735843 CAGAA
1 CAGAA
1735848 GTGAAATAAG
Statistics
Matches: 53, Mismatches: 6, Indels: 16
0.71 0.08 0.21
Matches are distributed among these distances:
27 3 0.06
28 21 0.40
30 5 0.09
32 5 0.09
34 16 0.30
35 3 0.06
ACGTcount: A:0.55, C:0.18, G:0.12, T:0.16
Consensus pattern (27 bp):
CAGAAACTATAAACAAATCAGAAATCG
Found at i:1739539 original size:30 final size:31
Alignment explanation
Indices: 1739486--1739552 Score: 93
Period size: 31 Copynumber: 2.2 Consensus size: 31
1739476 TAAAATATAT
1739486 AACTTTTTCAAAATTATATTTTTAGTC-CATA
1 AACTTTTTCAAAATTATATTTTTA-TCTCATA
* *
1739517 AACTTTTTCAAATTTATA-TTTTATCTCCTA
1 AACTTTTTCAAAATTATATTTTTATCTCATA
1739547 AACTTT
1 AACTTT
1739553 CAAAACTTTC
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
29 2 0.06
30 14 0.42
31 17 0.52
ACGTcount: A:0.33, C:0.15, G:0.01, T:0.51
Consensus pattern (31 bp):
AACTTTTTCAAAATTATATTTTTATCTCATA
Found at i:1743060 original size:103 final size:103
Alignment explanation
Indices: 1742876--1743101 Score: 382
Period size: 103 Copynumber: 2.2 Consensus size: 103
1742866 GTCGAGGGTC
*
1742876 TATGTGGTCCTTCAGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCAGGACATATATGTATTCTTTGGAACATGTGTGAAGTATGGTGAGACACATAC
* *
1742941 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
66 TTGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
*
1742979 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTATGGTGAGACACATAC
1 TATGTGGTCCTTCAGGACATATATGTATTCTTTGGAACATGTGTGAAGTATGGTGAGACACATAC
* *
1743044 TTGATCCCTAGTATATGTATATGATTTTTAAGGAATGA
66 TTGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
1743082 TATGTGGTCCTT-ATGGACAT
1 TATGTGGTCCTTCA-GGACAT
1743102 TATTATATGG
Statistics
Matches: 115, Mismatches: 7, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
103 115 1.00
ACGTcount: A:0.27, C:0.13, G:0.23, T:0.37
Consensus pattern (103 bp):
TATGTGGTCCTTCAGGACATATATGTATTCTTTGGAACATGTGTGAAGTATGGTGAGACACATAC
TTGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
Found at i:1743176 original size:23 final size:23
Alignment explanation
Indices: 1743103--1743177 Score: 82
Period size: 23 Copynumber: 3.3 Consensus size: 23
1743093 TATGGACATT
1743103 ATTATAT--GGCACTACGGTGCA
1 ATTATATGCGGCACTACGGTGCA
* * * *
1743124 ATTCTACGCGGCACTCCGATGCA
1 ATTATATGCGGCACTACGGTGCA
*
1743147 ATTATATGCGGCACTTCGGTGCA
1 ATTATATGCGGCACTACGGTGCA
*
1743170 ACTATATG
1 ATTATATG
1743178 AGTTGTGGTG
Statistics
Matches: 43, Mismatches: 9, Indels: 2
0.80 0.17 0.04
Matches are distributed among these distances:
21 5 0.12
23 38 0.88
ACGTcount: A:0.25, C:0.24, G:0.23, T:0.28
Consensus pattern (23 bp):
ATTATATGCGGCACTACGGTGCA
Found at i:1747678 original size:103 final size:103
Alignment explanation
Indices: 1747494--1747711 Score: 364
Period size: 103 Copynumber: 2.1 Consensus size: 103
1747484 GTCGAGGGTC
* * *
1747494 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATATATTCTTTGAAACATGTGTGAAGTATGGTGAGACACATAC
* *
1747559 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
66 TTGATCCGTAGCATATGTATATGATTCTTAAGGAATGA
**
1747597 TATGTGGTCCTTCGGGATGTATATATATTCTTTGAAACATGTGTGAAGTATGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATATATTCTTTGAAACATGTGTGAAGTATGGTGAGACACATAC
*
1747662 TTGATCCGTAGTATATGTATATGATTCTTAAGGAATGA
66 TTGATCCGTAGCATATGTATATGATTCTTAAGGAATGA
1747700 TATGTGGTCCTT
1 TATGTGGTCCTT
1747712 ATGGACATTA
Statistics
Matches: 107, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
103 107 1.00
ACGTcount: A:0.27, C:0.12, G:0.24, T:0.37
Consensus pattern (103 bp):
TATGTGGTCCTTCGGGACATATATATATTCTTTGAAACATGTGTGAAGTATGGTGAGACACATAC
TTGATCCGTAGCATATGTATATGATTCTTAAGGAATGA
Found at i:1747754 original size:23 final size:22
Alignment explanation
Indices: 1747721--1747795 Score: 82
Period size: 23 Copynumber: 3.4 Consensus size: 22
1747711 TATGGACATT
1747721 ATTATAT--GGCATTACGGTGCA
1 ATTATATGCGGCATT-CGGTGCA
* *
1747742 ATTCTATGCGGCACTCCGGTGCA
1 ATTATATGCGGCA-TTCGGTGCA
*
1747765 ATTATATGTGGCACTTCGGTGCA
1 ATTATATGCGGCA-TTCGGTGCA
1747788 ATTATATG
1 ATTATATG
1747796 AGCTGTGATG
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
21 6 0.13
23 39 0.85
24 1 0.02
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.33
Consensus pattern (22 bp):
ATTATATGCGGCATTCGGTGCA
Found at i:1752095 original size:64 final size:64
Alignment explanation
Indices: 1752027--1752188 Score: 159
Period size: 64 Copynumber: 2.5 Consensus size: 64
1752017 TTGTTTGAAG
***
1752027 GTGTATCGATGCACAAGTAGTGCATCGATGCA-CTCTTTTAA-AATAAAAACATCGAATGCAATT
1 GTGTATCGATGCACAAGTAGTGCATCGATGCATC-CCAGTAATAA-AAAAACATCGAATGCAATT
1752090 A
64 A
* * * * * * *
1752091 GTGTATCAATGCATAAGGCA-TGCATCGATGCATCCCAGTAATAAACAAACATCGAATGTATTTT
1 GTGTATCGATGCACAA-GTAGTGCATCGATGCATCCCAGTAATAAAAAAACATCGAATGCAATTA
* * *
1752155 GTGCACCGATGCACAAGTAGTGCATCGATTCATC
1 GTGTATCGATGCACAAGTAGTGCATCGATGCATC
1752189 GGTAGGGAAT
Statistics
Matches: 78, Mismatches: 16, Indels: 8
0.76 0.16 0.08
Matches are distributed among these distances:
63 2 0.03
64 71 0.91
65 5 0.06
ACGTcount: A:0.35, C:0.20, G:0.19, T:0.27
Consensus pattern (64 bp):
GTGTATCGATGCACAAGTAGTGCATCGATGCATCCCAGTAATAAAAAAACATCGAATGCAATTA
Found at i:1753152 original size:103 final size:103
Alignment explanation
Indices: 1752968--1753185 Score: 364
Period size: 103 Copynumber: 2.1 Consensus size: 103
1752958 GTCGAGGGTC
* * *
1752968 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATATATTCTTTGAAACATGTGTGAAGTATGGTGAGACACATAC
* *
1753033 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
66 TTGATCCGTAGCATATGTATATGATTCTTAAGGAATGA
**
1753071 TATGTGGTCCTTCGGGATGTATATATATTCTTTGAAACATGTGTGAAGTATGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATATATTCTTTGAAACATGTGTGAAGTATGGTGAGACACATAC
*
1753136 TTGATCCGTAGTATATGTATATGATTCTTAAGGAATGA
66 TTGATCCGTAGCATATGTATATGATTCTTAAGGAATGA
1753174 TATGTGGTCCTT
1 TATGTGGTCCTT
1753186 ATGGACATTA
Statistics
Matches: 107, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
103 107 1.00
ACGTcount: A:0.27, C:0.12, G:0.24, T:0.37
Consensus pattern (103 bp):
TATGTGGTCCTTCGGGACATATATATATTCTTTGAAACATGTGTGAAGTATGGTGAGACACATAC
TTGATCCGTAGCATATGTATATGATTCTTAAGGAATGA
Found at i:1753235 original size:23 final size:23
Alignment explanation
Indices: 1753192--1753292 Score: 139
Period size: 23 Copynumber: 4.3 Consensus size: 23
1753182 CCTTATGGAC
* *
1753192 ATTATTATATGGCACTACGGTGCA
1 ATTA-TATGTGGCACTCCGGTGCA
* *
1753216 ATTCTACGTGGCACTCCGGTGCA
1 ATTATATGTGGCACTCCGGTGCA
*
1753239 ATTATATGTGGCACTCCAGTGCA
1 ATTATATGTGGCACTCCGGTGCA
*
1753262 ATTATATGTGGCACTTCGGTGCA
1 ATTATATGTGGCACTCCGGTGCA
1753285 ATTATATG
1 ATTATATG
1753293 AGCTGTGGTG
Statistics
Matches: 68, Mismatches: 9, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
23 65 0.96
24 3 0.04
ACGTcount: A:0.25, C:0.20, G:0.23, T:0.33
Consensus pattern (23 bp):
ATTATATGTGGCACTCCGGTGCA
Found at i:1757620 original size:11 final size:11
Alignment explanation
Indices: 1757604--1757658 Score: 50
Period size: 11 Copynumber: 5.5 Consensus size: 11
1757594 TAGTGTATAG
1757604 ATGCATAAGGC
1 ATGCATAAGGC
*
1757615 ATGCAT--CG-
1 ATGCATAAGGC
1757623 ATGCATAAGGC
1 ATGCATAAGGC
*
1757634 ATGCAT--CG-
1 ATGCATAAGGC
1757642 ATGCATAAGGC
1 ATGCATAAGGC
1757653 ATGCAT
1 ATGCAT
1757659 CGATGCATCC
Statistics
Matches: 34, Mismatches: 4, Indels: 12
0.68 0.08 0.24
Matches are distributed among these distances:
8 12 0.35
9 2 0.06
10 2 0.06
11 18 0.53
ACGTcount: A:0.33, C:0.20, G:0.25, T:0.22
Consensus pattern (11 bp):
ATGCATAAGGC
Found at i:1757627 original size:19 final size:19
Alignment explanation
Indices: 1757603--1757666 Score: 128
Period size: 19 Copynumber: 3.4 Consensus size: 19
1757593 TTAGTGTATA
1757603 GATGCATAAGGCATGCATC
1 GATGCATAAGGCATGCATC
1757622 GATGCATAAGGCATGCATC
1 GATGCATAAGGCATGCATC
1757641 GATGCATAAGGCATGCATC
1 GATGCATAAGGCATGCATC
1757660 GATGCAT
1 GATGCAT
1757667 CCCAGTAATA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 45 1.00
ACGTcount: A:0.31, C:0.20, G:0.27, T:0.22
Consensus pattern (19 bp):
GATGCATAAGGCATGCATC
Found at i:1758734 original size:103 final size:103
Alignment explanation
Indices: 1758509--1758726 Score: 382
Period size: 103 Copynumber: 2.1 Consensus size: 103
1758499 GTCGAGGGTC
* *
1758509 TATGTGATCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTAAGACACATAC
* * *
1758574 TTGATCCTTTGCATATGTATATGATTCTTAAGGAATGA
66 TTGATCCCTAGCATATGTATATGATTCATAAGGAATGA
1758612 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTAAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTAAGACACATAC
*
1758677 TTGATCCCTAGTATATGTATATGATTCATAAGGAATGA
66 TTGATCCCTAGCATATGTATATGATTCATAAGGAATGA
1758715 TATGTGGTCCTT
1 TATGTGGTCCTT
1758727 ATGGACATTA
Statistics
Matches: 109, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
103 109 1.00
ACGTcount: A:0.27, C:0.14, G:0.22, T:0.37
Consensus pattern (103 bp):
TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTAAGACACATAC
TTGATCCCTAGCATATGTATATGATTCATAAGGAATGA
Found at i:1758792 original size:23 final size:23
Alignment explanation
Indices: 1758733--1758809 Score: 73
Period size: 23 Copynumber: 3.3 Consensus size: 23
1758723 CCTTATGGAC
* *
1758733 ATTATTATATGGCACTACGGTCCA
1 ATTA-TATGTGGCACTACGGTGCA
* * * *
1758757 ATTCTACGCGGCACTCCGGTGCA
1 ATTATATGTGGCACTACGGTGCA
* *
1758780 ATTATATGTGGCACTTCAGTGCA
1 ATTATATGTGGCACTACGGTGCA
1758803 ATTATAT
1 ATTATAT
1758810 TAGTTGTGGT
Statistics
Matches: 42, Mismatches: 11, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
23 39 0.93
24 3 0.07
ACGTcount: A:0.26, C:0.22, G:0.19, T:0.32
Consensus pattern (23 bp):
ATTATATGTGGCACTACGGTGCA
Found at i:1759845 original size:15 final size:16
Alignment explanation
Indices: 1759825--1759875 Score: 52
Period size: 15 Copynumber: 3.2 Consensus size: 16
1759815 TCGGAAGGTA
1759825 TTTTTTTTTCTTA-AT
1 TTTTTTTTTCTTATAT
*
1759840 TTTTTTCTTTTTTATAT
1 TTTTTT-TTTCTTATAT
* *
1759857 TTTATTTTT-ATATAT
1 TTTTTTTTTCTTATAT
1759872 TTTT
1 TTTT
1759876 AATTTTTATT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
15 14 0.47
16 9 0.30
17 7 0.23
ACGTcount: A:0.16, C:0.04, G:0.00, T:0.80
Consensus pattern (16 bp):
TTTTTTTTTCTTATAT
Found at i:1759864 original size:13 final size:13
Alignment explanation
Indices: 1759848--1759895 Score: 50
Period size: 13 Copynumber: 3.9 Consensus size: 13
1759838 ATTTTTTTCT
1759848 TTTTTATATTTTA
1 TTTTTATATTTTA
1759861 TTTTTATA---TA
1 TTTTTATATTTTA
1759871 TTTTTA-ATTTTTA
1 TTTTTATA-TTTTA
*
1759884 TTTTTACATTTT
1 TTTTTATATTTT
1759896 TTAGATGACG
Statistics
Matches: 30, Mismatches: 0, Indels: 10
0.75 0.00 0.25
Matches are distributed among these distances:
9 1 0.03
10 8 0.27
13 20 0.67
14 1 0.03
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.75
Consensus pattern (13 bp):
TTTTTATATTTTA
Found at i:1759865 original size:23 final size:23
Alignment explanation
Indices: 1759847--1759898 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
1759837 AATTTTTTTC
*
1759847 TTTTTTATATTTTATTTTTATATA
1 TTTTTAAT-TTTTATTTTTATATA
*
1759871 TTTTTAATTTTTATTTTTACAT-
1 TTTTTAATTTTTATTTTTATATA
1759893 TTTTTA
1 TTTTTA
1759899 GATGACGCCA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
22 6 0.23
23 13 0.50
24 7 0.27
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.75
Consensus pattern (23 bp):
TTTTTAATTTTTATTTTTATATA
Found at i:1759888 original size:7 final size:7
Alignment explanation
Indices: 1759840--1759898 Score: 55
Period size: 7 Copynumber: 8.0 Consensus size: 7
1759830 TTTTCTTAAT
*
1759840 TTTTTTC
1 TTTTTTA
1759847 TTTTTTA
1 TTTTTTA
*
1759854 TATTTTA
1 TTTTTTA
1759861 TTTTTATA
1 TTTTT-TA
1759869 TATTTTTA
1 T-TTTTTA
*
1759877 ATTTTTA
1 TTTTTTA
*
1759884 TTTTTACA
1 TTTTT-TA
1759892 TTTTTTA
1 TTTTTTA
1759899 GATGACGCCA
Statistics
Matches: 42, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
7 27 0.64
8 11 0.26
9 4 0.10
ACGTcount: A:0.20, C:0.03, G:0.00, T:0.76
Consensus pattern (7 bp):
TTTTTTA
Found at i:1759898 original size:15 final size:14
Alignment explanation
Indices: 1759847--1759898 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 14
1759837 AATTTTTTTC
*
1759847 TTTTTTATATTTTAT
1 TTTTTTAT-TTTTAA
1759862 TTTTATATATTTTTAA
1 TTTT-T-TATTTTTAA
1759878 -TTTTTATTTTTACA
1 TTTTTTATTTTTA-A
1759892 TTTTTTA
1 TTTTTTA
1759899 GATGACGCCA
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
13 8 0.25
14 2 0.06
15 13 0.41
16 6 0.19
17 3 0.09
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.75
Consensus pattern (14 bp):
TTTTTTATTTTTAA
Found at i:1760970 original size:19 final size:20
Alignment explanation
Indices: 1760946--1760985 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
1760936 ATTTTATTAA
1760946 TTAATTTA-TTTTTAAAATT
1 TTAATTTATTTTTTAAAATT
1760965 TTAATTTATTTTTTAAAATT
1 TTAATTTATTTTTTAAAATT
1760985 T
1 T
1760986 ATTCCGGAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 8 0.40
20 12 0.60
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (20 bp):
TTAATTTATTTTTTAAAATT
Found at i:1763714 original size:15 final size:15
Alignment explanation
Indices: 1763694--1763724 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
1763684 TGTGCATAGA
1763694 AATGCAGACATATAC
1 AATGCAGACATATAC
1763709 AATGCAGACATATAC
1 AATGCAGACATATAC
1763724 A
1 A
1763725 CAGCTACACC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.48, C:0.19, G:0.13, T:0.19
Consensus pattern (15 bp):
AATGCAGACATATAC
Found at i:1764136 original size:14 final size:14
Alignment explanation
Indices: 1764117--1764158 Score: 68
Period size: 14 Copynumber: 3.1 Consensus size: 14
1764107 TTCTTGAGAA
1764117 TGTAGGGAATTATT
1 TGTAGGGAATTATT
1764131 TGTAGGGAATTATT
1 TGTAGGGAATTATT
*
1764145 TATAGGG-ATTATT
1 TGTAGGGAATTATT
1764158 T
1 T
1764159 TTCATTGCAG
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
13 7 0.26
14 20 0.74
ACGTcount: A:0.29, C:0.00, G:0.26, T:0.45
Consensus pattern (14 bp):
TGTAGGGAATTATT
Found at i:1764832 original size:21 final size:22
Alignment explanation
Indices: 1764795--1764837 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
1764785 CAGAAGCTTT
1764795 TATTATATATTTATTAA-AAAA
1 TATTATATATTTATTAATAAAA
*
1764816 TATTA-ATTTTTATTTAATAAAA
1 TATTATATATTTA-TTAATAAAA
1764838 ATAAAGATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 6 0.32
21 9 0.47
22 4 0.21
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (22 bp):
TATTATATATTTATTAATAAAA
Found at i:1776353 original size:29 final size:30
Alignment explanation
Indices: 1776296--1776359 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 30
1776286 ACAAGCTTTA
* * * *
1776296 GAAAAATTGGGGATCATTTCGTAAGTTTT-
1 GAAAAATTGGGGATAAATTCATAAATTTTG
*
1776325 GAAAAGTTGGGGATAAATTCATAAATTTTG
1 GAAAAATTGGGGATAAATTCATAAATTTTG
1776355 GAAAA
1 GAAAA
1776360 TTGATGAAGA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 24 0.83
30 5 0.17
ACGTcount: A:0.39, C:0.05, G:0.23, T:0.33
Consensus pattern (30 bp):
GAAAAATTGGGGATAAATTCATAAATTTTG
Found at i:1781155 original size:20 final size:21
Alignment explanation
Indices: 1781130--1781175 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
1781120 GGTTGTTACC
1781130 ATTTCTAGCC-ATTGGGGATG
1 ATTTCTAGCCGATTGGGGATG
*
1781150 ATTTCTAGCCGTTTGGGGATG
1 ATTTCTAGCCGATTGGGGATG
*
1781171 TTTTC
1 ATTTC
1781176 ACTGTAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 10 0.43
21 13 0.57
ACGTcount: A:0.15, C:0.15, G:0.28, T:0.41
Consensus pattern (21 bp):
ATTTCTAGCCGATTGGGGATG
Found at i:1781228 original size:21 final size:22
Alignment explanation
Indices: 1781202--1781244 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 22
1781192 CCAGGACAGG
1781202 GAGTATCGGTAC-TCCATTAAT
1 GAGTATCGGTACTTCCATTAAT
*
1781223 GAGTATCGGTACTTCCTTTAAT
1 GAGTATCGGTACTTCCATTAAT
1781245 ATATTTAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 12 0.60
22 8 0.40
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.37
Consensus pattern (22 bp):
GAGTATCGGTACTTCCATTAAT
Found at i:1782993 original size:27 final size:27
Alignment explanation
Indices: 1782932--1783002 Score: 81
Period size: 27 Copynumber: 2.6 Consensus size: 27
1782922 ATGAAATTAT
*
1782932 TAAAATTCTCTAAAAACTCCTTAAATTC
1 TAAAAATCTC-AAAAACTCCTTAAATTC
* *
1782960 CAGAAAATCTCAAAAACTCC-TAAGTTTC
1 TA-AAAATCTCAAAAACTCCTTAA-ATTC
1782988 TAAAAATCTCAAAAA
1 TAAAAATCTCAAAAA
1783003 AATATAAACT
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
27 16 0.43
28 14 0.38
29 7 0.19
ACGTcount: A:0.48, C:0.21, G:0.03, T:0.28
Consensus pattern (27 bp):
TAAAAATCTCAAAAACTCCTTAAATTC
Found at i:1783129 original size:29 final size:27
Alignment explanation
Indices: 1783097--1783157 Score: 70
Period size: 29 Copynumber: 2.2 Consensus size: 27
1783087 AAAATTCCCA
1783097 AAAAATACCTCAAA-TTCTAGAAAAATCTC
1 AAAAATACCT-AAATTTCTA-AAAAATC-C
* *
1783126 AAAATTTCCTAAATTTCTAAAAAATCC
1 AAAAATACCTAAATTTCTAAAAAATCC
1783153 AAAAA
1 AAAAA
1783158 AAATCATCAT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
27 5 0.18
28 10 0.36
29 13 0.46
ACGTcount: A:0.54, C:0.18, G:0.02, T:0.26
Consensus pattern (27 bp):
AAAAATACCTAAATTTCTAAAAAATCC
Found at i:1783157 original size:28 final size:29
Alignment explanation
Indices: 1783094--1783158 Score: 73
Period size: 28 Copynumber: 2.3 Consensus size: 29
1783084 ATTAAAATTC
1783094 CCAAAAAATACCTCAAATTCTAGAAAAAT
1 CCAAAAAATACCTCAAATTCTAGAAAAAT
* *
1783123 CTC-AAAATTTCCT-AAATTTCTA-AAAAAT
1 C-CAAAAAATACCTCAAA-TTCTAGAAAAAT
1783151 CCAAAAAA
1 CCAAAAAA
1783159 AATCATCATA
Statistics
Matches: 30, Mismatches: 3, Indels: 7
0.75 0.08 0.17
Matches are distributed among these distances:
27 1 0.03
28 14 0.47
29 14 0.47
30 1 0.03
ACGTcount: A:0.54, C:0.20, G:0.02, T:0.25
Consensus pattern (29 bp):
CCAAAAAATACCTCAAATTCTAGAAAAAT
Found at i:1783335 original size:30 final size:28
Alignment explanation
Indices: 1783278--1783347 Score: 88
Period size: 29 Copynumber: 2.4 Consensus size: 28
1783268 TATATATATA
1783278 TTGAGATTTTTAGAAATTTAGGAGTTTTT
1 TTGAGATTTTTAGAAATTTAGGAG-TTTT
*
1783307 TTGAGATTTTCTAG-AATTTAAGGTGTTTT
1 TTGAGATTTT-TAGAAATTT-AGGAGTTTT
*
1783336 TTGAGAATTTTA
1 TTGAGATTTTTA
1783348 ATAATTTCAT
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
28 2 0.05
29 28 0.76
30 7 0.19
ACGTcount: A:0.27, C:0.01, G:0.20, T:0.51
Consensus pattern (28 bp):
TTGAGATTTTTAGAAATTTAGGAGTTTT
Found at i:1800045 original size:20 final size:20
Alignment explanation
Indices: 1800007--1800045 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
1799997 ATGATGAACA
* *
1800007 AGTATCGATATTATCCCTAT
1 AGTATCGATACTATACCTAT
*
1800027 AGTATCGATACTCTACCTA
1 AGTATCGATACTATACCTA
1800046 CAGAAAACAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.31, C:0.23, G:0.10, T:0.36
Consensus pattern (20 bp):
AGTATCGATACTATACCTAT
Found at i:1800661 original size:12 final size:12
Alignment explanation
Indices: 1800644--1800682 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
1800634 GCTTATTCTG
1800644 GAAAAGGAAGAA
1 GAAAAGGAAGAA
1800656 GAAAAGAGAAG-A
1 GAAAAG-GAAGAA
*
1800668 GAAGAGGAAGAA
1 GAAAAGGAAGAA
1800680 GAA
1 GAA
1800683 GATATTTTTG
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
11 4 0.17
12 16 0.67
13 4 0.17
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (12 bp):
GAAAAGGAAGAA
Found at i:1805670 original size:23 final size:23
Alignment explanation
Indices: 1805643--1805689 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
1805633 TTCACTCAAG
1805643 AGTTTGAAAACAAAACTTACATT
1 AGTTTGAAAACAAAACTTACATT
*
1805666 AGTTTGACAACAAAACTTACATT
1 AGTTTGAAAACAAAACTTACATT
1805689 A
1 A
1805690 AATTGACAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.47, C:0.15, G:0.09, T:0.30
Consensus pattern (23 bp):
AGTTTGAAAACAAAACTTACATT
Found at i:1805695 original size:23 final size:23
Alignment explanation
Indices: 1805646--1805698 Score: 79
Period size: 23 Copynumber: 2.3 Consensus size: 23
1805636 ACTCAAGAGT
* **
1805646 TTGAAAACAAAACTTACATTAGT
1 TTGACAACAAAACTTACATTAAA
1805669 TTGACAACAAAACTTACATTAAA
1 TTGACAACAAAACTTACATTAAA
1805692 TTGACAA
1 TTGACAA
1805699 ATTAGTTTCT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.49, C:0.15, G:0.08, T:0.28
Consensus pattern (23 bp):
TTGACAACAAAACTTACATTAAA
Found at i:1805967 original size:40 final size:39
Alignment explanation
Indices: 1805923--1806012 Score: 110
Period size: 39 Copynumber: 2.3 Consensus size: 39
1805913 GATATCTCGA
* * * *
1805923 CGTCTTCAACACATTTTGCATGGAAA-ATCGGATGTCTAGG
1 CGTCTTTAACACA-ATTGCATGCAAACAT-GGAGGTCTAGG
*
1805963 CGTCTTTAACACAATTGTATGCAAACATGGAGGTCTAGG
1 CGTCTTTAACACAATTGCATGCAAACATGGAGGTCTAGG
1806002 CGTCTTTAACA
1 CGTCTTTAACA
1806013 TTCAAACATG
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
39 30 0.68
40 14 0.32
ACGTcount: A:0.29, C:0.20, G:0.21, T:0.30
Consensus pattern (39 bp):
CGTCTTTAACACAATTGCATGCAAACATGGAGGTCTAGG
Found at i:1806022 original size:31 final size:31
Alignment explanation
Indices: 1805984--1806043 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
1805974 CAATTGTATG
* *
1805984 CAAACATGGAGGTCTAGGCGTCTTTAACATT
1 CAAACATGGAGGTATAGGAGTCTTTAACATT
1806015 CAAACATGGAGGTATAGGAGTCTTTAACA
1 CAAACATGGAGGTATAGGAGTCTTTAACA
1806044 CATTTCATGA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.27
Consensus pattern (31 bp):
CAAACATGGAGGTATAGGAGTCTTTAACATT
Found at i:1806932 original size:24 final size:24
Alignment explanation
Indices: 1806904--1806952 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
1806894 ATTGTCCACT
1806904 ACAATAGACATATGATGGAAAATG
1 ACAATAGACATATGATGGAAAATG
1806928 ACAATAGACATATGATGGAAAATG
1 ACAATAGACATATGATGGAAAATG
1806952 A
1 A
1806953 GGTCGGGGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.51, C:0.08, G:0.20, T:0.20
Consensus pattern (24 bp):
ACAATAGACATATGATGGAAAATG
Found at i:1807747 original size:63 final size:63
Alignment explanation
Indices: 1807680--1807836 Score: 181
Period size: 64 Copynumber: 2.5 Consensus size: 63
1807670 TGTACAGTGT
* * * * *
1807680 ATCGATGCACAGGGAGTGCATCGATGCACCCA-TATTAATGGAAACATCGAATGTAATTGGTGC
1 ATCGATGCACAGTGAGTGCATCGATGCACCCATTA-AAATGAAAACATCGAAGGTAATTGGTGA
* * * *
1807743 ATCGATGCATAATGAGTGCATCGATGCATCCCCTTAAAATGAAAACATCGAAGGTGATTGGTGA
1 ATCGATGCACAGTGAGTGCATCGATGCA-CCCATTAAAATGAAAACATCGAAGGTAATTGGTGA
* *
1807807 ATCGATGCACTGTTGAATGCATCGATGCAC
1 ATCGATGCACAG-TGAGTGCATCGATGCAC
1807837 TTCAAGGGAA
Statistics
Matches: 78, Mismatches: 13, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
63 25 0.32
64 36 0.46
65 17 0.22
ACGTcount: A:0.32, C:0.19, G:0.24, T:0.25
Consensus pattern (63 bp):
ATCGATGCACAGTGAGTGCATCGATGCACCCATTAAAATGAAAACATCGAAGGTAATTGGTGA
Found at i:1808294 original size:29 final size:31
Alignment explanation
Indices: 1808230--1808294 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 31
1808220 TATGAGAATA
* *
1808230 TGAAAAGAAGCTATGTGATTACATGTATATG
1 TGAAAAGAAGCTATGAGATTACATGTACATG
* *
1808261 TGAAAA-AAGCTATGAGCTTATATG-ACATG
1 TGAAAAGAAGCTATGAGATTACATGTACATG
1808290 TGAAA
1 TGAAA
1808295 TGATAAAGTG
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
29 9 0.30
30 15 0.50
31 6 0.20
ACGTcount: A:0.42, C:0.08, G:0.22, T:0.29
Consensus pattern (31 bp):
TGAAAAGAAGCTATGAGATTACATGTACATG
Found at i:1808422 original size:20 final size:20
Alignment explanation
Indices: 1808376--1808425 Score: 82
Period size: 20 Copynumber: 2.5 Consensus size: 20
1808366 GTCTACGCGG
* *
1808376 TCCTTCAGGACATACAGTGG
1 TCCTTCGGGACATACAGTGA
1808396 TCCTTCGGGACATACAGTGA
1 TCCTTCGGGACATACAGTGA
1808416 TCCTTCGGGA
1 TCCTTCGGGA
1808426 TATTTCATAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.22, C:0.26, G:0.26, T:0.26
Consensus pattern (20 bp):
TCCTTCGGGACATACAGTGA
Found at i:1811710 original size:64 final size:63
Alignment explanation
Indices: 1811591--1811713 Score: 176
Period size: 64 Copynumber: 1.9 Consensus size: 63
1811581 GATGCACAGG
* * *
1811591 GAGTGCATCGATGCACCCATATTAATGGAAACATCGAATGTAATTGGTGCATCGATGCATAAA
1 GAGTGCATCGATGCACCCATATAAATGAAAACATCGAAGGTAATTGGTGCATCGATGCATAAA
* *
1811654 GAGTGCATCGATGCATCCCCT-TAAAATGAAAACATCGAAGGTGATTGGTGCATCGATGCA
1 GAGTGCATCGATGCA-CCCATAT-AAATGAAAACATCGAAGGTAATTGGTGCATCGATGCA
1811714 CTGTTGAATG
Statistics
Matches: 53, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
63 16 0.30
64 37 0.70
ACGTcount: A:0.33, C:0.19, G:0.24, T:0.24
Consensus pattern (63 bp):
GAGTGCATCGATGCACCCATATAAATGAAAACATCGAAGGTAATTGGTGCATCGATGCATAAA
Found at i:1812320 original size:20 final size:20
Alignment explanation
Indices: 1812274--1812323 Score: 82
Period size: 20 Copynumber: 2.5 Consensus size: 20
1812264 GTCTACGCGG
* *
1812274 TCCTTCAGGACATACAGTGG
1 TCCTTCGGGACATACAGTGA
1812294 TCCTTCGGGACATACAGTGA
1 TCCTTCGGGACATACAGTGA
1812314 TCCTTCGGGA
1 TCCTTCGGGA
1812324 TATTTCATAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.22, C:0.26, G:0.26, T:0.26
Consensus pattern (20 bp):
TCCTTCGGGACATACAGTGA
Found at i:1814826 original size:22 final size:22
Alignment explanation
Indices: 1814801--1814843 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
1814791 TTTGTTTATC
*
1814801 ATAACCAACATGCTCGTTCATT
1 ATAACCAACATGCTCATTCATT
*
1814823 ATAACCAACCTGCTCATTCAT
1 ATAACCAACATGCTCATTCAT
1814844 CGAGGGCATA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.33, C:0.30, G:0.07, T:0.30
Consensus pattern (22 bp):
ATAACCAACATGCTCATTCATT
Found at i:1822497 original size:21 final size:23
Alignment explanation
Indices: 1822462--1822506 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
1822452 GGTCCTGTGC
*
1822462 AAATTATTAAAAAG-ATGCCCTT
1 AAATTATTAAAAAGAATACCCTT
*
1822484 AAATTCTT-AAAAGAATACCCTT
1 AAATTATTAAAAAGAATACCCTT
1822506 A
1 A
1822507 GTAAAAATTG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 5 0.25
22 15 0.75
ACGTcount: A:0.47, C:0.16, G:0.07, T:0.31
Consensus pattern (23 bp):
AAATTATTAAAAAGAATACCCTT
Found at i:1824641 original size:20 final size:20
Alignment explanation
Indices: 1824616--1824659 Score: 88
Period size: 20 Copynumber: 2.2 Consensus size: 20
1824606 CTGACTTCAT
1824616 ATCCATTTGATAAATTTTCC
1 ATCCATTTGATAAATTTTCC
1824636 ATCCATTTGATAAATTTTCC
1 ATCCATTTGATAAATTTTCC
1824656 ATCC
1 ATCC
1824660 TTTTTGTGCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.30, C:0.23, G:0.05, T:0.43
Consensus pattern (20 bp):
ATCCATTTGATAAATTTTCC
Found at i:1827821 original size:2 final size:2
Alignment explanation
Indices: 1827814--1827842 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
1827804 CTTTGCTCAC
1827814 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 A
1827843 AAATAAACCG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1838873 original size:14 final size:14
Alignment explanation
Indices: 1838846--1838873 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
1838836 TTATTTTATA
1838846 ATTTTATAATAATT
1 ATTTTATAATAATT
1838860 ATTTTATAATAATT
1 ATTTTATAATAATT
1838874 TATTAATTTT
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:0.00, T:0.57
Consensus pattern (14 bp):
ATTTTATAATAATT
Found at i:1838880 original size:22 final size:22
Alignment explanation
Indices: 1838827--1838892 Score: 63
Period size: 22 Copynumber: 3.1 Consensus size: 22
1838817 AATATGATAG
1838827 ATTTAATT-ATTATTTTATAAT-
1 ATTT-ATTAATTATTTTATAATA
1838848 -TTTATAATAATTATTTTATAATA
1 ATTTAT--TAATTATTTTATAATA
1838871 ATTTATTAA-T-TTTTA-AATA
1 ATTTATTAATTATTTTATAATA
1838890 ATT
1 ATT
1838893 GTTTTTTTAA
Statistics
Matches: 40, Mismatches: 0, Indels: 12
0.77 0.00 0.23
Matches are distributed among these distances:
19 9 0.22
20 8 0.20
21 2 0.05
22 16 0.40
24 5 0.12
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (22 bp):
ATTTATTAATTATTTTATAATA
Found at i:1838880 original size:25 final size:23
Alignment explanation
Indices: 1838829--1838880 Score: 70
Period size: 22 Copynumber: 2.2 Consensus size: 23
1838819 TATGATAGAT
*
1838829 TTAATTATTATTTTATAATTTTA
1 TTAATAATTATTTTATAATTTTA
1838852 -TAATAATTATTTTATAATAATTTA
1 TTAATAATTATTTTATAAT--TTTA
1838876 TTAAT
1 TTAAT
1838881 TTTTAAATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
22 17 0.68
24 4 0.16
25 4 0.16
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (23 bp):
TTAATAATTATTTTATAATTTTA
Found at i:1842449 original size:49 final size:48
Alignment explanation
Indices: 1842391--1842489 Score: 173
Period size: 49 Copynumber: 2.0 Consensus size: 48
1842381 CTAATGGTTT
1842391 TTAAGTAATATTTA-TTAAAGATAATTTTTATATATTTAATATTATACG
1 TTAAGTAATATTTATTTAAAGATAATTTTTATATA-TTAATATTATACG
1842439 TTAAGGTAATATTTATTTAAAGATAATTTTTATATATTAATATTATACG
1 TTAA-GTAATATTTATTTAAAGATAATTTTTATATATTAATATTATACG
1842488 TT
1 TT
1842490 CATATGTTTA
Statistics
Matches: 49, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
48 4 0.08
49 25 0.51
50 20 0.41
ACGTcount: A:0.40, C:0.02, G:0.07, T:0.51
Consensus pattern (48 bp):
TTAAGTAATATTTATTTAAAGATAATTTTTATATATTAATATTATACG
Found at i:1850058 original size:14 final size:14
Alignment explanation
Indices: 1850039--1850068 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
1850029 TGCAAATTTC
1850039 TTTTCTTTTCTTCT
1 TTTTCTTTTCTTCT
1850053 TTTTCTTTTCTTCT
1 TTTTCTTTTCTTCT
1850067 TT
1 TT
1850069 GAGTTTTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (14 bp):
TTTTCTTTTCTTCT
Found at i:1854249 original size:105 final size:105
Alignment explanation
Indices: 1854069--1854382 Score: 468
Period size: 105 Copynumber: 2.9 Consensus size: 105
1854059 AGCTAAGGTT
* * *
1854069 GAACAAGTTCTTCTCATTATGAACTTCTTCTCCTTTTTTCA-GATGAGTTATTCTCATTATGAAC
1 GAACAAGCTCTTCTCATTACGAAC--CTTCTCC---TTT-AGGACGAGTTATTCTCATTATGAAC
* *
1854133 TCTTTTAGAAATGTTGATTCACCTCCTTCTGGGGTGAATTTGAAAG
60 TCTTCTAGAAATGTTGATTCACCTCCTTCTAGGGTGAATTTGAAAG
*
1854179 GAACATGCTCTTCTCATTACGAACCTTCTCCTTTAGGACGAGTTATTCTCATTATGAACTCTTCT
1 GAACAAGCTCTTCTCATTACGAACCTTCTCCTTTAGGACGAGTTATTCTCATTATGAACTCTTCT
* *
1854244 GGAAATGTTGATTCACCTCTTTCTAGGGTGAATTTGAAAG
66 AGAAATGTTGATTCACCTCCTTCTAGGGTGAATTTGAAAG
*
1854284 GAACAAGCTCTTCTCATTACGAACCTTCTCCTTTAGGACGAGTTCTTCTCATTATGAACTCTTCT
1 GAACAAGCTCTTCTCATTACGAACCTTCTCCTTTAGGACGAGTTATTCTCATTATGAACTCTTCT
* *
1854349 AGAAATGTCGATTCACCTCCTTCTAGGGTAAATT
66 AGAAATGTTGATTCACCTCCTTCTAGGGTGAATT
1854383 ATAGTTGTTA
Statistics
Matches: 189, Mismatches: 14, Indels: 7
0.90 0.07 0.03
Matches are distributed among these distances:
104 1 0.01
105 160 0.85
108 7 0.04
110 21 0.11
ACGTcount: A:0.25, C:0.21, G:0.16, T:0.38
Consensus pattern (105 bp):
GAACAAGCTCTTCTCATTACGAACCTTCTCCTTTAGGACGAGTTATTCTCATTATGAACTCTTCT
AGAAATGTTGATTCACCTCCTTCTAGGGTGAATTTGAAAG
Found at i:1855289 original size:8 final size:8
Alignment explanation
Indices: 1855276--1855340 Score: 71
Period size: 7 Copynumber: 7.8 Consensus size: 8
1855266 CGAACCCTCA
1855276 TTTTTTTC
1 TTTTTTTC
1855284 -TTTTTTC
1 TTTTTTTC
1855291 TTTTTTTC
1 TTTTTTTC
1855299 -TTTTTTC
1 TTTTTTTC
1855306 ATTTTTTTTC
1 --TTTTTTTC
1855316 ATTTTTTTC
1 -TTTTTTTC
1855325 ATCTTTTTTC
1 -T-TTTTTTC
1855335 TTTTTT
1 TTTTTT
1855341 ATTATTTTTC
Statistics
Matches: 51, Mismatches: 1, Indels: 10
0.82 0.02 0.16
Matches are distributed among these distances:
7 14 0.27
8 12 0.24
9 11 0.22
10 14 0.27
ACGTcount: A:0.05, C:0.12, G:0.00, T:0.83
Consensus pattern (8 bp):
TTTTTTTC
Found at i:1855330 original size:44 final size:43
Alignment explanation
Indices: 1855281--1855388 Score: 121
Period size: 44 Copynumber: 2.5 Consensus size: 43
1855271 CCTCATTTTT
**
1855281 TTCTTTTTTCTTTTTTTCTTTTTTCATTTTTTTTCATTTTTTTCA
1 TTCTTTTTTCTTTTTTTCTTTTTTCA--CCTTTTCATTTTTTTCA
1855326 -TCTTTTTTCTTTTTTAT-TATTTTTCACCTTTTCATTTTTTTCA
1 TTCTTTTTTCTTTTTT-TCT-TTTTTCACCTTTTCATTTTTTTCA
* * *
1855369 TTCATTCTTCCTTTTTTCTT
1 TTCTTTTTTCTTTTTTTCTT
1855389 CAAGTATAAT
Statistics
Matches: 54, Mismatches: 5, Indels: 10
0.78 0.07 0.14
Matches are distributed among these distances:
43 17 0.31
44 29 0.54
45 8 0.15
ACGTcount: A:0.08, C:0.17, G:0.00, T:0.75
Consensus pattern (43 bp):
TTCTTTTTTCTTTTTTTCTTTTTTCACCTTTTCATTTTTTTCA
Found at i:1855348 original size:10 final size:9
Alignment explanation
Indices: 1855275--1855349 Score: 51
Period size: 10 Copynumber: 7.7 Consensus size: 9
1855265 TCGAACCCTC
1855275 ATTTTTTTCT
1 ATTTTTTT-T
*
1855285 TTTTTCTTTT
1 ATTTT-TTTT
*
1855295 TTTCTTTTTT
1 ATT-TTTTTT
1855305 CATTTTTTTT
1 -ATTTTTTTT
*
1855315 CATTTTTTTC
1 -ATTTTTTTT
*
1855325 ATCTTTTTT
1 ATTTTTTTT
*
1855334 CTTTTTTATT
1 ATTTTTT-TT
1855344 ATTTTT
1 ATTTTT
1855350 CACCTTTTCA
Statistics
Matches: 53, Mismatches: 8, Indels: 8
0.77 0.12 0.12
Matches are distributed among these distances:
9 12 0.23
10 34 0.64
11 7 0.13
ACGTcount: A:0.08, C:0.11, G:0.00, T:0.81
Consensus pattern (9 bp):
ATTTTTTTT
Found at i:1855365 original size:8 final size:8
Alignment explanation
Indices: 1855277--1855370 Score: 61
Period size: 7 Copynumber: 11.2 Consensus size: 8
1855267 GAACCCTCAT
1855277 TTTTTTC-
1 TTTTTTCA
*
1855284 TTTTTTCT
1 TTTTTTCA
1855292 TTTTTTC-
1 TTTTTTCA
1855299 TTTTTTCA
1 TTTTTTCA
1855307 TTTTTTTTCA
1 --TTTTTTCA
1855317 TTTTTTTCA
1 -TTTTTTCA
1855326 TCTTTTTTC-
1 --TTTTTTCA
1855335 TTTTTT-A
1 TTTTTTCA
1855342 TTATTTTTCA
1 -T-TTTTTCA
**
1855352 CCTTTTCA
1 TTTTTTCA
1855360 TTTTTTTCA
1 -TTTTTTCA
1855369 TT
1 TT
1855371 CATTCTTCCT
Statistics
Matches: 72, Mismatches: 5, Indels: 19
0.75 0.05 0.20
Matches are distributed among these distances:
7 20 0.28
8 16 0.22
9 20 0.28
10 16 0.22
ACGTcount: A:0.09, C:0.14, G:0.00, T:0.78
Consensus pattern (8 bp):
TTTTTTCA
Found at i:1855366 original size:9 final size:9
Alignment explanation
Indices: 1855273--1855370 Score: 88
Period size: 9 Copynumber: 11.6 Consensus size: 9
1855263 TCTCGAACCC
1855273 TCATTTTTT
1 TCATTTTTT
1855282 TC--TTTTT
1 TCATTTTTT
1855289 TC-TTTTTT
1 TCATTTTTT
1855297 TC--TTTTT
1 TCATTTTTT
1855304 TCATTTTTTT
1 TCA-TTTTTT
1855314 TCATTTTTT
1 TCATTTTTT
1855323 TCATCTTTTT
1 TCAT-TTTTT
1855333 TC--TTTTT
1 TCATTTTTT
1855340 T-ATTATTTT
1 TCATT-TTTT
**
1855349 TCA-CCTTT
1 TCATTTTTT
1855357 TCATTTTTT
1 TCATTTTTT
1855366 TCATT
1 TCATT
1855371 CATTCTTCCT
Statistics
Matches: 75, Mismatches: 4, Indels: 20
0.76 0.04 0.20
Matches are distributed among these distances:
7 20 0.27
8 14 0.19
9 25 0.33
10 16 0.21
ACGTcount: A:0.09, C:0.14, G:0.00, T:0.77
Consensus pattern (9 bp):
TCATTTTTT
Found at i:1855383 original size:52 final size:50
Alignment explanation
Indices: 1855277--1855388 Score: 129
Period size: 52 Copynumber: 2.2 Consensus size: 50
1855267 GAACCCTCAT
* ** *
1855277 TTTTTTCTTTTTTCTTTTTTTCTTTTTTCATTTTTTTTCATTTTTTTCATC
1 TTTTTTCTTTTTTATTTTTTTCCCTTTTCATTTTTTTTCATTTTCTTCA-C
1855328 TTTTTTCTTTTTTATTATTTTTCACCTTTTCA-TTTTTTTCATTCATTCTTC-C
1 TTTTTTCTTTTTTATT-TTTTTC-CCTTTTCATTTTTTTTCATT--TTCTTCAC
1855380 TTTTTTCTT
1 TTTTTTCTT
1855389 CAAGTATAAT
Statistics
Matches: 53, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
51 15 0.28
52 27 0.51
53 6 0.11
54 5 0.09
ACGTcount: A:0.08, C:0.16, G:0.00, T:0.76
Consensus pattern (50 bp):
TTTTTTCTTTTTTATTTTTTTCCCTTTTCATTTTTTTTCATTTTCTTCAC
Found at i:1858916 original size:7 final size:7
Alignment explanation
Indices: 1858904--1858937 Score: 52
Period size: 7 Copynumber: 5.0 Consensus size: 7
1858894 AATGAATGTA
1858904 AAGAATG
1 AAGAATG
*
1858911 AAGAATA
1 AAGAATG
1858918 AAGAATG
1 AAGAATG
1858925 AAGAATG
1 AAGAATG
1858932 AA-AATG
1 AAGAATG
1858938 TATATAATGA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
6 4 0.16
7 21 0.84
ACGTcount: A:0.62, C:0.00, G:0.24, T:0.15
Consensus pattern (7 bp):
AAGAATG
Found at i:1858921 original size:14 final size:14
Alignment explanation
Indices: 1858902--1858930 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
1858892 GAAATGAATG
1858902 TAAAGAATGAAGAA
1 TAAAGAATGAAGAA
1858916 TAAAGAATGAAGAA
1 TAAAGAATGAAGAA
1858930 T
1 T
1858931 GAAAATGTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.62, C:0.00, G:0.21, T:0.17
Consensus pattern (14 bp):
TAAAGAATGAAGAA
Found at i:1865795 original size:20 final size:20
Alignment explanation
Indices: 1865772--1865814 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
1865762 ATTAAGGAAA
1865772 AAATATAAAA-GTAAATAAAT
1 AAATA-AAAAGGTAAATAAAT
*
1865792 AAATAAAAAGGTAAATAACT
1 AAATAAAAAGGTAAATAAAT
1865812 AAA
1 AAA
1865815 AATAGTAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 4 0.19
20 17 0.81
ACGTcount: A:0.70, C:0.02, G:0.07, T:0.21
Consensus pattern (20 bp):
AAATAAAAAGGTAAATAAAT
Found at i:1867603 original size:110 final size:110
Alignment explanation
Indices: 1867484--1867682 Score: 276
Period size: 110 Copynumber: 1.8 Consensus size: 110
1867474 AACTAGGAAA
* * *
1867484 TTATTTGTTGACAGCCAGCCGCCCCTTCG-CTGTGAAGTTGAGCTTGTGCTGTCTTGAGTCTAAC
1 TTATTTGTTGACAACCAGCCGCCCCTTCGTC-GTGAAGTTGAGCTTATGCTGTCTTGAGTCCAAC
* *
1867548 ATCCTTC-ATCGTGAAGTTAAAATTGACTCTGAATGAAATTGAAAAG
65 ATCATTCGCT-GTGAAGTTAAAATTGACTCTGAATGAAATTGAAAAG
* * * *
1867594 TTATTTGTTGACAATCAGCCGCCCCTTCGTCGTGAATTTGAGCTTATGTTGTCTTGGGTCCAACA
1 TTATTTGTTGACAACCAGCCGCCCCTTCGTCGTGAAGTTGAGCTTATGCTGTCTTGAGTCCAACA
*
1867659 TCATTCGCTGTGAAGTTGAAATTG
66 TCATTCGCTGTGAAGTTAAAATTG
1867683 GTTCTAAAAT
Statistics
Matches: 77, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
110 75 0.97
111 2 0.03
ACGTcount: A:0.23, C:0.20, G:0.22, T:0.35
Consensus pattern (110 bp):
TTATTTGTTGACAACCAGCCGCCCCTTCGTCGTGAAGTTGAGCTTATGCTGTCTTGAGTCCAACA
TCATTCGCTGTGAAGTTAAAATTGACTCTGAATGAAATTGAAAAG
Found at i:1868796 original size:14 final size:15
Alignment explanation
Indices: 1868777--1868814 Score: 51
Period size: 14 Copynumber: 2.5 Consensus size: 15
1868767 CTCCTTATTT
1868777 TTCTTTTTCT-TTTG
1 TTCTTTTTCTCTTTG
*
1868791 TTCTTTTTCTCTTTT
1 TTCTTTTTCTCTTTG
1868806 TTCCTTTTT
1 TT-CTTTTT
1868815 TTAATTTAGG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 10 0.48
15 5 0.24
16 6 0.29
ACGTcount: A:0.00, C:0.18, G:0.03, T:0.79
Consensus pattern (15 bp):
TTCTTTTTCTCTTTG
Found at i:1868803 original size:8 final size:7
Alignment explanation
Indices: 1868774--1868815 Score: 50
Period size: 8 Copynumber: 5.7 Consensus size: 7
1868764 ACCCTCCTTA
1868774 TTTTTC-
1 TTTTTCT
1868780 TTTTTCT
1 TTTTTCT
1868787 TTTGTTCT
1 TTT-TTCT
1868795 TTTTCTCT
1 TTTT-TCT
1868803 TTTTTCCT
1 TTTTT-CT
1868811 TTTTT
1 TTTTT
1868816 TAATTTAGGG
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
6 6 0.19
7 5 0.16
8 21 0.66
ACGTcount: A:0.00, C:0.17, G:0.02, T:0.81
Consensus pattern (7 bp):
TTTTTCT
Found at i:1868871 original size:16 final size:16
Alignment explanation
Indices: 1868852--1868890 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
1868842 TACCCTAAAC
1868852 GTTTTTTCTCTTTTTT
1 GTTTTTTCTCTTTTTT
* *
1868868 GTTTTTTGTTTTTTTT
1 GTTTTTTCTCTTTTTT
1868884 GTTTTTT
1 GTTTTTT
1868891 TTTCTGACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.00, C:0.05, G:0.10, T:0.85
Consensus pattern (16 bp):
GTTTTTTCTCTTTTTT
Found at i:1872531 original size:60 final size:60
Alignment explanation
Indices: 1872433--1872549 Score: 209
Period size: 60 Copynumber: 1.9 Consensus size: 60
1872423 AAACAGTCAA
1872433 AGAATTAAATTTGAAAGAAAATGGAAATGAAATACTGGAATGAAGAAAATAGACAATCAT
1 AGAATTAAATTTGAAAGAAAATGGAAATGAAATACTGGAATGAAGAAAATAGACAATCAT
*
1872493 AGAATTAAATTTGAAAGAAAATGGAAATGAAGA-GCTGGAATGAAGAAAATAGACAAT
1 AGAATTAAATTTGAAAGAAAATGGAAATGAA-ATACTGGAATGAAGAAAATAGACAAT
1872550 GAATTCGAAA
Statistics
Matches: 55, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
60 54 0.98
61 1 0.02
ACGTcount: A:0.55, C:0.04, G:0.21, T:0.21
Consensus pattern (60 bp):
AGAATTAAATTTGAAAGAAAATGGAAATGAAATACTGGAATGAAGAAAATAGACAATCAT
Found at i:1875449 original size:45 final size:45
Alignment explanation
Indices: 1875385--1875497 Score: 176
Period size: 45 Copynumber: 2.5 Consensus size: 45
1875375 GGTAAGCATG
1875385 AAAATAAGCTTACGAGCTTATGG-A-ATAATGGCAAGTATGTTGGT
1 AAAATAAGCTTACGAGCTTATGGTACA-AATGGCAAGTATGTTGGT
* *
1875429 AAAAATAAGCTTACGAGCTTATGGTACAAATGGTAAGTATTTTGGT
1 -AAAATAAGCTTACGAGCTTATGGTACAAATGGCAAGTATGTTGGT
1875475 AAAATAAGCTTACGAGCTTATGG
1 AAAATAAGCTTACGAGCTTATGG
1875498 CTATTAAATG
Statistics
Matches: 64, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
45 46 0.72
46 17 0.27
47 1 0.02
ACGTcount: A:0.37, C:0.10, G:0.23, T:0.30
Consensus pattern (45 bp):
AAAATAAGCTTACGAGCTTATGGTACAAATGGCAAGTATGTTGGT
Found at i:1875478 original size:46 final size:44
Alignment explanation
Indices: 1875385--1875511 Score: 175
Period size: 45 Copynumber: 2.8 Consensus size: 44
1875375 GGTAAGCATG
*
1875385 AAAATAAGCTTACGAGCTTATGG-AATAATGGCAAGTATGTTGGT
1 AAAATAAGCTTACGAGCTTATGGTAA-AATGGTAAGTATGTTGGT
*
1875429 AAAAATAAGCTTACGAGCTTATGGTACAAATGGTAAGTATTTTGGT
1 -AAAATAAGCTTACGAGCTTATGGTA-AAATGGTAAGTATGTTGGT
1875475 AAAATAAGCTTACGAGCTTATGGCTATTAAATGGTAA
1 AAAATAAGCTTACGAGCTTATGG-TA--AAATGGTAA
1875512 AATATTGGAT
Statistics
Matches: 75, Mismatches: 3, Indels: 6
0.89 0.04 0.07
Matches are distributed among these distances:
45 46 0.61
46 19 0.25
47 10 0.13
ACGTcount: A:0.38, C:0.09, G:0.22, T:0.31
Consensus pattern (44 bp):
AAAATAAGCTTACGAGCTTATGGTAAAATGGTAAGTATGTTGGT
Found at i:1879190 original size:21 final size:21
Alignment explanation
Indices: 1879164--1879203 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
1879154 ACGAATGTAA
1879164 AAACATGGAAA-ATATAAAAAT
1 AAACAT-GAAATATATAAAAAT
1879185 AAACATGAAATATATAAAA
1 AAACATGAAATATATAAAA
1879204 TGCAAAGTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.68, C:0.05, G:0.07, T:0.20
Consensus pattern (21 bp):
AAACATGAAATATATAAAAAT
Found at i:1886306 original size:18 final size:18
Alignment explanation
Indices: 1886283--1886325 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
1886273 CTTTAGATTA
* *
1886283 TTTATTTAATTATTTTCT
1 TTTATTTAATTATTATAT
*
1886301 TTTATTTAATTCTTATAT
1 TTTATTTAATTATTATAT
1886319 TTTATTT
1 TTTATTT
1886326 TAAAAACAAC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.23, C:0.05, G:0.00, T:0.72
Consensus pattern (18 bp):
TTTATTTAATTATTATAT
Found at i:1886411 original size:16 final size:16
Alignment explanation
Indices: 1886393--1886422 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
1886383 TATTTCCCTT
1886393 TTTTAT-TTTATTTTG
1 TTTTATCTTTATTTTG
1886408 TTTTATCTTTATTTT
1 TTTTATCTTTATTTT
1886423 TTCACTTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.13, C:0.03, G:0.03, T:0.80
Consensus pattern (16 bp):
TTTTATCTTTATTTTG
Found at i:1886481 original size:31 final size:31
Alignment explanation
Indices: 1886402--1886494 Score: 93
Period size: 31 Copynumber: 2.9 Consensus size: 31
1886392 TTTTTATTTT
* *
1886402 ATTTTGTTTTATCTTTATT-TTTTCACTTTTTAA
1 ATTTTATTTTAT-TTT-TTATTTTCTC-TTTTAA
1886435 ATTTTATTTTA-TTTTTATTTTCTCTTTTAA
1 ATTTTATTTTATTTTTTATTTTCTCTTTTAA
*
1886465 CATTTT-TTTTATTTTTTATTATTTTCTTTT
1 -ATTTTATTTTATTTTTTATT-TTCTCTTTT
1886495 CTGAAATTTA
Statistics
Matches: 53, Mismatches: 3, Indels: 9
0.82 0.05 0.14
Matches are distributed among these distances:
30 13 0.25
31 22 0.42
32 8 0.15
33 10 0.19
ACGTcount: A:0.17, C:0.08, G:0.01, T:0.74
Consensus pattern (31 bp):
ATTTTATTTTATTTTTTATTTTCTCTTTTAA
Found at i:1893072 original size:44 final size:44
Alignment explanation
Indices: 1892969--1893072 Score: 138
Period size: 44 Copynumber: 2.4 Consensus size: 44
1892959 TAATGGTACC
*
1892969 GATACATGTATCGATACCAATGTGTAAAAATACATAGCAGTATT
1 GATACATGTATCGATACCAATGTGTAAAAATACACAGCAGTATT
* * * * *
1893013 GATACATGTACCGATACTAGTGTGTAAAATTACACAGTAGTATT
1 GATACATGTATCGATACCAATGTGTAAAAATACACAGCAGTATT
1893057 GATAC-TGATATCGATA
1 GATACATG-TATCGATA
1893073 TTCCCTTTAA
Statistics
Matches: 52, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
43 2 0.04
44 50 0.96
ACGTcount: A:0.38, C:0.13, G:0.17, T:0.31
Consensus pattern (44 bp):
GATACATGTATCGATACCAATGTGTAAAAATACACAGCAGTATT
Found at i:1893763 original size:30 final size:31
Alignment explanation
Indices: 1893690--1893765 Score: 91
Period size: 31 Copynumber: 2.5 Consensus size: 31
1893680 TGGTATTCGA
1893690 GTCGGATTTTTTTAAAAAAATTCGGGATCGG
1 GTCGGATTTTTTTAAAAAAATTCGGGATCGG
* * * * *
1893721 GTCAGATGTTTTTAAAAAACTTTGGG-TTGG
1 GTCGGATTTTTTTAAAAAAATTCGGGATCGG
*
1893751 GTCGGGTTTTTTTAA
1 GTCGGATTTTTTTAA
1893766 GTTTGATATT
Statistics
Matches: 37, Mismatches: 8, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
30 15 0.41
31 22 0.59
ACGTcount: A:0.25, C:0.08, G:0.26, T:0.41
Consensus pattern (31 bp):
GTCGGATTTTTTTAAAAAAATTCGGGATCGG
Found at i:1893788 original size:33 final size:35
Alignment explanation
Indices: 1893744--1893818 Score: 91
Period size: 33 Copynumber: 2.1 Consensus size: 35
1893734 AAAAAACTTT
* *
1893744 GGGTTGGGTCGGGT-TTTTTTAAGTT-TGATATTC
1 GGGTCGGGTCGGGTGTTTTTTAAATTGTGATATTC
1893777 GGGTCGGGTCGGGTCGGGTTTTTTAAATTGTGATATTC
1 GGGTCGGGTCGGGT---GTTTTTTAAATTGTGATATTC
1893815 GGGT
1 GGGT
1893819 TTGGATTGGG
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
33 13 0.37
37 10 0.29
38 12 0.34
ACGTcount: A:0.12, C:0.08, G:0.37, T:0.43
Consensus pattern (35 bp):
GGGTCGGGTCGGGTGTTTTTTAAATTGTGATATTC
Found at i:1893792 original size:38 final size:38
Alignment explanation
Indices: 1893744--1893818 Score: 116
Period size: 38 Copynumber: 2.0 Consensus size: 38
1893734 AAAAAACTTT
* *
1893744 GGGTTGGGTCGGGTTTTTTTAAGTT-TGATATTCGGGTC
1 GGGTCGGGTCGGG-TTTTTTAAATTGTGATATTCGGGTC
1893782 GGGTCGGGTCGGGTTTTTTAAATTGTGATATTCGGGT
1 GGGTCGGGTCGGGTTTTTTAAATTGTGATATTCGGGT
1893819 TTGGATTGGG
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
37 10 0.29
38 24 0.71
ACGTcount: A:0.12, C:0.08, G:0.37, T:0.43
Consensus pattern (38 bp):
GGGTCGGGTCGGGTTTTTTAAATTGTGATATTCGGGTC
Found at i:1893934 original size:38 final size:39
Alignment explanation
Indices: 1893892--1893977 Score: 129
Period size: 38 Copynumber: 2.2 Consensus size: 39
1893882 GTTCATGGTT
* *
1893892 GGGTCGGGTCAGGTTTTTTTAAGTTTGATATTCGGGTC-
1 GGGTCGGGTCAGGTTTTTTAAAGTGTGATATTCGGGTCG
* *
1893930 GGGTCAGGTCGGGTTTTTTAAAGTGTGATATTCGGGTCG
1 GGGTCGGGTCAGGTTTTTTAAAGTGTGATATTCGGGTCG
1893969 GGGTCGGGT
1 GGGTCGGGT
1893978 TTAGGGTGAA
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
38 34 0.81
39 8 0.19
ACGTcount: A:0.13, C:0.10, G:0.40, T:0.37
Consensus pattern (39 bp):
GGGTCGGGTCAGGTTTTTTAAAGTGTGATATTCGGGTCG
Found at i:1903619 original size:18 final size:19
Alignment explanation
Indices: 1903585--1903623 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
1903575 AGTCCTATTT
1903585 AAAATATTATTTTTTTACTA
1 AAAATATTA-TTTTTTACTA
1903605 AAAATATTA-TTTTTACTA
1 AAAATATTATTTTTTACTA
1903623 A
1 A
1903624 TTAATTTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 10 0.53
20 9 0.47
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.51
Consensus pattern (19 bp):
AAAATATTATTTTTTACTA
Found at i:1923154 original size:26 final size:26
Alignment explanation
Indices: 1923125--1923177 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
1923115 GTTTTTTAAT
1923125 CCGCCATGTAACTAGGTTTCCTCCAA
1 CCGCCATGTAACTAGGTTTCCTCCAA
*
1923151 CCGCCATGTAACTATGTTTCCTCCAA
1 CCGCCATGTAACTAGGTTTCCTCCAA
1923177 C
1 C
1923178 AAAGGAACAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.23, C:0.36, G:0.13, T:0.28
Consensus pattern (26 bp):
CCGCCATGTAACTAGGTTTCCTCCAA
Found at i:1925326 original size:18 final size:18
Alignment explanation
Indices: 1925303--1925347 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
1925293 TAGAGTGATG
*
1925303 AAAAATCTTTGTCCTTCAA
1 AAAAATCTTTCTCCTT-AA
*
1925322 AAAATCTCTTTCTCCTTAA
1 AAAA-ATCTTTCTCCTTAA
1925341 AAAAATC
1 AAAAATC
1925348 ACCTAAGTGT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
18 2 0.09
19 10 0.45
20 10 0.45
ACGTcount: A:0.40, C:0.22, G:0.02, T:0.36
Consensus pattern (18 bp):
AAAAATCTTTCTCCTTAA
Found at i:1925337 original size:20 final size:20
Alignment explanation
Indices: 1925308--1925347 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
1925298 TGATGAAAAA
* *
1925308 TCTTTGTCCTTCAAAAAATC
1 TCTTTCTCCTTAAAAAAATC
1925328 TCTTTCTCCTTAAAAAAATC
1 TCTTTCTCCTTAAAAAAATC
1925348 ACCTAAGTGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.33, C:0.25, G:0.03, T:0.40
Consensus pattern (20 bp):
TCTTTCTCCTTAAAAAAATC
Found at i:1927643 original size:3 final size:3
Alignment explanation
Indices: 1927635--1927675 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
1927625 TGAGACTAAC
1927635 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1927676 TTTTCCCTAC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:1928832 original size:12 final size:13
Alignment explanation
Indices: 1928815--1928849 Score: 56
Period size: 12 Copynumber: 2.8 Consensus size: 13
1928805 GCTTAAAAAA
1928815 TATTATTAATA-T
1 TATTATTAATATT
1928827 TATTATT-ATATT
1 TATTATTAATATT
1928839 TATTATTAATA
1 TATTATTAATA
1928850 AAATTATTAC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 3 0.14
12 15 0.71
13 3 0.14
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (13 bp):
TATTATTAATATT
Found at i:1930232 original size:14 final size:16
Alignment explanation
Indices: 1930208--1930240 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
1930198 GTTTATTTTG
1930208 TTTTAAGTATTT-TAT
1 TTTTAAGTATTTATAT
1930223 TTTTAA-TATTTATAT
1 TTTTAAGTATTTATAT
1930238 TTT
1 TTT
1930241 AGTCACACTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 5 0.29
15 12 0.71
ACGTcount: A:0.27, C:0.00, G:0.03, T:0.70
Consensus pattern (16 bp):
TTTTAAGTATTTATAT
Found at i:1932707 original size:12 final size:13
Alignment explanation
Indices: 1932669--1932708 Score: 57
Period size: 12 Copynumber: 3.2 Consensus size: 13
1932659 TTTTAAATAT
1932669 AATAATATTTT-A
1 AATAATATTTTAA
*
1932681 AATAATTTTTTAA
1 AATAATATTTTAA
1932694 AATAA-ATTTTAA
1 AATAATATTTTAA
1932706 AAT
1 AAT
1932709 TTTCAGATTG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
12 19 0.76
13 6 0.24
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (13 bp):
AATAATATTTTAA
Found at i:1933582 original size:14 final size:14
Alignment explanation
Indices: 1933565--1933591 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
1933555 TATATTTTTA
1933565 ATTTTTTTTGAAAC
1 ATTTTTTTTGAAAC
1933579 ATTTTTTTTGAAA
1 ATTTTTTTTGAAA
1933592 ATGCTTTGAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.04, G:0.07, T:0.59
Consensus pattern (14 bp):
ATTTTTTTTGAAAC
Found at i:1938269 original size:43 final size:43
Alignment explanation
Indices: 1938204--1938292 Score: 153
Period size: 43 Copynumber: 2.1 Consensus size: 43
1938194 TTCGAATAAT
*
1938204 TGAATTAAGGGTAATGCTCTTTG-ATTTTAGGGTTTTCGTGAAG
1 TGAATTAAGGGTAATGCCCTTTGCA-TTTAGGGTTTTCGTGAAG
1938247 TGAATTAAGGGTAATGCCCTTTGCATTTAGGGTTTTCGTGAAG
1 TGAATTAAGGGTAATGCCCTTTGCATTTAGGGTTTTCGTGAAG
1938290 TGA
1 TGA
1938293 TTGTCTTAAC
Statistics
Matches: 44, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
43 43 0.98
44 1 0.02
ACGTcount: A:0.24, C:0.09, G:0.28, T:0.39
Consensus pattern (43 bp):
TGAATTAAGGGTAATGCCCTTTGCATTTAGGGTTTTCGTGAAG
Found at i:1941369 original size:55 final size:55
Alignment explanation
Indices: 1941291--1941599 Score: 390
Period size: 55 Copynumber: 5.6 Consensus size: 55
1941281 ATGATGGGTG
* * *
1941291 TGCTCCTTATTCCTTCAAGGAGTATAAGACTCGAACAATCTTCAGCAAATGTGTC
1 TGCTCCCTATTCCTTCAGGGAGTATAAGACTCGAACAATCTTCAGCAAACGTGTC
* * *
1941346 TTCTCCCTATTCGTTCAGGGAGTATAAGACTCGAACAATCTTCAACAAACAG-GTC
1 TGCTCCCTATTCCTTCAGGGAGTATAAGACTCGAACAATCTTCAGCAAAC-GTGTC
* * * * *
1941401 CGCTCCCTATTCTTTCAAGGAGTATAAGACTCGAACAATCTTCAGCAAATGGGTTC
1 TGCTCCCTATTCCTTCAGGGAGTATAAGACTCGAACAATCTTCAGCAAACGTG-TC
* *
1941457 T-CTCCCTATTCTTTCAGGGAGTAT-AGAACTCGAACAATCTTCAGCGAACGTGTC
1 TGCTCCCTATTCCTTCAGGGAGTATAAG-ACTCGAACAATCTTCAGCAAACGTGTC
* * *
1941511 TGCTCCCTATTCATTCAGGGAGTATAAGACTCGAACAATCTTCAACTAACGTGTC
1 TGCTCCCTATTCCTTCAGGGAGTATAAGACTCGAACAATCTTCAGCAAACGTGTC
** * *
1941566 CACTCCCTATTCCTTCAGAGAGTATAGGACTCGA
1 TGCTCCCTATTCCTTCAGGGAGTATAAGACTCGA
1941600 TCTTCATAAA
Statistics
Matches: 223, Mismatches: 25, Indels: 12
0.86 0.10 0.05
Matches are distributed among these distances:
54 6 0.03
55 212 0.95
56 5 0.02
ACGTcount: A:0.28, C:0.26, G:0.17, T:0.29
Consensus pattern (55 bp):
TGCTCCCTATTCCTTCAGGGAGTATAAGACTCGAACAATCTTCAGCAAACGTGTC
Found at i:1941591 original size:165 final size:165
Alignment explanation
Indices: 1941293--1941599 Score: 467
Period size: 165 Copynumber: 1.9 Consensus size: 165
1941283 GATGGGTGTG
* * *
1941293 CTCCTTATTCCTTCAAGGAGTATAAGACTCGAACAATCTTCAGCAAATGTGTCTTCTCCCTATTC
1 CTCCCTATTCCTTCAAGGAGTATAAGACTCGAACAATCTTCAGCAAACGTGTCTGCTCCCTATTC
* * *
1941358 GTTCAGGGAGTATAAGACTCGAACAATCTTCAACAAACAGGTCCGCTCCCTATTCTTTCAAGGAG
66 ATTCAGGGAGTATAAGACTCGAACAATCTTCAACAAACAGGTCCACTCCCTATTCCTTCAAGGAG
1941423 TATAAGACTCGAACAATCTTCAGCAAATGGGTTCT
131 TATAAGACTCGAACAATCTTCAGCAAATGGGTTCT
* * *
1941458 CTCCCTATTCTTTCAGGGAGTAT-AGAACTCGAACAATCTTCAGCGAACGTGTCTGCTCCCTATT
1 CTCCCTATTCCTTCAAGGAGTATAAG-ACTCGAACAATCTTCAGCAAACGTGTCTGCTCCCTATT
*
1941522 CATTCAGGGAGTATAAGACTCGAACAATCTTCAACTAAC-GTGTCCACTCCCTATTCCTTC-AGA
65 CATTCAGGGAGTATAAGACTCGAACAATCTTCAACAAACAG-GTCCACTCCCTATTCCTTCAAG-
*
1941585 GAGTATAGGACTCGA
128 GAGTATAAGACTCGA
1941600 TCTTCATAAA
Statistics
Matches: 128, Mismatches: 11, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
164 5 0.04
165 123 0.96
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.29
Consensus pattern (165 bp):
CTCCCTATTCCTTCAAGGAGTATAAGACTCGAACAATCTTCAGCAAACGTGTCTGCTCCCTATTC
ATTCAGGGAGTATAAGACTCGAACAATCTTCAACAAACAGGTCCACTCCCTATTCCTTCAAGGAG
TATAAGACTCGAACAATCTTCAGCAAATGGGTTCT
Found at i:1942922 original size:45 final size:45
Alignment explanation
Indices: 1942837--1942922 Score: 102
Period size: 45 Copynumber: 1.9 Consensus size: 45
1942827 TAAACAAAAC
* * *
1942837 TCAAGTCGCCCTTTGCGGGTTTTCAACTTGAGACCTCCTTTGGTT
1 TCAAGACGCCCTTTGCGAGTTTTCAACTTGAGACCCCCTTTGGTT
* * *
1942882 TCAAGACGCCCTTTGCGAATTTTTTATCTTGA-ACCCCCTTT
1 TCAAGACGCCCTTTGCG-AGTTTTCAACTTGAGACCCCCTTT
1942923 TTATTTTTCT
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
45 24 0.71
46 10 0.29
ACGTcount: A:0.16, C:0.28, G:0.17, T:0.38
Consensus pattern (45 bp):
TCAAGACGCCCTTTGCGAGTTTTCAACTTGAGACCCCCTTTGGTT
Found at i:1942960 original size:11 final size:10
Alignment explanation
Indices: 1942946--1943164 Score: 110
Period size: 11 Copynumber: 21.8 Consensus size: 10
1942936 TTTTGTTTTC
1942946 TTTTTTCATCT
1 TTTTTTCAT-T
1942957 TTTTTTCATTT
1 TTTTTTCA-TT
1942968 ATTTTTTC-TT
1 -TTTTTTCATT
**
1942978 CAATTTTCTATT
1 -TTTTTTC-ATT
1942990 TTTTTTC-TAT
1 TTTTTTCAT-T
1943000 TTTTTTC--T
1 TTTTTTCATT
* *
1943008 TTTTTCCTTT
1 TTTTTTCATT
1943018 TCCTTTTTCATT
1 T--TTTTTCATT
1943030 TTTTTCTCATTT
1 TTTTT-TCA-TT
1943042 TTCTTTTCATT
1 TT-TTTTCATT
1943053 TTCTTTTCATT
1 TT-TTTTCATT
1943064 TTTTTCTCA-T
1 TTTTT-TCATT
1943074 TTTTTTC-TT
1 TTTTTTCATT
1943083 CATTTTTTCA--
1 --TTTTTTCATT
1943093 TTTTTTCA--
1 TTTTTTCATT
1943101 TTTTTTCA--
1 TTTTTTCATT
1943109 TTTTTTCA-T
1 TTTTTTCATT
*
1943118 TTTTTT-AAT
1 TTTTTTCATT
1943127 TTTTTTCAATT
1 TTTTTTC-ATT
*
1943138 TTCTTT--TT
1 TTTTTTCATT
*
1943146 ATTTTTCATT
1 TTTTTTCATT
1943156 TCTTTTTCA
1 T-TTTTTCA
1943165 GGCGAAATAC
Statistics
Matches: 171, Mismatches: 13, Indels: 48
0.74 0.06 0.21
Matches are distributed among these distances:
8 38 0.22
9 17 0.10
10 32 0.19
11 56 0.33
12 25 0.15
13 3 0.02
ACGTcount: A:0.11, C:0.15, G:0.00, T:0.74
Consensus pattern (10 bp):
TTTTTTCATT
Found at i:1942972 original size:23 final size:22
Alignment explanation
Indices: 1942946--1943123 Score: 99
Period size: 21 Copynumber: 8.2 Consensus size: 22
1942936 TTTTGTTTTC
1942946 TTTTTTCATCTTTTTTTCATTT
1 TTTTTTCATCTTTTTTTCATTT
* **
1942968 ATTTTTTCTTC-AATTTTC-TATT
1 -TTTTTTCATCTTTTTTTCAT-TT
*
1942990 TTTTTTC-TATTTTTTTC-TTT
1 TTTTTTCATCTTTTTTTCATTT
*
1943010 TTTCCTTT--TC-CTTTTTCATTT
1 TTT--TTTCATCTTTTTTTCATTT
* *
1943031 TTTTCTCATTTTTCTTTTCATTT
1 TTTTTTCATCTTT-TTTTCATTT
*
1943054 TCTTTTCAT-TTTTTTCTCATTT
1 TTTTTTCATCTTTTTT-TCATTT
1943076 TTTTCTTCA---TTTTTTCATTT
1 TTTT-TTCATCTTTTTTTCATTT
** *
1943096 TTTCATTTTTTCATTTTTTCATTT
1 TTT--TTTCATCTTTTTTTCATTT
1943120 TTTT
1 TTTT
1943124 AATTTTTTTC
Statistics
Matches: 123, Mismatches: 16, Indels: 33
0.72 0.09 0.19
Matches are distributed among these distances:
19 2 0.02
20 21 0.17
21 32 0.26
22 25 0.20
23 29 0.24
24 14 0.11
ACGTcount: A:0.10, C:0.15, G:0.00, T:0.75
Consensus pattern (22 bp):
TTTTTTCATCTTTTTTTCATTT
Found at i:1943010 original size:8 final size:8
Alignment explanation
Indices: 1942989--1943133 Score: 53
Period size: 8 Copynumber: 17.0 Consensus size: 8
1942979 AATTTTCTAT
1942989 TTTTTTTC
1 TTTTTTTC
1942997 TATTTTTTTC
1 --TTTTTTTC
*
1943007 TTTTTTCCTT
1 TTTTTT--TC
1943017 TTCCTTTTTC
1 TT--TTTTTC
1943027 ATTTTTTTC
1 -TTTTTTTC
*
1943036 TCATTTTTC
1 T-TTTTTTC
*
1943045 TTTTCATT-
1 TTTT-TTTC
*
1943053 TTCTTTTC
1 TTTTTTTC
1943061 ATTTTTTTC
1 -TTTTTTTC
**
1943070 -TCATTT-
1 TTTTTTTC
*
1943076 TTTTCTTC
1 TTTTTTTC
*
1943084 ATTTTTTC
1 TTTTTTTC
*
1943092 ATTTTTTC
1 TTTTTTTC
*
1943100 ATTTTTTC
1 TTTTTTTC
*
1943108 ATTTTTTC
1 TTTTTTTC
*
1943116 ATTTTTTTAA
1 -TTTTTTT-C
1943126 TTTTTTTC
1 TTTTTTTC
1943134 AATTTTCTTT
Statistics
Matches: 104, Mismatches: 18, Indels: 28
0.69 0.12 0.19
Matches are distributed among these distances:
7 9 0.09
8 42 0.40
9 35 0.34
10 12 0.12
11 2 0.02
12 4 0.04
ACGTcount: A:0.09, C:0.15, G:0.00, T:0.76
Consensus pattern (8 bp):
TTTTTTTC
Found at i:1943019 original size:34 final size:32
Alignment explanation
Indices: 1942941--1943151 Score: 129
Period size: 34 Copynumber: 6.5 Consensus size: 32
1942931 CTATATTTTG
* *
1942941 TTTTCTTTTTTCATCTTTTTTTCATTTATTT-TT
1 TTTTCTTTTCT-AT-TTTTTTTCATTTTTTTCTT
*
1942974 TCTTCAATTTTCTATTTTTTTTCTATTTTTTTCTT
1 TTTTC--TTTTCTATTTTTTTTC-ATTTTTTTCTT
*
1943009 TTTTCCTTTTC----CTTTTTCATTTTTTTCTCAT
1 TTTT-CTTTTCTATTTTTTTTCATTTTTTTCT--T
*
1943040 TTTTCTTTTC-ATTTTCTTTTCATTTTTTTCTC
1 TTTTCTTTTCTATTTT-TTTTCATTTTTTTCTT
* *
1943072 ATTT-TTTTCT-TCATTTTTTCA-TTTTTTCATT
1 TTTTCTTTTCTAT-TTTTTTTCATTTTTTTC-TT
* * **
1943103 TTTTCATTTTTTCA-TTTTTTTAATTTTTTTCAA
1 TTTTC-TTTTCT-ATTTTTTTTCATTTTTTTCTT
1943136 TTTTCTTTT-TATTTTT
1 TTTTCTTTTCTATTTTT
1943152 CATTTCTTTT
Statistics
Matches: 142, Mismatches: 16, Indels: 42
0.71 0.08 0.21
Matches are distributed among these distances:
29 10 0.07
30 20 0.14
31 26 0.18
32 9 0.06
33 30 0.21
34 36 0.25
35 10 0.07
36 1 0.01
ACGTcount: A:0.10, C:0.14, G:0.00, T:0.75
Consensus pattern (32 bp):
TTTTCTTTTCTATTTTTTTTCATTTTTTTCTT
Found at i:1943106 original size:74 final size:73
Alignment explanation
Indices: 1942941--1943106 Score: 187
Period size: 74 Copynumber: 2.3 Consensus size: 73
1942931 CTATATTTTG
*
1942941 TTTTCTTTTTTCATCTTTTTTTCATTTATTTTTTCTTCAATTTTCTATTTTTTTTCTATTTTTTT
1 TTTTCTTTTTTCATTTTTTTTTCATTTATTTTTTCTTCAATTTTCTATTTTTTTTCTATTTTTTT
**
1943006 CTTTTTTCC
66 CTTCATT-C
* * ***
1943015 TTTTCCTTTTTCATTTTTTTCTCATTT-TTCTTTTCATTTTCTTTTC-A-TTTTTTTCTCATTTT
1 TTTTCTTTTTTCATTTTTTTTTCATTTATT-TTTTC-TTCAATTTTCTATTTTTTTTCT-ATTTT
1943077 TTTCTTCATT-
63 TTTCTTCATTC
1943087 TTTTCATTTTTTCATTTTTT
1 TTTTC-TTTTTTCATTTTTT
1943107 CATTTTTTCA
Statistics
Matches: 79, Mismatches: 9, Indels: 9
0.81 0.09 0.09
Matches are distributed among these distances:
72 5 0.06
73 24 0.30
74 43 0.54
75 7 0.09
ACGTcount: A:0.09, C:0.16, G:0.00, T:0.75
Consensus pattern (73 bp):
TTTTCTTTTTTCATTTTTTTTTCATTTATTTTTTCTTCAATTTTCTATTTTTTTTCTATTTTTTT
CTTCATTC
Found at i:1943139 original size:8 final size:8
Alignment explanation
Indices: 1943076--1943122 Score: 85
Period size: 8 Copynumber: 5.8 Consensus size: 8
1943066 TTTCTCATTT
1943076 TTTTCTTCA
1 TTTT-TTCA
1943085 TTTTTTCA
1 TTTTTTCA
1943093 TTTTTTCA
1 TTTTTTCA
1943101 TTTTTTCA
1 TTTTTTCA
1943109 TTTTTTCA
1 TTTTTTCA
1943117 TTTTTT
1 TTTTTT
1943123 TAATTTTTTT
Statistics
Matches: 38, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
8 34 0.89
9 4 0.11
ACGTcount: A:0.11, C:0.13, G:0.00, T:0.77
Consensus pattern (8 bp):
TTTTTTCA
Found at i:1943144 original size:24 final size:24
Alignment explanation
Indices: 1943076--1943145 Score: 70
Period size: 24 Copynumber: 2.8 Consensus size: 24
1943066 TTTCTCATTT
* * *
1943076 TTTTCTTCATTTTTTCATTTTTTCA
1 TTTT-TTCATATTTTCTTTTTTTAA
*
1943101 TTTTTTCATTTTTTCATTTTTTTAA
1 TTTTTTCATATTTTC-TTTTTTTAA
1943126 TTTTTTTCA-ATTTTCTTTTT
1 -TTTTTTCATATTTTCTTTTT
1943146 ATTTTTCATT
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
24 16 0.40
25 16 0.40
26 8 0.20
ACGTcount: A:0.13, C:0.11, G:0.00, T:0.76
Consensus pattern (24 bp):
TTTTTTCATATTTTCTTTTTTTAA
Found at i:1943161 original size:16 final size:17
Alignment explanation
Indices: 1943045--1943161 Score: 77
Period size: 16 Copynumber: 6.8 Consensus size: 17
1943035 CTCATTTTTC
1943045 TTTTCATTTTCTTTTCATT
1 TTTTCA-TTTCTTTT-ATT
*
1943064 TTTT--TCTCATTTT-TT
1 TTTTCATTTC-TTTTATT
* *
1943079 TCTTCATTT-TTTCATT
1 TTTTCATTTCTTTTATT
*
1943095 TTTTCATTT-TTTCATT
1 TTTTCATTTCTTTTATT
1943111 TTTTCATTT-TTTTAATTT
1 TTTTCATTTCTTTT-A-TT
1943129 TTTTCAATTTTCTTTT-TAT
1 TTTTC-A-TTTCTTTTAT-T
1943148 TTTTCATTTCTTTT
1 TTTTCATTTCTTTT
1943162 TCAGGCGAAA
Statistics
Matches: 82, Mismatches: 6, Indels: 22
0.75 0.05 0.20
Matches are distributed among these distances:
15 8 0.10
16 32 0.39
17 15 0.18
18 9 0.11
19 11 0.13
20 3 0.04
21 4 0.05
ACGTcount: A:0.12, C:0.13, G:0.00, T:0.75
Consensus pattern (17 bp):
TTTTCATTTCTTTTATT
Found at i:1963390 original size:9 final size:9
Alignment explanation
Indices: 1963375--1963460 Score: 59
Period size: 9 Copynumber: 9.1 Consensus size: 9
1963365 ACTTTGCCTG
1963375 AAGAAAAAA
1 AAGAAAAAA
*
1963384 GAGAAAAAA
1 AAGAAAAAA
*
1963393 TTAGAAAAAA
1 -AAGAAAAAA
*
1963403 AAGAAAAACG
1 AAGAAAAA-A
*
1963413 AA-AAAAGA
1 AAGAAAAAA
1963421 AAGAAAAAAA
1 AAG-AAAAAA
1963431 AAGGGAAAAAGA
1 AA--GAAAAA-A
*
1963443 AAG-AAGAA
1 AAGAAAAAA
1963451 AAGAAAAAA
1 AAGAAAAAA
1963460 A
1 A
1963461 TAAATAAAAG
Statistics
Matches: 60, Mismatches: 9, Indels: 16
0.71 0.11 0.19
Matches are distributed among these distances:
8 6 0.10
9 27 0.45
10 18 0.30
11 5 0.08
12 4 0.07
ACGTcount: A:0.79, C:0.01, G:0.17, T:0.02
Consensus pattern (9 bp):
AAGAAAAAA
Found at i:1963417 original size:27 final size:28
Alignment explanation
Indices: 1963375--1963473 Score: 80
Period size: 29 Copynumber: 3.5 Consensus size: 28
1963365 ACTTTGCCTG
*
1963375 AAGAAAAAAGAGAAAAA-ATTAGAAAAAA
1 AAGAAAAAAGAGAAAAAGA-AAGAAAAAA
*
1963403 AAGAAAAACGA-AAAAAGAAAGAAAAAAA
1 AAGAAAAAAGAGAAAAAGAAAG-AAAAAA
* *
1963431 AAGGGAAAAAGA-AAGAAGAAAAGAAAAAA
1 AA-GAAAAAAGAGAAAAAG-AAAGAAAAAA
1963460 ATA-AATAAAAGAGA
1 A-AGAA-AAAAGAGA
1963474 GTTCAAGATG
Statistics
Matches: 58, Mismatches: 6, Indels: 12
0.76 0.08 0.16
Matches are distributed among these distances:
27 7 0.12
28 20 0.34
29 25 0.43
30 6 0.10
ACGTcount: A:0.78, C:0.01, G:0.17, T:0.04
Consensus pattern (28 bp):
AAGAAAAAAGAGAAAAAGAAAGAAAAAA
Found at i:1963430 original size:29 final size:29
Alignment explanation
Indices: 1963397--1963469 Score: 85
Period size: 30 Copynumber: 2.4 Consensus size: 29
1963387 AAAAAATTAG
1963397 AAAAAAAAGAAAAACGAAAAAAG-AAAGAA
1 AAAAAAAAGAAAAA-GAAAAAAGAAAAGAA
* *
1963426 AAAAAAAGGGAAAAAGAAAGAAGAAAAGAA
1 AAAAAAA-AGAAAAAGAAAAAAGAAAAGAA
*
1963456 AAAAATAAATAAAA
1 AAAAA-AAAGAAAA
1963470 GAGAGTTCAA
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
29 14 0.38
30 21 0.57
31 2 0.05
ACGTcount: A:0.81, C:0.01, G:0.15, T:0.03
Consensus pattern (29 bp):
AAAAAAAAGAAAAAGAAAAAAGAAAAGAA
Found at i:1963439 original size:22 final size:22
Alignment explanation
Indices: 1963395--1963452 Score: 71
Period size: 22 Copynumber: 2.6 Consensus size: 22
1963385 AGAAAAAATT
*
1963395 AGAAAAAAAAGAAAAACGAAAAA
1 AGAAAGAAAA-AAAAACGAAAAA
* *
1963418 AGAAAGAAAAAAAAAGGGAAAA
1 AGAAAGAAAAAAAAACGAAAAA
*
1963440 AGAAAGAAGAAAA
1 AGAAAGAAAAAAA
1963453 GAAAAAAATA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
22 22 0.71
23 9 0.29
ACGTcount: A:0.79, C:0.02, G:0.19, T:0.00
Consensus pattern (22 bp):
AGAAAGAAAAAAAAACGAAAAA
Found at i:1963456 original size:18 final size:17
Alignment explanation
Indices: 1963400--1963471 Score: 60
Period size: 18 Copynumber: 4.1 Consensus size: 17
1963390 AAATTAGAAA
1963400 AAAAAGAAAAACGAAAA-
1 AAAAAGAAAAA-GAAAAG
1963417 AAGAAAGAAAAA-AAAAGGG
1 AA-AAAGAAAAAGAAAA--G
1963436 AAAAAGAAAGAAGAAAAG
1 AAAAAGAAA-AAGAAAAG
*
1963454 AAAAA-AATAAATAAAAG
1 AAAAAGAA-AAAGAAAAG
1963471 A
1 A
1963472 GAGTTCAAGA
Statistics
Matches: 47, Mismatches: 1, Indels: 14
0.76 0.02 0.23
Matches are distributed among these distances:
16 4 0.09
17 12 0.26
18 23 0.49
19 4 0.09
20 4 0.09
ACGTcount: A:0.79, C:0.01, G:0.17, T:0.03
Consensus pattern (17 bp):
AAAAAGAAAAAGAAAAG
Found at i:1963459 original size:7 final size:7
Alignment explanation
Indices: 1963399--1963452 Score: 56
Period size: 7 Copynumber: 7.6 Consensus size: 7
1963389 AAAATTAGAA
1963399 AAAAAAG
1 AAAAAAG
*
1963406 AAAAACG
1 AAAAAAG
1963413 AAAAAAG
1 AAAAAAG
1963420 AAAGAAA-
1 AAA-AAAG
1963427 AAAAAAGG
1 AAAAAA-G
*
1963435 GAAAAAG
1 AAAAAAG
*
1963442 AAAGAAG
1 AAAAAAG
1963449 AAAA
1 AAAA
1963453 GAAAAAAATA
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
6 3 0.08
7 27 0.71
8 8 0.21
ACGTcount: A:0.80, C:0.02, G:0.19, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:1965136 original size:21 final size:21
Alignment explanation
Indices: 1965110--1965169 Score: 120
Period size: 21 Copynumber: 2.9 Consensus size: 21
1965100 TTACTTGAAA
1965110 AAGTGGAGCAGATCAAGTTTT
1 AAGTGGAGCAGATCAAGTTTT
1965131 AAGTGGAGCAGATCAAGTTTT
1 AAGTGGAGCAGATCAAGTTTT
1965152 AAGTGGAGCAGATCAAGT
1 AAGTGGAGCAGATCAAGT
1965170 CTGACCTTAC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 39 1.00
ACGTcount: A:0.35, C:0.10, G:0.30, T:0.25
Consensus pattern (21 bp):
AAGTGGAGCAGATCAAGTTTT
Found at i:1965341 original size:2 final size:2
Alignment explanation
Indices: 1965334--1965359 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
1965324 AAGTCTCATT
1965334 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
1965360 GTTATTTTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1966205 original size:16 final size:16
Alignment explanation
Indices: 1966184--1966216 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
1966174 TAAAAAATAA
1966184 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
1966200 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
1966216 A
1 A
1966217 AAAATTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.58, C:0.24, G:0.12, T:0.06
Consensus pattern (16 bp):
ACGAACATAAACGAAC
Found at i:1966307 original size:16 final size:16
Alignment explanation
Indices: 1966286--1966346 Score: 113
Period size: 16 Copynumber: 3.8 Consensus size: 16
1966276 TAATAAATAA
1966286 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
1966302 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
*
1966318 ACGAACATAAATGAAC
1 ACGAACATAAACGAAC
1966334 ACGAACATAAACG
1 ACGAACATAAACG
1966347 TTGGAGACCC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 43 1.00
ACGTcount: A:0.56, C:0.23, G:0.13, T:0.08
Consensus pattern (16 bp):
ACGAACATAAACGAAC
Found at i:1967397 original size:14 final size:14
Alignment explanation
Indices: 1967380--1967435 Score: 66
Period size: 14 Copynumber: 4.3 Consensus size: 14
1967370 AATGAACATA
1967380 AACGAACATAACCG
1 AACGAACATAACCG
1967394 AACGAACAT-A---
1 AACGAACATAACCG
* *
1967404 AACGAATATAACTG
1 AACGAACATAACCG
1967418 AACGAACATAACCG
1 AACGAACATAACCG
1967432 AACG
1 AACG
1967436 TTCACGAACG
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
10 8 0.23
11 1 0.03
13 1 0.03
14 25 0.71
ACGTcount: A:0.52, C:0.23, G:0.14, T:0.11
Consensus pattern (14 bp):
AACGAACATAACCG
Found at i:1967400 original size:24 final size:24
Alignment explanation
Indices: 1967373--1967434 Score: 97
Period size: 24 Copynumber: 2.6 Consensus size: 24
1967363 ATAAATGAAT
1967373 GAACATAAACGAACATAACCGAAC
1 GAACATAAACGAACATAACCGAAC
* *
1967397 GAACATAAACGAATATAACTGAAC
1 GAACATAAACGAACATAACCGAAC
*
1967421 GAACATAACCGAAC
1 GAACATAAACGAAC
1967435 GTTCACGAAC
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.53, C:0.23, G:0.13, T:0.11
Consensus pattern (24 bp):
GAACATAAACGAACATAACCGAAC
Found at i:1970334 original size:27 final size:27
Alignment explanation
Indices: 1970276--1970327 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
1970266 TTAATTTAAT
** *
1970276 AATTATAATTAATATTTATAGTAAAAG
1 AATTATAATTAATATAAAAAGTAAAAG
1970303 AATTATAATTAATATAAAAAGTAAA
1 AATTATAATTAATATAAAAAGTAAA
1970328 TTTATTAATT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.37
Consensus pattern (27 bp):
AATTATAATTAATATAAAAAGTAAAAG
Found at i:1971159 original size:200 final size:200
Alignment explanation
Indices: 1970876--1971246 Score: 473
Period size: 200 Copynumber: 1.9 Consensus size: 200
1970866 ATGTTATACT
* * * ** *
1970876 TTTACCATTTACATTGTAATTTTACCTATTACTTTAAAGTAATCGGTTTCAAAATTACGGGTGTC
1 TTTACCATTTACATTGTAAATTTACCTATTACTTTAAAGTAATAGGTTTCAAAAGTACAAGTATC
*
1970941 GATACTTTGTACATGTGTATCGATACATTTAGCGTGCAAATTG-TTGAGAAACATACT-GAACTA
66 GATACTTTGTACATGTGTATCGATACATTTAGCGTGCAAATCGTTTGAGAAACATACTGGAA-TA
* *
1971004 ACAATATCGATACCTATATAT-A-AAGTATCGATACTTGGTATATACGCTTATTATCATTATACC
130 ACAATATCAATA--TATATATAATAAGTATCGAAACTTGG-ATATACGCTTATTATCATTATACC
1971067 GGTAAAACG
192 GGTAAAACG
* ** * *
1971076 TTTACCCTTTACATTGTAAATTTACCTATTACTTTAAAGTAATAGGTTTTGAAAGTCCAAGTATT
1 TTTACCATTTACATTGTAAATTTACCTATTACTTTAAAGTAATAGGTTTCAAAAGTACAAGTATC
* * * ***
1971141 GATACTTAT-TATATGTGTATCGATACTTTTTGCGTGCAAATCGTTTGAGATGTATACTGGAATA
66 GATACTT-TGTACATGTGTATCGATACATTTAGCGTGCAAATCGTTTGAGAAACATACTGGAATA
*
1971205 ACAATATCAATATATGTATAATAAGTATCGAAACTTGGATAT
130 ACAATATCAATATATATATAATAAGTATCGAAACTTGGATAT
1971247 TTTCATACTT
Statistics
Matches: 145, Mismatches: 21, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
199 6 0.04
200 96 0.66
201 40 0.28
202 3 0.02
ACGTcount: A:0.34, C:0.14, G:0.15, T:0.38
Consensus pattern (200 bp):
TTTACCATTTACATTGTAAATTTACCTATTACTTTAAAGTAATAGGTTTCAAAAGTACAAGTATC
GATACTTTGTACATGTGTATCGATACATTTAGCGTGCAAATCGTTTGAGAAACATACTGGAATAA
CAATATCAATATATATATAATAAGTATCGAAACTTGGATATACGCTTATTATCATTATACCGGTA
AAACG
Found at i:1977332 original size:2 final size:2
Alignment explanation
Indices: 1977287--1977320 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
1977277 CTCATGCATT
1977287 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1977321 AATACGTATA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Done.