Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008195.1 Hibiscus syriacus cultivar Beakdansim tig00110814_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: 1119982
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 6 of 6
Found at i:989564 original size:31 final size:31
Alignment explanation
Indices: 989443--989567 Score: 128
Period size: 31 Copynumber: 4.0 Consensus size: 31
989433 AGAGTCGAGG
989443 GTTTACCTATGTTCTACGGAACATATGGACA
1 GTTTACCTATGTTCTACGGAACATATGGACA
* *
989474 GAATTACCTATG-TCTTTC-GAGACATATGGACA
1 G-TTTACCTATGTTC-TACGGA-ACATATGGACA
* * *
989506 GTATACTTATGTTCTAAGGAACATATGGACA
1 GTTTACCTATGTTCTACGGAACATATGGACA
* * * *
989537 GTTTACCTAGGTTCTTCGGGACCTATGGACA
1 GTTTACCTATGTTCTACGGAACATATGGACA
989568 ATTGCCGAGG
Statistics
Matches: 75, Mismatches: 14, Indels: 10
0.76 0.14 0.10
Matches are distributed among these distances:
31 48 0.64
32 27 0.36
ACGTcount: A:0.29, C:0.18, G:0.21, T:0.32
Consensus pattern (31 bp):
GTTTACCTATGTTCTACGGAACATATGGACA
Found at i:991520 original size:117 final size:117
Alignment explanation
Indices: 991319--991537 Score: 305
Period size: 117 Copynumber: 1.9 Consensus size: 117
991309 AAATCGAAAT
* * * *
991319 TTTATTTTTCAAAGCTTTCACATTTCATTTTTGAGAGCTCTAAATCCTTCTTCAATATTTCATTT
1 TTTATTTTTCAAAGCTTTCACATTTCATTTTTGAAACCTCTAAATCATTCTTCAACATTTCATTT
*
991384 TGATTTTCAAAATCCATTTTAG-TTTCTAGAAGAAGATTGTTTAATTCAAAAA
66 TGATTTTCAAAATCCATTTTAGCTTTC-AAAAGAAGATTGTTTAATTCAAAAA
* * * * *
991436 TTTATTTTTCAAAGTTTTCAGATTTCATTTTTGAAACCTCTAACTCATTTTTTAACATTTCATTT
1 TTTATTTTTCAAAGCTTTCACATTTCATTTTTGAAACCTCTAAATCATTCTTCAACATTTCATTT
* * *
991501 TGATTTTCCAATTCTATTTTAGCTTTCAAAAGAAGAT
66 TGATTTTCAAAATCCATTTTAGCTTTCAAAAGAAGAT
991538 CATTTTTAGC
Statistics
Matches: 88, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
117 84 0.95
118 4 0.05
ACGTcount: A:0.30, C:0.15, G:0.08, T:0.48
Consensus pattern (117 bp):
TTTATTTTTCAAAGCTTTCACATTTCATTTTTGAAACCTCTAAATCATTCTTCAACATTTCATTT
TGATTTTCAAAATCCATTTTAGCTTTCAAAAGAAGATTGTTTAATTCAAAAA
Found at i:1000210 original size:17 final size:17
Alignment explanation
Indices: 1000176--1000208 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
1000166 AGGTTCAAGT
1000176 TCGAGCTTAAGCTTAAA
1 TCGAGCTTAAGCTTAAA
*
1000193 TCGAG-TTAAGTTTAAA
1 TCGAGCTTAAGCTTAAA
1000209 ATTATTTTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.36, C:0.12, G:0.18, T:0.33
Consensus pattern (17 bp):
TCGAGCTTAAGCTTAAA
Found at i:1002103 original size:43 final size:42
Alignment explanation
Indices: 1002053--1002274 Score: 247
Period size: 43 Copynumber: 5.2 Consensus size: 42
1002043 GAAAATGATT
1002053 AAATTAGGGGCTTAAATTATAAAAGTAAAAAGT-ATGATTGAAA
1 AAATTAGGGGCTT-AATTATAAAAGTAAAAAGTGA-GATTGAAA
* * *
1002096 AAATTAGGGACCTCAATTAT--AGGTAAAAAGTGAGATT-AAA
1 AAATTAGGG-GCTTAATTATAAAAGTAAAAAGTGAGATTGAAA
* *
1002136 AAATTAAGGGCCTTAATTTTAAAAGTAAAAAGTGAGATTGAAAA
1 AAATT-AGGGGCTTAATTATAAAAGTAAAAAGTGAGATTG-AAA
*
1002180 AAATTAGGGGCCTTAATTATAAAGGTAAAAAGTGAGATTGAAA
1 AAATTAGGGG-CTTAATTATAAAAGTAAAAAGTGAGATTGAAA
** * *
1002223 AAATTAGAAGCTTAATTAT-AAAGATAAAAACTGATATTGGAAA
1 AAATTAGGGGCTTAATTATAAAAG-TAAAAAGTGAGATT-GAAA
1002266 AAATTAGGG
1 AAATTAGGG
1002275 TCAATAATAA
Statistics
Matches: 153, Mismatches: 16, Indels: 20
0.81 0.08 0.11
Matches are distributed among these distances:
40 16 0.10
41 21 0.14
42 38 0.25
43 41 0.27
44 37 0.24
ACGTcount: A:0.50, C:0.05, G:0.19, T:0.27
Consensus pattern (42 bp):
AAATTAGGGGCTTAATTATAAAAGTAAAAAGTGAGATTGAAA
Found at i:1002238 original size:42 final size:42
Alignment explanation
Indices: 1002053--1002274 Score: 254
Period size: 42 Copynumber: 5.2 Consensus size: 42
1002043 GAAAATGATT
*
1002053 AAATTAGGGGCTTAAATTATAAAAGTAAAAAGT-ATGATTGAAA
1 AAATTAGGGGCTT-AATTATAAAGGTAAAAAGTGA-GATTGAAA
* *
1002096 AAATTAGGGACCTCAATTAT--AGGTAAAAAGTGAGATT-AAA
1 AAATTAGGG-GCTTAATTATAAAGGTAAAAAGTGAGATTGAAA
* * *
1002136 AAATTAAGGGCCTTAATTTTAAAAGTAAAAAGTGAGATTGAAAA
1 AAATT-AGGGGCTTAATTATAAAGGTAAAAAGTGAGATTG-AAA
1002180 AAATTAGGGGCCTTAATTATAAAGGTAAAAAGTGAGATTGAAA
1 AAATTAGGGG-CTTAATTATAAAGGTAAAAAGTGAGATTGAAA
** * * *
1002223 AAATTAGAAGCTTAATTATAAAGATAAAAACTGATATTGGAAA
1 AAATTAGGGGCTTAATTATAAAGGTAAAAAGTGAGATT-GAAA
1002266 AAATTAGGG
1 AAATTAGGG
1002275 TCAATAATAA
Statistics
Matches: 154, Mismatches: 16, Indels: 18
0.82 0.09 0.10
Matches are distributed among these distances:
40 16 0.10
41 18 0.12
42 42 0.27
43 41 0.27
44 37 0.24
ACGTcount: A:0.50, C:0.05, G:0.19, T:0.27
Consensus pattern (42 bp):
AAATTAGGGGCTTAATTATAAAGGTAAAAAGTGAGATTGAAA
Found at i:1002308 original size:127 final size:126
Alignment explanation
Indices: 1002053--1002309 Score: 283
Period size: 127 Copynumber: 2.0 Consensus size: 126
1002043 GAAAATGATT
*
1002053 AAATTAGGGG-CTTAAATTATAAAAGTAAAAAGTATGATTGAAAAAATTAGGGACCTCAATTATA
1 AAATTAGGGGCCTT-AATTATAAAAGTAAAAAGTATGATTGAAAAAATTAGGAACCTCAATTATA
* * * ** *
1002117 GGTAAAAAGTGAGATTAAAAAATTAAGGGCCTTAATTTTAAAAGTAAAAAGTGAGATTGAAAA
65 GATAAAAACTGAGATTAAAAAATTAAGGG-CTCAATAATAAAAGTAAAAAATGAGATTGAAAA
* * *
1002180 AAATTAGGGGCCTTAATTATAAAGGTAAAAAGTGA-GATTGAAAAAATTA-GAAGCTTAATTATA
1 AAATTAGGGGCCTTAATTATAAAAGTAAAAAGT-ATGATTGAAAAAATTAGGAACCTCAATTAT-
* *
1002243 AAGATAAAAACTGATATTGGAAAAAATT-AGGG-TCAATAATAAATA-TAAGAAAATGGGATTGA
64 -AGATAAAAACTGAGATT--AAAAAATTAAGGGCTCAATAATAAA-AGTAA-AAAATGAGATTGA
1002305 AAA
124 AAA
1002308 AA
1 AA
1002310 CTAAGGACCC
Statistics
Matches: 110, Mismatches: 12, Indels: 15
0.80 0.09 0.11
Matches are distributed among these distances:
126 10 0.09
127 53 0.48
128 35 0.32
129 4 0.04
130 8 0.07
ACGTcount: A:0.51, C:0.04, G:0.19, T:0.26
Consensus pattern (126 bp):
AAATTAGGGGCCTTAATTATAAAAGTAAAAAGTATGATTGAAAAAATTAGGAACCTCAATTATAG
ATAAAAACTGAGATTAAAAAATTAAGGGCTCAATAATAAAAGTAAAAAATGAGATTGAAAA
Found at i:1002703 original size:3 final size:3
Alignment explanation
Indices: 1002690--1002719 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
1002680 TATTTAATCA
1002690 TAT TA- TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1002720 GTTGTTGTTG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 24 0.92
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:1002928 original size:33 final size:33
Alignment explanation
Indices: 1002885--1002948 Score: 85
Period size: 33 Copynumber: 1.9 Consensus size: 33
1002875 TATTTTTTAG
* * *
1002885 AAAACTAAAAAATGAAAATTACTTTT-TAAAAAT
1 AAAAATAAAAAATAAAAAATA-TTTTCTAAAAAT
1002918 AAAAATAAAAAATAAAAAATATTTTCTAAAA
1 AAAAATAAAAAATAAAAAATATTTTCTAAAA
1002949 CCAAACTAAC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
32 4 0.15
33 23 0.85
ACGTcount: A:0.66, C:0.05, G:0.02, T:0.28
Consensus pattern (33 bp):
AAAAATAAAAAATAAAAAATATTTTCTAAAAAT
Found at i:1003669 original size:20 final size:20
Alignment explanation
Indices: 1003646--1003744 Score: 112
Period size: 20 Copynumber: 4.9 Consensus size: 20
1003636 CAACGCGAAC
*
1003646 TCCAATTTCGCAACAC-AGTT
1 TCCAAATTCGCAACACGA-TT
*
1003666 TCCAAATTCGCAACGCGATT
1 TCCAAATTCGCAACACGATT
1003686 TCCAAATTCGCAACACTGAATT
1 TCCAAATTCGCAACAC-G-ATT
*
1003708 T-CAAATTCGCAACTCGATT
1 TCCAAATTCGCAACACGATT
* *
1003727 TTCGAATTCGCAACACGA
1 TCCAAATTCGCAACACGA
1003745 ATTTTAATTT
Statistics
Matches: 69, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
19 4 0.06
20 46 0.67
21 15 0.22
22 4 0.06
ACGTcount: A:0.32, C:0.28, G:0.12, T:0.27
Consensus pattern (20 bp):
TCCAAATTCGCAACACGATT
Found at i:1003726 original size:41 final size:40
Alignment explanation
Indices: 1003636--1003760 Score: 144
Period size: 40 Copynumber: 3.1 Consensus size: 40
1003626 AACAATTTCA
** * *
1003636 CAACGCGAACTCCAATTTCGCAACAC-AGTTTCCAAATTCG
1 CAACGCGATTTCCAAATTCGCAACACGAATTT-CAAATTCG
1003676 CAACGCGATTTCCAAATTCGCAACACTGAATTTCAAATTCG
1 CAACGCGATTTCCAAATTCGCAACAC-GAATTTCAAATTCG
* * * * *
1003717 CAACTCGATTTTCGAATTCGCAACACGAATTTTAATTTCG
1 CAACGCGATTTCCAAATTCGCAACACGAATTTCAAATTCG
1003757 CAAC
1 CAAC
1003761 AGGTTTTATT
Statistics
Matches: 74, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
40 39 0.53
41 31 0.42
42 4 0.05
ACGTcount: A:0.33, C:0.28, G:0.12, T:0.27
Consensus pattern (40 bp):
CAACGCGATTTCCAAATTCGCAACACGAATTTCAAATTCG
Found at i:1003756 original size:20 final size:19
Alignment explanation
Indices: 1003649--1003780 Score: 81
Period size: 20 Copynumber: 6.7 Consensus size: 19
1003639 CGCGAACTCC
*
1003649 AATTTCGCAACAC-AGTTTCC
1 AATTTCGCAACACGA-TTT-T
* * *
1003669 AAATTCGCAACGCGATTTCC
1 AATTTCGCAACACGATTT-T
* *
1003689 AAATTCGCAACACTGAATTTC
1 AATTTCGCAACAC-G-ATTTT
* *
1003710 AAATTCGCAACTCGATTTT
1 AATTTCGCAACACGATTTT
1003729 CGAA-TTCGCAACACGAATTTT
1 --AATTTCGCAACACG-ATTTT
*
1003750 AATTTCGCAACA-GGTTTT
1 AATTTCGCAACACGATTTT
*
1003768 ATTTTCGCAACAC
1 AATTTCGCAACAC
1003781 AAATGTTTTG
Statistics
Matches: 96, Mismatches: 8, Indels: 17
0.79 0.07 0.14
Matches are distributed among these distances:
18 15 0.16
19 7 0.07
20 48 0.50
21 22 0.23
22 4 0.04
ACGTcount: A:0.32, C:0.25, G:0.12, T:0.31
Consensus pattern (19 bp):
AATTTCGCAACACGATTTT
Found at i:1004565 original size:12 final size:12
Alignment explanation
Indices: 1004544--1004577 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
1004534 ACCACATTTC
*
1004544 CAATACCAAACA
1 CAATATCAAACA
1004556 CAATATCAAACA
1 CAATATCAAACA
*
1004568 CAATCTCAAA
1 CAATATCAAA
1004578 ACCCACAACC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.56, C:0.29, G:0.00, T:0.15
Consensus pattern (12 bp):
CAATATCAAACA
Found at i:1007050 original size:18 final size:18
Alignment explanation
Indices: 1007027--1007062 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
1007017 AAGCAAAAGG
1007027 AAATCAAAATCGCAATCA
1 AAATCAAAATCGCAATCA
*
1007045 AAATCAAAATCTCAATCA
1 AAATCAAAATCGCAATCA
1007063 CAACTGGCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.56, C:0.22, G:0.03, T:0.19
Consensus pattern (18 bp):
AAATCAAAATCGCAATCA
Found at i:1008880 original size:21 final size:21
Alignment explanation
Indices: 1008841--1008955 Score: 69
Period size: 21 Copynumber: 5.7 Consensus size: 21
1008831 GTGAATCGGG
* *
1008841 ATCTTGAACGGTGGGAGGGAT
1 ATCTTGAACGATGAGAGGGAT
* **
1008862 ATCTTGAACGATGATAGGGGC
1 ATCTTGAACGATGAGAGGGAT
* *
1008883 CTCTTGAACGGTG-GAGGG--
1 ATCTTGAACGATGAGAGGGAT
**
1008901 -TCTTGAACGATGAGAGGGGC
1 ATCTTGAACGATGAGAGGGAT
* **
1008921 CTCTTGAACGAT-AGAAGGGGC
1 ATCTTGAACGATGAG-AGGGAT
*
1008942 CTCTTGAACGATGA
1 ATCTTGAACGATGA
1008956 CAGGTGAATC
Statistics
Matches: 79, Mismatches: 9, Indels: 11
0.80 0.09 0.11
Matches are distributed among these distances:
17 11 0.14
18 5 0.06
20 6 0.08
21 56 0.71
22 1 0.01
ACGTcount: A:0.25, C:0.16, G:0.37, T:0.23
Consensus pattern (21 bp):
ATCTTGAACGATGAGAGGGAT
Found at i:1008913 original size:38 final size:40
Alignment explanation
Indices: 1008842--1008930 Score: 137
Period size: 38 Copynumber: 2.2 Consensus size: 40
1008832 TGAATCGGGA
*
1008842 TCTTGAACGGTGGGAGGGATATCTTGAACGATGATAGGGGCC
1 TCTTGAACGGTGGGAGGG--ATCTTGAACGATGAGAGGGGCC
1008884 TCTTGAACGGT-GGAGGG-TCTTGAACGATGAGAGGGGCC
1 TCTTGAACGGTGGGAGGGATCTTGAACGATGAGAGGGGCC
1008922 TCTTGAACG
1 TCTTGAACG
1008931 ATAGAAGGGG
Statistics
Matches: 46, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
38 29 0.63
41 6 0.13
42 11 0.24
ACGTcount: A:0.22, C:0.16, G:0.38, T:0.24
Consensus pattern (40 bp):
TCTTGAACGGTGGGAGGGATCTTGAACGATGAGAGGGGCC
Found at i:1009386 original size:21 final size:21
Alignment explanation
Indices: 1009362--1009411 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
1009352 ACCATTATCG
*
1009362 TCACGTAAAGTACCGACCTCA
1 TCACGTAAAGCACCGACCTCA
* **
1009383 TCACGCAAAGCATTGACCTCA
1 TCACGTAAAGCACCGACCTCA
1009404 TCACGTAA
1 TCACGTAA
1009412 CTCGCCTAAC
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.34, C:0.32, G:0.14, T:0.20
Consensus pattern (21 bp):
TCACGTAAAGCACCGACCTCA
Found at i:1009568 original size:42 final size:42
Alignment explanation
Indices: 1009521--1009616 Score: 129
Period size: 42 Copynumber: 2.3 Consensus size: 42
1009511 TGATGGAATA
* * * * * *
1009521 TGATGGCTCTCGTTGTGGAGGTGTATAATCGGTTCGATCAGG
1 TGATGGCTCTCGGTGTCGAGCTGTAGAATCAGCTCGATCAGG
*
1009563 TGATGGCTCTGGGTGTCGAGCTGTAGAATCAGCTCGATCAGG
1 TGATGGCTCTCGGTGTCGAGCTGTAGAATCAGCTCGATCAGG
1009605 TGATGGCTCTCG
1 TGATGGCTCTCG
1009617 AAGTGGGGGT
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.17, C:0.18, G:0.35, T:0.30
Consensus pattern (42 bp):
TGATGGCTCTCGGTGTCGAGCTGTAGAATCAGCTCGATCAGG
Found at i:1010973 original size:20 final size:20
Alignment explanation
Indices: 1010950--1010998 Score: 80
Period size: 20 Copynumber: 2.5 Consensus size: 20
1010940 TTAAATTCGA
1010950 AACGCGAAAATGAAAATCAC
1 AACGCGAAAATGAAAATCAC
* *
1010970 AACGCAAAAATGAAAATCGC
1 AACGCGAAAATGAAAATCAC
1010990 AACGCGAAA
1 AACGCGAAA
1010999 CTAAAATCGC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.55, C:0.20, G:0.16, T:0.08
Consensus pattern (20 bp):
AACGCGAAAATGAAAATCAC
Found at i:1011665 original size:21 final size:21
Alignment explanation
Indices: 1011614--1011662 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
1011604 ACATATTCGC
*
1011614 GTTGCGAATTTGGAAAATCGT
1 GTTGCGAATTTGGAAAATCAT
*
1011635 GTTGCGAATTTGGAAACT-AT
1 GTTGCGAATTTGGAAAATCAT
1011655 GTTGCGAA
1 GTTGCGAA
1011663 ATTAGAGTTC
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
20 9 0.35
21 17 0.65
ACGTcount: A:0.29, C:0.10, G:0.29, T:0.33
Consensus pattern (21 bp):
GTTGCGAATTTGGAAAATCAT
Found at i:1015771 original size:16 final size:16
Alignment explanation
Indices: 1015750--1015786 Score: 74
Period size: 16 Copynumber: 2.3 Consensus size: 16
1015740 GTAACTTCTC
1015750 TTATGGGAATTATAAA
1 TTATGGGAATTATAAA
1015766 TTATGGGAATTATAAA
1 TTATGGGAATTATAAA
1015782 TTATG
1 TTATG
1015787 TGAAATTCAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.41, C:0.00, G:0.19, T:0.41
Consensus pattern (16 bp):
TTATGGGAATTATAAA
Found at i:1017639 original size:12 final size:12
Alignment explanation
Indices: 1017622--1017660 Score: 55
Period size: 11 Copynumber: 3.4 Consensus size: 12
1017612 GCACAATATT
1017622 TAATATTATTTA
1 TAATATTATTTA
1017634 TAATA-TATTTA
1 TAATATTATTTA
*
1017645 T-ATATGATTTA
1 TAATATTATTTA
1017656 TAATA
1 TAATA
1017661 AAAATTAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
10 3 0.12
11 13 0.54
12 8 0.33
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.54
Consensus pattern (12 bp):
TAATATTATTTA
Found at i:1017654 original size:22 final size:21
Alignment explanation
Indices: 1017617--1017660 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 21
1017607 CTGGAGCACA
*
1017617 ATATTTAATATTATTTATAAT
1 ATATTTAATATGATTTATAAT
1017638 ATATTTATATATGATTTATAAT
1 ATATTTA-ATATGATTTATAAT
1017660 A
1 A
1017661 AAAATTAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 7 0.33
22 14 0.67
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (21 bp):
ATATTTAATATGATTTATAAT
Found at i:1019449 original size:31 final size:30
Alignment explanation
Indices: 1019375--1019474 Score: 98
Period size: 30 Copynumber: 3.4 Consensus size: 30
1019365 TAAATATTGA
* * *
1019375 ATACTTT-AGTATCTATTTTAATAAAAAAA
1 ATACTTTAAATATTTATTTTAATAAAAAAT
* * *
1019404 ATATTTTGAGTATTTATTTTAATAAAAAAT
1 ATACTTTAAATATTTATTTTAATAAAAAAT
* *
1019434 ATAACTTTAAATATTTACTTTAATTAAAAA-
1 AT-ACTTTAAATATTTATTTTAATAAAAAAT
1019464 ATA-TTTAAATA
1 ATACTTTAAATA
1019475 CTTAAATAAA
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
28 8 0.13
29 7 0.11
30 24 0.39
31 22 0.36
ACGTcount: A:0.48, C:0.04, G:0.03, T:0.45
Consensus pattern (30 bp):
ATACTTTAAATATTTATTTTAATAAAAAAT
Found at i:1020825 original size:31 final size:31
Alignment explanation
Indices: 1020787--1020942 Score: 217
Period size: 31 Copynumber: 5.0 Consensus size: 31
1020777 CCCGAAGGAC
* *
1020787 CAGTCCATA-GATTCCGAAGAACCTAGGTAAT
1 CAGTCCATATG-TTCCGAAGAACATAGGTAAA
* *
1020818 CAGTCCATATGTCCCGAAGGACATAGGTAAA
1 CAGTCCATATGTTCCGAAGAACATAGGTAAA
* *
1020849 CAGTCCGTATGTTCCGAAGAACATAGGTAAT
1 CAGTCCATATGTTCCGAAGAACATAGGTAAA
*
1020880 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTTCCGAAGAACATAGGTAAA
1020911 CAGTCCATATG-TCCAGAAGAACATAGGTAAA
1 CAGTCCATATGTTCC-GAAGAACATAGGTAAA
1020942 C
1 C
1020943 CCTCGACCCT
Statistics
Matches: 111, Mismatches: 12, Indels: 4
0.87 0.09 0.03
Matches are distributed among these distances:
30 2 0.02
31 108 0.97
32 1 0.01
ACGTcount: A:0.37, C:0.22, G:0.21, T:0.21
Consensus pattern (31 bp):
CAGTCCATATGTTCCGAAGAACATAGGTAAA
Found at i:1020884 original size:62 final size:62
Alignment explanation
Indices: 1020787--1020940 Score: 249
Period size: 62 Copynumber: 2.5 Consensus size: 62
1020777 CCCGAAGGAC
* *
1020787 CAGTCCATA-GATTCCGAAGAACCTAGGTAATCAGTCCATATGTCCCGAAGGACATAGGTAAA
1 CAGTCCATATG-TTCCGAAGAACATAGGTAATCAGTCCATATGTCCCGAAGAACATAGGTAAA
*
1020849 CAGTCCGTATGTTCCGAAGAACATAGGTAATCAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTTCCGAAGAACATAGGTAATCAGTCCATATGTCCCGAAGAACATAGGTAAA
1020911 CAGTCCATATG-TCCAGAAGAACATAGGTAA
1 CAGTCCATATGTTCC-GAAGAACATAGGTAA
1020941 ACCCTCGACC
Statistics
Matches: 86, Mismatches: 4, Indels: 4
0.91 0.04 0.04
Matches are distributed among these distances:
61 3 0.03
62 82 0.95
63 1 0.01
ACGTcount: A:0.36, C:0.21, G:0.21, T:0.21
Consensus pattern (62 bp):
CAGTCCATATGTTCCGAAGAACATAGGTAATCAGTCCATATGTCCCGAAGAACATAGGTAAA
Found at i:1021146 original size:23 final size:24
Alignment explanation
Indices: 1021120--1021166 Score: 78
Period size: 23 Copynumber: 2.0 Consensus size: 24
1021110 ATATACTTGT
*
1021120 TTTCACATATATA-TTTCATATCA
1 TTTCACATATACACTTTCATATCA
1021143 TTTCACATATACACTTTCATATCA
1 TTTCACATATACACTTTCATATCA
1021167 CATGCCATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 12 0.55
24 10 0.45
ACGTcount: A:0.34, C:0.21, G:0.00, T:0.45
Consensus pattern (24 bp):
TTTCACATATACACTTTCATATCA
Found at i:1024964 original size:31 final size:31
Alignment explanation
Indices: 1024926--1025081 Score: 176
Period size: 31 Copynumber: 5.0 Consensus size: 31
1024916 CCCGAAGGAC
* *
1024926 CAGTCCATAGATTCCGAAGAACCTAGGTAAT
1 CAGTCCATAGATTCCGAAGAACATAGGTAAA
* * *
1024957 CAGTCCATATATCCCGAAGGACATAGGTAAA
1 CAGTCCATAGATTCCGAAGAACATAGGTAAA
* *
1024988 CAGTCCGTATG-TTCCGAAGAACATAGGTAAT
1 CAGTCCATA-GATTCCGAAGAACATAGGTAAA
*
1025019 CAGTCCATATG-TCCCGAAGAACATAGGTAAA
1 CAGTCCATA-GATTCCGAAGAACATAGGTAAA
1025050 CAGTCCAT--ATGTCCAGAAGAACATAGGTAAA
1 CAGTCCATAGAT-TCC-GAAGAACATAGGTAAA
1025081 C
1 C
1025082 CCTCGACCCT
Statistics
Matches: 107, Mismatches: 14, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
29 1 0.01
30 2 0.02
31 104 0.97
ACGTcount: A:0.37, C:0.22, G:0.20, T:0.21
Consensus pattern (31 bp):
CAGTCCATAGATTCCGAAGAACATAGGTAAA
Found at i:1025023 original size:62 final size:62
Alignment explanation
Indices: 1024926--1025079 Score: 240
Period size: 62 Copynumber: 2.5 Consensus size: 62
1024916 CCCGAAGGAC
* *
1024926 CAGTCCATA-GATTCCGAAGAACCTAGGTAATCAGTCCATATATCCCGAAGGACATAGGTAAA
1 CAGTCCATATG-TTCCGAAGAACATAGGTAATCAGTCCATATATCCCGAAGAACATAGGTAAA
* *
1024988 CAGTCCGTATGTTCCGAAGAACATAGGTAATCAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTTCCGAAGAACATAGGTAATCAGTCCATATATCCCGAAGAACATAGGTAAA
1025050 CAGTCCATATG-TCCAGAAGAACATAGGTAA
1 CAGTCCATATGTTCC-GAAGAACATAGGTAA
1025080 ACCCTCGACC
Statistics
Matches: 85, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
61 3 0.04
62 81 0.95
63 1 0.01
ACGTcount: A:0.37, C:0.21, G:0.20, T:0.21
Consensus pattern (62 bp):
CAGTCCATATGTTCCGAAGAACATAGGTAATCAGTCCATATATCCCGAAGAACATAGGTAAA
Found at i:1025285 original size:23 final size:24
Alignment explanation
Indices: 1025259--1025305 Score: 78
Period size: 23 Copynumber: 2.0 Consensus size: 24
1025249 ATATACTTGT
*
1025259 TTTCACATATATA-TTTCATATCA
1 TTTCACATATACACTTTCATATCA
1025282 TTTCACATATACACTTTCATATCA
1 TTTCACATATACACTTTCATATCA
1025306 CATGCCATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 12 0.55
24 10 0.45
ACGTcount: A:0.34, C:0.21, G:0.00, T:0.45
Consensus pattern (24 bp):
TTTCACATATACACTTTCATATCA
Found at i:1025936 original size:21 final size:21
Alignment explanation
Indices: 1025906--1025950 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
1025896 ATTCTGTCGT
* *
1025906 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
1025927 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
1025948 TTG
1 TTG
1025951 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:1029110 original size:31 final size:31
Alignment explanation
Indices: 1029072--1029227 Score: 208
Period size: 31 Copynumber: 5.0 Consensus size: 31
1029062 CCCGAAGGAC
* *
1029072 CAGTCCATA-GATTCCGAAGAACCTAGGTAAT
1 CAGTCCATATG-TTCCGAAGAACATAGGTAAA
* * *
1029103 CAGTCCATATGTCCCGTAGGACATAGGTAAA
1 CAGTCCATATGTTCCGAAGAACATAGGTAAA
* *
1029134 CAGTCCGTATGTTCCGAAGAACATAGGTAAT
1 CAGTCCATATGTTCCGAAGAACATAGGTAAA
*
1029165 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTTCCGAAGAACATAGGTAAA
1029196 CAGTCCATATG-TCCAGAAGAACATAGGTAAA
1 CAGTCCATATGTTCC-GAAGAACATAGGTAAA
1029227 C
1 C
1029228 CCTCGACCCT
Statistics
Matches: 109, Mismatches: 14, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
30 2 0.02
31 106 0.97
32 1 0.01
ACGTcount: A:0.36, C:0.22, G:0.21, T:0.22
Consensus pattern (31 bp):
CAGTCCATATGTTCCGAAGAACATAGGTAAA
Found at i:1029169 original size:62 final size:62
Alignment explanation
Indices: 1029072--1029225 Score: 240
Period size: 62 Copynumber: 2.5 Consensus size: 62
1029062 CCCGAAGGAC
* * *
1029072 CAGTCCATA-GATTCCGAAGAACCTAGGTAATCAGTCCATATGTCCCGTAGGACATAGGTAAA
1 CAGTCCATATG-TTCCGAAGAACATAGGTAATCAGTCCATATGTCCCGAAGAACATAGGTAAA
*
1029134 CAGTCCGTATGTTCCGAAGAACATAGGTAATCAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTTCCGAAGAACATAGGTAATCAGTCCATATGTCCCGAAGAACATAGGTAAA
1029196 CAGTCCATATG-TCCAGAAGAACATAGGTAA
1 CAGTCCATATGTTCC-GAAGAACATAGGTAA
1029226 ACCCTCGACC
Statistics
Matches: 85, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
61 3 0.04
62 81 0.95
63 1 0.01
ACGTcount: A:0.36, C:0.21, G:0.21, T:0.22
Consensus pattern (62 bp):
CAGTCCATATGTTCCGAAGAACATAGGTAATCAGTCCATATGTCCCGAAGAACATAGGTAAA
Found at i:1029450 original size:24 final size:22
Alignment explanation
Indices: 1029405--1029450 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
1029395 ATATACTTGT
*
1029405 TTTCACATATATATTCATATCA
1 TTTCACATATACATTCATATCA
1029427 TTTCACATATACACTTTCATATCA
1 TTTCACATATACA--TTCATATCA
1029451 CATGCCATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 12 0.57
24 9 0.43
ACGTcount: A:0.35, C:0.22, G:0.00, T:0.43
Consensus pattern (22 bp):
TTTCACATATACATTCATATCA
Found at i:1030081 original size:21 final size:21
Alignment explanation
Indices: 1030051--1030095 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
1030041 ATTCTGTCGT
* *
1030051 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
1030072 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
1030093 TTG
1 TTG
1030096 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:1030831 original size:14 final size:14
Alignment explanation
Indices: 1030792--1030841 Score: 57
Period size: 14 Copynumber: 3.6 Consensus size: 14
1030782 TTATGTTAAA
*
1030792 TATAAGTAATATTT
1 TATAATTAATATTT
*
1030806 TAT-GTTATATATTT
1 TATAATTA-ATATTT
1030820 TATAATTAATATTT
1 TATAATTAATATTT
*
1030834 TTTAATTA
1 TATAATTA
1030842 TACATATAAG
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
13 2 0.07
14 25 0.83
15 3 0.10
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (14 bp):
TATAATTAATATTT
Found at i:1040680 original size:37 final size:37
Alignment explanation
Indices: 1040610--1040680 Score: 92
Period size: 37 Copynumber: 1.9 Consensus size: 37
1040600 ATTTAAACAT
* *
1040610 ATAAAATTAAAATATAAATAAATAATGAGTAAAATAA
1 ATAAAATTAAAATATAAATAAAAAATGAATAAAATAA
1040647 ATAAAATTAAAACTA-AATATAAAAAAT-AATAAAA
1 ATAAAATTAAAA-TATAA-ATAAAAAATGAATAAAA
1040681 ACTTACAATT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
37 20 0.67
38 10 0.33
ACGTcount: A:0.70, C:0.01, G:0.03, T:0.25
Consensus pattern (37 bp):
ATAAAATTAAAATATAAATAAAAAATGAATAAAATAA
Found at i:1041988 original size:3 final size:3
Alignment explanation
Indices: 1041974--1042046 Score: 80
Period size: 3 Copynumber: 25.0 Consensus size: 3
1041964 GTTGTATATG
* * *
1041974 TAA TAA -AA TAA TAA TAT TAA TAA TAA AAA TAA TAA TAA TAG TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
1042021 AAA TAA -AA TAA TAA -ATA TAA TAA TAA
1 TAA TAA TAA TAA TAA TA-A TAA TAA TAA
1042047 AAAACCAAAT
Statistics
Matches: 58, Mismatches: 8, Indels: 8
0.78 0.11 0.11
Matches are distributed among these distances:
2 5 0.09
3 52 0.90
4 1 0.02
ACGTcount: A:0.68, C:0.00, G:0.01, T:0.30
Consensus pattern (3 bp):
TAA
Found at i:1042573 original size:113 final size:113
Alignment explanation
Indices: 1042390--1043363 Score: 1691
Period size: 113 Copynumber: 8.6 Consensus size: 113
1042380 AGAATCATGC
*
1042390 AAAAGATTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAAATGAGTTCTTCTCAT
1 AAAAG-TTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
* * * * * * *
1042455 TATGAACTC-TCTCTGGAAAAGTTGATCCATCGAGTGATGAATTCGAGCA
65 TATGAACTCGAC-CTGGTAATGCTGATCCATCGAATGATGAATTCAAGCG
* *
1042504 AAAAGTTGAACAAGTTCTTCTCATTATAAACTTCTTCTTCTTTCTTCAGATGAGTTCTTCTCATT
1 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
* * *
1042569 ATGAACTCGCCCTGGCAATGCTGATCCATCGAATGATAAATTCAAGCG
66 ATGAACTCGACCTGGTAATGCTGATCCATCGAATGATGAATTCAAGCG
* *
1042617 AAAAGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAAATGAGTTCTTCTCATT
1 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
** * *
1042682 ATGAACTCGAAATGGTAATGCTGATCCATCGAATGATGAATTTAAGTG
66 ATGAACTCGACCTGGTAATGCTGATCCATCGAATGATGAATTCAAGCG
1042730 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1042795 ATGAACTCGACCTGGTAATGCTGATCCATCGAATGATGAATTCAAGCG
66 ATGAACTCGACCTGGTAATGCTGATCCATCGAATGATGAATTCAAGCG
*
1042843 AAAAGTTGAACAAGTTTTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
* *
1042908 ATGATCTCGACCTGGTAATGCTGATCCATCGAATGATGAATTCAAGTG
66 ATGAACTCGACCTGGTAATGCTGATCCATCGAATGATGAATTCAAGCG
*
1042956 AAAAATTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1043021 ATGAACTCGACCTGGTAATGCTGATCCATCGAATGATGAATTCAAGCG
66 ATGAACTCGACCTGGTAATGCTGATCCATCGAATGATGAATTCAAGCG
1043069 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1043134 ATGAACTCGACCTGGTAATGCTGATCCATCGAATGATGAATTCAAGCG
66 ATGAACTCGACCTGGTAATGCTGATCCATCGAATGATGAATTCAAGCG
1043182 AAAAGTTGAACAAGTTCTTCTCATTATGAAC-TCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
*
1043246 ATGAACTCGACCTGGTAATGCTGATCCATTGAATGATGAATTCAAGCG
66 ATGAACTCGACCTGGTAATGCTGATCCATCGAATGATGAATTCAAGCG
*
1043294 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTTAGATGAGTTCTTCTCATT
1 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1043359 ATGAA
66 ATGAA
1043364 TTTTTCCAGA
Statistics
Matches: 820, Mismatches: 38, Indels: 5
0.95 0.04 0.01
Matches are distributed among these distances:
112 111 0.14
113 703 0.86
114 6 0.01
ACGTcount: A:0.28, C:0.20, G:0.15, T:0.37
Consensus pattern (113 bp):
AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
ATGAACTCGACCTGGTAATGCTGATCCATCGAATGATGAATTCAAGCG
Found at i:1043829 original size:22 final size:22
Alignment explanation
Indices: 1043804--1043856 Score: 79
Period size: 22 Copynumber: 2.4 Consensus size: 22
1043794 ATAAAGCTTT
*
1043804 ATCTTTGAAAAGAGAATCTGTC
1 ATCTTTGAAAAGAGAATCTATC
* *
1043826 ATCTTTAAAAAGGGAATCTATC
1 ATCTTTGAAAAGAGAATCTATC
1043848 ATCTTTGAA
1 ATCTTTGAA
1043857 GAGTGTAGAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.38, C:0.13, G:0.15, T:0.34
Consensus pattern (22 bp):
ATCTTTGAAAAGAGAATCTATC
Found at i:1044313 original size:54 final size:54
Alignment explanation
Indices: 1044228--1044335 Score: 171
Period size: 54 Copynumber: 2.0 Consensus size: 54
1044218 TAGCAGGTTT
* *
1044228 GTAAAACATTTGACAGCGCATTCATCCTTTCCTGTGGCTTCTGCTCAGATGTTC
1 GTAAAACATTTGACAACACATTCATCCTTTCCTGTGGCTTCTGCTCAGATGTTC
* * *
1044282 GTAAAATATTTGACAACACATTCATCTTTTCCTGTGGTTTCTGCTCAGATGTTC
1 GTAAAACATTTGACAACACATTCATCCTTTCCTGTGGCTTCTGCTCAGATGTTC
1044336 TCAATCATTG
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
54 49 1.00
ACGTcount: A:0.22, C:0.23, G:0.17, T:0.38
Consensus pattern (54 bp):
GTAAAACATTTGACAACACATTCATCCTTTCCTGTGGCTTCTGCTCAGATGTTC
Found at i:1046556 original size:114 final size:114
Alignment explanation
Indices: 1046356--1046579 Score: 376
Period size: 114 Copynumber: 2.0 Consensus size: 114
1046346 GATCATGCAG
* * * *
1046356 TTCATCTTTCAATTCCAATGATTGGTTCTGGGGTTCCTATCGAACCAGATCAGATAACTCAAAGA
1 TTCATCTTTCAAATCCAATGATTGGTTCTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGA
* *
1046421 ACACTTTCAGAAGATGCTATTGTGTCTCCTTATTTCTACTACGAGCAAA
66 ACACTTCCAGAAGATGCTATTGGGTCTCCTTATTTCTACTACGAGCAAA
* *
1046470 TTCATCTTTCAAATCCAATGATTGGTTTTGGGGTTCATACCAAATCAGATCAGATAACTCAAAGA
1 TTCATCTTTCAAATCCAATGATTGGTTCTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGA
1046535 ACACTTCCAGAAGATGCTATTGGGTCTCCTTATTTCTACTACGAG
66 ACACTTCCAGAAGATGCTATTGGGTCTCCTTATTTCTACTACGAG
1046580 AACGTGGCAC
Statistics
Matches: 102, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
114 102 1.00
ACGTcount: A:0.29, C:0.21, G:0.16, T:0.33
Consensus pattern (114 bp):
TTCATCTTTCAAATCCAATGATTGGTTCTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGA
ACACTTCCAGAAGATGCTATTGGGTCTCCTTATTTCTACTACGAGCAAA
Found at i:1048215 original size:32 final size:32
Alignment explanation
Indices: 1048177--1048241 Score: 112
Period size: 32 Copynumber: 2.0 Consensus size: 32
1048167 GAAGAAATGA
* *
1048177 TTGTTATGGTCATCTTGTAGAGATACTTCTTG
1 TTGTTATGCTCATCTGGTAGAGATACTTCTTG
1048209 TTGTTATGCTCATCTGGTAGAGATACTTCTTG
1 TTGTTATGCTCATCTGGTAGAGATACTTCTTG
1048241 T
1 T
1048242 GTCTGACTCT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.18, C:0.14, G:0.22, T:0.46
Consensus pattern (32 bp):
TTGTTATGCTCATCTGGTAGAGATACTTCTTG
Found at i:1048865 original size:8 final size:8
Alignment explanation
Indices: 1048854--1048910 Score: 73
Period size: 8 Copynumber: 7.2 Consensus size: 8
1048844 ATTTTCCTTT
1048854 TTTTTTCC
1 TTTTTTCC
*
1048862 TTTTTGT-T
1 TTTTT-TCC
1048870 TTTTTTCC
1 TTTTTTCC
1048878 TTTTTT-C
1 TTTTTTCC
*
1048885 TTTTTTTC
1 TTTTTTCC
1048893 TTTTTTCC
1 TTTTTTCC
1048901 TTTTTTCC
1 TTTTTTCC
1048909 TT
1 TT
1048911 CTTCTTTCTT
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
7 8 0.19
8 34 0.79
9 1 0.02
ACGTcount: A:0.00, C:0.18, G:0.02, T:0.81
Consensus pattern (8 bp):
TTTTTTCC
Found at i:1048873 original size:15 final size:15
Alignment explanation
Indices: 1048853--1048917 Score: 76
Period size: 15 Copynumber: 4.2 Consensus size: 15
1048843 AATTTTCCTT
*
1048853 TTTTTTTCCTTTTTGT
1 TTTTTTTCCTTTTT-C
1048869 TTTTTTTCCTTTTTTC
1 TTTTTTTCC-TTTTTC
*
1048885 TTTTTTTCTTTTTTC
1 TTTTTTTCCTTTTTC
* *
1048900 CTTTTTTCCTTCTTC
1 TTTTTTTCCTTTTTC
1048915 TTT
1 TTT
1048918 CTTTGCTGGA
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
15 20 0.48
16 17 0.40
17 5 0.12
ACGTcount: A:0.00, C:0.18, G:0.02, T:0.80
Consensus pattern (15 bp):
TTTTTTTCCTTTTTC
Found at i:1048873 original size:16 final size:16
Alignment explanation
Indices: 1048853--1048910 Score: 84
Period size: 16 Copynumber: 3.7 Consensus size: 16
1048843 AATTTTCCTT
1048853 TTTTTTTCCTTTTTGT-
1 TTTTTTTCCTTTTT-TC
1048869 TTTTTTTCCTTTTTTC
1 TTTTTTTCCTTTTTTC
1048885 TTTTTTT-CTTTTTTC
1 TTTTTTTCCTTTTTTC
*
1048900 CTTTTTTCCTT
1 TTTTTTTCCTT
1048911 CTTCTTTCTT
Statistics
Matches: 39, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
15 15 0.38
16 24 0.62
ACGTcount: A:0.00, C:0.17, G:0.02, T:0.81
Consensus pattern (16 bp):
TTTTTTTCCTTTTTTC
Found at i:1048881 original size:23 final size:24
Alignment explanation
Indices: 1048854--1048921 Score: 95
Period size: 23 Copynumber: 2.8 Consensus size: 24
1048844 ATTTTCCTTT
1048854 TTTTTTCCTTTTTGTT-TTTTTTCC
1 TTTTTTCCTTTTT-TTCTTTTTTCC
1048878 TTTTTT-CTTTTTTTCTTTTTTCC
1 TTTTTTCCTTTTTTTCTTTTTTCC
1048901 TTTTTTCCTTCTTCTTTCTTT
1 TTTTTTCCTT-TT-TTTCTTT
1048922 GCTGGATGAG
Statistics
Matches: 40, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
22 2 0.05
23 20 0.50
24 9 0.22
25 2 0.05
26 7 0.17
ACGTcount: A:0.00, C:0.19, G:0.01, T:0.79
Consensus pattern (24 bp):
TTTTTTCCTTTTTTTCTTTTTTCC
Found at i:1054235 original size:17 final size:20
Alignment explanation
Indices: 1054201--1054240 Score: 50
Period size: 18 Copynumber: 2.1 Consensus size: 20
1054191 AAAATAAAAT
1054201 AAATATATAAATACTATA-A
1 AAATATATAAATACTATATA
*
1054220 AAATA-ATAAGTA-TATATA
1 AAATATATAAATACTATATA
1054238 AAA
1 AAA
1054241 AATTTGAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
17 4 0.21
18 10 0.53
19 5 0.26
ACGTcount: A:0.65, C:0.03, G:0.03, T:0.30
Consensus pattern (20 bp):
AAATATATAAATACTATATA
Found at i:1055132 original size:45 final size:47
Alignment explanation
Indices: 1055031--1055132 Score: 113
Period size: 48 Copynumber: 2.2 Consensus size: 47
1055021 CTAAGATAAC
* *
1055031 AATAATAAATAATTATGAAATAATAATTTAAACATATAAAATTAAAA
1 AATAATAAATAATGATGAAATAATAAATTAAACATATAAAATTAAAA
* *
1055078 TATAAATAAATAATGA-GTAAATAATAAAATTAAAC-TA-AATA-TAAAA
1 AAT-AATAAATAATGATG-AAATAAT-AAATTAAACATATAAAATTAAAA
1055124 AATAATAAA
1 AATAATAAA
1055133 AACTTACAAT
Statistics
Matches: 47, Mismatches: 5, Indels: 8
0.78 0.08 0.13
Matches are distributed among these distances:
45 6 0.13
46 7 0.15
47 6 0.13
48 20 0.43
49 8 0.17
ACGTcount: A:0.66, C:0.02, G:0.03, T:0.29
Consensus pattern (47 bp):
AATAATAAATAATGATGAAATAATAAATTAAACATATAAAATTAAAA
Found at i:1056525 original size:3 final size:3
Alignment explanation
Indices: 1056511--1056620 Score: 143
Period size: 3 Copynumber: 37.0 Consensus size: 3
1056501 GTTGTATATG
* *
1056511 TAA TAA -AA TAA TAA TAT TAA TAA TAA TAA TAA TAA TAA TAT TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * *
1056558 TAA TAA TAA TAA TAA TAA TAA TAG TAA TAA AAA TAA AAA TAA AAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1056606 TAA -ATA TAA TAA TAA
1 TAA TA-A TAA TAA TAA
1056621 AACCAAATGT
Statistics
Matches: 92, Mismatches: 12, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
2 3 0.03
3 88 0.96
4 1 0.01
ACGTcount: A:0.67, C:0.00, G:0.01, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:1058080 original size:21 final size:21
Alignment explanation
Indices: 1058056--1058097 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
1058046 AGTTTATTTT
1058056 TAAACTTTATTTCAATTATCG
1 TAAACTTTATTTCAATTATCG
*
1058077 TAAACTTTGTTTCAATTATCG
1 TAAACTTTATTTCAATTATCG
1058098 AACTTGGAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.31, C:0.14, G:0.07, T:0.48
Consensus pattern (21 bp):
TAAACTTTATTTCAATTATCG
Found at i:1058134 original size:33 final size:33
Alignment explanation
Indices: 1058092--1058191 Score: 164
Period size: 33 Copynumber: 3.0 Consensus size: 33
1058082 TTTGTTTCAA
1058092 TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
1 TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
*
1058125 TTATCGAACTTGAAAGTTTTTAAGTATTTGAAT
1 TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
* * *
1058158 TTATCAAACTTGGAAGTATTTAAGTATTTCAAT
1 TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
1058191 T
1 T
1058192 ATCATAAACT
Statistics
Matches: 62, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 62 1.00
ACGTcount: A:0.33, C:0.07, G:0.15, T:0.45
Consensus pattern (33 bp):
TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
Found at i:1058257 original size:15 final size:15
Alignment explanation
Indices: 1058237--1058267 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1058227 TTTAATAATA
1058237 TTATAATCGATTTTT
1 TTATAATCGATTTTT
*
1058252 TTATAATCGGTTTTT
1 TTATAATCGATTTTT
1058267 T
1 T
1058268 AAAAAAACCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.23, C:0.06, G:0.10, T:0.61
Consensus pattern (15 bp):
TTATAATCGATTTTT
Found at i:1062807 original size:16 final size:16
Alignment explanation
Indices: 1062786--1062834 Score: 59
Period size: 16 Copynumber: 3.2 Consensus size: 16
1062776 AAATATGCTT
1062786 CCCTAATATTAATCTC
1 CCCTAATATTAATCTC
* *
1062802 CCCTAATA-T--GCTT
1 CCCTAATATTAATCTC
1062815 CCCTAATATTAATCTC
1 CCCTAATATTAATCTC
1062831 CCCT
1 CCCT
1062835 TATGTTGTAT
Statistics
Matches: 26, Mismatches: 4, Indels: 6
0.72 0.11 0.17
Matches are distributed among these distances:
13 10 0.38
14 1 0.04
15 1 0.04
16 14 0.54
ACGTcount: A:0.27, C:0.35, G:0.02, T:0.37
Consensus pattern (16 bp):
CCCTAATATTAATCTC
Found at i:1062819 original size:29 final size:29
Alignment explanation
Indices: 1062777--1062834 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
1062767 TGATGTAGAA
1062777 AATATGCTTCCCTAATATTAATCTCCCCT
1 AATATGCTTCCCTAATATTAATCTCCCCT
1062806 AATATGCTTCCCTAATATTAATCTCCCCT
1 AATATGCTTCCCTAATATTAATCTCCCCT
1062835 TATGTTGTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.28, C:0.31, G:0.03, T:0.38
Consensus pattern (29 bp):
AATATGCTTCCCTAATATTAATCTCCCCT
Found at i:1065361 original size:27 final size:28
Alignment explanation
Indices: 1065323--1065379 Score: 107
Period size: 27 Copynumber: 2.1 Consensus size: 28
1065313 CCCTCAGAAA
1065323 TCCTAACCATTGTTTACA-TTTCCCAAT
1 TCCTAACCATTGTTTACATTTTCCCAAT
1065350 TCCTAACCATTGTTTACATTTTCCCAAT
1 TCCTAACCATTGTTTACATTTTCCCAAT
1065378 TC
1 TC
1065380 TCTCTTTCTT
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
27 18 0.62
28 11 0.38
ACGTcount: A:0.25, C:0.30, G:0.04, T:0.42
Consensus pattern (28 bp):
TCCTAACCATTGTTTACATTTTCCCAAT
Found at i:1065721 original size:39 final size:39
Alignment explanation
Indices: 1065667--1065745 Score: 158
Period size: 39 Copynumber: 2.0 Consensus size: 39
1065657 GAAAAAGTTG
1065667 ATGATTCTCCAATGTGTTTCTTCAAAAGACTCACATGAA
1 ATGATTCTCCAATGTGTTTCTTCAAAAGACTCACATGAA
1065706 ATGATTCTCCAATGTGTTTCTTCAAAAGACTCACATGAA
1 ATGATTCTCCAATGTGTTTCTTCAAAAGACTCACATGAA
1065745 A
1 A
1065746 AACCGGATGT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.34, C:0.20, G:0.13, T:0.33
Consensus pattern (39 bp):
ATGATTCTCCAATGTGTTTCTTCAAAAGACTCACATGAA
Found at i:1072353 original size:40 final size:39
Alignment explanation
Indices: 1072307--1072384 Score: 138
Period size: 39 Copynumber: 2.0 Consensus size: 39
1072297 CCAGCACCCA
*
1072307 ACGTCCCCAGCACCCAATACCCCAACACAGGTCGCCATGC
1 ACGTCCCCAGCACCCAACA-CCCAACACAGGTCGCCATGC
1072347 ACGTCCCCAGCACCCAACACCCAACACAGGTCGCCATG
1 ACGTCCCCAGCACCCAACACCCAACACAGGTCGCCATG
1072385 TAGTCCCAGC
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
39 19 0.51
40 18 0.49
ACGTcount: A:0.28, C:0.47, G:0.15, T:0.09
Consensus pattern (39 bp):
ACGTCCCCAGCACCCAACACCCAACACAGGTCGCCATGC
Found at i:1072381 original size:39 final size:40
Alignment explanation
Indices: 1072274--1072384 Score: 145
Period size: 45 Copynumber: 2.7 Consensus size: 40
1072264 CATGAATGTC
1072274 CCCAACACCCCAACACAGGTCGCCCA-GCACCCAACGTCCCCAGCA
1 CCCAACACCCCAACACAGGTCG-CCATG----C-ACGTCCCCAGCA
*
1072319 CCCAATACCCCAACACAGGTCGCCATGCACGTCCCCAGCA
1 CCCAACACCCCAACACAGGTCGCCATGCACGTCCCCAGCA
1072359 CCCAACA-CCCAACACAGGTCGCCATG
1 CCCAACACCCCAACACAGGTCGCCATG
1072385 TAGTCCCAGC
Statistics
Matches: 63, Mismatches: 2, Indels: 8
0.86 0.03 0.11
Matches are distributed among these distances:
39 19 0.30
40 18 0.29
41 1 0.02
44 3 0.05
45 22 0.35
ACGTcount: A:0.29, C:0.50, G:0.14, T:0.07
Consensus pattern (40 bp):
CCCAACACCCCAACACAGGTCGCCATGCACGTCCCCAGCA
Found at i:1072420 original size:29 final size:29
Alignment explanation
Indices: 1072374--1072485 Score: 143
Period size: 29 Copynumber: 3.9 Consensus size: 29
1072364 CACCCAACAC
* *
1072374 AGGTCGCCATGTAGTCCCAGCGACCTACA
1 AGGTCGCCATGCACTCCCAGCGACCTACA
*
1072403 AGGTCTCCATGCACTCCCAGCGACCTACA
1 AGGTCGCCATGCACTCCCAGCGACCTACA
***
1072432 AGGTCGCCATGCACTCCCAGCGACCTTGT
1 AGGTCGCCATGCACTCCCAGCGACCTACA
* * *
1072461 AGGTCGCCAAGCAATCCCGGCGACC
1 AGGTCGCCATGCACTCCCAGCGACC
1072486 AAGCCTCGAC
Statistics
Matches: 73, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 73 1.00
ACGTcount: A:0.22, C:0.38, G:0.23, T:0.16
Consensus pattern (29 bp):
AGGTCGCCATGCACTCCCAGCGACCTACA
Found at i:1072568 original size:45 final size:45
Alignment explanation
Indices: 1072504--1072593 Score: 171
Period size: 45 Copynumber: 2.0 Consensus size: 45
1072494 ACCTGCTGGC
1072504 GACCAAACTTAACCCTGCTCCCTCGTGCATGGGTTGCATCCATAG
1 GACCAAACTTAACCCTGCTCCCTCGTGCATGGGTTGCATCCATAG
*
1072549 GACCAAACTTACCCCTGCTCCCTCGTGCATGGGTTGCATCCATAG
1 GACCAAACTTAACCCTGCTCCCTCGTGCATGGGTTGCATCCATAG
1072594 CTGGGAGATT
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.21, C:0.34, G:0.20, T:0.24
Consensus pattern (45 bp):
GACCAAACTTAACCCTGCTCCCTCGTGCATGGGTTGCATCCATAG
Found at i:1072613 original size:23 final size:23
Alignment explanation
Indices: 1072583--1072626 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
1072573 GTGCATGGGT
1072583 TGCATCCATAGCTGGGAGATTCC
1 TGCATCCATAGCTGGGAGATTCC
1072606 TGCATCCATAGCTGGGAGATT
1 TGCATCCATAGCTGGGAGATT
1072627 GTAGCCAAGC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.23, C:0.23, G:0.27, T:0.27
Consensus pattern (23 bp):
TGCATCCATAGCTGGGAGATTCC
Found at i:1073694 original size:15 final size:14
Alignment explanation
Indices: 1073674--1073742 Score: 61
Period size: 15 Copynumber: 4.9 Consensus size: 14
1073664 TAATCATGAC
1073674 TAAATCATATATTAT
1 TAAATCAT-TATTAT
*
1073689 TAAATCATTAAATAT
1 TAAATCATT-ATTAT
* *
1073704 CAAATCATTA-GAT
1 TAAATCATTATTAT
* *
1073717 T-AATAATAATTAT
1 TAAATCATTATTAT
1073730 TAAATCATTATTA
1 TAAATCATTATTA
1073743 GTAATATTAG
Statistics
Matches: 42, Mismatches: 9, Indels: 7
0.72 0.16 0.12
Matches are distributed among these distances:
12 6 0.14
13 5 0.12
14 11 0.26
15 20 0.48
ACGTcount: A:0.49, C:0.07, G:0.01, T:0.42
Consensus pattern (14 bp):
TAAATCATTATTAT
Found at i:1076613 original size:60 final size:60
Alignment explanation
Indices: 1076540--1077329 Score: 480
Period size: 60 Copynumber: 13.0 Consensus size: 60
1076530 TTTATAAGAT
* *
1076540 TTAGTAATGATGAAATTATTATTAATATTTAATGATTTGATAGTAATGATTTAGTAATGA
1 TTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATATTAATGATTTAGTAATGA
1076600 TTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATATTAATGATTTAGTAATGA
1 TTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATATTAATGATTTAGTAATGA
* *
1076660 TTAGTTATAATGAAATTATTATTAAT-TTT--T-A-ATG--ATT--TGA--TAGTAATGA
1 TTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATATTAATGATTTAGTAATGA
*
1076709 TTAGTAATAAT-AATTTATTATTAATATTTAATGATTTGATATTAATGATTTAGTAATGA
1 TTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATATTAATGATTTAGTAATGA
* * * ** * ** * * *
1076768 TTTGATAGTAATG-ATTTACGACTTGAACAATGAACAATG-TTTGGTTCAATTAATCATATTTTC
1 TTAG-TAATAATGAAATTATTA-TT-AA-TAT--TTAATGATTT-GAT--ATTAAT--GA-TTTA
* *
1076831 GTTA-CA
54 GTAATGA
* * ** * * * * *
1076837 TAACTAGCAATGAAATTA-TAATAATGATTAGTAAT-A-ATGAAATT-ATTATTAATATTTAATG
1 TTAGTAATAATGAAATTATTATTAAT-ATT--TAATGATTTGATATTAATGATT--TA-GTAATG
1076898 A
60 A
* * * * * * * * *
1076899 TTTGATATTAATG-ATTTAGTAATGATTAGTA-ATAATGAAATTGTTATTAAT-ATTTAATGATT
1 TTAG-TAATAATGAAATTA-T--T-ATTAATATTTAATG-ATTTGATATTAATGATTTAGT-A-A
1076961 TGA
58 TGA
* * * * ** * *
1076964 -TAGTAATGATTTAGTAATGATTAGTAATAATGAAATTGTTATTAATATTTAATGATTTGATAGT
1 TTAGTAAT-A-AT-GAAATTATTATTAAT-ATTTAA-TGAT-TTGATA-TTAATGA-TT--TAGT
1077028 AATGA
56 AATGA
*
1077033 TTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATGATTTAG
1 -TTAG----------TAATAATGAAATTATTATTAATATTTAATGATTTGATATTAATGATTTAG
1077098 TAATGA
55 TAATGA
1077104 TTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATATTAATGATTTAGTAATGA
1 TTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATATTAATGATTTAGTAATGA
*
1077164 TTAGTAATAATGAAATTATTATTAATTTTTAATGATTTG--A-TAAT-A---A-T-A--A
1 TTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATATTAATGATTTAGTAATGA
1077213 TTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATATTAATGATTTAGTAATGA
1 TTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATATTAATGATTTAGTAATGA
* *
1077273 TTAGTAATAATGAAATTGTTATTAATATTTAATGATTTGATAGTAATGA-TTAGTAAT
1 TTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATATTAATGATTTAGTAAT
1077330 AATGAAATTA
Statistics
Matches: 570, Mismatches: 79, Indels: 163
0.70 0.10 0.20
Matches are distributed among these distances:
48 13 0.02
49 61 0.11
51 6 0.01
52 6 0.01
53 7 0.01
55 5 0.01
56 3 0.01
57 9 0.02
58 4 0.01
59 25 0.04
60 237 0.42
61 6 0.01
62 11 0.02
63 20 0.04
64 12 0.02
65 14 0.02
66 25 0.04
67 21 0.04
68 9 0.02
69 12 0.02
70 11 0.02
71 15 0.03
73 2 0.00
74 6 0.01
75 5 0.01
76 3 0.01
77 4 0.01
78 12 0.02
79 1 0.00
80 1 0.00
81 4 0.01
ACGTcount: A:0.41, C:0.01, G:0.13, T:0.45
Consensus pattern (60 bp):
TTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATATTAATGATTTAGTAATGA
Found at i:1076725 original size:73 final size:72
Alignment explanation
Indices: 1076629--1076783 Score: 156
Period size: 73 Copynumber: 2.1 Consensus size: 72
1076619 TATTAATATT
* * * *
1076629 TAATGATTTGATATTAATGATTTAGTAATGATTAGTTATAATGAAATT-ATTATTAAT-TTT-TA
1 TAATGATTAGATAATAATAATTTA-TAATGAATA-TT-TAATG-AATTGA-TATTAATATTTATA
1076691 ATGATTTGATAG
61 ATGATTTGATAG
* * *
1076703 TAATGATTAG-TAATAATAATTTATTATTAATATTTAATGATTTGATATTAATGATTTAGTAATG
1 TAATGATTAGATAATAATAATTTATAATGAATATTTAATGAATTGATATTAAT-ATTTA-TAATG
1076767 ATTTGATAG
64 ATTTGATAG
1076776 TAATGATT
1 TAATGATT
1076784 TACGACTTGA
Statistics
Matches: 69, Mismatches: 7, Indels: 11
0.79 0.08 0.13
Matches are distributed among these distances:
69 10 0.14
70 6 0.09
71 5 0.07
72 6 0.09
73 33 0.48
74 9 0.13
ACGTcount: A:0.39, C:0.00, G:0.13, T:0.48
Consensus pattern (72 bp):
TAATGATTAGATAATAATAATTTATAATGAATATTTAATGAATTGATATTAATATTTATAATGAT
TTGATAG
Found at i:1076740 original size:21 final size:22
Alignment explanation
Indices: 1076716--1076785 Score: 63
Period size: 25 Copynumber: 3.1 Consensus size: 22
1076706 TGATTAGTAA
1076716 TAATAATTT-ATTATTAAT-ATT
1 TAATAATTTGA-TATTAATGATT
*
1076737 TAATGATTTGATATTAATGATTT
1 TAATAATTTGATATTAATGA-TT
* *
1076760 AGTAATGATTTGATAGTAATGATT
1 --TAATAATTTGATATTAATGATT
1076784 TA
1 TA
1076786 CGACTTGAAC
Statistics
Matches: 42, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
21 15 0.36
22 4 0.10
23 2 0.05
24 2 0.05
25 19 0.45
ACGTcount: A:0.39, C:0.00, G:0.11, T:0.50
Consensus pattern (22 bp):
TAATAATTTGATATTAATGATT
Found at i:1076753 original size:14 final size:14
Alignment explanation
Indices: 1076737--1076784 Score: 66
Period size: 14 Copynumber: 3.6 Consensus size: 14
1076727 TATTAATATT
*
1076737 TAATGATTTGATAT
1 TAATGATTTGATAG
1076751 TAATGA-TT--TAG
1 TAATGATTTGATAG
1076762 TAATGATTTGATAG
1 TAATGATTTGATAG
1076776 TAATGATTT
1 TAATGATTT
1076785 ACGACTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
11 8 0.27
12 2 0.07
13 2 0.07
14 18 0.60
ACGTcount: A:0.35, C:0.00, G:0.17, T:0.48
Consensus pattern (14 bp):
TAATGATTTGATAG
Found at i:1077012 original size:120 final size:120
Alignment explanation
Indices: 1076540--1077429 Score: 817
Period size: 120 Copynumber: 7.4 Consensus size: 120
1076530 TTTATAAGAT
*
1076540 TTAGTAATGATGAAATTATTATTAATATTTAATGATTTGATAGTAATGATTTAGTAATGATTAGT
1 TTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATGATTTAGTAATGATTAGT
1076605 AATAATGAAATTATTATTAATATTTAATGATTTGATATTAATGATTTAGTAATGA
66 AATAATGAAATTATTATTAATATTTAATGATTTGATATTAATGATTTAGTAATGA
* *
1076660 TTAGTTATAATGAAATTATTATTAATTTTTAATGATTTGATAGTAATGA-TTAG---T-A--A-T
1 TTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATGATTTAGTAATGATTAGT
1076717 AATAAT----TTATTATTAATATTTAATGATTTGATATTAATGATTTAGTAATGA
66 AATAATGAAATTATTATTAATATTTAATGATTTGATATTAATGATTTAGTAATGA
* * * ** * ** * * * *
1076768 TTTGATAGTAATG-ATTTACGACTTGAACAATGAACAATG-TTTGGTTCAATTAATCATATTTTC
1 TTAG-TAATAATGAAATTATTA-TT-AA-TAT--TTAATGATTT-GAT--AGTAAT--GA-TTTA
* * * * * ** * *
1076831 GTTACATAACTAGCAATGAAATTATAATAATGATTAGTAATAATGAAATTATTATTAATATTTAA
54 G-TA-ATGATTAGTAAT--AATGA-AAT--T-ATTATTAAT-ATTTAATGA-T-TTGATA-TTAA
*
1076896 TGATTTGATATTAATGA
107 TGA-TT--TAGTAATGA
*
1076913 TTTAGTAATGATTAGTAATAATGAAATTGTTATTAATATTTAATGATTTGATAGTAATGATTTAG
1 -TTAGTAA----------TAATGAAATTATTATTAATATTTAATGATTTGATAGTAATGATTTAG
* *
1076978 TAATGATTAGTAATAATGAAATTGTTATTAATATTTAATGATTTGATAGTAATGATTTAGTAATG
55 TAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATATTAATGATTTAGTAATG
1077043 A
120 A
1077044 TTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATGATTTAGTAATGATTAGT
1 TTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATGATTTAGTAATGATTAGT
1077109 AATAATGAAATTATTATTAATATTTAATGATTTGATATTAATGATTTAGTAATGA
66 AATAATGAAATTATTATTAATATTTAATGATTTGATATTAATGATTTAGTAATGA
*
1077164 TTAGTAATAATGAAATTATTATTAATTTTTAATGATTTG--A-TAAT-A---A-T-A--ATTAGT
1 TTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATGATTTAGTAATGATTAGT
1077218 AATAATGAAATTATTATTAATATTTAATGATTTGATATTAATGATTTAGTAATGA
66 AATAATGAAATTATTATTAATATTTAATGATTTGATATTAATGATTTAGTAATGA
* * *
1077273 TTAGTAATAATGAAATTGTTATTAATATTTAATGATTTGATAGTAATGA-TTAGTAAT-AAT-GA
1 TTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATGATTTAGTAATGATTAGT
* * * * * *
1077335 AATTAT--TATTAATATT--TA-ATGAT--TTG-ATATTAATGATTTAGTAATGA
66 AATAATGAAATTATTATTAATATTTAATGATTTGATATTAATGATTTAGTAATGA
* *
1077382 TTAGTAATAATAAAATTATTATTAATTTTTAATGATTTGATTAGTAAT
1 TTAGTAATAATGAAATTATTATTAATATTTAATGATTTGA-TAGTAAT
1077430 AATAATTTAT
Statistics
Matches: 642, Mismatches: 66, Indels: 134
0.76 0.08 0.16
Matches are distributed among these distances:
108 53 0.08
109 164 0.26
110 11 0.02
111 3 0.00
112 18 0.03
113 11 0.02
115 15 0.02
116 3 0.00
117 12 0.02
118 3 0.00
119 7 0.01
120 194 0.30
124 1 0.00
125 1 0.00
127 1 0.00
128 3 0.00
130 10 0.02
131 8 0.01
133 2 0.00
134 6 0.01
135 6 0.01
136 1 0.00
137 7 0.01
138 15 0.02
139 7 0.01
140 1 0.00
141 8 0.01
142 11 0.02
143 2 0.00
144 9 0.01
145 12 0.02
146 7 0.01
147 1 0.00
149 5 0.01
151 6 0.01
152 3 0.00
153 2 0.00
154 2 0.00
155 7 0.01
156 4 0.01
ACGTcount: A:0.41, C:0.01, G:0.12, T:0.46
Consensus pattern (120 bp):
TTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATGATTTAGTAATGATTAGT
AATAATGAAATTATTATTAATATTTAATGATTTGATATTAATGATTTAGTAATGA
Found at i:1077256 original size:21 final size:19
Alignment explanation
Indices: 1077232--1077350 Score: 53
Period size: 21 Copynumber: 5.9 Consensus size: 19
1077222 ATGAAATTAT
1077232 TATTAATATTTAATGATTTGA
1 TATTAATATTTAAT-A-TTGA
* *
1077253 TATTAATGATTTAGTAATGA
1 TATTAAT-ATTTAATATTGA
* * * *
1077273 TTAGTAATAATGAA-ATTGT
1 -TATTAATATTTAATATTGA
1077292 TATTAATATTTAATGATTTGA
1 TATTAATATTTAAT-A-TTGA
* *
1077313 TAGTAATGATTAGTAATAATGA
1 TATTAAT-ATT--TAATATTGA
* *
1077335 AATTATTA-TTAATATT
1 TATTAATATTTAATATT
1077351 TAATGATTTG
Statistics
Matches: 72, Mismatches: 18, Indels: 19
0.66 0.17 0.17
Matches are distributed among these distances:
18 16 0.22
19 3 0.04
20 8 0.11
21 24 0.33
22 16 0.22
23 1 0.01
24 4 0.06
ACGTcount: A:0.41, C:0.00, G:0.12, T:0.47
Consensus pattern (19 bp):
TATTAATATTTAATATTGA
Found at i:1077338 original size:218 final size:206
Alignment explanation
Indices: 1077095--1077480 Score: 646
Period size: 218 Copynumber: 1.8 Consensus size: 206
1077085 AGTAATGATT
1077095 TAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATATTAATGATTTAGTA
1 TAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATATTAATGATTTAGTA
*
1077160 ATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATAATAATAATTAGTAATAATG
66 ATGATTAGTAATAATAAAATTATTATTAATTTTTAATGATTTG---------ATTAGTAATAAT-
1077225 AAATTATTATTAATATTTAATGATTTGATATTAATGATTTAGTAATGATTAGTAATAATGAAATT
121 AAATTATTATTAATATTTAATGATTTG--ATTAATGATTTAGTAATGATTAGTAATAATGAAATT
1077290 GTTATTAATATTTAATGATTTGA
184 GTTATTAATATTTAATGATTTGA
1077313 TAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATATTAATGATTTAGTA
1 TAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATATTAATGATTTAGTA
*
1077378 ATGATTAGTAATAATAAAATTATTATTAATTTTTAATGATTTGATTAGTAATAATAATTTATTAT
66 ATGATTAGTAATAATAAAATTATTATTAATTTTTAATGATTTGATTAGTAATAATAAATTATTAT
1077443 TAATATTTAATGATTTGATTAATGATTTAGTAATGATT
131 TAATATTTAATGATTTGATTAATGATTTAGTAATGATT
1077481 TGATAGTAAT
Statistics
Matches: 166, Mismatches: 2, Indels: 12
0.92 0.01 0.07
Matches are distributed among these distances:
206 21 0.13
208 26 0.16
209 12 0.07
218 107 0.64
ACGTcount: A:0.42, C:0.00, G:0.11, T:0.47
Consensus pattern (206 bp):
TAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATATTAATGATTTAGTA
ATGATTAGTAATAATAAAATTATTATTAATTTTTAATGATTTGATTAGTAATAATAAATTATTAT
TAATATTTAATGATTTGATTAATGATTTAGTAATGATTAGTAATAATGAAATTGTTATTAATATT
TAATGATTTGA
Found at i:1077440 original size:39 final size:40
Alignment explanation
Indices: 1077379--1077463 Score: 145
Period size: 39 Copynumber: 2.1 Consensus size: 40
1077369 GATTTAGTAA
*
1077379 TGATTAGTAATAATAAAATTATTATTAATTTTTAATGATT
1 TGATTAGTAATAATAAAATTATTATTAATATTTAATGATT
*
1077419 TGATTAGTAATAAT-AATTTATTATTAATATTTAATGATT
1 TGATTAGTAATAATAAAATTATTATTAATATTTAATGATT
1077458 TGATTA
1 TGATTA
1077464 ATGATTTAGT
Statistics
Matches: 43, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
39 29 0.67
40 14 0.33
ACGTcount: A:0.41, C:0.00, G:0.08, T:0.51
Consensus pattern (40 bp):
TGATTAGTAATAATAAAATTATTATTAATATTTAATGATT
Found at i:1077477 original size:23 final size:24
Alignment explanation
Indices: 1077450--1077496 Score: 78
Period size: 23 Copynumber: 2.0 Consensus size: 24
1077440 TATTAATATT
1077450 TAATGATTTGAT-TAATGATTTAG
1 TAATGATTTGATATAATGATTTAG
1077473 TAATGATTTGATAGTAATGATTTA
1 TAATGATTTGATA-TAATGATTTA
1077497 CGACTTGAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
23 12 0.55
25 10 0.45
ACGTcount: A:0.36, C:0.00, G:0.17, T:0.47
Consensus pattern (24 bp):
TAATGATTTGATATAATGATTTAG
Found at i:1077489 original size:14 final size:14
Alignment explanation
Indices: 1077450--1077495 Score: 57
Period size: 14 Copynumber: 3.6 Consensus size: 14
1077440 TATTAATATT
1077450 TAATGATTTGAT--
1 TAATGATTTGATAG
1077462 TAATGA-TT--TAG
1 TAATGATTTGATAG
1077473 TAATGATTTGATAG
1 TAATGATTTGATAG
1077487 TAATGATTT
1 TAATGATTT
1077496 ACGACTTGAA
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
9 1 0.03
11 8 0.28
12 8 0.28
14 12 0.41
ACGTcount: A:0.35, C:0.00, G:0.17, T:0.48
Consensus pattern (14 bp):
TAATGATTTGATAG
Found at i:1079722 original size:15 final size:15
Alignment explanation
Indices: 1079696--1079734 Score: 62
Period size: 15 Copynumber: 2.7 Consensus size: 15
1079686 TTTACAACAC
1079696 TAACTT-TAATATAA
1 TAACTTATAATATAA
1079710 TAACTTATAATATAA
1 TAACTTATAATATAA
*
1079725 TAACTAATAA
1 TAACTTATAA
1079735 ACTAACAAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
14 6 0.26
15 17 0.74
ACGTcount: A:0.54, C:0.08, G:0.00, T:0.38
Consensus pattern (15 bp):
TAACTTATAATATAA
Found at i:1079980 original size:44 final size:39
Alignment explanation
Indices: 1079929--1080045 Score: 110
Period size: 39 Copynumber: 2.8 Consensus size: 39
1079919 TTTAACTACC
1079929 ACAAACTAATTAAATAATTTTTTTATATAACTAACGATTAACAA
1 ACAAACTAATTAAATAATTTTTTTATAT-A-TAAC---TAACAA
* * *
1079973 ACAAACTAATT-AATTATTTTTTAACTATATAACTATCAA
1 ACAAACTAATTAAATAATTTTTTTA-TATATAACTAACAA
* *
1080012 ACATACTAATTAAATAATGTTTATTTATGTATAA
1 ACAAACTAATTAAATAAT-TTT-TTTATATATAA
1080046 TATAACTTAA
Statistics
Matches: 62, Mismatches: 7, Indels: 11
0.77 0.09 0.14
Matches are distributed among these distances:
39 15 0.24
40 5 0.08
41 9 0.15
42 7 0.11
43 12 0.19
44 14 0.23
ACGTcount: A:0.47, C:0.10, G:0.03, T:0.40
Consensus pattern (39 bp):
ACAAACTAATTAAATAATTTTTTTATATATAACTAACAA
Found at i:1086291 original size:21 final size:21
Alignment explanation
Indices: 1086265--1086327 Score: 63
Period size: 21 Copynumber: 2.9 Consensus size: 21
1086255 TTTTGGTGCA
*
1086265 GAGGGAATCGATCCCCCCCCT
1 GAGGGAACCGATCCCCCCCCT
* **
1086286 GAGGGAACCGATTCCCCCTTT
1 GAGGGAACCGATCCCCCCCCT
*
1086307 GAAGGGGAACCGATTCCCCCC
1 G-A-GGGAACCGATCCCCCCC
1086328 ACAGGGGAAT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
21 18 0.51
22 1 0.03
23 16 0.46
ACGTcount: A:0.21, C:0.38, G:0.25, T:0.16
Consensus pattern (21 bp):
GAGGGAACCGATCCCCCCCCT
Found at i:1086335 original size:21 final size:21
Alignment explanation
Indices: 1086309--1086348 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
1086299 CCCCCTTTGA
*
1086309 AGGGGAACCGATTCCCCCCAC
1 AGGGGAACCGATACCCCCCAC
*
1086330 AGGGGAATCGATACCCCCC
1 AGGGGAACCGATACCCCCC
1086349 TGGGGTTCTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.25, C:0.40, G:0.25, T:0.10
Consensus pattern (21 bp):
AGGGGAACCGATACCCCCCAC
Found at i:1089828 original size:13 final size:13
Alignment explanation
Indices: 1089805--1089837 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
1089795 CTCACAAGAG
1089805 CCTTATCTCCCTTT
1 CCTT-TCTCCCTTT
1089819 CCTTTCTCCCTTT
1 CCTTTCTCCCTTT
1089832 -CTTTCT
1 CCTTTCT
1089838 TTCTCGGTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 6 0.32
13 9 0.47
14 4 0.21
ACGTcount: A:0.03, C:0.42, G:0.00, T:0.55
Consensus pattern (13 bp):
CCTTTCTCCCTTT
Found at i:1089986 original size:33 final size:33
Alignment explanation
Indices: 1089939--1090005 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
1089929 ATAATTTAGG
1089939 TGTCACCGGCTGCCTCAATTATTTCACCAATAA
1 TGTCACCGGCTGCCTCAATTATTTCACCAATAA
*
1089972 TGTCACCGGTTGCCTCAATTATTTCACCAATAA
1 TGTCACCGGCTGCCTCAATTATTTCACCAATAA
1090005 T
1 T
1090006 TGTGCAATTG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.27, C:0.28, G:0.12, T:0.33
Consensus pattern (33 bp):
TGTCACCGGCTGCCTCAATTATTTCACCAATAA
Found at i:1090157 original size:18 final size:19
Alignment explanation
Indices: 1090125--1090163 Score: 71
Period size: 18 Copynumber: 2.1 Consensus size: 19
1090115 AGGCATGCAG
1090125 CGGGAGCAGGAGGGGAGCA
1 CGGGAGCAGGAGGGGAGCA
1090144 CGGGAGCA-GAGGGGAGCA
1 CGGGAGCAGGAGGGGAGCA
1090162 CG
1 CG
1090164 TGAAGCTTGG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 12 0.60
19 8 0.40
ACGTcount: A:0.26, C:0.18, G:0.56, T:0.00
Consensus pattern (19 bp):
CGGGAGCAGGAGGGGAGCA
Found at i:1090255 original size:29 final size:29
Alignment explanation
Indices: 1090179--1090260 Score: 110
Period size: 29 Copynumber: 2.8 Consensus size: 29
1090169 CTTGGCCGTC
* * *
1090179 GGGACTGCTTGGCGACCTACAAGGTCGCT
1 GGGAGTGCTTGGCGACCTTCTAGGTCGCT
* *
1090208 GGGAGTGCATGGCGACCTTTTAGGTCGCT
1 GGGAGTGCTTGGCGACCTTCTAGGTCGCT
*
1090237 GGGAGTGCTTGGCGACCTTGTAGG
1 GGGAGTGCTTGGCGACCTTCTAGG
1090261 GGTGTTGGGG
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 46 1.00
ACGTcount: A:0.15, C:0.22, G:0.39, T:0.24
Consensus pattern (29 bp):
GGGAGTGCTTGGCGACCTTCTAGGTCGCT
Found at i:1090692 original size:32 final size:29
Alignment explanation
Indices: 1090652--1090714 Score: 81
Period size: 30 Copynumber: 2.1 Consensus size: 29
1090642 AAATTCTAAC
1090652 TTGATCTACATATTTCAGATAAAATATTAAT
1 TTGATCTACA-ATTT-AGATAAAATATTAAT
* *
1090683 TTGACTCTACACTTTAGATAAAGTATTAAT
1 TTGA-TCTACAATTTAGATAAAATATTAAT
1090713 TT
1 TT
1090715 AACTTTTGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
30 16 0.55
31 7 0.24
32 6 0.21
ACGTcount: A:0.38, C:0.11, G:0.08, T:0.43
Consensus pattern (29 bp):
TTGATCTACAATTTAGATAAAATATTAAT
Found at i:1093951 original size:22 final size:24
Alignment explanation
Indices: 1093895--1093951 Score: 57
Period size: 23 Copynumber: 2.5 Consensus size: 24
1093885 ATAAACAAAC
*
1093895 GTTAAAAAATATATTTATGAACAT
1 GTTAAATAATATATTTATGAACAT
* *
1093919 -TAAAATGAATATATTTGT-AA-AT
1 GTTAAAT-AATATATTTATGAACAT
1093941 GTTAAATAATA
1 GTTAAATAATA
1093952 CGTTGTTGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 6
0.73 0.11 0.16
Matches are distributed among these distances:
22 6 0.22
23 11 0.41
24 10 0.37
ACGTcount: A:0.51, C:0.02, G:0.09, T:0.39
Consensus pattern (24 bp):
GTTAAATAATATATTTATGAACAT
Found at i:1098930 original size:34 final size:36
Alignment explanation
Indices: 1098887--1098958 Score: 121
Period size: 37 Copynumber: 2.0 Consensus size: 36
1098877 AGTCTCTTGC
1098887 TTTTTCTTTTC-TTTTCA-CACTATTTATGATCACA
1 TTTTTCTTTTCTTTTTCAGCACTATTTATGATCACA
1098921 TTTTTCTTTTCTTTTTCATGCACTATTTATGATCACA
1 TTTTTCTTTTCTTTTTCA-GCACTATTTATGATCACA
1098958 T
1 T
1098959 AATTACAAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
34 11 0.31
35 6 0.17
37 18 0.51
ACGTcount: A:0.19, C:0.19, G:0.04, T:0.57
Consensus pattern (36 bp):
TTTTTCTTTTCTTTTTCAGCACTATTTATGATCACA
Found at i:1099273 original size:21 final size:22
Alignment explanation
Indices: 1099247--1099298 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
1099237 TTTTAAATTT
*
1099247 TATATAAAATTAAAAAATA-AA
1 TATATAAAATTAAAAAAGACAA
* *
1099268 TATATATATATTTAAAAAGACAA
1 TATATA-AAATTAAAAAAGACAA
1099291 TATATAAA
1 TATATAAA
1099299 TTTTAAAATA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
21 6 0.24
22 11 0.44
23 8 0.32
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (22 bp):
TATATAAAATTAAAAAAGACAA
Found at i:1099301 original size:21 final size:21
Alignment explanation
Indices: 1099247--1099306 Score: 59
Period size: 23 Copynumber: 2.8 Consensus size: 21
1099237 TTTTAAATTT
*
1099247 TATATAAAATTAAAAAATAAA
1 TATATAAATTTAAAAAATAAA
*
1099268 TATATATATATTTAAAAAGA-CAA
1 TATATA-A-ATTTAAAAA-ATAAA
*
1099291 TATATAAATTTTAAAA
1 TATATAAATTTAAAAA
1099307 TAACCCAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
21 14 0.42
22 2 0.06
23 16 0.48
24 1 0.03
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.35
Consensus pattern (21 bp):
TATATAAATTTAAAAAATAAA
Found at i:1113368 original size:26 final size:26
Alignment explanation
Indices: 1113328--1113397 Score: 95
Period size: 26 Copynumber: 2.7 Consensus size: 26
1113318 CACCGAAGGA
** *
1113328 CGGTGGCTCGCCGACGACATCACCAC
1 CGGTGGCTCATCGACAACATCACCAC
1113354 CGGTGGCTCATCGACAACATCACCAC
1 CGGTGGCTCATCGACAACATCACCAC
* *
1113380 CTGTGGCTCATTGACAAC
1 CGGTGGCTCATCGACAAC
1113398 CTCATCGGCG
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 39 1.00
ACGTcount: A:0.23, C:0.37, G:0.23, T:0.17
Consensus pattern (26 bp):
CGGTGGCTCATCGACAACATCACCAC
Found at i:1115091 original size:21 final size:21
Alignment explanation
Indices: 1115067--1115127 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
1115057 AACTTTGAAA
1115067 AAATGGTTTTCAAAGTTTGGT
1 AAATGGTTTTCAAAGTTTGGT
*
1115088 AAAT-G-TTTC----TTT-GA
1 AAATGGTTTTCAAAGTTTGGT
*
1115102 AAATGATTTTCAAAGTTTGGT
1 AAATGGTTTTCAAAGTTTGGT
1115123 AAATG
1 AAATG
1115128 TTTCTTTGAA
Statistics
Matches: 30, Mismatches: 3, Indels: 14
0.64 0.06 0.30
Matches are distributed among these distances:
14 5 0.17
15 3 0.10
16 4 0.13
19 4 0.13
20 4 0.13
21 10 0.33
ACGTcount: A:0.33, C:0.05, G:0.20, T:0.43
Consensus pattern (21 bp):
AAATGGTTTTCAAAGTTTGGT
Found at i:1115104 original size:37 final size:37
Alignment explanation
Indices: 1115059--1115180 Score: 155
Period size: 35 Copynumber: 3.4 Consensus size: 37
1115049 TCGTAACCAA
*
1115059 CTTTGAAAAAATGGTTTTCAAAGTTTGGTAAATGTTT
1 CTTTGAAAAAATGATTTTCAAAGTTTGGTAAATGTTT
1115096 CTTTG--AAAATGATTTTCAAAGTTTGGTAAATGTTT
1 CTTTGAAAAAATGATTTTCAAAGTTTGGTAAATGTTT
* * *
1115131 CTTTGAAAAATAT-TTTTTCAAAGTTTGATAGATGTTT
1 CTTTGAAAAA-ATGATTTTCAAAGTTTGGTAAATGTTT
*
1115168 -GTTG-AAAAATGAT
1 CTTTGAAAAAATGAT
1115181 AATGGAATAA
Statistics
Matches: 75, Mismatches: 6, Indels: 10
0.82 0.07 0.11
Matches are distributed among these distances:
34 2 0.03
35 39 0.52
36 3 0.04
37 29 0.39
38 2 0.03
ACGTcount: A:0.34, C:0.05, G:0.17, T:0.44
Consensus pattern (37 bp):
CTTTGAAAAAATGATTTTCAAAGTTTGGTAAATGTTT
Found at i:1119657 original size:35 final size:35
Alignment explanation
Indices: 1119599--1119705 Score: 139
Period size: 35 Copynumber: 3.1 Consensus size: 35
1119589 CAACTTTGAA
1119599 AAAATGGTTTTC-AAGTTTGGTAAATGTTTCTTTG
1 AAAATGGTTTTCAAAGTTTGGTAAATGTTTCTTTG
1119633 AAAATGGTTTTCAAAGTTTGGTAAATGTTTCTTT-
1 AAAATGGTTTTCAAAGTTTGGTAAATGTTTCTTTG
* * * * *
1119667 TAAATAGTTTTTCAAAGTTTGATAGATGTTT-GTTG
1 AAAAT-GGTTTTCAAAGTTTGGTAAATGTTTCTTTG
1119702 AAAA
1 AAAA
1119706 ATGATAATGG
Statistics
Matches: 64, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
34 18 0.28
35 46 0.72
ACGTcount: A:0.31, C:0.05, G:0.19, T:0.46
Consensus pattern (35 bp):
AAAATGGTTTTCAAAGTTTGGTAAATGTTTCTTTG
Done.