Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01003132.1 Hibiscus syriacus cultivar Beakdansim tig00006570_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: 1555756
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 7
Found at i:987467 original size:23 final size:23
Alignment explanation
Indices: 987441--987537 Score: 79
Period size: 23 Copynumber: 4.2 Consensus size: 23
987431 TTTTCGTTTG
987441 TTTAGCTTTCGCGAACATGTTCA
1 TTTAGCTTTCGCGAACATGTTCA
* * * *
987464 TTTAGCATTCACCAACATGTTTA
1 TTTAGCTTTCGCGAACATGTTCA
* ** *
987487 TTTAACGCTCGCGAACATATTCA
1 TTTAGCTTTCGCGAACATGTTCA
**
987510 TTTATATGTT-GCGAACATGTTCAA
1 TTTAGCT-TTCGCGAACATGTTC-A
987534 TTTA
1 TTTA
987538 CGTTCGTTTA
Statistics
Matches: 56, Mismatches: 16, Indels: 3
0.75 0.21 0.04
Matches are distributed among these distances:
23 50 0.89
24 6 0.11
ACGTcount: A:0.28, C:0.20, G:0.13, T:0.39
Consensus pattern (23 bp):
TTTAGCTTTCGCGAACATGTTCA
Found at i:987548 original size:34 final size:35
Alignment explanation
Indices: 987510--987577 Score: 95
Period size: 34 Copynumber: 2.0 Consensus size: 35
987500 AACATATTCA
*
987510 TTTATATGTT-GCGAACATGTTCAATTTA-CGTTCG
1 TTTATATGTTCGCGAACATATTC-ATTTAGCGTTCG
*
987544 TTTATATGTTCGTGAACATATTCATTTAGCGTTC
1 TTTATATGTTCGCGAACATATTCATTTAGCGTTC
987578 ATGAATATAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
34 15 0.50
35 15 0.50
ACGTcount: A:0.24, C:0.15, G:0.16, T:0.46
Consensus pattern (35 bp):
TTTATATGTTCGCGAACATATTCATTTAGCGTTCG
Found at i:989284 original size:12 final size:12
Alignment explanation
Indices: 989258--989291 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
989248 CCTAAACATC
*
989258 TAACC-TAACCC
1 TAACCATAACCA
989269 TAACCATAACCA
1 TAACCATAACCA
989281 TAACCATAACC
1 TAACCATAACC
989292 CTTCTTATCA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
11 5 0.24
12 16 0.76
ACGTcount: A:0.44, C:0.38, G:0.00, T:0.18
Consensus pattern (12 bp):
TAACCATAACCA
Found at i:989284 original size:18 final size:17
Alignment explanation
Indices: 989258--989291 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
989248 CCTAAACATC
*
989258 TAACCTAACCCTAACCA
1 TAACCTAACCATAACCA
989275 TAACCATAACCATAACC
1 TAACC-TAACCATAACC
989292 CTTCTTATCA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.44, C:0.38, G:0.00, T:0.18
Consensus pattern (17 bp):
TAACCTAACCATAACCA
Found at i:989670 original size:2 final size:2
Alignment explanation
Indices: 989665--989689 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
989655 TCCAATTTGA
989665 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 A
989690 CGAAAAATAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:999793 original size:29 final size:29
Alignment explanation
Indices: 999760--999815 Score: 94
Period size: 29 Copynumber: 1.9 Consensus size: 29
999750 TCCCAACACA
*
999760 TAGGTCGCCATGCCCTCCGGGCGACCTTG
1 TAGGTCGCCATGCACTCCGGGCGACCTTG
*
999789 TAGGTCGCCATGCACTCTGGGCGACCT
1 TAGGTCGCCATGCACTCCGGGCGACCT
999816 ACCCTTGCTC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.12, C:0.36, G:0.30, T:0.21
Consensus pattern (29 bp):
TAGGTCGCCATGCACTCCGGGCGACCTTG
Found at i:999874 original size:14 final size:14
Alignment explanation
Indices: 999852--999884 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
999842 CCTCGCATAG
*
999852 CTCGTTCGGATGGC
1 CTCGGTCGGATGGC
999866 CTCGGTCGGATGGC
1 CTCGGTCGGATGGC
999880 CTCGG
1 CTCGG
999885 ATGCCCAGCG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.06, C:0.30, G:0.39, T:0.24
Consensus pattern (14 bp):
CTCGGTCGGATGGC
Found at i:1012762 original size:18 final size:20
Alignment explanation
Indices: 1012740--1012786 Score: 55
Period size: 18 Copynumber: 2.5 Consensus size: 20
1012730 TAAAACGAAT
1012740 TAAAAATATAATAAT-AAAA
1 TAAAAATATAATAATGAAAA
*
1012759 -AAAAAT-CAATAATGAAAA
1 TAAAAATATAATAATGAAAA
1012777 TAAAACATAT
1 TAAAA-ATAT
1012787 TAAAATATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 6
0.73 0.07 0.20
Matches are distributed among these distances:
17 6 0.27
18 10 0.45
19 4 0.18
20 2 0.09
ACGTcount: A:0.70, C:0.04, G:0.02, T:0.23
Consensus pattern (20 bp):
TAAAAATATAATAATGAAAA
Found at i:1014695 original size:2 final size:2
Alignment explanation
Indices: 1014688--1014726 Score: 57
Period size: 2 Copynumber: 21.0 Consensus size: 2
1014678 AATTATTCGA
1014688 AT AT AT AT AT A- AT AT AT AT -T AT AT AT AT AT AT A- AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1014727 TTATTACTTA
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
1 3 0.09
2 31 0.91
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1014703 original size:11 final size:11
Alignment explanation
Indices: 1014687--1014726 Score: 64
Period size: 11 Copynumber: 3.6 Consensus size: 11
1014677 CAATTATTCG
1014687 AATATATATAT
1 AATATATATAT
1014698 AATATATAT-T
1 AATATATATAT
1014708 ATATATATATAT
1 A-ATATATATAT
1014720 AATATAT
1 AATATAT
1014727 TTATTACTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
10 2 0.07
11 23 0.85
12 2 0.07
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (11 bp):
AATATATATAT
Found at i:1014713 original size:20 final size:20
Alignment explanation
Indices: 1014688--1014727 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
1014678 AATTATTCGA
1014688 ATATATATATA-ATATATATT
1 ATATATATATATA-ATATATT
1014708 ATATATATATATAATATATT
1 ATATATATATATAATATATT
1014728 TATTACTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 18 0.95
21 1 0.05
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (20 bp):
ATATATATATATAATATATT
Found at i:1014716 original size:22 final size:21
Alignment explanation
Indices: 1014688--1014730 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 21
1014678 AATTATTCGA
1014688 ATATATATATAATATATATTAT
1 ATATATATATAATATAT-TTAT
1014710 ATATATATATAATATATTTAT
1 ATATATATATAATATATTTAT
1014731 TACTTAAAGT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 4 0.19
22 17 0.81
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
ATATATATATAATATATTTAT
Found at i:1014904 original size:13 final size:13
Alignment explanation
Indices: 1014871--1015054 Score: 94
Period size: 13 Copynumber: 14.9 Consensus size: 13
1014861 ACTAATAATT
1014871 TAATAATGATTAC
1 TAATAATGATTAC
*
1014884 TAAT-ATGATTAG
1 TAATAATGATTAC
*
1014896 TACTAATGATTAC
1 TAATAATGATTAC
1014909 TAATAATGATTTAC
1 TAATAATGA-TTAC
* * *
1014923 TAATTATTATTAA
1 TAATAATGATTAC
* *
1014936 T-TTAATGATTTAA
1 TAATAATGA-TTAC
1014949 TAATAATATGATT--
1 TAAT-A-ATGATTAC
*
1014962 TAGTAATGATTAC
1 TAATAATGATTAC
*
1014975 TAATAAT-ATTTTAT
1 TAATAATGA--TTAC
*
1014989 TATTAAT-ATT--
1 TAATAATGATTAC
1014999 TAAT-A--ATTAC
1 TAATAATGATTAC
1015009 TAATAATGATT--
1 TAATAATGATTAC
* *
1015020 TTATAATTATTAC
1 TAATAATGATTAC
1015033 TAATAATGATT--
1 TAATAATGATTAC
1015044 TAATAAT-ATTA
1 TAATAATGATTA
1015055 AATAACATAA
Statistics
Matches: 133, Mismatches: 20, Indels: 38
0.70 0.10 0.20
Matches are distributed among these distances:
8 3 0.02
9 1 0.01
10 10 0.08
11 23 0.17
12 18 0.14
13 49 0.37
14 22 0.17
15 3 0.02
16 4 0.03
ACGTcount: A:0.43, C:0.04, G:0.06, T:0.47
Consensus pattern (13 bp):
TAATAATGATTAC
Found at i:1014931 original size:24 final size:24
Alignment explanation
Indices: 1014863--1015054 Score: 135
Period size: 24 Copynumber: 7.8 Consensus size: 24
1014853 ATTTTGATAC
* *
1014863 TAATAATTTAATAATGATTACTAA
1 TAATGATTTAATAATTATTACTAA
* *
1014887 T-ATGATTAGTACTAATGATTACTAA
1 TAATGATT--TAATAATTATTACTAA
* *
1014912 TAATGATTTACTAATTATTATTAA
1 TAATGATTTAATAATTATTACTAA
* * *
1014936 TTTAATGATTTAATAATAATATGATTTAG
1 --TAATGATTTAATAAT--TATTA-CTAA
* * *
1014965 TAATGATTACTAATAATATTTTATTAT
1 TAATGATT--TAATAAT-TATTACTAA
1014992 TAAT-ATTTAAT-A--ATTACTAA
1 TAATGATTTAATAATTATTACTAA
*
1015012 TAATGATTTTATAATTATTACTAA
1 TAATGATTTAATAATTATTACTAA
1015036 TAATGATTTAATAA-TATTA
1 TAATGATTTAATAATTATTA
1015055 AATAACATAA
Statistics
Matches: 139, Mismatches: 15, Indels: 29
0.76 0.08 0.16
Matches are distributed among these distances:
20 9 0.06
21 6 0.04
22 1 0.01
23 11 0.08
24 40 0.29
25 16 0.12
26 23 0.17
27 15 0.11
28 8 0.06
29 10 0.07
ACGTcount: A:0.44, C:0.04, G:0.06, T:0.47
Consensus pattern (24 bp):
TAATGATTTAATAATTATTACTAA
Found at i:1015037 original size:34 final size:34
Alignment explanation
Indices: 1014965--1015053 Score: 99
Period size: 34 Copynumber: 2.6 Consensus size: 34
1014955 TATGATTTAG
* * *
1014965 TAATGATTACTAATAATATTTTATTATTAATATT
1 TAATAATTACTAATAATATTTTATAATTAATATC
*
1014999 TAATAATTACTAATAATGATTTTATAATTATTA-C
1 TAATAATTACTAATAAT-ATTTTATAATTAATATC
* *
1015033 TAATAATGATTTAATAATATT
1 TAATAATTA-CTAATAATATT
1015054 AAATAACATA
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
34 27 0.57
35 20 0.43
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.49
Consensus pattern (34 bp):
TAATAATTACTAATAATATTTTATAATTAATATC
Found at i:1015058 original size:21 final size:22
Alignment explanation
Indices: 1014992--1015059 Score: 79
Period size: 21 Copynumber: 3.1 Consensus size: 22
1014982 ATTTTATTAT
*
1014992 TAAT-ATTTAATAATTACT-AA
1 TAATGATTTAATAATTATTAAA
*
1015012 TAATGATTTTATAATTATTACTAA
1 TAATGATTTAATAATTATTA--AA
1015036 TAATGATTTAATAA-TATTAAA
1 TAATGATTTAATAATTATTAAA
1015057 TAA
1 TAA
1015060 CATAAATTTA
Statistics
Matches: 41, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
20 4 0.10
21 17 0.41
23 5 0.12
24 15 0.37
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.46
Consensus pattern (22 bp):
TAATGATTTAATAATTATTAAA
Found at i:1015207 original size:13 final size:14
Alignment explanation
Indices: 1015179--1015210 Score: 57
Period size: 13 Copynumber: 2.4 Consensus size: 14
1015169 ATTAATAATT
1015179 TAATAATGATTTAC
1 TAATAATGATTTAC
1015193 TAATAATGA-TTAC
1 TAATAATGATTTAC
1015206 TAATA
1 TAATA
1015211 TTGGCGTTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 9 0.50
14 9 0.50
ACGTcount: A:0.47, C:0.06, G:0.06, T:0.41
Consensus pattern (14 bp):
TAATAATGATTTAC
Found at i:1016699 original size:13 final size:13
Alignment explanation
Indices: 1016674--1016729 Score: 87
Period size: 13 Copynumber: 4.3 Consensus size: 13
1016664 ATTAATAATA
1016674 ATTAGTAAATCATT
1 ATTAGT-AATCATT
1016688 ATTAGTAATCATT
1 ATTAGTAATCATT
*
1016701 ATTATTAATCA-T
1 ATTAGTAATCATT
1016713 ATTAGTAATCATT
1 ATTAGTAATCATT
1016726 ATTA
1 ATTA
1016730 AATTATTAGT
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
12 11 0.28
13 22 0.56
14 6 0.15
ACGTcount: A:0.41, C:0.07, G:0.05, T:0.46
Consensus pattern (13 bp):
ATTAGTAATCATT
Found at i:1016719 original size:25 final size:26
Alignment explanation
Indices: 1016681--1016729 Score: 91
Period size: 25 Copynumber: 1.9 Consensus size: 26
1016671 ATAATTAGTA
1016681 AATCATTATTAGTAATCATTATTATT
1 AATCATTATTAGTAATCATTATTATT
1016707 AATCA-TATTAGTAATCATTATTA
1 AATCATTATTAGTAATCATTATTA
1016730 AATTATTAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
25 18 0.78
26 5 0.22
ACGTcount: A:0.41, C:0.08, G:0.04, T:0.47
Consensus pattern (26 bp):
AATCATTATTAGTAATCATTATTATT
Found at i:1018873 original size:51 final size:52
Alignment explanation
Indices: 1018796--1018907 Score: 154
Period size: 51 Copynumber: 2.2 Consensus size: 52
1018786 TAAGTGAATA
* * *
1018796 TAAACACAATGCTAAAAAAATTAAATGAACGCTAAAGAAACATAAATAACTT
1 TAAAAACAATACTAAAAAAATTAAATGAACGCGAAAGAAACATAAATAACTT
* * *
1018848 TAAAAACAATACT-AAAAATTTAAATGAACGCGAACGAAATATAAATAACTT
1 TAAAAACAATACTAAAAAAATTAAATGAACGCGAAAGAAACATAAATAACTT
*
1018899 TAGAAACAA
1 TAAAAACAA
1018908 ACGAACACAA
Statistics
Matches: 53, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
51 42 0.79
52 11 0.21
ACGTcount: A:0.58, C:0.12, G:0.08, T:0.21
Consensus pattern (52 bp):
TAAAAACAATACTAAAAAAATTAAATGAACGCGAAAGAAACATAAATAACTT
Found at i:1023827 original size:2 final size:2
Alignment explanation
Indices: 1023820--1023845 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
1023810 AAGACCTTCA
1023820 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
1023846 GTGTGTATAT
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):
AT
Found at i:1027630 original size:2 final size:2
Alignment explanation
Indices: 1027623--1027664 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
1027613 ACATAGAACA
1027623 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1027665 GGAGATATCA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1027736 original size:14 final size:15
Alignment explanation
Indices: 1027712--1027744 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
1027702 GTTTTATATT
*
1027712 AATTTATAATAATTA
1 AATTTATAATAAATA
1027727 AATTTA-AATAAATA
1 AATTTATAATAAATA
1027741 AATT
1 AATT
1027745 ATTAAAATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (15 bp):
AATTTATAATAAATA
Found at i:1030367 original size:3 final size:3
Alignment explanation
Indices: 1030359--1030402 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
1030349 TGTAAATTAA
1030359 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1030403 CCCAAACAAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:1030765 original size:65 final size:65
Alignment explanation
Indices: 1030661--1030789 Score: 258
Period size: 65 Copynumber: 2.0 Consensus size: 65
1030651 ATTGTTTTTG
1030661 TTATGCCGATTGTTTCAAAGGATATATTTCAACAGAATACTTTGATATTGCTTATATGTTAACAT
1 TTATGCCGATTGTTTCAAAGGATATATTTCAACAGAATACTTTGATATTGCTTATATGTTAACAT
1030726 TTATGCCGATTGTTTCAAAGGATATATTTCAACAGAATACTTTGATATTGCTTATATGTTAACA
1 TTATGCCGATTGTTTCAAAGGATATATTTCAACAGAATACTTTGATATTGCTTATATGTTAACA
1030790 GCAAATTTAT
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
65 64 1.00
ACGTcount: A:0.33, C:0.12, G:0.14, T:0.41
Consensus pattern (65 bp):
TTATGCCGATTGTTTCAAAGGATATATTTCAACAGAATACTTTGATATTGCTTATATGTTAACAT
Found at i:1031455 original size:24 final size:23
Alignment explanation
Indices: 1031428--1031482 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 23
1031418 GTTGAGAAAA
*
1031428 AAATTTAAGATATTAAGTTTAATT
1 AAATCTAAGATATT-AGTTTAATT
* * *
1031452 AAATCTAAGTTATTTGTTTATTT
1 AAATCTAAGATATTAGTTTAATT
1031475 AAATCTAA
1 AAATCTAA
1031483 TGACTATAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
23 15 0.56
24 12 0.44
ACGTcount: A:0.42, C:0.04, G:0.07, T:0.47
Consensus pattern (23 bp):
AAATCTAAGATATTAGTTTAATT
Found at i:1036642 original size:15 final size:15
Alignment explanation
Indices: 1036605--1036644 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
1036595 AATAATTTAC
1036605 ATTTACATTT-GCAT
1 ATTTACATTTGGCAT
1036619 ATTTACATTTGGCAT
1 ATTTACATTTGGCAT
* *
1036634 CTTTGCATTTG
1 ATTTACATTTG
1036645 TATTGCACAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 10 0.43
15 13 0.57
ACGTcount: A:0.23, C:0.15, G:0.12, T:0.50
Consensus pattern (15 bp):
ATTTACATTTGGCAT
Found at i:1039899 original size:12 final size:12
Alignment explanation
Indices: 1039882--1039919 Score: 58
Period size: 12 Copynumber: 3.0 Consensus size: 12
1039872 TCCAGCAAAG
1039882 AAAGAAGAAAAA
1 AAAGAAGAAAAA
1039894 AAAGAAGGAAAAAA
1 AAAGAA-G-AAAAA
1039908 AAAGAAGAAAAA
1 AAAGAAGAAAAA
1039920 GGAAAATTGA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
12 11 0.46
13 2 0.08
14 11 0.46
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (12 bp):
AAAGAAGAAAAA
Found at i:1039908 original size:14 final size:13
Alignment explanation
Indices: 1039882--1039919 Score: 60
Period size: 14 Copynumber: 2.9 Consensus size: 13
1039872 TCCAGCAAAG
1039882 AAAGAAG-AAAAA
1 AAAGAAGAAAAAA
1039894 AAAGAAGGAAAAAA
1 AAAGAA-GAAAAAA
1039908 AAAGAAGAAAAA
1 AAAGAAGAAAAA
1039920 GGAAAATTGA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
12 6 0.25
13 7 0.29
14 11 0.46
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (13 bp):
AAAGAAGAAAAAA
Found at i:1042062 original size:114 final size:114
Alignment explanation
Indices: 1041861--1042080 Score: 359
Period size: 114 Copynumber: 1.9 Consensus size: 114
1041851 GTGCCACGTT
* *
1041861 CTCATAGTAGAAATAAGGAGATCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTG
1 CTCATAGTAGAAATAAGGAGACCCAATAGCATCTTCTGGAAGTGTTCTTTAAGTTATCTGATCTG
* * * *
1041926 ATTTGGTATGAACCCCAAAACCAATCATTGGATTTGAAAGACGAATTTG
66 ATTCGGTAGGAACCCCAAAACCAATCATTGGAATTAAAAGACGAATTTG
*
1041975 CTCATAGTAGAAATAAGGAGACCCAATAGCATCTTCTGGAAGTGTTCTTTAAGTTCTCTGATCTG
1 CTCATAGTAGAAATAAGGAGACCCAATAGCATCTTCTGGAAGTGTTCTTTAAGTTATCTGATCTG
* *
1042040 GTTCGGTAGGAACCCCAGAACCAATCATTGGAATTAAAAGA
66 ATTCGGTAGGAACCCCAAAACCAATCATTGGAATTAAAAGA
1042081 TGAACTGCAT
Statistics
Matches: 97, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
114 97 1.00
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.30
Consensus pattern (114 bp):
CTCATAGTAGAAATAAGGAGACCCAATAGCATCTTCTGGAAGTGTTCTTTAAGTTATCTGATCTG
ATTCGGTAGGAACCCCAAAACCAATCATTGGAATTAAAAGACGAATTTG
Found at i:1044500 original size:22 final size:22
Alignment explanation
Indices: 1044471--1044522 Score: 86
Period size: 22 Copynumber: 2.4 Consensus size: 22
1044461 ATCTACACTC
*
1044471 TTCAAAGATGATAGATTCTCTT
1 TTCAAAGATGACAGATTCTCTT
*
1044493 TTTAAAGATGACAGATTCTCTT
1 TTCAAAGATGACAGATTCTCTT
1044515 TTCAAAGA
1 TTCAAAGA
1044523 CGAAAACTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.38
Consensus pattern (22 bp):
TTCAAAGATGACAGATTCTCTT
Found at i:1045125 original size:113 final size:112
Alignment explanation
Indices: 1044927--1045471 Score: 896
Period size: 113 Copynumber: 4.8 Consensus size: 112
1044917 GCAAAGATTC
* * *
1044927 AAATCCATCATCTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCGTCTGAAG
1 AAATCCATCATTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAG
1044992 AAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCT
66 AAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCT
1045039 AAAATCCATCATTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAA
1 -AAATCCATCATTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAA
1045104 GAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCT
65 GAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCT
1045152 AAATCCATCATTTGATGGATC-GCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAG
1 AAATCCATCATTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAG
*
1045216 ATGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCT
66 AAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCT
1045263 CAAATCCATCATTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAA
1 -AAATCCATCATTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAA
* *
1045328 GAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACTTTTTGCTT
65 GAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC-T
* * * * * * * * *
1045377 CAATTCATTACTCGATTGATCAACATTGCCAG-GTAGAAGTTCATAATGAGAAGAACTCATCTGA
1 AAATCCATCATTTGATGGATCAGCTTTTCCAGAG-A-AAGTTCATAATGAGAAGAACTCATCTGA
1045441 AGAAGGAAGAAGAAATTCATAATGAGAAGAA
64 AGAAGGAAGAAGAAATTCATAATGAGAAGAA
1045472 CTCATCTGAA
Statistics
Matches: 410, Mismatches: 17, Indels: 9
0.94 0.04 0.02
Matches are distributed among these distances:
111 89 0.22
112 43 0.10
113 219 0.53
114 59 0.14
ACGTcount: A:0.39, C:0.14, G:0.19, T:0.28
Consensus pattern (112 bp):
AAATCCATCATTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAG
AAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCT
Found at i:1045339 original size:224 final size:226
Alignment explanation
Indices: 1044927--1045471 Score: 907
Period size: 224 Copynumber: 2.4 Consensus size: 226
1044917 GCAAAGATTC
* * *
1044927 AAATCCATCATCTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCGTCTGAAG
1 AAATCCATCATTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAG
1044992 AAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTAAAATCCATCATTTGATG
66 AAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTAAAATCCATCATTTGATG
1045057 GATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCA
131 GATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCA
1045122 TAATGAGAAGAATTTGTTCAACCTTTTGC-T
196 TAATGAGAAGAATTTGTTCAACCTTTTGCTT
1045152 AAATCCATCATTTGATGGATC-GCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAG
1 AAATCCATCATTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAG
* *
1045216 ATGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCATTTGATG
66 AAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTAAAATCCATCATTTGATG
*
1045281 GATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCA
131 GATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCA
*
1045346 TAATGAGAAGAATTTGTTCAACTTTTTGCTT
196 TAATGAGAAGAATTTGTTCAACCTTTTGCTT
* * * * * * * * *
1045377 CAATTCATTACTCGATTGATCAACATTGCCAG-GTAGAAGTTCATAATGAGAAGAACTCATCTGA
1 AAATCCATCATTTGATGGATCAGCTTTTCCAGAG-A-AAGTTCATAATGAGAAGAACTCATCTGA
1045441 AGAAGGAAGAAGAAATTCATAATGAGAAGAA
64 AGAAGGAAGAAGAAATTCATAATGAGAAGAA
1045472 CTCATCTGAA
Statistics
Matches: 299, Mismatches: 17, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
224 196 0.66
225 37 0.12
226 8 0.03
227 58 0.19
ACGTcount: A:0.39, C:0.14, G:0.19, T:0.28
Consensus pattern (226 bp):
AAATCCATCATTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAG
AAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTAAAATCCATCATTTGATG
GATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCA
TAATGAGAAGAATTTGTTCAACCTTTTGCTT
Found at i:1045451 original size:20 final size:20
Alignment explanation
Indices: 1045426--1045491 Score: 57
Period size: 20 Copynumber: 3.3 Consensus size: 20
1045416 TTCATAATGA
1045426 GAAGAACTCATCTGAAGAAG
1 GAAGAACTCATCTGAAGAAG
***
1045446 GAAGAAGAAATTCAT-AATG-A-
1 GAAGAACTCA-TC-TGAA-GAAG
1045466 GAAGAACTCATCTGAAGAAG
1 GAAGAACTCATCTGAAGAAG
1045486 GAAGAA
1 GAAGAA
1045492 GAAGTTCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 12
0.65 0.12 0.23
Matches are distributed among these distances:
18 2 0.06
19 5 0.15
20 20 0.59
21 5 0.15
22 2 0.06
ACGTcount: A:0.50, C:0.11, G:0.24, T:0.15
Consensus pattern (20 bp):
GAAGAACTCATCTGAAGAAG
Found at i:1045463 original size:40 final size:40
Alignment explanation
Indices: 1045411--1045511 Score: 193
Period size: 40 Copynumber: 2.5 Consensus size: 40
1045401 ATTGCCAGGT
1045411 AGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGA
1 AGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGA
*
1045451 AGAAATTCATAATGAGAAGAACTCATCTGAAGAAGGAAGA
1 AGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGA
1045491 AGAAGTTCATAATGAGAAGAA
1 AGAAGTTCATAATGAGAAGAA
1045512 TTTGTTCAAC
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 59 1.00
ACGTcount: A:0.50, C:0.09, G:0.24, T:0.18
Consensus pattern (40 bp):
AGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGA
Found at i:1045483 original size:154 final size:153
Alignment explanation
Indices: 1045296--1045613 Score: 573
Period size: 154 Copynumber: 2.1 Consensus size: 153
1045286 GCTTTTCCAG
1045296 AGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTT
1 AGAAA-TTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTT
* * *
1045361 GTTCAACTTTTTGCTTCAATTCATTACTCGATTGATCAACATTGCCAGGTAGAAGTTCATAATGA
65 GTTCAACTTTTTGCTTCAATTCATCACTAGATTGATCAACATTGCCAGGTAGAAGGTCATAATGA
1045426 GAAGAACTCATCTGAAGAAGGAAGA
130 GAAGAACTCATCTGAAG-AGGAAGA
1045451 AGAAATTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTG
1 AGAAATTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTG
1045516 TTCAACTTTTTGCTTCAATTCATCACTAGATTGATCAACATTGCCAGGTAGAAGGTCATAATGAG
66 TTCAACTTTTTGCTTCAATTCATCACTAGATTGATCAACATTGCCAGGTAGAAGGTCATAATGAG
*
1045581 AAGAACTTATCTGAAGAGGAAGA
131 AAGAACTCATCTGAAGAGGAAGA
*
1045604 AGAAGTTCAT
1 AGAAATTCAT
1045614 CCGAGAAGAA
Statistics
Matches: 158, Mismatches: 5, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
153 16 0.10
154 137 0.87
155 5 0.03
ACGTcount: A:0.40, C:0.13, G:0.21, T:0.26
Consensus pattern (153 bp):
AGAAATTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTG
TTCAACTTTTTGCTTCAATTCATCACTAGATTGATCAACATTGCCAGGTAGAAGGTCATAATGAG
AAGAACTCATCTGAAGAGGAAGA
Found at i:1050450 original size:17 final size:17
Alignment explanation
Indices: 1050413--1050446 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
1050403 ATTCATTACT
1050413 ATTTACGTGAATAGTAA
1 ATTTACGTGAATAGTAA
1050430 ATTT-CGTGAATAGTAA
1 ATTTACGTGAATAGTAA
1050446 A
1 A
1050447 ATTTTGTCGG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 13 0.76
17 4 0.24
ACGTcount: A:0.41, C:0.06, G:0.18, T:0.35
Consensus pattern (17 bp):
ATTTACGTGAATAGTAA
Found at i:1055037 original size:18 final size:19
Alignment explanation
Indices: 1055016--1055052 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
1055006 GAAAAAATGC
*
1055016 ATTAATAATTTGAA-ATAA
1 ATTAATAAATTGAAGATAA
1055034 ATTAATAAATTGAAGATAA
1 ATTAATAAATTGAAGATAA
1055053 CATAGTGTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.57, C:0.00, G:0.08, T:0.35
Consensus pattern (19 bp):
ATTAATAAATTGAAGATAA
Found at i:1057491 original size:15 final size:15
Alignment explanation
Indices: 1057473--1057529 Score: 60
Period size: 15 Copynumber: 3.8 Consensus size: 15
1057463 AAGAAATAGA
1057473 GGAAGAAGAGGAAGT
1 GGAAGAAGAGGAAGT
** *
1057488 GGAAGTTGAGGAAGA
1 GGAAGAAGAGGAAGT
** *
1057503 GGTGGAAGAGGAGGT
1 GGAAGAAGAGGAAGT
1057518 GGAAGAAGAGGA
1 GGAAGAAGAGGA
1057530 CGAAGATGCT
Statistics
Matches: 31, Mismatches: 11, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
15 31 1.00
ACGTcount: A:0.40, C:0.00, G:0.51, T:0.09
Consensus pattern (15 bp):
GGAAGAAGAGGAAGT
Found at i:1057509 original size:24 final size:24
Alignment explanation
Indices: 1057471--1057535 Score: 67
Period size: 24 Copynumber: 2.7 Consensus size: 24
1057461 TGAAGAAATA
* * *
1057471 GAGGAAGAAGAGGAAGTGGAAGTT
1 GAGGAAGAGGAGGAAGAGGAAGTG
* *
1057495 GAGGAAGAGGTGGAAGAGGAGGTG
1 GAGGAAGAGGAGGAAGAGGAAGTG
* *
1057519 GAAGAAGAGGACGAAGA
1 GAGGAAGAGGAGGAAGA
1057536 TGCTGATTTG
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.42, C:0.02, G:0.49, T:0.08
Consensus pattern (24 bp):
GAGGAAGAGGAGGAAGAGGAAGTG
Found at i:1057518 original size:12 final size:12
Alignment explanation
Indices: 1057498--1057528 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
1057488 GGAAGTTGAG
1057498 GAAGAGGTGGAA
1 GAAGAGGTGGAA
*
1057510 GAGGAGGTGGAA
1 GAAGAGGTGGAA
1057522 GAAGAGG
1 GAAGAGG
1057529 ACGAAGATGC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.39, C:0.00, G:0.55, T:0.06
Consensus pattern (12 bp):
GAAGAGGTGGAA
Found at i:1059294 original size:2 final size:2
Alignment explanation
Indices: 1059287--1059320 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
1059277 CTAAATTAGC
1059287 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1059321 TGTAATCTAT
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):
AT
Found at i:1066045 original size:15 final size:14
Alignment explanation
Indices: 1066027--1066074 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
1066017 ATGAGAGTTC
*
1066027 TTTTCATGTAATTA
1 TTTTTATGTAATTA
* * *
1066041 TTTTTTTGGAAATA
1 TTTTTATGTAATTA
1066055 TTTTTATGTAATTA
1 TTTTTATGTAATTA
1066069 TGTTTT
1 T-TTTT
1066075 GACTTAGGGA
Statistics
Matches: 26, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
14 22 0.85
15 4 0.15
ACGTcount: A:0.25, C:0.02, G:0.10, T:0.62
Consensus pattern (14 bp):
TTTTTATGTAATTA
Found at i:1066401 original size:29 final size:27
Alignment explanation
Indices: 1066362--1066432 Score: 72
Period size: 27 Copynumber: 2.6 Consensus size: 27
1066352 TCTTTAAGCA
*
1066362 AAAAAAAATTATCAAAATTTTAAATATAT
1 AAAAAAAATTAT--AAATTTTAAAAATAT
* *
1066391 AAAAAATATTATACATTTTAAAAATAT
1 AAAAAAAATTATAAATTTTAAAAATAT
**
1066418 ATTAAAAATTA-AAAT
1 AAAAAAAATTATAAAT
1066433 ATATAAAATT
Statistics
Matches: 35, Mismatches: 7, Indels: 3
0.78 0.16 0.07
Matches are distributed among these distances:
26 3 0.09
27 21 0.60
29 11 0.31
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (27 bp):
AAAAAAAATTATAAATTTTAAAAATAT
Found at i:1066434 original size:15 final size:15
Alignment explanation
Indices: 1066411--1066444 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 15
1066401 ATACATTTTA
1066411 AAAATATATTAAAAATT
1 AAAATATA-T-AAAATT
1066428 AAAATATATAAAATT
1 AAAATATATAAAATT
1066443 AA
1 AA
1066445 GTAAAATTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.47
16 1 0.06
17 8 0.47
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (15 bp):
AAAATATATAAAATT
Found at i:1066487 original size:15 final size:16
Alignment explanation
Indices: 1066448--1066488 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 16
1066438 AAATTAAGTA
*
1066448 AAATTTAAAAATCAAT
1 AAATTTTAAAATCAAT
*
1066464 -AATTATAAAAT-AAT
1 AAATTTTAAAATCAAT
1066478 AAATTTTAAAA
1 AAATTTTAAAA
1066489 ATATTATTAA
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
14 3 0.14
15 18 0.86
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.34
Consensus pattern (16 bp):
AAATTTTAAAATCAAT
Found at i:1066489 original size:31 final size:33
Alignment explanation
Indices: 1066419--1066490 Score: 96
Period size: 33 Copynumber: 2.2 Consensus size: 33
1066409 TAAAAATATA
*
1066419 TTAAAAATTAAAATATATAAAATTAAGTAAAAT
1 TTAAAAATCAAAATATATAAAATTAAGTAAAAT
*
1066452 TTAAAAATCAATAAT-TATAAAA-TAA-TAAATT
1 TTAAAAATCAA-AATATATAAAATTAAGTAAAAT
1066483 TTAAAAAT
1 TTAAAAAT
1066491 ATTATTAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
31 13 0.36
32 3 0.08
33 17 0.47
34 3 0.08
ACGTcount: A:0.62, C:0.01, G:0.01, T:0.35
Consensus pattern (33 bp):
TTAAAAATCAAAATATATAAAATTAAGTAAAAT
Found at i:1066506 original size:30 final size:30
Alignment explanation
Indices: 1066419--1066507 Score: 74
Period size: 31 Copynumber: 2.8 Consensus size: 30
1066409 TAAAAATATA
*
1066419 TTAAAAATTAA-AATATATAAAATTAAGTAAAAT
1 TTAAAAA-TAATAAT-TA-AAAAATAA-TAAAAT
* *
1066452 TTAAAAATCAATAATTATAAAATAATAAATT
1 TTAAAAAT-AATAATTAAAAAATAATAAAAT
*
1066483 TTAAAAAT-ATTATTAAAATAATAAT
1 TTAAAAATAATAATTAAAA-AATAAT
1066508 TTTTTTAAAT
Statistics
Matches: 48, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
29 8 0.17
30 6 0.12
31 13 0.27
32 7 0.15
33 11 0.23
34 3 0.06
ACGTcount: A:0.62, C:0.01, G:0.01, T:0.36
Consensus pattern (30 bp):
TTAAAAATAATAATTAAAAAATAATAAAAT
Found at i:1066517 original size:27 final size:27
Alignment explanation
Indices: 1066465--1066522 Score: 82
Period size: 27 Copynumber: 2.2 Consensus size: 27
1066455 AAAATCAATA
1066465 ATTA-TAAAATAATAAATTTTAAAAAT
1 ATTATTAAAATAATAAATTTTAAAAAT
* **
1066491 ATTATTAAAATAATAATTTTTTTAAAT
1 ATTATTAAAATAATAAATTTTAAAAAT
1066518 ATTAT
1 ATTAT
1066523 CATTAGAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
26 4 0.14
27 24 0.86
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (27 bp):
ATTATTAAAATAATAAATTTTAAAAAT
Found at i:1068087 original size:30 final size:30
Alignment explanation
Indices: 1068053--1068118 Score: 87
Period size: 30 Copynumber: 2.2 Consensus size: 30
1068043 GTGAACCGGT
* *
1068053 GGTTCAAATCGGTTTTGCCGGTTTTCAGCC
1 GGTTCAAACCGGTTTTACCGGTTTTCAGCC
** *
1068083 GGTTCACCCCGGTTTTACCGGTTTTTAGCC
1 GGTTCAAACCGGTTTTACCGGTTTTCAGCC
1068113 GGTTCA
1 GGTTCA
1068119 TTGCCAGACC
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.12, C:0.26, G:0.26, T:0.36
Consensus pattern (30 bp):
GGTTCAAACCGGTTTTACCGGTTTTCAGCC
Found at i:1068659 original size:2 final size:2
Alignment explanation
Indices: 1068652--1068676 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1068642 GATGTCTAAC
1068652 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
1068677 TACAGATAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1070266 original size:13 final size:13
Alignment explanation
Indices: 1070248--1070277 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
1070238 GATTGCGAAG
1070248 AATTAAAAATTTA
1 AATTAAAAATTTA
1070261 AATT-AAAATTTA
1 AATTAAAAATTTA
1070273 AATTA
1 AATTA
1070278 CTCGATTCGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
AATTAAAAATTTA
Found at i:1070386 original size:23 final size:24
Alignment explanation
Indices: 1070375--1070434 Score: 61
Period size: 24 Copynumber: 2.5 Consensus size: 24
1070365 TTAAATAAAT
*
1070375 AAATAACAAAACAATAGAATAATA
1 AAATAAAAAAACAATAGAATAATA
*
1070399 AAATAAAAAAA-AATCGAAATTGAAT-
1 AAATAAAAAAACAATAG-AA-T-AATA
1070424 AAATAAAAAAA
1 AAATAAAAAAA
1070435 AGGGTCAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
23 4 0.13
24 12 0.39
25 12 0.39
26 3 0.10
ACGTcount: A:0.73, C:0.05, G:0.05, T:0.17
Consensus pattern (24 bp):
AAATAAAAAAACAATAGAATAATA
Found at i:1070879 original size:22 final size:21
Alignment explanation
Indices: 1070827--1070879 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 21
1070817 GGTGTAGCCC
*
1070827 CGGCTGCCGCTCTCAGTCGCT
1 CGGCCGCCGCTCTCAGTCGCT
1070848 CTGGCCGCCGCTCTCAGTCGCTT
1 C-GGCCGCCGCTCTCAGTCGC-T
*
1070871 CGGCGGCCG
1 CGGCCGCCG
1070880 GGCCAACCCA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
21 1 0.04
22 25 0.89
23 2 0.07
ACGTcount: A:0.04, C:0.43, G:0.32, T:0.21
Consensus pattern (21 bp):
CGGCCGCCGCTCTCAGTCGCT
Found at i:1071715 original size:16 final size:17
Alignment explanation
Indices: 1071661--1071715 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 17
1071651 TACCCTGCAC
* *
1071661 AAAAATAAATGAGAAAT
1 AAAAATAAATTAAAAAT
1071678 --AAATAAATTAAAAAT
1 AAAAATAAATTAAAAAT
*
1071693 AAAAATAAA-TAATAAT
1 AAAAATAAATTAAAAAT
*
1071709 AATAATA
1 AAAAATA
1071716 TATATATATA
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
15 13 0.41
16 12 0.38
17 7 0.22
ACGTcount: A:0.73, C:0.00, G:0.04, T:0.24
Consensus pattern (17 bp):
AAAAATAAATTAAAAAT
Found at i:1071759 original size:26 final size:27
Alignment explanation
Indices: 1071713--1071763 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
1071703 AATAATAATA
1071713 ATATATATATATAAACGTTTTCAAAAAC
1 ATATATATATATAAACGTTTT-AAAAAC
*
1071741 ATATA-ATATATAAA-TTTTTAAAA
1 ATATATATATATAAACGTTTTAAAA
1071764 TGTTTTTTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 4 0.18
26 4 0.18
27 9 0.41
28 5 0.23
ACGTcount: A:0.53, C:0.06, G:0.02, T:0.39
Consensus pattern (27 bp):
ATATATATATATAAACGTTTTAAAAAC
Found at i:1071826 original size:41 final size:38
Alignment explanation
Indices: 1071730--1071880 Score: 146
Period size: 39 Copynumber: 3.9 Consensus size: 38
1071720 TATATAAACG
* * * * * *
1071730 TTTTCAAAAACATATAATATATAAATTTTTAAAATGTT
1 TTTTAAAAAATATATATTATATATATTTTCAAAATGGT
1071768 TTTTAAAAAACTATATATTATATATATTTTCAAAATGGT
1 TTTTAAAAAA-TATATATTATATATATTTTCAAAATGGT
*
1071807 TTTTAAAAATTATAGTATATATTATATATATTTT-AAAA-CGT
1 TTTT-AAAA--A-A-TATATATTATATATATTTTCAAAATGGT
* *
1071848 TTTCAAAAACTATATATTATATA-ATTTTCAAAA
1 TTTTAAAAAATATATATTATATATATTTTCAAAA
1071881 AATATATTTT
Statistics
Matches: 97, Mismatches: 10, Indels: 14
0.80 0.08 0.12
Matches are distributed among these distances:
35 5 0.05
36 17 0.18
38 10 0.10
39 27 0.28
40 8 0.08
41 5 0.05
42 5 0.05
43 20 0.21
ACGTcount: A:0.46, C:0.05, G:0.03, T:0.46
Consensus pattern (38 bp):
TTTTAAAAAATATATATTATATATATTTTCAAAATGGT
Found at i:1071891 original size:15 final size:16
Alignment explanation
Indices: 1071866--1071895 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
1071856 ACTATATATT
1071866 ATATAATTTTCAAAAA
1 ATATAATTTTCAAAAA
1071882 ATAT-ATTTTCAAAA
1 ATATAATTTTCAAAA
1071896 TGGTTTTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.40
Consensus pattern (16 bp):
ATATAATTTTCAAAAA
Found at i:1071896 original size:93 final size:91
Alignment explanation
Indices: 1071789--1071972 Score: 266
Period size: 91 Copynumber: 2.0 Consensus size: 91
1071779 TATATATTAT
*
1071789 ATATATTTTCAAAATGG-TTTTTAAAAATTATAGTATATATTATATATATTTT-AAAACGTTTTC
1 ATATATTTTCAAAATGGTTTTTTAAAAATTATA-TAT-TA-TATAAATATTTTCAAAACGTTTTC
1071852 AAAAACTATATATTATATA-ATTTTCAAAAA
63 -AAAACTATATATTATATATATTTT-AAAAA
* *
1071882 ATATATTTTCAAAATGGTTTTTTAAAAATTATATATTATATAAATGTTTTCATAACGTTTTCAAA
1 ATATATTTTCAAAATGGTTTTTTAAAAATTATATATTATATAAATATTTTCAAAACGTTTTCAAA
*
1071947 AGTATATATTATATATATTTTAAAAA
66 ACTATATATTATATATATTTTAAAAA
1071973 CGTTTTCAAA
Statistics
Matches: 84, Mismatches: 4, Indels: 8
0.88 0.04 0.08
Matches are distributed among these distances:
91 32 0.38
92 17 0.20
93 20 0.24
94 15 0.18
ACGTcount: A:0.44, C:0.05, G:0.05, T:0.46
Consensus pattern (91 bp):
ATATATTTTCAAAATGGTTTTTTAAAAATTATATATTATATAAATATTTTCAAAACGTTTTCAAA
ACTATATATTATATATATTTTAAAAA
Found at i:1071931 original size:27 final size:25
Alignment explanation
Indices: 1071830--1071931 Score: 73
Period size: 27 Copynumber: 3.8 Consensus size: 25
1071820 AGTATATATT
* *
1071830 ATATATATTTTAAAACGTTTTCAAAA
1 ATATATATTATAAAATGTTTT-AAAA
* *
1071856 ACTATATATTATATAAT-TTTCAAAA
1 A-TATATATTATAAAATGTTTTAAAA
*
1071881 A-ATATATTTTCAAAATGGTTTTTTAAAA
1 ATATATATTAT-AAAAT-G--TTTTAAAA
1071909 ATTATATATTATATAAATGTTTT
1 A-TATATATTATA-AAATGTTTT
1071932 CATAACGTTT
Statistics
Matches: 59, Mismatches: 8, Indels: 17
0.70 0.10 0.20
Matches are distributed among these distances:
23 8 0.14
24 4 0.07
25 5 0.08
26 4 0.07
27 16 0.27
28 8 0.14
29 2 0.03
30 12 0.20
ACGTcount: A:0.44, C:0.05, G:0.04, T:0.47
Consensus pattern (25 bp):
ATATATATTATAAAATGTTTTAAAA
Found at i:1071953 original size:36 final size:36
Alignment explanation
Indices: 1071901--1072067 Score: 124
Period size: 36 Copynumber: 4.6 Consensus size: 36
1071891 CAAAATGGTT
* * * * *
1071901 TTTTAAAAATTATATATTATATAAATGTTTTCATAACG
1 TTTTCAAAAGTATATA-T-TATAAATATTTTAAAAACG
*
1071939 TTTTCAAAAGTATATATTATATATATTTTAAAAACG
1 TTTTCAAAAGTATATATTATAAATATTTTAAAAACG
* * **
1071975 TTTTCAAAAACTATATATTATATAAT-TTTCAAAAATA
1 TTTTC-AAAAGTATATATTATA-AATATTTTAAAAACG
* * * * *
1072012 TTTTAAAAACTATATAATATACATATTTTCAAAAATG
1 TTTTCAAAAGTATATATTATAAATATTTT-AAAAACG
*
1072049 TTTT--AAACTATATATTATA
1 TTTTCAAAAGTATATATTATA
1072068 TATGTATTTT
Statistics
Matches: 108, Mismatches: 17, Indels: 11
0.79 0.12 0.08
Matches are distributed among these distances:
35 16 0.15
36 38 0.35
37 38 0.35
38 16 0.15
ACGTcount: A:0.46, C:0.07, G:0.03, T:0.45
Consensus pattern (36 bp):
TTTTCAAAAGTATATATTATAAATATTTTAAAAACG
Found at i:1071998 original size:37 final size:37
Alignment explanation
Indices: 1071882--1072084 Score: 200
Period size: 37 Copynumber: 5.4 Consensus size: 37
1071872 TTTTCAAAAA
** *
1071882 ATATATTTTCAAAATGGTTTTTTAAAAATTATATATTAT
1 ATATATTTTCAAAAACG--TTTTAAAAACTATATATTAT
* * * *
1071921 ATAAATGTTTTC-ATAACGTTTTCAAAAGTATATATTAT
1 AT--ATATTTTCAAAAACGTTTTAAAAACTATATATTAT
1071959 ATATATTTT-AAAAACGTTTTCAAAAACTATATATTAT
1 ATATATTTTCAAAAACGTTTT-AAAAACTATATATTAT
** *
1071996 ATA-ATTTTCAAAAATATTTTAAAAACTATATAATAT
1 ATATATTTTCAAAAACGTTTTAAAAACTATATATTAT
* *
1072032 ACATATTTTCAAAAATGTTTT--AAACTATATATTAT
1 ATATATTTTCAAAAACGTTTTAAAAACTATATATTAT
1072067 ATATGTATTTTCAAAAAC
1 ATA--TATTTTCAAAAAC
1072085 AATTTGCAAA
Statistics
Matches: 138, Mismatches: 18, Indels: 18
0.79 0.10 0.10
Matches are distributed among these distances:
35 15 0.11
36 37 0.27
37 54 0.39
38 20 0.14
39 2 0.01
40 3 0.02
41 7 0.05
ACGTcount: A:0.44, C:0.07, G:0.04, T:0.45
Consensus pattern (37 bp):
ATATATTTTCAAAAACGTTTTAAAAACTATATATTAT
Found at i:1072096 original size:74 final size:71
Alignment explanation
Indices: 1071944--1072106 Score: 184
Period size: 74 Copynumber: 2.2 Consensus size: 71
1071934 TAACGTTTTC
* * *
1071944 AAAAGTATATATTATATATATTTTAAAAACGTTTTCAAAAACTATATATTATATAATTTTCAAAA
1 AAAACTATATAATATACATATTTTAAAAACGTTTT--AAAACTATATATTATATAATTTTCAAAA
* *
1072009 ATATTTTA
64 ACAATTTA
*
1072017 AAAACTATATAATATACATATTTTCAAAAATGTTTT-AAACTATATATTATATATGTATTTTCAA
1 AAAACTATATAATATACATATTTT-AAAAACGTTTTAAAACTATATATTATATA---ATTTTCAA
*
1072081 AAACAATTTG
62 AAACAATTTA
* *
1072091 CAAACTGTATAATATA
1 AAAACTATATAATATA
1072107 TATGTGTATA
Statistics
Matches: 77, Mismatches: 9, Indels: 7
0.83 0.10 0.08
Matches are distributed among these distances:
71 17 0.22
73 21 0.27
74 39 0.51
ACGTcount: A:0.47, C:0.07, G:0.04, T:0.42
Consensus pattern (71 bp):
AAAACTATATAATATACATATTTTAAAAACGTTTTAAAACTATATATTATATAATTTTCAAAAAC
AATTTA
Found at i:1072106 original size:37 final size:34
Alignment explanation
Indices: 1071981--1072107 Score: 101
Period size: 37 Copynumber: 3.5 Consensus size: 34
1071971 AACGTTTTCA
* * *
1071981 AAAACTATATATTATATAATTTTCAAAAATATTTT
1 AAAACTATATAATATATTATTTTCAAAAA-AATTT
* **
1072016 AAAAACTATATAATATACATATTTTCAAAAATGTTT
1 -AAAACTATATAATATA-TTATTTTCAAAAAAATTT
*
1072052 TAAACTATATATTATATATGTATTTTCAAAAACAATTT
1 AAAACTATATA--ATATAT-TATTTTCAAAAA-AATTT
* *
1072090 GCAAACTGTATAATATAT
1 -AAAACTATATAATATAT
1072108 ATGTGTATAT
Statistics
Matches: 74, Mismatches: 11, Indels: 11
0.77 0.11 0.11
Matches are distributed among these distances:
35 10 0.14
36 18 0.24
37 34 0.46
38 3 0.04
39 9 0.12
ACGTcount: A:0.47, C:0.08, G:0.03, T:0.42
Consensus pattern (34 bp):
AAAACTATATAATATATTATTTTCAAAAAAATTT
Found at i:1072892 original size:165 final size:163
Alignment explanation
Indices: 1072699--1073731 Score: 1121
Period size: 165 Copynumber: 6.2 Consensus size: 163
1072689 GAGTTGAATA
* *
1072699 TAATCGAACTCGAAGGTCTTTAGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTG
1 TAATCGAACTCGAAGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGTTATGCTGCAAATGATGTG
* * * *
1072764 CCTT-GGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTCACAGATAACCCTTCTAGCCTTGA
66 CCTTCGAAGCTGAACGTAGTCGAACTCGAAGGTC-TTTGGT-ACAGATAACCCTTCTAGACTTAA
* * *
1072828 GTTATGCTGTAAATGATGTGCCCTCGAAGCCGAGTG
129 GTTATGCTGCAAATGATGTG-CCTTGAAGCTGAGTG
** * *
1072864 TAATCGAACTCGGGGGTCTTCGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTG
1 TAATCGAACTCGAAGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGTTATGCTGCAAATGATGTG
* * * * *
1072929 CCTT-GGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTCACAGATAACCCTTCTTGCCTTGA
66 CCTTCGAAGCTGAACGTAGTCGAACTCGAAGGTC-TTTGGT-ACAGATAACCCTTCTAGACTTAA
* *
1072993 GTTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTG
129 GTTATGCTGCAAATGATGTG-CCTTGAAGCTGAGTG
** *
1073029 TAATCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGTTATACTGCAAATGATGTG
1 TAATCGAACTCGAAGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGTTATGCTGCAAATGATGTG
* * *
1073094 CCTTCGAAGCTGAACGTAGTCGAACTCGAGGGTCTTTGGTGACAGATAACCCTTCTAGCCTTGAG
66 CCTTCGAAGCTGAACGTAGTCGAACTCGAAGGTCTTTGGT-ACAGATAACCCTTCTAGACTTAAG
* *
1073159 TTATGCTGTAAATGATATGCCCTTGAAGCTGAGTG
130 TTATGCTGCAAATGATGTG-CCTTGAAGCTGAGTG
* * * *
1073194 TAATCGAACT-TAAGGGTCTTTAGTTGGCAGATAACCCTTCTTGACTTAAGTTATACTGCAAATG
1 TAATCGAACTCGAA-GGTC--T--TTGGCAGATAGCCCTTCTCGACTTAAGTTATGCTGCAAATG
* * *
1073258 ATGTGCCTTCGAAGCTGAACGTAGTCGAACTCGAGGGTCTTTGG--CAGATAGCCCTTCTTGACT
61 ATGTGCCTTCGAAGCTGAACGTAGTCGAACTCGAAGGTCTTTGGTACAGATAACCCTTCTAGACT
* * * *
1073321 TAAGCTATTCTGCAAATGATGTGCCTTGGAGCTGAGAG
126 TAAGTTATGCTGCAAATGATGTGCCTTGAAGCTGAGTG
* * * * * * *
1073359 TAGTCGAACTCAAAGGTCTTTGGTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGAT
1 TAATCGAACTCGAAGGTCTTT-G-G-CAGATAGCCCTTCTCGACTTAAGTTATGCTGCAAATGAT
* ** * * * * *
1073424 ATGCCCTT-GAAGCTGAGTGTAATCGAACT-TAAGGGTCTTTAGTTGGCAGATAACCCTTCTCGA
63 GTG-CCTTCGAAGCTGAACGTAGTCGAACTCGAA-GGTCTTT-GGT-ACAGATAACCCTTCTAGA
* *
1073487 CTTAAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCG
124 CTTAAGTTATGCTGCAAATGATGTGCCTTGAAGCTGAGTG
* * * * *
1073527 TAGTCGAACTCAAAGGTCTTTTGTTAGCAGATAACCCTTCTTGACTTAAGTTATACTGCAAATGA
1 TAATCGAACTCGAAGGTC-TTTG---GCAGATAGCCCTTCTCGACTTAAGTTATGCTGCAAATGA
* * *
1073592 TGTGCCTTCGAAGCTGAACGTAGTCGAACTCGAGGGTCTTTGG--CAGATAGCCCTTCTCGACTT
62 TGTGCCTTCGAAGCTGAACGTAGTCGAACTCGAAGGTCTTTGGTACAGATAACCCTTCTAGACTT
* * * * *
1073655 AAGCTATTCTGCAAATGATGTGCCTGGGAGCTGAGCG
127 AAGTTATGCTGCAAATGATGTGCCTTGAAGCTGAGTG
* *
1073692 TAGTCGAACTCGAAGGTCTTGGCGGGCAGATAGCCCTTCT
1 TAATCGAACTCGAAGGTCTT---TGGCAGATAGCCCTTCT
1073732 GGCCTTGAGC
Statistics
Matches: 774, Mismatches: 70, Indels: 49
0.87 0.08 0.05
Matches are distributed among these distances:
161 2 0.00
162 1 0.00
163 3 0.00
164 77 0.10
165 402 0.52
166 62 0.08
167 2 0.00
168 76 0.10
169 147 0.19
170 2 0.00
ACGTcount: A:0.24, C:0.21, G:0.25, T:0.30
Consensus pattern (163 bp):
TAATCGAACTCGAAGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGTTATGCTGCAAATGATGTG
CCTTCGAAGCTGAACGTAGTCGAACTCGAAGGTCTTTGGTACAGATAACCCTTCTAGACTTAAGT
TATGCTGCAAATGATGTGCCTTGAAGCTGAGTG
Found at i:1073174 original size:249 final size:248
Alignment explanation
Indices: 1072699--1073711 Score: 1181
Period size: 249 Copynumber: 4.1 Consensus size: 248
1072689 GAGTTGAATA
* *
1072699 TAATCGAACTCGAAGGTCTTTA----GCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGA
1 TAATCGAACTCGAAGGTCTTTAGGTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGA
* * * *
1072760 TGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTCACAGATAACCCTTCTAGCCT
66 TGTGCCTCGAAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGG---CAGATAACCCTTCTTGACT
* * * * * ** * * *
1072825 TGAGTTATGCTGTAAATGATGTGCCCTCGAAGCCGAGTGTAATCGAACTCGGGGGTC-TTCGGCA
128 TAAGTTATACTGCAAATGATGTGCCTTCGAAGCTGAACGTAGTCGAACTCGAGGGTCTTTGGGCA
* * * *
1072889 GATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTG-CCTTGGAGCTGAGCG
193 GATAACCCTTCTAGACTTAAGCTATGCTGCAAATGATATGCCCTTGAAGCTGAGCG
* * ** * * * *
1072944 TAGTCGAACTCGAAGGTCTTTTGGTCACAGATAACCCTTCTTGCCTTGAGTTATGCTGTAAATGA
1 TAATCGAACTCGAAGGTCTTTAGGTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGA
* * ** * *
1073009 TGTGCCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTC-TTTGGCAGATAGCCCTTCTCGACTTA
66 TGTG-CCTCGAAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGCAGATAACCCTTCTTGACTTA
1073073 AGTTATACTGCAAATGATGTGCCTTCGAAGCTGAACGTAGTCGAACTCGAGGGTCTTTGGTGACA
130 AGTTATACTGCAAATGATGTGCCTTCGAAGCTGAACGTAGTCGAACTCGAGGGTCTTTGG-G-CA
* * * * *
1073138 GATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATATGCCCTTGAAGCTGAGTG
193 GATAACCCTTCTAGACTTAAGCTATGCTGCAAATGATATGCCCTTGAAGCTGAGCG
* * * *
1073194 TAATCGAACT-TAAGGGTCTTTAGTTGGCAGATAACCCTTCTTGACTTAAGTTATACTGCAAATG
1 TAATCGAACTCGAA-GGTCTTTAGGTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATG
* * *
1073258 ATGTGCCTTCGAAGCTGAACGTAGTCGAACTCGAGGGTC-TTTGGCAGATAGCCCTTCTTGACTT
65 ATGTGCC-TCGAAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGCAGATAACCCTTCTTGACTT
* * * * *
1073322 AAGCTATTCTGCAAATGATGTGCCTT-GGAGCTGAGA-GTAGTCGAACTCAAAGGTCTTTGGTGA
129 AAGTTATACTGCAAATGATGTGCCTTCGAAGCTGA-ACGTAGTCGAACTCGAGGGTCTTTGG-G-
* * * * *
1073385 CAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATATGCCCTTGAAGCTGAGTG
191 CAGATAACCCTTCTAGACTTAAGCTATGCTGCAAATGATATGCCCTTGAAGCTGAGCG
* *
1073443 TAATCGAACT-TAAGGGTCTTTAGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATG
1 TAATCGAACTCGAA-GGTCTTTAGGTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATG
* * *
1073507 ATGTGCCTTGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTGTTAGCAGATAACCCTTCTTGAC
65 ATGTGCCTCGAAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTG---GCAGATAACCCTTCTTGAC
1073572 TTAAGTTATACTGCAAATGATGTGCCTTCGAAGCTGAACGTAGTCGAACTCGAGGGTCTTT-GGC
127 TTAAGTTATACTGCAAATGATGTGCCTTCGAAGCTGAACGTAGTCGAACTCGAGGGTCTTTGGGC
* * * * * *
1073636 AGATAGCCCTTCTCGACTTAAGCTATTCTGCAAATGATGTG-CCTGGGAGCTGAGCG
192 AGATAACCCTTCTAGACTTAAGCTATGCTGCAAATGATATGCCCTTGAAGCTGAGCG
*
1073692 TAGTCGAACTCGAAGGTCTT
1 TAATCGAACTCGAAGGTCTT
1073712 GGCGGGCAGA
Statistics
Matches: 666, Mismatches: 83, Indels: 34
0.85 0.11 0.04
Matches are distributed among these distances:
245 20 0.03
246 64 0.10
247 3 0.00
248 27 0.04
249 270 0.41
250 208 0.31
251 1 0.00
252 46 0.07
253 27 0.04
ACGTcount: A:0.24, C:0.21, G:0.25, T:0.30
Consensus pattern (248 bp):
TAATCGAACTCGAAGGTCTTTAGGTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGA
TGTGCCTCGAAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGCAGATAACCCTTCTTGACTTAA
GTTATACTGCAAATGATGTGCCTTCGAAGCTGAACGTAGTCGAACTCGAGGGTCTTTGGGCAGAT
AACCCTTCTAGACTTAAGCTATGCTGCAAATGATATGCCCTTGAAGCTGAGCG
Found at i:1073560 original size:333 final size:328
Alignment explanation
Indices: 1072640--1073731 Score: 1336
Period size: 333 Copynumber: 3.3 Consensus size: 328
1072630 GTTTTATCGA
* * * * * * * *
1072640 CAGATAGCCCTTCTTG-CATTGAGCTATTCTGTAAGCTTGATTTGCCTCTGAGTTGA-ATATAAT
1 CAGATAGCCCTTCTTGAC-TTAAGCTATTCTGCAA--ATGATGTGCCTCGGAGCTGAGA-GTAGT
* *
1072703 CGAACTCGAAGGTCTTTAGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTT
62 CGAACTCGAAGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCTT
* *
1072768 GGAGCTGAGCGTAGTCGAACTCGAA-GGTCTTTTGGTCACAGATAACCCTTCTAGCCTTGAGTTA
127 GAAGCTGAGCGTAGTCGAACTC-AAGGGTC-TTTGGTGACAGATAACCCTTCTAGCCTTGAGTTA
* * ** * *
1072832 TGCTGTAAATGATGTGCCCTCGAAGCCGAGTGTAATCGAACTCGGGGGTC-TTCG--GCAGATAG
190 TGCTGTAAATGATGTGCCCTTGAAGCTGAGTGTAATCGAACTCAAGGGTCTTTAGTTGCAGATAA
* * * * * *
1072894 CCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTT-GGAGCTGAGCGTAGTCGAACTCGAA
255 CCCTTCTTGACTTAAGTTATACTGCAAATGATGTGCCTTCGAAGCTGAACGTAGTCGAACTCGAG
1072958 GGTCTTTTGG
320 GGTC-TTTGG
* * * * * * * * *
1072968 TCACAGATAACCCTTCTTGCCTTGAGTTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTGTAAT
1 ---CAGATAGCCCTTCTTGACTTAAGCTATTCTGCAAATGATGTG-CCTCGGAGCTGAGAGTAGT
** *
1073033 CGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGTTATACTGCAAATGATGTGCCTT
62 CGAACTCGAAGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCTT
* *
1073098 CGAAGCTGAACGTAGTCGAACTCGAGGGTCTTTGGTGACAGATAACCCTTCTAGCCTTGAGTTAT
127 -GAAGCTGAGCGTAGTCGAACTCAAGGGTCTTTGGTGACAGATAACCCTTCTAGCCTTGAGTTAT
* *
1073163 GCTGTAAATGATATGCCCTTGAAGCTGAGTGTAATCGAACTTAAGGGTCTTTAGTTGGCAGATAA
191 GCTGTAAATGATGTGCCCTTGAAGCTGAGTGTAATCGAACTCAAGGGTCTTTAGTT-GCAGATAA
1073228 CCCTTCTTGACTTAAGTTATACTGCAAATGATGTGCCTTCGAAGCTGAACGTAGTCGAACTCGAG
255 CCCTTCTTGACTTAAGTTATACTGCAAATGATGTGCCTTCGAAGCTGAACGTAGTCGAACTCGAG
1073293 GGTCTTTGG
320 GGTCTTTGG
*
1073302 CAGATAGCCCTTCTTGACTTAAGCTATTCTGCAAATGATGTGCCTTGGAGCTGAGAGTAGTCGAA
1 CAGATAGCCCTTCTTGACTTAAGCTATTCTGCAAATGATGTGCCTCGGAGCTGAGAGTAGTCGAA
* * * * * * *
1073367 CTCAAAGGTCTTTGGTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATATGCCCTT
66 CTCGAAGGTCTTT-G-G-CAGATAGCCCTTCTCGACTTAAGTTATGCTGCAAATGATGTG-CCTT
* * * * * * * *
1073432 GAAGCTGAGTGTAATCGAACTTAAGGGTCTTTAGTTGGCAGATAACCCTTCTCGACTTAAGTTAT
127 GAAGCTGAGCGTAGTCGAACTCAAGGGTCTTT-GGTGACAGATAACCCTTCTAGCCTTGAGTTAT
* * * * * *
1073497 GCTGCAAATGATGTG-CCTTGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTGTTAGCAGATAA
191 GCTGTAAATGATGTGCCCTTGAAGCTGAGTGTAATCGAACTCAAGGGTCTTTAGTT-GCAGATAA
1073561 CCCTTCTTGACTTAAGTTATACTGCAAATGATGTGCCTTCGAAGCTGAACGTAGTCGAACTCGAG
255 CCCTTCTTGACTTAAGTTATACTGCAAATGATGTGCCTTCGAAGCTGAACGTAGTCGAACTCGAG
1073626 GGTCTTTGG
320 GGTCTTTGG
* * *
1073635 CAGATAGCCCTTCTCGACTTAAGCTATTCTGCAAATGATGTGCCTGGGAGCTGAGCGTAGTCGAA
1 CAGATAGCCCTTCTTGACTTAAGCTATTCTGCAAATGATGTGCCTCGGAGCTGAGAGTAGTCGAA
*
1073700 CTCGAAGGTCTTGGCGGGCAGATAGCCCTTCT
66 CTCGAAGGTCTT---TGGCAGATAGCCCTTCT
1073732 GGCCTTGAGC
Statistics
Matches: 665, Mismatches: 78, Indels: 34
0.86 0.10 0.04
Matches are distributed among these distances:
329 6 0.01
330 180 0.27
331 93 0.14
332 2 0.00
333 264 0.40
334 93 0.14
335 27 0.04
ACGTcount: A:0.24, C:0.21, G:0.25, T:0.30
Consensus pattern (328 bp):
CAGATAGCCCTTCTTGACTTAAGCTATTCTGCAAATGATGTGCCTCGGAGCTGAGAGTAGTCGAA
CTCGAAGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCTTGAAG
CTGAGCGTAGTCGAACTCAAGGGTCTTTGGTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGT
AAATGATGTGCCCTTGAAGCTGAGTGTAATCGAACTCAAGGGTCTTTAGTTGCAGATAACCCTTC
TTGACTTAAGTTATACTGCAAATGATGTGCCTTCGAAGCTGAACGTAGTCGAACTCGAGGGTCTT
TGG
Found at i:1077134 original size:18 final size:19
Alignment explanation
Indices: 1077093--1077137 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
1077083 AGTTAATGTG
1077093 AATGCAAAGAAAATAACAA
1 AATGCAAAGAAAATAACAA
* *
1077112 AATGCCAAGAAAATAA-GA
1 AATGCAAAGAAAATAACAA
1077130 AATGCAAA
1 AATGCAAA
1077138 ATGTCTAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
18 8 0.35
19 15 0.65
ACGTcount: A:0.64, C:0.11, G:0.13, T:0.11
Consensus pattern (19 bp):
AATGCAAAGAAAATAACAA
Found at i:1077791 original size:17 final size:17
Alignment explanation
Indices: 1077765--1077797 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
1077755 TGCAAACGAT
*
1077765 GAACACAAAATAAAAGA
1 GAACAAAAAATAAAAGA
1077782 GAACAAAAAATAAAAG
1 GAACAAAAAATAAAAG
1077798 GGTTAGTGAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.73, C:0.09, G:0.12, T:0.06
Consensus pattern (17 bp):
GAACAAAAAATAAAAGA
Found at i:1079355 original size:22 final size:22
Alignment explanation
Indices: 1079327--1079368 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
1079317 GTGTAGCCCC
1079327 GGCCGCCGCTCTCAGTCGCTCT
1 GGCCGCCGCTCTCAGTCGCTCT
1079349 GGCCGCCGCTCTCAGTCGCT
1 GGCCGCCGCTCTCAGTCGCT
1079369 TCGGCGGCCG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.05, C:0.45, G:0.29, T:0.21
Consensus pattern (22 bp):
GGCCGCCGCTCTCAGTCGCTCT
Found at i:1079377 original size:25 final size:22
Alignment explanation
Indices: 1079325--1079378 Score: 81
Period size: 22 Copynumber: 2.5 Consensus size: 22
1079315 CGGTGTAGCC
1079325 CCGGCCGCCGCTCTCAGTCGCT
1 CCGGCCGCCGCTCTCAGTCGCT
*
1079347 CTGGCCGCCGCTCTCAGTCGCT
1 CCGGCCGCCGCTCTCAGTCGCT
* *
1079369 TCGGCGGCCG
1 CCGGCCGCCG
1079379 GGCCAACCCA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.04, C:0.46, G:0.31, T:0.19
Consensus pattern (22 bp):
CCGGCCGCCGCTCTCAGTCGCT
Found at i:1080257 original size:26 final size:27
Alignment explanation
Indices: 1080211--1080261 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
1080201 AATAATAATA
1080211 ATATATATATATAAACGTTTTCAAAAAC
1 ATATATATATATAAACGTTTT-AAAAAC
*
1080239 ATATA-ATATATAAA-TTTTTAAAA
1 ATATATATATATAAACGTTTTAAAA
1080262 TGTTTTTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 4 0.18
26 4 0.18
27 9 0.41
28 5 0.23
ACGTcount: A:0.53, C:0.06, G:0.02, T:0.39
Consensus pattern (27 bp):
ATATATATATATAAACGTTTTAAAAAC
Found at i:1080290 original size:41 final size:40
Alignment explanation
Indices: 1080228--1080310 Score: 112
Period size: 41 Copynumber: 2.0 Consensus size: 40
1080218 TATATAAACG
* *
1080228 TTTTCAAAAACATATAATATATAAATTTTTAAAATGTTTT
1 TTTTCAAAAACATATAATATATAAATTTTCAAAATGGTTT
* * *
1080268 TTTTTAAAAACTATATATTATATATATTTTCAAAATGGTTT
1 TTTTCAAAAAC-ATATAATATATAAATTTTCAAAATGGTTT
1080309 TT
1 TT
1080311 AAAAATTATA
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
40 10 0.27
41 27 0.73
ACGTcount: A:0.41, C:0.05, G:0.04, T:0.51
Consensus pattern (40 bp):
TTTTCAAAAACATATAATATATAAATTTTCAAAATGGTTT
Found at i:1080326 original size:41 final size:38
Alignment explanation
Indices: 1080280--1080379 Score: 100
Period size: 43 Copynumber: 2.6 Consensus size: 38
1080270 TTTAAAAACT
* *
1080280 ATATATTATATATATTTTCAAAATGGTTTTTAAAAATTATA
1 ATATATTATATATATTTTCAAAA-CGTTTTCAAAAA--ATA
*
1080321 GTATATATTATATATATTTT-AAAACGTTTTCAAAAACT-
1 --ATATATTATATATATTTTCAAAACGTTTTCAAAAAATA
1080359 ATATA-T-TATATATTTTCAAAA
1 ATATATTATATATATTTTCAAAA
1080380 AATATATTTT
Statistics
Matches: 53, Mismatches: 3, Indels: 10
0.80 0.05 0.15
Matches are distributed among these distances:
34 10 0.19
35 5 0.09
36 5 0.09
39 1 0.02
41 10 0.19
42 4 0.08
43 18 0.34
ACGTcount: A:0.44, C:0.05, G:0.04, T:0.47
Consensus pattern (38 bp):
ATATATTATATATATTTTCAAAACGTTTTCAAAAAATA
Found at i:1080326 original size:43 final size:42
Alignment explanation
Indices: 1080279--1080369 Score: 123
Period size: 41 Copynumber: 2.2 Consensus size: 42
1080269 TTTTAAAAAC
1080279 TATATATTATATATATTTTCAAAATGGTTTTTAAAAATTATA
1 TATATATTATATATATTTTCAAAATGGTTTTTAAAAATTATA
* * *
1080321 GTATATATTATATATATTTT-AAAA-CGTTTTCAAAAACTATA
1 -TATATATTATATATATTTTCAAAATGGTTTTTAAAAATTATA
1080362 TATTATAT
1 TA-TATAT
1080370 ATTTTCAAAA
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
40 2 0.05
41 19 0.43
42 4 0.09
43 19 0.43
ACGTcount: A:0.43, C:0.04, G:0.04, T:0.48
Consensus pattern (42 bp):
TATATATTATATATATTTTCAAAATGGTTTTTAAAAATTATA
Found at i:1080386 original size:15 final size:15
Alignment explanation
Indices: 1080366--1080394 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
1080356 ACTATATATT
1080366 ATATATTTTCAAAAA
1 ATATATTTTCAAAAA
1080381 ATATATTTTCAAAA
1 ATATATTTTCAAAA
1080395 TGGTTTTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (15 bp):
ATATATTTTCAAAAA
Found at i:1080395 original size:92 final size:91
Alignment explanation
Indices: 1080289--1080471 Score: 264
Period size: 90 Copynumber: 2.0 Consensus size: 91
1080279 TATATATTAT
*
1080289 ATATATTTTCAAAATGG-TTTTTAAAAATTATAGTATATATTATATATATTTT-AAAACGTTTTC
1 ATATATTTTCAAAATGGTTTTTTAAAAATTATA-TAT-TA-TATAAATATTTTCAAAACGTTTTC
1080352 AAAAACTATATATTATATAT-TTTCAAAAA
63 -AAAACTATATATTATATATATTTCAAAAA
* *
1080381 ATATATTTTCAAAATGGTTTTTTAAAAATTATATATTATATAAATGTTTTCATAACGTTTTCAAA
1 ATATATTTTCAAAATGGTTTTTTAAAAATTATATATTATATAAATATTTTCAAAACGTTTTCAAA
* *
1080446 AGTATATATTATATATATTTTAAAAA
66 ACTATATATTATATATATTTCAAAAA
1080472 CGTTTTCAAA
Statistics
Matches: 83, Mismatches: 5, Indels: 7
0.87 0.05 0.07
Matches are distributed among these distances:
90 28 0.34
91 20 0.24
92 20 0.24
93 15 0.18
ACGTcount: A:0.44, C:0.05, G:0.05, T:0.46
Consensus pattern (91 bp):
ATATATTTTCAAAATGGTTTTTTAAAAATTATATATTATATAAATATTTTCAAAACGTTTTCAAA
ACTATATATTATATATATTTCAAAAA
Found at i:1080452 original size:36 final size:36
Alignment explanation
Indices: 1080400--1080566 Score: 124
Period size: 36 Copynumber: 4.6 Consensus size: 36
1080390 CAAAATGGTT
* * * * *
1080400 TTTTAAAAATTATATATTATATAAATGTTTTCATAACG
1 TTTTCAAAAGTATATA-T-TATAAATATTTTAAAAACG
*
1080438 TTTTCAAAAGTATATATTATATATATTTTAAAAACG
1 TTTTCAAAAGTATATATTATAAATATTTTAAAAACG
* * **
1080474 TTTTCAAAAACTATATATTATATAAT-TTTCAAAAATA
1 TTTTC-AAAAGTATATATTATA-AATATTTTAAAAACG
* * * * *
1080511 TTTTAAAAACTATATAATATACATATTTTCAAAAATG
1 TTTTCAAAAGTATATATTATAAATATTTT-AAAAACG
*
1080548 TTTT--AAACTATATATTATA
1 TTTTCAAAAGTATATATTATA
1080567 TATGTATTTT
Statistics
Matches: 108, Mismatches: 17, Indels: 11
0.79 0.12 0.08
Matches are distributed among these distances:
35 16 0.15
36 38 0.35
37 38 0.35
38 16 0.15
ACGTcount: A:0.46, C:0.07, G:0.03, T:0.45
Consensus pattern (36 bp):
TTTTCAAAAGTATATATTATAAATATTTTAAAAACG
Found at i:1080497 original size:37 final size:37
Alignment explanation
Indices: 1080381--1080583 Score: 200
Period size: 37 Copynumber: 5.4 Consensus size: 37
1080371 TTTTCAAAAA
** *
1080381 ATATATTTTCAAAATGGTTTTTTAAAAATTATATATTAT
1 ATATATTTTCAAAAACG--TTTTAAAAACTATATATTAT
* * * *
1080420 ATAAATGTTTTC-ATAACGTTTTCAAAAGTATATATTAT
1 AT--ATATTTTCAAAAACGTTTTAAAAACTATATATTAT
1080458 ATATATTTT-AAAAACGTTTTCAAAAACTATATATTAT
1 ATATATTTTCAAAAACGTTTT-AAAAACTATATATTAT
** *
1080495 ATA-ATTTTCAAAAATATTTTAAAAACTATATAATAT
1 ATATATTTTCAAAAACGTTTTAAAAACTATATATTAT
* *
1080531 ACATATTTTCAAAAATGTTTT--AAACTATATATTAT
1 ATATATTTTCAAAAACGTTTTAAAAACTATATATTAT
1080566 ATATGTATTTTCAAAAAC
1 ATA--TATTTTCAAAAAC
1080584 AATTTGCAAA
Statistics
Matches: 138, Mismatches: 18, Indels: 18
0.79 0.10 0.10
Matches are distributed among these distances:
35 15 0.11
36 37 0.27
37 54 0.39
38 20 0.14
39 2 0.01
40 3 0.02
41 7 0.05
ACGTcount: A:0.44, C:0.07, G:0.04, T:0.45
Consensus pattern (37 bp):
ATATATTTTCAAAAACGTTTTAAAAACTATATATTAT
Found at i:1080595 original size:74 final size:71
Alignment explanation
Indices: 1080443--1080605 Score: 184
Period size: 74 Copynumber: 2.2 Consensus size: 71
1080433 TAACGTTTTC
* * *
1080443 AAAAGTATATATTATATATATTTTAAAAACGTTTTCAAAAACTATATATTATATAATTTTCAAAA
1 AAAACTATATAATATACATATTTTAAAAACGTTTT--AAAACTATATATTATATAATTTTCAAAA
* *
1080508 ATATTTTA
64 ACAATTTA
*
1080516 AAAACTATATAATATACATATTTTCAAAAATGTTTT-AAACTATATATTATATATGTATTTTCAA
1 AAAACTATATAATATACATATTTT-AAAAACGTTTTAAAACTATATATTATATA---ATTTTCAA
*
1080580 AAACAATTTG
62 AAACAATTTA
* *
1080590 CAAACTGTATAATATA
1 AAAACTATATAATATA
1080606 TATGTGTATA
Statistics
Matches: 77, Mismatches: 9, Indels: 7
0.83 0.10 0.08
Matches are distributed among these distances:
71 17 0.22
73 21 0.27
74 39 0.51
ACGTcount: A:0.47, C:0.07, G:0.04, T:0.42
Consensus pattern (71 bp):
AAAACTATATAATATACATATTTTAAAAACGTTTTAAAACTATATATTATATAATTTTCAAAAAC
AATTTA
Found at i:1080605 original size:37 final size:34
Alignment explanation
Indices: 1080480--1080606 Score: 101
Period size: 37 Copynumber: 3.5 Consensus size: 34
1080470 AACGTTTTCA
* * *
1080480 AAAACTATATATTATATAATTTTCAAAAATATTTT
1 AAAACTATATAATATATTATTTTCAAAAA-AATTT
* **
1080515 AAAAACTATATAATATACATATTTTCAAAAATGTTT
1 -AAAACTATATAATATA-TTATTTTCAAAAAAATTT
*
1080551 TAAACTATATATTATATATGTATTTTCAAAAACAATTT
1 AAAACTATATA--ATATAT-TATTTTCAAAAA-AATTT
* *
1080589 GCAAACTGTATAATATAT
1 -AAAACTATATAATATAT
1080607 ATGTGTATAT
Statistics
Matches: 74, Mismatches: 11, Indels: 11
0.77 0.11 0.11
Matches are distributed among these distances:
35 10 0.14
36 18 0.24
37 34 0.46
38 3 0.04
39 9 0.12
ACGTcount: A:0.47, C:0.08, G:0.03, T:0.42
Consensus pattern (34 bp):
AAAACTATATAATATATTATTTTCAAAAAAATTT
Found at i:1094432 original size:13 final size:13
Alignment explanation
Indices: 1094416--1094440 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1094406 TTTTGTTTCT
1094416 TATTTTTTTAAAA
1 TATTTTTTTAAAA
1094429 TATTTTTTTAAA
1 TATTTTTTTAAA
1094441 TTAATCACTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (13 bp):
TATTTTTTTAAAA
Found at i:1098188 original size:42 final size:43
Alignment explanation
Indices: 1098075--1098188 Score: 187
Period size: 42 Copynumber: 2.7 Consensus size: 43
1098065 TTTCCGGAAA
*
1098075 TCCCGTGTTTGTTTCATGTAATTCGTTTT-TCGGAAAATATTT
1 TCCCGTGTTTGTTTCACGTAATTCGTTTTCTCGGAAAATATTT
* *
1098117 TCCCGTGTTTGTTTCACGTAATTCATTTTCT-GGAAAATGTTT
1 TCCCGTGTTTGTTTCACGTAATTCGTTTTCTCGGAAAATATTT
1098159 TCCCGTGTTTGTTTCACGTAATTCGTTTTC
1 TCCCGTGTTTGTTTCACGTAATTCGTTTTC
1098189 CGTAACGTAA
Statistics
Matches: 67, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
42 66 0.99
43 1 0.01
ACGTcount: A:0.17, C:0.18, G:0.17, T:0.49
Consensus pattern (43 bp):
TCCCGTGTTTGTTTCACGTAATTCGTTTTCTCGGAAAATATTT
Found at i:1098429 original size:22 final size:23
Alignment explanation
Indices: 1098401--1098470 Score: 63
Period size: 27 Copynumber: 2.9 Consensus size: 23
1098391 AATATATTTT
1098401 TAATATTTATAATAATATAAT-A
1 TAATATTTATAATAATATAATCA
1098423 TAATATTTTTAGTTTAATAATATAATCA
1 TAATA--TTTA---TAATAATATAATCA
*
1098451 -ATTATATTATAATAATATAA
1 TAATAT-TTATAATAATATAA
1098471 GATATTATAT
Statistics
Matches: 40, Mismatches: 1, Indels: 13
0.74 0.02 0.24
Matches are distributed among these distances:
22 5 0.12
23 11 0.28
24 4 0.10
25 1 0.03
26 3 0.08
27 15 0.38
28 1 0.03
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.47
Consensus pattern (23 bp):
TAATATTTATAATAATATAATCA
Found at i:1098522 original size:30 final size:29
Alignment explanation
Indices: 1098453--1098558 Score: 105
Period size: 30 Copynumber: 3.6 Consensus size: 29
1098443 TATAATCAAT
*
1098453 TATATTATAATAATATA-AGATATTATATTTTT
1 TATATT-TAATAATATATA-ATATT-T-TTTTA
1098485 TAT-TTTAATAATATATAATAATTTTTTTA
1 TATATTTAATAATATATAAT-ATTTTTTTA
1098514 TATATTTAATAATGA-ATAATA-TTTTTTA
1 TATATTTAATAAT-ATATAATATTTTTTTA
*
1098542 TATATTTAA-AACATATA
1 TATATTTAATAATATATA
1098559 CTAGTAAAGA
Statistics
Matches: 67, Mismatches: 2, Indels: 15
0.80 0.02 0.18
Matches are distributed among these distances:
26 1 0.01
27 5 0.07
28 16 0.24
29 8 0.12
30 27 0.40
31 7 0.10
32 3 0.04
ACGTcount: A:0.44, C:0.01, G:0.02, T:0.53
Consensus pattern (29 bp):
TATATTTAATAATATATAATATTTTTTTA
Found at i:1098584 original size:23 final size:23
Alignment explanation
Indices: 1098543--1098604 Score: 70
Period size: 23 Copynumber: 2.6 Consensus size: 23
1098533 TATTTTTTAT
*
1098543 ATATTTAAAACATATACTAGTAAAG
1 ATATTT-AAA-ATATACTAATAAAG
* *
1098568 ATATTTAAAATATACTAATTAAT
1 ATATTTAAAATATACTAATAAAG
*
1098591 ATTTTTAAAATATA
1 ATATTTAAAATATA
1098605 ATATAACACT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
23 24 0.73
24 3 0.09
25 6 0.18
ACGTcount: A:0.52, C:0.05, G:0.03, T:0.40
Consensus pattern (23 bp):
ATATTTAAAATATACTAATAAAG
Found at i:1098942 original size:20 final size:20
Alignment explanation
Indices: 1098885--1098934 Score: 82
Period size: 20 Copynumber: 2.5 Consensus size: 20
1098875 TTTTCGTATG
*
1098885 TTTTCTAGAAATGTAATTCA
1 TTTTCCAGAAATGTAATTCA
1098905 TTTTCCAGAAATGTAATTCA
1 TTTTCCAGAAATGTAATTCA
*
1098925 TTTTTCAGAA
1 TTTTCCAGAA
1098935 TTTAAATTAC
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:0.34, C:0.12, G:0.10, T:0.44
Consensus pattern (20 bp):
TTTTCCAGAAATGTAATTCA
Found at i:1098950 original size:29 final size:30
Alignment explanation
Indices: 1098917--1098989 Score: 112
Period size: 30 Copynumber: 2.5 Consensus size: 30
1098907 TTCCAGAAAT
* *
1098917 GTAATTCATTTTTCAG-AATTTAAATTACA
1 GTAATTCATTTTCCAGTAATTCAAATTACA
*
1098946 GTAATTCATTTTCCAGTAATTCAAATTCCA
1 GTAATTCATTTTCCAGTAATTCAAATTACA
1098976 GTAATTCATTTTCC
1 GTAATTCATTTTCC
1098990 GGAAAATCAA
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
29 15 0.38
30 25 0.62
ACGTcount: A:0.33, C:0.16, G:0.07, T:0.44
Consensus pattern (30 bp):
GTAATTCATTTTCCAGTAATTCAAATTACA
Found at i:1098962 original size:15 final size:15
Alignment explanation
Indices: 1098917--1098989 Score: 76
Period size: 15 Copynumber: 4.9 Consensus size: 15
1098907 TTCCAGAAAT
*
1098917 GTAATTCATTTTTCA
1 GTAATTCATTTTCCA
* ** *
1098932 G-AATTTAAATTACA
1 GTAATTCATTTTCCA
1098946 GTAATTCATTTTCCA
1 GTAATTCATTTTCCA
**
1098961 GTAATTCAAATTCCA
1 GTAATTCATTTTCCA
1098976 GTAATTCATTTTCC
1 GTAATTCATTTTCC
1098990 GGAAAATCAA
Statistics
Matches: 45, Mismatches: 12, Indels: 2
0.76 0.20 0.03
Matches are distributed among these distances:
14 10 0.22
15 35 0.78
ACGTcount: A:0.33, C:0.16, G:0.07, T:0.44
Consensus pattern (15 bp):
GTAATTCATTTTCCA
Found at i:1099087 original size:30 final size:29
Alignment explanation
Indices: 1099061--1099142 Score: 112
Period size: 30 Copynumber: 2.8 Consensus size: 29
1099051 TTCTGGAAAA
1099061 TGAATTATT-AAAATTTGAATTACTGGAATT
1 TGAATTATTGAAAA--TGAATTACTGGAATT
*
1099091 TAAATTATTGGAAAATGAATTACTGGAATT
1 TGAATTATT-GAAAATGAATTACTGGAATT
*
1099121 TGAATTATGGAAAATGAATTAC
1 TGAATTATTGAAAATGAATTAC
1099143 ATTTCTAGAA
Statistics
Matches: 47, Mismatches: 3, Indels: 5
0.85 0.05 0.09
Matches are distributed among these distances:
29 13 0.28
30 30 0.64
32 4 0.09
ACGTcount: A:0.43, C:0.04, G:0.16, T:0.38
Consensus pattern (29 bp):
TGAATTATTGAAAATGAATTACTGGAATT
Found at i:1099090 original size:15 final size:15
Alignment explanation
Indices: 1099072--1099142 Score: 81
Period size: 15 Copynumber: 4.8 Consensus size: 15
1099062 GAATTATTAA
1099072 AATTTGAATTACTGG
1 AATTTGAATTACTGG
* *
1099087 AATTTAAATTATTGG
1 AATTTGAATTACTGG
**
1099102 AAAATGAATTACTGG
1 AATTTGAATTACTGG
1099117 AATTTGAATTA-TGG
1 AATTTGAATTACTGG
**
1099131 AAAATGAATTAC
1 AATTTGAATTAC
1099143 ATTTCTAGAA
Statistics
Matches: 45, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
14 12 0.27
15 33 0.73
ACGTcount: A:0.42, C:0.04, G:0.17, T:0.37
Consensus pattern (15 bp):
AATTTGAATTACTGG
Found at i:1099141 original size:29 final size:30
Alignment explanation
Indices: 1099076--1099142 Score: 118
Period size: 30 Copynumber: 2.3 Consensus size: 30
1099066 TATTAAAATT
1099076 TGAATTACTGGAATTTAAATTATTGGAAAA
1 TGAATTACTGGAATTTAAATTATTGGAAAA
*
1099106 TGAATTACTGGAATTTGAATTA-TGGAAAA
1 TGAATTACTGGAATTTAAATTATTGGAAAA
1099135 TGAATTAC
1 TGAATTAC
1099143 ATTTCTAGAA
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
29 15 0.42
30 21 0.58
ACGTcount: A:0.42, C:0.04, G:0.18, T:0.36
Consensus pattern (30 bp):
TGAATTACTGGAATTTAAATTATTGGAAAA
Found at i:1099334 original size:23 final size:23
Alignment explanation
Indices: 1099286--1099344 Score: 57
Period size: 23 Copynumber: 2.6 Consensus size: 23
1099276 ATATAATAAA
*
1099286 TAATATTATTTATCATAAAACTT
1 TAATATTATTTATCATAAAAATT
**
1099309 TAATATTA-TTATTTTAAAAATAT
1 TAATATTATTTATCATAAAAAT-T
* *
1099332 TAAAATAATTTAT
1 TAATATTATTTAT
1099345 TTATTATTAA
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
22 10 0.34
23 15 0.52
24 4 0.14
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.49
Consensus pattern (23 bp):
TAATATTATTTATCATAAAAATT
Found at i:1099373 original size:50 final size:52
Alignment explanation
Indices: 1099274--1099374 Score: 118
Period size: 50 Copynumber: 2.0 Consensus size: 52
1099264 TACAAATATT
*
1099274 AAATATAATAAATAATATTATTTATCATAAAACTTTAATATTATTATTTTAA
1 AAATATAATAAATAATATTATTTATCATAAAACTTTAATATTATAATTTTAA
* * * * *
1099326 AAATATTA-AAATAAT-TTATTTATTATTAAA-TATTATTTTTATAATTTTA
1 AAATATAATAAATAATATTATTTATCATAAAACT-TTAATATTATAATTTTA
1099375 TTAATAAAAA
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
49 1 0.02
50 27 0.64
51 7 0.17
52 7 0.17
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (52 bp):
AAATATAATAAATAATATTATTTATCATAAAACTTTAATATTATAATTTTAA
Found at i:1099477 original size:91 final size:87
Alignment explanation
Indices: 1099323--1099494 Score: 204
Period size: 89 Copynumber: 1.9 Consensus size: 87
1099313 ATTATTATTT
* * * * *
1099323 TAAAAATATTAAAATAATTTATTTATTATTAAATATTATTTTTATAATTTTATTAATAAAAATAT
1 TAAAAATATTAAAATAATTTAATTATTATTAAATAATAGTGTTATAATTATATTAATAAAAATAT
*
1099388 TAATATTGGTATATTTTAGTGAAA
66 T-A-ATTAGTATATTTTAGTGAAA
* *
1099412 TAAAAATATTATAAATTATATTAATTATTTATTAAAGTAATAGTGTTAT-ATTATATT-TTAAAA
1 TAAAAATATTA-AAATAAT-TTAATTA-TTATTAAA-TAATAGTGTTATAATTATATTAATAAAA
1099475 ATATTAATTAGTATATTTTA
62 ATATTAATTAGTATATTTTA
1099495 AATATCTTTA
Statistics
Matches: 71, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
89 24 0.34
90 7 0.10
91 16 0.23
92 15 0.21
93 9 0.13
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (87 bp):
TAAAAATATTAAAATAATTTAATTATTATTAAATAATAGTGTTATAATTATATTAATAAAAATAT
TAATTAGTATATTTTAGTGAAA
Found at i:1099695 original size:21 final size:23
Alignment explanation
Indices: 1099650--1099699 Score: 63
Period size: 22 Copynumber: 2.3 Consensus size: 23
1099640 ATAATATTAA
1099650 AAATA-TAATATAATATTGTTAT
1 AAATATTAATATAATATTGTTAT
1099672 AAATATTAATA-AATATAT-TT-T
1 AAATATTAATATAATAT-TGTTAT
1099693 AAATATT
1 AAATATT
1099700 TTAATAATTA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
21 8 0.31
22 12 0.46
23 6 0.23
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (23 bp):
AAATATTAATATAATATTGTTAT
Found at i:1099997 original size:41 final size:42
Alignment explanation
Indices: 1099913--1100004 Score: 141
Period size: 41 Copynumber: 2.2 Consensus size: 42
1099903 TTACTTCAAC
* * *
1099913 CAAACACTGGAAAACATTTTCCGGAAAACGAATTACGTGAAA
1 CAAACACAGGAAAACATTTTCCGGAAAACGAATTACATAAAA
*
1099955 CAAACACAGGAAAATATTTT-CGGAAAACGAATTACATAAAA
1 CAAACACAGGAAAACATTTTCCGGAAAACGAATTACATAAAA
1099996 CAAACACAG
1 CAAACACAG
1100005 AATTTAAAAA
Statistics
Matches: 46, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
41 28 0.61
42 18 0.39
ACGTcount: A:0.50, C:0.18, G:0.14, T:0.17
Consensus pattern (42 bp):
CAAACACAGGAAAACATTTTCCGGAAAACGAATTACATAAAA
Found at i:1101326 original size:18 final size:19
Alignment explanation
Indices: 1101291--1101327 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
1101281 CACGGAATGT
1101291 AAGATTACCAGTGGGAATAA
1 AAGATTACCAG-GGGAATAA
1101311 AAGATTACCA-GGGAATA
1 AAGATTACCAGGGGAATA
1101328 GGATTACTGG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.41
20 10 0.59
ACGTcount: A:0.46, C:0.11, G:0.24, T:0.19
Consensus pattern (19 bp):
AAGATTACCAGGGGAATAA
Found at i:1103776 original size:34 final size:34
Alignment explanation
Indices: 1103733--1103803 Score: 142
Period size: 34 Copynumber: 2.1 Consensus size: 34
1103723 TCAATTATGG
1103733 TTATTATCCTTGCATTATCCTTGGACATGAAAAT
1 TTATTATCCTTGCATTATCCTTGGACATGAAAAT
1103767 TTATTATCCTTGCATTATCCTTGGACATGAAAAT
1 TTATTATCCTTGCATTATCCTTGGACATGAAAAT
1103801 TTA
1 TTA
1103804 CTTCAGATAC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 37 1.00
ACGTcount: A:0.30, C:0.17, G:0.11, T:0.42
Consensus pattern (34 bp):
TTATTATCCTTGCATTATCCTTGGACATGAAAAT
Found at i:1104339 original size:7 final size:7
Alignment explanation
Indices: 1104327--1104389 Score: 126
Period size: 7 Copynumber: 9.0 Consensus size: 7
1104317 TTGAACGTTG
1104327 GGAGAGA
1 GGAGAGA
1104334 GGAGAGA
1 GGAGAGA
1104341 GGAGAGA
1 GGAGAGA
1104348 GGAGAGA
1 GGAGAGA
1104355 GGAGAGA
1 GGAGAGA
1104362 GGAGAGA
1 GGAGAGA
1104369 GGAGAGA
1 GGAGAGA
1104376 GGAGAGA
1 GGAGAGA
1104383 GGAGAGA
1 GGAGAGA
1104390 TTGAAGGGTT
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 56 1.00
ACGTcount: A:0.43, C:0.00, G:0.57, T:0.00
Consensus pattern (7 bp):
GGAGAGA
Found at i:1105541 original size:187 final size:188
Alignment explanation
Indices: 1105204--1105581 Score: 553
Period size: 187 Copynumber: 2.0 Consensus size: 188
1105194 TCAATGAATT
* * *
1105204 TTTAACCTTTTCCTTGTATATGTTTCTTGTATAATCTCAAGTAACTAATTTTTTATATCAATAAT
1 TTTAACCTTTTCCTTATATATCTTTCTTGTATAATCTCAAGTAACTAATTTCTTATATCAATAAT
* * * * *
1105269 TATAAGAAAATATTATATTTACATGTTTAATTTACGACTATAGTTATAAACATTCATTATAATTT
66 TATAAAAAAATATTATATTTACATATTTAATTTACAACTATAATTATAAACATTCATTACAATTT
* ** *
1105334 TGAATATTCTTTATTTTTAATATAACTAACTATTTCTTTAT-ATAAATGAATTATGACA
131 TAAATATTCTCCATTTTTAATATAACTAACTATTTCTTTATAAAAAAT-AATTATGACA
* * *
1105392 TTTAACTTTTTCC-TATATATCTTTCTTGTATGATCTCAAGTAACTAATTTCTTATGTCAATAAT
1 TTTAACCTTTTCCTTATATATCTTTCTTGTATAATCTCAAGTAACTAATTTCTTATATCAATAAT
* * * *
1105456 TGTAAAAAAATATTCTATTTACATATTTAATTTACAACTGTAATTATAAACATTTATTACAATTT
66 TATAAAAAAATATTATATTTACATATTTAATTTACAACTATAATTATAAACATTCATTACAATTT
*
1105521 TAAATATTCTCCATTTTTAATATAACTAACTGTTTCTTTATAAAAAATAATTATGACA
131 TAAATATTCTCCATTTTTAATATAACTAACTATTTCTTTATAAAAAATAATTATGACA
1105579 TTT
1 TTT
1105582 TTTTTTAACT
Statistics
Matches: 169, Mismatches: 20, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
187 152 0.90
188 17 0.10
ACGTcount: A:0.37, C:0.11, G:0.05, T:0.47
Consensus pattern (188 bp):
TTTAACCTTTTCCTTATATATCTTTCTTGTATAATCTCAAGTAACTAATTTCTTATATCAATAAT
TATAAAAAAATATTATATTTACATATTTAATTTACAACTATAATTATAAACATTCATTACAATTT
TAAATATTCTCCATTTTTAATATAACTAACTATTTCTTTATAAAAAATAATTATGACA
Found at i:1112089 original size:45 final size:47
Alignment explanation
Indices: 1112038--1112125 Score: 135
Period size: 45 Copynumber: 1.9 Consensus size: 47
1112028 CGAATAAATG
* *
1112038 CATGCGAACTAGATATCATGCGGTTA-GGTTTATTTTT-TGAACAAT
1 CATGCGAACTAGATATCATGCAGTTATGATTTATTTTTGTGAACAAT
*
1112083 CATGCGAATTAGATATCATGCAGTTATGATTTATTTTTGTGAA
1 CATGCGAACTAGATATCATGCAGTTATGATTTATTTTTGTGAA
1112126 TAACAAAGCA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
45 24 0.63
46 10 0.26
47 4 0.11
ACGTcount: A:0.30, C:0.11, G:0.19, T:0.40
Consensus pattern (47 bp):
CATGCGAACTAGATATCATGCAGTTATGATTTATTTTTGTGAACAAT
Found at i:1121825 original size:27 final size:28
Alignment explanation
Indices: 1121794--1121862 Score: 79
Period size: 28 Copynumber: 2.5 Consensus size: 28
1121784 AATAAAAGAG
* *
1121794 AAAAATGA-AAAAATGAAAAAAAAATAAT
1 AAAAATGAGAAAAA-GAAAAAAAAAGAAA
* *
1121822 AAAAATGAGAAGAAGAAAAACAAAG-AA
1 AAAAATGAGAAAAAGAAAAAAAAAGAAA
1121849 AAAAATGAGAAAAA
1 AAAAATGAGAAAAA
1121863 AAGGAAAATG
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
27 14 0.40
28 17 0.49
29 4 0.11
ACGTcount: A:0.77, C:0.01, G:0.13, T:0.09
Consensus pattern (28 bp):
AAAAATGAGAAAAAGAAAAAAAAAGAAA
Found at i:1121872 original size:17 final size:17
Alignment explanation
Indices: 1121850--1121896 Score: 53
Period size: 18 Copynumber: 2.8 Consensus size: 17
1121840 AACAAAGAAA
*
1121850 AAAATGAGAAAAAAAGG
1 AAAATGAGAAAAAAACG
*
1121867 AAAATGATGGAAAAAACG
1 AAAATGA-GAAAAAAACG
1121885 AAAA-GA-AAAAAA
1 AAAATGAGAAAAAA
1121897 GAAGAAAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
15 5 0.19
17 9 0.35
18 12 0.46
ACGTcount: A:0.72, C:0.02, G:0.19, T:0.06
Consensus pattern (17 bp):
AAAATGAGAAAAAAACG
Found at i:1121895 original size:25 final size:26
Alignment explanation
Indices: 1121876--1121929 Score: 71
Period size: 24 Copynumber: 2.2 Consensus size: 26
1121866 GAAAATGATG
1121876 GAAAAAA-CGAAAA-GAAAAAAAGAA
1 GAAAAAATCGAAAATGAAAAAAAGAA
*
1121900 GAAAAAATGGAAAATG-AAAAAAG-A
1 GAAAAAATCGAAAATGAAAAAAAGAA
1121924 GAAAAA
1 GAAAAA
1121930 TGAAAAAAAG
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
24 14 0.52
25 12 0.44
26 1 0.04
ACGTcount: A:0.76, C:0.02, G:0.19, T:0.04
Consensus pattern (26 bp):
GAAAAAATCGAAAATGAAAAAAAGAA
Found at i:1121903 original size:43 final size:40
Alignment explanation
Indices: 1121843--1121952 Score: 125
Period size: 43 Copynumber: 2.6 Consensus size: 40
1121833 GAAGAAAAAC
1121843 AAAGAAAAAAATGAGAAAAAAAGGAAAATGATGGAAAAA-ACG-A
1 AAAGAAAAAAA-GAGAAAAAAAGGAAAATGA---AAAAAGA-GAA
*
1121886 AAAGAAAAAAAGAAGAAAAAATGGAAAATGAAAAAAGAGAA
1 AAAGAAAAAAAG-AGAAAAAAAGGAAAATGAAAAAAGAGAA
1121927 AAATGAAAAAAAGAGAAATAAAAGGA
1 AAA-GAAAAAAAGAGAAA-AAAAGGA
1121953 GAGTTCAAGA
Statistics
Matches: 60, Mismatches: 2, Indels: 11
0.82 0.03 0.15
Matches are distributed among these distances:
40 6 0.10
41 10 0.17
42 16 0.27
43 28 0.47
ACGTcount: A:0.73, C:0.01, G:0.20, T:0.06
Consensus pattern (40 bp):
AAAGAAAAAAAGAGAAAAAAAGGAAAATGAAAAAAGAGAA
Found at i:1121945 original size:15 final size:16
Alignment explanation
Indices: 1121910--1121944 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 16
1121900 GAAAAAATGG
1121910 AAAATGAAAAAAGAGA
1 AAAATGAAAAAAGAGA
1121926 AAAATGAAAAAAAGAGA
1 AAAATG-AAAAAAGAGA
1121943 AA
1 AA
1121945 TAAAAGGAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 6 0.33
17 12 0.67
ACGTcount: A:0.77, C:0.00, G:0.17, T:0.06
Consensus pattern (16 bp):
AAAATGAAAAAAGAGA
Found at i:1123243 original size:37 final size:37
Alignment explanation
Indices: 1123193--1123265 Score: 146
Period size: 37 Copynumber: 2.0 Consensus size: 37
1123183 TCGAAATAGT
1123193 TCAATCTTAAGCCTTCACGGAAGAGTAGTGAAGCAAG
1 TCAATCTTAAGCCTTCACGGAAGAGTAGTGAAGCAAG
1123230 TCAATCTTAAGCCTTCACGGAAGAGTAGTGAAGCAA
1 TCAATCTTAAGCCTTCACGGAAGAGTAGTGAAGCAA
1123266 ACTTATTTTA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.36, C:0.19, G:0.23, T:0.22
Consensus pattern (37 bp):
TCAATCTTAAGCCTTCACGGAAGAGTAGTGAAGCAAG
Found at i:1123414 original size:55 final size:54
Alignment explanation
Indices: 1123282--1123711 Score: 434
Period size: 55 Copynumber: 8.0 Consensus size: 54
1123272 TTTATGAAGA
*
1123282 TCGAGTCCTATACTCTCTGAAGGAATAGGGAGCAGACACGTTTGTTGAAGA----
1 TCGAGTTCTATACTCTCTGAAGGAATAGGGAGCAGACACGTTT-TTGAAGATTGT
* *
1123333 TCGAGTTCTATACTCTCTGAAGGAATAGAGAGCGGACACGTTTTATGAAGATTGT
1 TCGAGTTCTATACTCTCTGAAGGAATAGGGAGCAGACACGTTTT-TGAAGATTGT
* * * *
1123388 TCGGGTTCTATACTCCCTGAACGAATAGGGAGCATACACGTTTGTTGAAGATTGT
1 TCGAGTTCTATACTCTCTGAAGGAATAGGGAGCAGACACGTTT-TTGAAGATTGT
* *
1123443 TCGAGTCCTATACTCTCTGAAGGAATAGGGAGCAGACACGTTTATTGAA-A---A
1 TCGAGTTCTATACTCTCTGAAGGAATAGGGAGCAGACACGTTT-TTGAAGATTGT
* * * * *
1123494 TCGAG-TCTTATACTCTATGAAGGAATAGGGAGCGGACCCGGTTGTTGAAGATTAT
1 TCGAGTTC-TATACTCTCTGAAGGAATAGGGAGCAGACAC-GTTTTTGAAGATTGT
* * *
1123549 TCGAGTACTATACTCCCTGAACGAATAGGGAGCAGACACGTTTATTGAAGATTGT
1 TCGAGTTCTATACTCTCTGAAGGAATAGGGAGCAGACACGTTT-TTGAAGATTGT
* * * ***
1123604 TTGAG-TCTTATACTCCCTGAATGAATAGGGAGCAGACACGTTTGCCAAGGATTGT
1 TCGAGTTC-TATACTCTCTGAAGGAATAGGGAGCAGACACGTTTTTGAA-GATTGT
* * *
1123659 TCGAG-TCTTATACTC-CTTGAAAGAAAAGGGAGCAGACCCGTTATTTGAAGATT
1 TCGAGTTC-TATACTCTC-TGAAGGAATAGGGAGCAGACACGTT-TTTGAAGATT
1123712 TTTCAAGTAT
Statistics
Matches: 318, Mismatches: 43, Indels: 32
0.81 0.11 0.08
Matches are distributed among these distances:
50 2 0.01
51 84 0.26
52 4 0.01
54 8 0.03
55 215 0.68
56 5 0.02
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.28
Consensus pattern (54 bp):
TCGAGTTCTATACTCTCTGAAGGAATAGGGAGCAGACACGTTTTTGAAGATTGT
Found at i:1123421 original size:106 final size:107
Alignment explanation
Indices: 1123282--1123647 Score: 440
Period size: 106 Copynumber: 3.4 Consensus size: 107
1123272 TTTATGAAGA
* * *
1123282 TCGAGTCCTATACTCTCTGAAGGAATAGGGAGCAGACACGTTTGTTGAAGA-TCGAGTTCTATAC
1 TCGAGTCTTATACTCCCTGAAGGAATAGGGAGCAGACACGTTTGTTGAAGATTCGAGTACTATAC
* *
1123346 TCTCTGAAGGAATAGAGAGCGGACACGTTT-TATGAAGATTGT
66 TCTCTGAAGGAATAGGGAGCAGACACGTTTAT-TGAAGATTGT
* * * *
1123388 TCGGGT-TCTATACTCCCTGAACGAATAGGGAGCATACACGTTTGTTGAAGATTGTTCGAGTCCT
1 TCGAGTCT-TATACTCCCTGAAGGAATAGGGAGCAGACACGTTTGTTGAAGA---TTCGAGTACT
*
1123452 ATACTCTCTGAAGGAATAGGGAGCAGACACGTTTATTGAA-A---A
62 ATACTCTCTGAAGGAATAGGGAGCAGACACGTTTATTGAAGATTGT
** * * *
1123494 TCGAGTCTTATACTCTATGAAGGAATAGGGAGCGGACCCGGTTGTTGAAGATTATTCGAGTACTA
1 TCGAGTCTTATACTCCCTGAAGGAATAGGGAGCAGACACGTTTGTTGAAG---ATTCGAGTACTA
* *
1123559 TACTCCCTGAACGAATAGGGAGCAGACACGTTTATTGAAGATTGT
63 TACTCTCTGAAGGAATAGGGAGCAGACACGTTTATTGAAGATTGT
* *
1123604 TTGAGTCTTATACTCCCTGAATGAATAGGGAGCAGACACGTTTG
1 TCGAGTCTTATACTCCCTGAAGGAATAGGGAGCAGACACGTTTG
1123648 CCAAGGATTG
Statistics
Matches: 218, Mismatches: 28, Indels: 24
0.81 0.10 0.09
Matches are distributed among these distances:
106 132 0.61
107 2 0.01
109 2 0.01
110 81 0.37
111 1 0.00
ACGTcount: A:0.29, C:0.17, G:0.26, T:0.28
Consensus pattern (107 bp):
TCGAGTCTTATACTCCCTGAAGGAATAGGGAGCAGACACGTTTGTTGAAGATTCGAGTACTATAC
TCTCTGAAGGAATAGGGAGCAGACACGTTTATTGAAGATTGT
Found at i:1123562 original size:161 final size:161
Alignment explanation
Indices: 1123282--1123646 Score: 563
Period size: 161 Copynumber: 2.3 Consensus size: 161
1123272 TTTATGAAGA
* *
1123282 TCGAGTCCTATACTCTCTGAAGGAATAGGGAGCAGACACGTTTGTTGAAGATCGAGTTCTATACT
1 TCGAGTCCTATACTCTCTGAAGGAATAGGGAGCAGACACGTTTATTGAAAATCGAGTTCTATACT
* * * * *
1123347 CTCTGAAGGAATAGAGAGCGGACACGTTTTATGAAGATTGTTCGGGTTCTATACTCCCTGAACGA
66 CTATGAAGGAATAGAGAGCGGACACGTTGTATGAAGATTATTCGAGTACTATACTCCCTGAACGA
* *
1123412 ATAGGGAGCATACACGTTTGTTGAAGATTGT
131 ATAGGGAGCAGACACGTTTATTGAAGATTGT
1123443 TCGAGTCCTATACTCTCTGAAGGAATAGGGAGCAGACACGTTTATTGAAAATCGAG-TCTTATAC
1 TCGAGTCCTATACTCTCTGAAGGAATAGGGAGCAGACACGTTTATTGAAAATCGAGTTC-TATAC
* *
1123507 TCTATGAAGGAATAGGGAGCGGACCCGGTTGT-TGAAGATTATTCGAGTACTATACTCCCTGAAC
65 TCTATGAAGGAATAGAGAGCGGACAC-GTTGTATGAAGATTATTCGAGTACTATACTCCCTGAAC
1123571 GAATAGGGAGCAGACACGTTTATTGAAGATTGT
129 GAATAGGGAGCAGACACGTTTATTGAAGATTGT
* * * *
1123604 TTGAGTCTTATACTCCCTGAATGAATAGGGAGCAGACACGTTT
1 TCGAGTCCTATACTCTCTGAAGGAATAGGGAGCAGACACGTTT
1123647 GCCAAGGATT
Statistics
Matches: 187, Mismatches: 15, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
160 2 0.01
161 181 0.97
162 4 0.02
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.28
Consensus pattern (161 bp):
TCGAGTCCTATACTCTCTGAAGGAATAGGGAGCAGACACGTTTATTGAAAATCGAGTTCTATACT
CTATGAAGGAATAGAGAGCGGACACGTTGTATGAAGATTATTCGAGTACTATACTCCCTGAACGA
ATAGGGAGCAGACACGTTTATTGAAGATTGT
Found at i:1129865 original size:21 final size:21
Alignment explanation
Indices: 1129841--1129901 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 21
1129831 AACTTTGAAA
1129841 AAATGGTTTTCAAAGTTTGGT
1 AAATGGTTTTCAAAGTTTGGT
*
1129862 AAAT-G-TTT---A-TTT-GA
1 AAATGGTTTTCAAAGTTTGGT
1129876 AAATGGTTTTCAAAGTTTGGT
1 AAATGGTTTTCAAAGTTTGGT
1129897 AAATG
1 AAATG
1129902 TTTATGTGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 14
0.66 0.04 0.30
Matches are distributed among these distances:
14 5 0.16
15 4 0.13
16 4 0.13
19 4 0.13
20 4 0.13
21 10 0.32
ACGTcount: A:0.33, C:0.03, G:0.21, T:0.43
Consensus pattern (21 bp):
AAATGGTTTTCAAAGTTTGGT
Found at i:1129878 original size:37 final size:36
Alignment explanation
Indices: 1129834--1129952 Score: 170
Period size: 35 Copynumber: 3.3 Consensus size: 36
1129824 GGCAACCAAC
1129834 TTTGAAAAAATGGTTTTCAAAGTTTGGTAAATGTTTA
1 TTTG-AAAAATGGTTTTCAAAGTTTGGTAAATGTTTA
1129871 TTTG-AAAATGGTTTTCAAAGTTTGGTAAATGTTTA
1 TTTGAAAAATGGTTTTCAAAGTTTGGTAAATGTTTA
* * *
1129906 TGTGAAAAATAGTTTTTCAAAGTTTGGTAGATGTTT-
1 TTTGAAAAAT-GGTTTTCAAAGTTTGGTAAATGTTTA
*
1129942 GTTGAAAAATG
1 TTTGAAAAATG
1129953 ATAATAGAAT
Statistics
Matches: 75, Mismatches: 5, Indels: 6
0.87 0.06 0.07
Matches are distributed among these distances:
35 35 0.47
36 13 0.17
37 27 0.36
ACGTcount: A:0.34, C:0.03, G:0.21, T:0.43
Consensus pattern (36 bp):
TTTGAAAAATGGTTTTCAAAGTTTGGTAAATGTTTA
Found at i:1134485 original size:21 final size:20
Alignment explanation
Indices: 1134461--1134524 Score: 59
Period size: 21 Copynumber: 3.4 Consensus size: 20
1134451 CAACTTTGAA
1134461 AAATGATTTTCAAAGTTTGGT
1 AAATG-TTTTCAAAGTTTGGT
*
1134482 AAATG-TTTC----TTT-GA
1 AAATGTTTTCAAAGTTTGGT
1134496 AAATGCTTTTCAAAGTTTGGT
1 AAATG-TTTTCAAAGTTTGGT
1134517 AAATGTTT
1 AAATGTTT
1134525 CTTTGAAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 15
0.67 0.04 0.29
Matches are distributed among these distances:
14 6 0.18
15 3 0.09
16 4 0.12
19 4 0.12
20 6 0.18
21 11 0.32
ACGTcount: A:0.31, C:0.06, G:0.17, T:0.45
Consensus pattern (20 bp):
AAATGTTTTCAAAGTTTGGT
Found at i:1134567 original size:36 final size:36
Alignment explanation
Indices: 1134454--1134574 Score: 183
Period size: 35 Copynumber: 3.4 Consensus size: 36
1134444 TGGCAACCAA
1134454 CTTTGAAAAATGATTTTCAAAGTTTGGTAAATGTTT
1 CTTTGAAAAATGATTTTCAAAGTTTGGTAAATGTTT
*
1134490 CTTTG-AAAATGCTTTTCAAAGTTTGGTAAATGTTT
1 CTTTGAAAAATGATTTTCAAAGTTTGGTAAATGTTT
* *
1134525 CTTTGAAAAATAGTTTTTCAAAGTTTGGTAGATGTTT
1 CTTTGAAAAAT-GATTTTCAAAGTTTGGTAAATGTTT
*
1134562 -GTTGAAAAATGAT
1 CTTTGAAAAATGAT
1134575 AATGGGATAA
Statistics
Matches: 78, Mismatches: 5, Indels: 5
0.89 0.06 0.06
Matches are distributed among these distances:
35 36 0.46
36 19 0.24
37 23 0.29
ACGTcount: A:0.32, C:0.06, G:0.18, T:0.44
Consensus pattern (36 bp):
CTTTGAAAAATGATTTTCAAAGTTTGGTAAATGTTT
Found at i:1136841 original size:15 final size:15
Alignment explanation
Indices: 1136817--1136867 Score: 75
Period size: 15 Copynumber: 3.4 Consensus size: 15
1136807 ATATTTAGCT
*
1136817 GGGCGGGCGGATGTG
1 GGGCGGGCGGATGCG
*
1136832 GGGCGAGCGGATGCG
1 GGGCGGGCGGATGCG
*
1136847 GGGAGGGCGGATGCG
1 GGGCGGGCGGATGCG
1136862 GGGCGG
1 GGGCGG
1136868 ATAATATCTC
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 31 1.00
ACGTcount: A:0.10, C:0.16, G:0.67, T:0.08
Consensus pattern (15 bp):
GGGCGGGCGGATGCG
Found at i:1141806 original size:20 final size:20
Alignment explanation
Indices: 1141770--1141807 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
1141760 ATCCTATTCC
**
1141770 CTGGTAATCTTTTATTCCCA
1 CTGGTAATCTTACATTCCCA
1141790 CTGGTAATCTTACATTCC
1 CTGGTAATCTTACATTCC
1141808 GTAAACCAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.21, C:0.26, G:0.11, T:0.42
Consensus pattern (20 bp):
CTGGTAATCTTACATTCCCA
Found at i:1143956 original size:209 final size:209
Alignment explanation
Indices: 1143596--1144013 Score: 836
Period size: 209 Copynumber: 2.0 Consensus size: 209
1143586 AATATCTTAA
1143596 TGGACATGCCATGATAGGTATTTTTACCGAAATATCACTCTTACACATAATAATTATATGTCAGG
1 TGGACATGCCATGATAGGTATTTTTACCGAAATATCACTCTTACACATAATAATTATATGTCAGG
1143661 TATCTTTTCTCGAAATATTATCGATCTAACACCCTTTCTTACACGGTGGCAATAAAGCGTGGATC
66 TATCTTTTCTCGAAATATTATCGATCTAACACCCTTTCTTACACGGTGGCAATAAAGCGTGGATC
1143726 GTCATCCGCGCCTTCGCGGGTTCTGTTCGAGAAGGCGCCATGTAAGGGGAAGGCACGAATGGTGT
131 GTCATCCGCGCCTTCGCGGGTTCTGTTCGAGAAGGCGCCATGTAAGGGGAAGGCACGAATGGTGT
1143791 TTTGTCTGAGCATG
196 TTTGTCTGAGCATG
1143805 TGGACATGCCATGATAGGTATTTTTACCGAAATATCACTCTTACACATAATAATTATATGTCAGG
1 TGGACATGCCATGATAGGTATTTTTACCGAAATATCACTCTTACACATAATAATTATATGTCAGG
1143870 TATCTTTTCTCGAAATATTATCGATCTAACACCCTTTCTTACACGGTGGCAATAAAGCGTGGATC
66 TATCTTTTCTCGAAATATTATCGATCTAACACCCTTTCTTACACGGTGGCAATAAAGCGTGGATC
1143935 GTCATCCGCGCCTTCGCGGGTTCTGTTCGAGAAGGCGCCATGTAAGGGGAAGGCACGAATGGTGT
131 GTCATCCGCGCCTTCGCGGGTTCTGTTCGAGAAGGCGCCATGTAAGGGGAAGGCACGAATGGTGT
1144000 TTTGTCTGAGCATG
196 TTTGTCTGAGCATG
1144014 CACCATGTAA
Statistics
Matches: 209, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
209 209 1.00
ACGTcount: A:0.26, C:0.21, G:0.23, T:0.31
Consensus pattern (209 bp):
TGGACATGCCATGATAGGTATTTTTACCGAAATATCACTCTTACACATAATAATTATATGTCAGG
TATCTTTTCTCGAAATATTATCGATCTAACACCCTTTCTTACACGGTGGCAATAAAGCGTGGATC
GTCATCCGCGCCTTCGCGGGTTCTGTTCGAGAAGGCGCCATGTAAGGGGAAGGCACGAATGGTGT
TTTGTCTGAGCATG
Found at i:1144482 original size:20 final size:21
Alignment explanation
Indices: 1144459--1144499 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
1144449 ATTTAAATTA
*
1144459 TTTTGAATTATTTTA-ATTTT
1 TTTTGAATTAGTTTATATTTT
1144479 TTTTGAATTAGTTTATATTTT
1 TTTTGAATTAGTTTATATTTT
1144500 AATTCATATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 14 0.74
21 5 0.26
ACGTcount: A:0.24, C:0.00, G:0.07, T:0.68
Consensus pattern (21 bp):
TTTTGAATTAGTTTATATTTT
Found at i:1147860 original size:23 final size:24
Alignment explanation
Indices: 1147804--1147863 Score: 70
Period size: 23 Copynumber: 2.6 Consensus size: 24
1147794 ATACAATTCG
1147804 AACAATTAAAT-AATAAAAACATT
1 AACAATTAAATAAATAAAAACATT
**
1147827 AACAACAAAATAAATAAAAA-ATT
1 AACAATTAAATAAATAAAAACATT
* *
1147850 CATAATTAAATAAA
1 AACAATTAAATAAA
1147864 AATTTTACAA
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
23 22 0.73
24 8 0.27
ACGTcount: A:0.68, C:0.08, G:0.00, T:0.23
Consensus pattern (24 bp):
AACAATTAAATAAATAAAAACATT
Done.