Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A09
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: 77927517
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1491452 characters in sequence are not A, C, G, or T
File 188 of 250
Found at i:59120757 original size:117 final size:117
Alignment explanation
Indices: 59120617--59120833 Score: 301
Period size: 117 Copynumber: 1.9 Consensus size: 117
59120607 CTTTCAACTA
* * * * ** * *
59120617 TGGTCTTACTCATTTTCTATCATGTTGCCATGGTATCTTTCAACCATTGTCTTATTCTTTTCATG
1 TGGTCTTACTCATTTTCTATCATGCTACCATGGCATCTTTCAACCATGGTCTTACACATTTCATA
*
59120682 TCACGTTGCCATAGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGT
66 TCACGTAGCCATAGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGT
* *
59120734 TGGTCTTATTCA-TTTCATGTCATGCTACCATGGCATCTTTCAACCATGGTCTTACACATTTCAT
1 TGGTCTTACTCATTTTC-TATCATGCTACCATGGCATCTTTCAACCATGGTCTTACACATTTCAT
* *
59120798 ATCATGTAGCCATGGTATCTTTCAACCATGGTCTTA
65 ATCACGTAGCCATAGTATCTTTCAACCATGGTCTTA
59120834 CACATTTTAT
Statistics
Matches: 86, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
116 4 0.05
117 82 0.95
ACGTcount: A:0.20, C:0.24, G:0.13, T:0.43
Consensus pattern (117 bp):
TGGTCTTACTCATTTTCTATCATGCTACCATGGCATCTTTCAACCATGGTCTTACACATTTCATA
TCACGTAGCCATAGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGT
Found at i:59120784 original size:46 final size:45
Alignment explanation
Indices: 59120734--59120889 Score: 213
Period size: 46 Copynumber: 3.4 Consensus size: 45
59120724 CATGTCACGT
** * *
59120734 TGGTCTTATTCATTTCATGTCATGCTACCATGGCATCTTTCAACCA
1 TGGTCTTACACATTTCATATCATG-TACCATGGTATCTTTCAACCA
59120780 TGGTCTTACACATTTCATATCATGTAGCCATGGTATCTTTCAACCA
1 TGGTCTTACACATTTCATATCATGTA-CCATGGTATCTTTCAACCA
* * **
59120826 TGGTCTTACACATTTTATTTCATGTTGTCATGGTATCTTTCAACCA
1 TGGTCTTACACATTTCATATCATG-TACCATGGTATCTTTCAACCA
59120872 TGGTCTTACACATTTCAT
1 TGGTCTTACACATTTCAT
59120890 TTCAGAAAGC
Statistics
Matches: 99, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
45 2 0.02
46 96 0.97
47 1 0.01
ACGTcount: A:0.23, C:0.23, G:0.13, T:0.41
Consensus pattern (45 bp):
TGGTCTTACACATTTCATATCATGTACCATGGTATCTTTCAACCA
Found at i:59120796 original size:71 final size:71
Alignment explanation
Indices: 59120665--59120797 Score: 185
Period size: 71 Copynumber: 1.9 Consensus size: 71
59120655 TTCAACCATT
* * * * ** *
59120665 GTCTTATTCTTTTCATGTCACGTTGCCATAGTATCTTTCAACCATGGTCTTATTCTTTTCATGTC
1 GTCTTATTCATTTCATGTCACGCTACCATAGCATCTTTCAACCATGGTCTTACACATTTCATGTC
59120730 ACGTTG
66 ACGTTG
* *
59120736 GTCTTATTCATTTCATGTCATGCTACCATGGCATCTTTCAACCATGGTCTTACACATTTCAT
1 GTCTTATTCATTTCATGTCACGCTACCATAGCATCTTTCAACCATGGTCTTACACATTTCAT
59120798 ATCATGTAGC
Statistics
Matches: 53, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
71 53 1.00
ACGTcount: A:0.20, C:0.24, G:0.13, T:0.44
Consensus pattern (71 bp):
GTCTTATTCATTTCATGTCACGCTACCATAGCATCTTTCAACCATGGTCTTACACATTTCATGTC
ACGTTG
Found at i:59122723 original size:11 final size:11
Alignment explanation
Indices: 59122707--59122754 Score: 51
Period size: 11 Copynumber: 4.2 Consensus size: 11
59122697 CTTTATATAC
59122707 TAATAAAATAA
1 TAATAAAATAA
*
59122718 TAATAAAATATCT
1 TAATAAAATA--A
* *
59122731 TATTAAAATAT
1 TAATAAAATAA
59122742 TAATAAAATAA
1 TAATAAAATAA
59122753 TA
1 TA
59122755 TTTATCTAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
11 22 0.71
13 9 0.29
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.35
Consensus pattern (11 bp):
TAATAAAATAA
Found at i:59125879 original size:17 final size:17
Alignment explanation
Indices: 59125857--59125901 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
59125847 ATTGTTAAAT
*
59125857 AGAGTTATTCTTGAACA
1 AGAGTTATTCTTAAACA
* *
59125874 AGAGTTGTTCTTAAATA
1 AGAGTTATTCTTAAACA
*
59125891 AGGGTTATTCT
1 AGAGTTATTCT
59125902 GACATGTTCC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (17 bp):
AGAGTTATTCTTAAACA
Found at i:59140608 original size:8 final size:8
Alignment explanation
Indices: 59140590--59140627 Score: 51
Period size: 8 Copynumber: 4.8 Consensus size: 8
59140580 TTTAAGAAAT
59140590 TAATAATTA
1 TAATAA-TA
59140599 TAATAATA
1 TAATAATA
*
59140607 TAATAGT-
1 TAATAATA
59140614 TAATAATA
1 TAATAATA
59140622 TAATAA
1 TAATAA
59140628 AAGAAATAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
7 6 0.23
8 14 0.54
9 6 0.23
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (8 bp):
TAATAATA
Found at i:59140635 original size:24 final size:24
Alignment explanation
Indices: 59140589--59140635 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
59140579 ATTTAAGAAA
* *
59140589 TTAATAATTATAATAATATAATAG
1 TTAATAATTATAATAAAAAAATAG
59140613 TTAATAA-TATAATAAAAGAAATA
1 TTAATAATTATAATAAAA-AAATA
59140636 ATAAAAGAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 9 0.45
24 11 0.55
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.36
Consensus pattern (24 bp):
TTAATAATTATAATAAAAAAATAG
Found at i:59140651 original size:19 final size:19
Alignment explanation
Indices: 59140626--59140668 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
59140616 ATAATATAAT
*
59140626 AAAAGAAATAATA-AAAGA
1 AAAAGAAATAAAATAAAGA
59140644 ATAAAGAAATAAAATAAAGA
1 A-AAAGAAATAAAATAAAGA
59140664 AAAAG
1 AAAAG
59140669 GAAAGAAAGA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 1 0.05
19 15 0.68
20 6 0.27
ACGTcount: A:0.77, C:0.00, G:0.12, T:0.12
Consensus pattern (19 bp):
AAAAGAAATAAAATAAAGA
Found at i:59145853 original size:40 final size:39
Alignment explanation
Indices: 59145791--59145870 Score: 115
Period size: 40 Copynumber: 2.0 Consensus size: 39
59145781 TAACGACTTA
* *
59145791 TCGGCTAAAATGGCACTCAGTGTGTAGTTTGAAATAGCT
1 TCGGCTAAAATGGCACTCAGTGTGCAATTTGAAATAGCT
* *
59145830 TCGGCTAAAAGTGGCACTTAGTGTGCAATTTGAGATAGCT
1 TCGGCTAAAA-TGGCACTCAGTGTGCAATTTGAAATAGCT
59145870 T
1 T
59145871 TGACTATATA
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
39 10 0.28
40 26 0.72
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.31
Consensus pattern (39 bp):
TCGGCTAAAATGGCACTCAGTGTGCAATTTGAAATAGCT
Found at i:59145950 original size:28 final size:28
Alignment explanation
Indices: 59145891--59145959 Score: 75
Period size: 28 Copynumber: 2.5 Consensus size: 28
59145881 TATATAAATG
** ** * *
59145891 GCACTTAGTGTGCAAAGTATTGAGGATG
1 GCACTTAGTGTGCAAAACATCCAGAATA
59145919 GCACTTAGTGTGCAAAACATCCAGAATA
1 GCACTTAGTGTGCAAAACATCCAGAATA
*
59145947 GCACTTAGGGTGC
1 GCACTTAGTGTGC
59145960 GAGGTATCGA
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.30, C:0.17, G:0.28, T:0.25
Consensus pattern (28 bp):
GCACTTAGTGTGCAAAACATCCAGAATA
Found at i:59150066 original size:13 final size:13
Alignment explanation
Indices: 59150048--59150072 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
59150038 TAATTGCTTA
59150048 ATTTTTTTATTTT
1 ATTTTTTTATTTT
59150061 ATTTTTTTATTT
1 ATTTTTTTATTT
59150073 CATACTAATA
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:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (13 bp):
ATTTTTTTATTTT
Found at i:59151222 original size:20 final size:20
Alignment explanation
Indices: 59151197--59151239 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
59151187 ATTGCTTAAC
59151197 AAACACTTAATTCGTCTAAA
1 AAACACTTAATTCGTCTAAA
59151217 AAACACTTAATTCGTCTAAA
1 AAACACTTAATTCGTCTAAA
59151237 AAA
1 AAA
59151240 GATACCATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.49, C:0.19, G:0.05, T:0.28
Consensus pattern (20 bp):
AAACACTTAATTCGTCTAAA
Found at i:59153000 original size:12 final size:12
Alignment explanation
Indices: 59152983--59153018 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
59152973 AACATTTTGA
59152983 CATTCATGCATT
1 CATTCATGCATT
59152995 CATTCATGCATT
1 CATTCATGCATT
*
59153007 CATTCATACATT
1 CATTCATGCATT
59153019 GCATATCACA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.28, C:0.25, G:0.06, T:0.42
Consensus pattern (12 bp):
CATTCATGCATT
Found at i:59161364 original size:69 final size:69
Alignment explanation
Indices: 59161190--59161364 Score: 217
Period size: 70 Copynumber: 2.5 Consensus size: 69
59161180 CTTTCCAAGG
* ** *
59161190 AAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCCGAGGTATTTTTAATTTTG
59161255 TTTT
66 TTTT
* ** * *
59161259 CAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAGTTTA
1 -AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCCGAGGTATTTTTAATTT-
59161324 TGTTTT
64 TGTTTT
** *
59161330 -AAATTGACTCATATTGCGAGAGGTGAGTTAAGCCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
59161365 TTTAATTTTT
Statistics
Matches: 91, Mismatches: 13, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
69 31 0.34
70 55 0.60
71 5 0.05
ACGTcount: A:0.29, C:0.15, G:0.23, T:0.34
Consensus pattern (69 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCCGAGGTATTTTTAATTTTG
TTTT
Found at i:59161742 original size:73 final size:71
Alignment explanation
Indices: 59161368--59161744 Score: 503
Period size: 73 Copynumber: 5.2 Consensus size: 71
59161358 TAAGCCTTTT
* *
59161368 AATTTTTGTTTTTC-AAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGACACGCTGAG
1 AATTTCTG-TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAG
59161432 GTAATTTC
65 GT-ATTTC
* **
59161440 AATTTCTGTTGTTAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAG
1 AATTTCTGTT-TTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAG
59161505 GTAATTTC
65 GT-ATTTC
* ** *
59161513 AATTTCTGTTTTCAAAATTCAACT-ATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGG
1 AATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGG
59161577 TATTTTC
66 TA-TTTC
**
59161584 AATTTCTGTTTTCAAAAAAAAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGTTCACACGCTG
1 AATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---ACACGCTG
59161648 AGGTATTTC
63 AGGTATTTC
*
59161657 AATTTCTGTTTTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGACTCACATGCT
1 AATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGA--CAC--GCT
59161721 GAGGTATTTC
62 GAGGTATTTC
59161731 AATTT-TGTTTTCAA
1 AATTTCTGTTTTCAA
59161745 TTTCTGTTCG
Statistics
Matches: 278, Mismatches: 16, Indels: 21
0.88 0.05 0.07
Matches are distributed among these distances:
70 2 0.01
71 68 0.24
72 48 0.17
73 129 0.46
74 31 0.11
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.34
Consensus pattern (71 bp):
AATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGG
TATTTC
Found at i:59161828 original size:88 final size:84
Alignment explanation
Indices: 59161653--59161832 Score: 247
Period size: 88 Copynumber: 2.1 Consensus size: 84
59161643 CGCTGAGGTA
** *
59161653 TTTCAATTTCTGTTTTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACTCACAT
1 TTTCAATTTCTGTTTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGAC-CACA-
59161718 GCTGAGGTATTTCAATTTTGT
64 GCTGAGGTATTTCAATTTTGT
59161739 TTTCAATTTCTGTTCGTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGA-CAC
1 TTTCAATTTCTGTT--TAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGACCAC
59161803 -GCTGAGGTAATTTTCAATTTCTGT
63 AGCTGAGGT-A-TTTCAATTT-TGT
59161827 TTTCAA
1 TTTCAA
59161833 AATCAACTTA
Statistics
Matches: 85, Mismatches: 3, Indels: 10
0.87 0.03 0.10
Matches are distributed among these distances:
85 8 0.09
86 15 0.18
87 12 0.14
88 47 0.55
89 3 0.04
ACGTcount: A:0.27, C:0.17, G:0.19, T:0.37
Consensus pattern (84 bp):
TTTCAATTTCTGTTTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACCACAGC
TGAGGTATTTCAATTTTGT
Found at i:59161933 original size:147 final size:147
Alignment explanation
Indices: 59161364--59162014 Score: 684
Period size: 144 Copynumber: 4.4 Consensus size: 147
59161354 GAGTTAAGCC
* * * * *
59161364 TTTT-AATTTTTGTTTTT-CAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGACACG
1 TTTTCAATTTCTGTTTTTAAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACG
* * *** **
59161427 CTGAGGTAATTTCAATTTCTGTT-GTTAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCT
66 TTGAGGTATTTTCAATTTCTGTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
*
59161491 CAG-GACACGCTGAGGTA
131 C-GTCACACGCTGAGGTA
* * * *
59161508 ATTTCAATTTCTG-TTTTCAAAATTCAACT-ATATTGCGAGAAATGAGTTGAGCCTCAAGACACG
1 TTTTCAATTTCTGTTTTTAAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACG
* ***
59161571 CTGAGGTATTTTCAATTTCTGTTTTCAAAAAAA--AACTCATATTGCGAGAGGTGAGTTGAGCCT
66 TTGAGGTATTTTCAATTTCTGTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
59161634 CGGTTCACACGCTGAGGTA
131 C-G-TCACACGCTGAGGTA
* * * *
59161653 -TTTCAATTTCTG-TTTTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGACTCA
1 TTTTCAATTTCTGTTTTTAAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGA--CA
* **
59161715 CATGCTGAGGTATTTCAATTTTGTTTTCAATTTCTGTTCGTAAAAAAATCAACTCATATTGCGAG
64 C--GTTGAGG----T--A-----TTTTCAATTTCTGTTCAAAAAAAAATCAACTCATATTGCGAG
*
59161780 AGGTGAGTTGAGCCTCAG-GACACGCTGAGGTAA
116 AGGTGAGTTGAGCCTC-GTCACACGCTGAGGT-A
* *
59161813 TTTTCAATTTCTG-TTTT-CAAAATCAACTTATATTGCGAGA-ATGAGTTGAGCCTCAAGACACG
1 TTTTCAATTTCTGTTTTTAAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACG
59161875 TTGAGGTATTTTCAATTTCTGTTTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
66 TTGAGGTATTTTCAATTTCTG--TTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
*
59161940 CTCGTCACATGCTGAGGTA
129 CTCGTCACACGCTGAGGTA
*
59161959 TTTTCAATTTCTGTTTTTTTAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
1 TTTTCAATTTCTG--TTTTTAAAAAATCAACTCATATTGCGAGAGATGAGTTGAGC
59162015 TCAGATTCAC
Statistics
Matches: 434, Mismatches: 39, Indels: 61
0.81 0.07 0.11
Matches are distributed among these distances:
143 30 0.07
144 87 0.20
145 72 0.17
146 18 0.04
147 54 0.12
148 7 0.02
149 4 0.01
150 22 0.05
151 10 0.02
152 2 0.00
154 1 0.00
156 6 0.01
158 3 0.01
159 47 0.11
160 23 0.05
161 48 0.11
ACGTcount: A:0.29, C:0.16, G:0.20, T:0.34
Consensus pattern (147 bp):
TTTTCAATTTCTGTTTTTAAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACG
TTGAGGTATTTTCAATTTCTGTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
CGTCACACGCTGAGGTA
Found at i:59161961 original size:76 final size:74
Alignment explanation
Indices: 59161738--59162037 Score: 373
Period size: 75 Copynumber: 4.1 Consensus size: 74
59161728 TTCAATTTTG
59161738 TTTTCAATTTCTG--TTCGTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGAC
1 TTTTCAATTTCTGTTTTC-TAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGAC
59161801 ACGCTGAGGTAA
64 ACGCTGAGGT-A
* * *
59161813 TTTTCAATTTCTGTTTTC----AAAATCAACTTATATTGCGAGA-ATGAGTTGAGCCTCAAGACA
1 TTTTCAATTTCTGTTTTCTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGACA
*
59161873 CGTTGAGGTA
65 CGCTGAGGTA
* *
59161883 TTTTCAATTTCTGTTTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGTCAC
1 TTTTCAATTTCTGTTTTC-TAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCG-GAC
*
59161948 ATGCTGAGGTA
64 ACGCTGAGGTA
* * *
59161959 TTTTCAATTTCTGTTTTTTTAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG-CTCAGATTC
1 TTTTCAATTTCTGTTTTCTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGA--C
*
59162023 ACACTGAGGTA
64 ACGCTGAGGTA
59162034 TTTT
1 TTTT
59162038 TTCAATTCAT
Statistics
Matches: 197, Mismatches: 17, Indels: 22
0.83 0.07 0.09
Matches are distributed among these distances:
70 19 0.10
71 26 0.13
72 21 0.11
73 1 0.01
74 3 0.02
75 83 0.42
76 41 0.21
77 3 0.02
ACGTcount: A:0.30, C:0.16, G:0.20, T:0.35
Consensus pattern (74 bp):
TTTTCAATTTCTGTTTTCTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACAC
GCTGAGGTA
Found at i:59161966 original size:233 final size:228
Alignment explanation
Indices: 59161509--59161975 Score: 649
Period size: 233 Copynumber: 2.0 Consensus size: 228
59161499 GCTGAGGTAA
** *
59161509 TTTCAATTTCTGTTTTCAAAATTCAACTATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTG
1 TTTCAATTTCTGTTTAAAAAAATCAACTATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTG
* *
59161574 AGGTATTTTCAATTTCTGTTTTCAAAAAAAAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGTT
66 AGGTATTTTCAATTTCTGTTTTCAAAAAAAAACTCATATTGCGAGAGATGAGTTGAGCCTCAG-T
*
59161639 CACACGCTGAGGTATTTCAATTTCTGTTTTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAG
130 -ACACGCTGAGGTATTTCAATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
59161704 CCTCGGACTCACATGCTGAGGTATTTCAATTT-TGT
194 CCTCGGA-TCACATGCTGAGGTATTTCAATTTCTGT
** *
59161739 TTTCAATTTCTGTTCGTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACG
1 TTTCAATTTCTGTT--TAAAAAAATCAACT-ATATTGCGAGAAATGAGTTGAGCCTCAAGACACG
** *
59161804 CTGAGGTAATTTTCAATTTCTGTTTTC-AAAATCAACTTATATTGCGAGA-ATGAGTTGAGCCTC
63 CTGAGGT-ATTTTCAATTTCTGTTTTCAAAAAAAAACTCATATTGCGAGAGATGAGTTGAGCCTC
*
59161867 AAG-ACACGTTGAGGTATTTTCAATTTCTGTTTTCAAAAAAAAATCAACTCATATTGCGAGAGGT
127 -AGTACACGCTGAGGTA-TTTCAATTTCTGTTTTC----AAAAATCAACTCATATTGCGAGAGGT
59161931 GAGTTGAGCCTC-G-TCACATGCTGAGGTATTTTCAATTTCTGT
186 GAGTTGAGCCTCGGATCACATGCTGAGGTA-TTTCAATTTCTGT
59161973 TTT
1 TTT
59161976 TTTAAAAAAT
Statistics
Matches: 212, Mismatches: 13, Indels: 20
0.87 0.05 0.08
Matches are distributed among these distances:
230 26 0.12
231 17 0.08
232 39 0.18
233 67 0.32
234 26 0.12
235 37 0.17
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.35
Consensus pattern (228 bp):
TTTCAATTTCTGTTTAAAAAAATCAACTATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTG
AGGTATTTTCAATTTCTGTTTTCAAAAAAAAACTCATATTGCGAGAGATGAGTTGAGCCTCAGTA
CACGCTGAGGTATTTCAATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
TCGGATCACATGCTGAGGTATTTCAATTTCTGT
Found at i:59162210 original size:125 final size:129
Alignment explanation
Indices: 59161906--59162263 Score: 378
Period size: 125 Copynumber: 2.8 Consensus size: 129
59161896 TTTTCAAAAA
** *
59161906 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGTCACATGCTGAGGTATTTTCAATTTCT
1 AAAATC-ACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTCAATTTCT
* * *
59161971 GTTTTTTTAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTCAGATTCACACTGAGGTATT
65 G---TTTT-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAACTCA-ATTCACACTGAGCTACT
59162036 TTTTC
125 TTTTC
* * *
59162041 --AAT---TCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGATGAGGTAATTTCAATTTCTG
1 AAAATCACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTCAATTTCTG
* * * **
59162101 TTTGTCAAAATCAACTCATATTGCGAGAGGTG-GTTGAAC-C-TTTTA-A-T-TTCTACTTTTTC
66 TTT-TAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACTCAATTCACACTGAGCTACTTTTTC
* * *
59162160 AAAATCAGCTCATATTGCAAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTT
1 AAAATCA-CTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTCAATTTCT
* **
59162225 GTGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGA
65 GT-TTTAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
59162264 GCCTCAGGAC
Statistics
Matches: 191, Mismatches: 23, Indels: 27
0.79 0.10 0.11
Matches are distributed among these distances:
119 8 0.04
120 1 0.01
121 4 0.02
122 3 0.02
124 1 0.01
125 83 0.43
126 36 0.19
127 1 0.01
129 51 0.27
133 3 0.02
ACGTcount: A:0.27, C:0.16, G:0.22, T:0.35
Consensus pattern (129 bp):
AAAATCACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTCAATTTCTG
TTTTAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACTCAATTCACACTGAGCTACTTTTTC
Found at i:59162285 original size:72 final size:73
Alignment explanation
Indices: 59162168--59162309 Score: 232
Period size: 72 Copynumber: 2.0 Consensus size: 73
59162158 TCAAAATCAG
* * *
59162168 CTCATATTGCAAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTG-TGTTTT
1 CTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTTCGTTGTTTT
59162232 AATTTCAA
66 AATTTCAA
* *
59162240 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTTCGTTTTTTT
1 CTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTTCGTTGTTTT
59162305 AATTT
66 AATTT
59162310 ATGTTTCAAA
Statistics
Matches: 64, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
72 54 0.84
73 10 0.16
ACGTcount: A:0.22, C:0.15, G:0.24, T:0.39
Consensus pattern (73 bp):
CTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTTCGTTGTTTT
AATTTCAA
Found at i:59162475 original size:73 final size:71
Alignment explanation
Indices: 59162301--59162498 Score: 256
Period size: 73 Copynumber: 2.8 Consensus size: 71
59162291 ATTTTCGTTT
* *
59162301 TTTTAATTTATGTTTCA-AAAAAATCAACTCATATTGCGAGA-GTGAGTTGAGCCTCAAGACGCT
1 TTTTAATTTATG-TTCATCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAACACGCT
59162364 GAGGTAA
65 GAGGTAA
* * **
59162371 TTTCAATTTTTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
1 TTTTAATTTATGTTCATCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA--ACACGC
**
59162436 TGAGGTGG
64 TGAGGTAA
* * *
59162444 TTTTAATTTATGTTCATCAAAAATTAGCTCATATTGCAAGAGGTGAGTTGAGCCT
1 TTTTAATTTATGTTCATCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
59162499 TGGCTCACAC
Statistics
Matches: 109, Mismatches: 15, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
69 2 0.02
70 33 0.30
71 15 0.14
73 59 0.54
ACGTcount: A:0.30, C:0.15, G:0.22, T:0.33
Consensus pattern (71 bp):
TTTTAATTTATGTTCATCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAACACGCTG
AGGTAA
Found at i:59162537 original size:14 final size:14
Alignment explanation
Indices: 59162518--59162552 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
59162508 CGCTGAGGTA
59162518 TTTTCAATTTCTGG
1 TTTTCAATTTCTGG
*
59162532 TTTTCAATTTCTGT
1 TTTTCAATTTCTGG
59162546 TTTTCAA
1 TTTTCAA
59162553 AAATGACTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.17, C:0.14, G:0.09, T:0.60
Consensus pattern (14 bp):
TTTTCAATTTCTGG
Found at i:59162626 original size:233 final size:225
Alignment explanation
Indices: 59162160--59162892 Score: 758
Period size: 233 Copynumber: 3.2 Consensus size: 225
59162150 CTACTTTTTC
* * * *
59162160 AAAATCAGCTCATATTGCAAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGACACGCTGAGGTATTTTCAATTTAT
** * *
59162225 GTGT-T-TTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTT
65 GT-TCTCAAAAATT-AACTCATATTGCAAGAGGTGAGTTGAGCCT-AGGACACGCTGAGGTATTT
**
59162288 TCAATTTTCGTTTTTTTAATTTATGTTTCAAAAAAATCAACTCATATTGCGAGA-GTGAGTTGAG
127 TCAA-TTTC-TGGTTTTAATTT-TGTTT-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
* * *
59162352 CCTC-AAGACGCTGAGGTAATTTCAATTTTTGTTTGTCA
188 CCTCGGACACGCTGAGGT-ATTTCAATTTCTGTTTGTCA
*
59162390 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTGGTTTT-AATTTA
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGACACGCTGAGGT-ATTTTCAATTTA
* *
59162454 TGTTCATCAAAAATTAGCTCATATTGCAAGAGGTGAGTTGAGCCTTGGCTCACACGCTGAGGTAT
64 TGTTC-TCAAAAATTAACTCATATTGCAAGAGGTGAGTTGAGCCTAGG---ACACGCTGAGGTAT
** *
59162519 TTTCAATTTCTGGTTTTCAATTTCTGTTTTTCAAAAAT-GACTCATATTGCGAGAGGTGAGTTGA
125 TTTCAATTTCTGGTTTT-AATTT-TG-TTTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
59162583 GCCTCGGGACACGCTGAGGTATTTCAATTTCTGTTTGTCA
187 GCCTC-GGACACGCTGAGGTATTTCAATTTCTGTTTGTCA
* * *
59162623 AAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAGGTCTTTTCAATTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG---ACACGCTGAGGTATTTTCAATTT
* * *
59162688 CTGTTCTTTTGTTCGTAAAAAAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTAGGACACG
63 ATGTTC------TC------AAAAATTAACTCATATTGCAAGAGGTGAGTTGAGCCTAGGACACG
*
59162753 CTGAGGTAATTTCAATTTCT-GTTGTTAA--------AAAAAAATCAACTCATATTGCGAGAGGT
116 CTGAGGTATTTTCAATTTCTGGTT-TTAATTTTGTTTAAAAAAATCAACTCATATTGCGAGAGGT
* *
59162809 GAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAAATTTCTGTTTTTCA
180 GAGTTGAGCCTC-GGACACGCTGAGGTA--TTTCAATTTCTGTTTGTCA
*
59162858 AAAATCAACTCATATTGCGAGATGTGAGTTGAGCC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
59162893 CTGGGTTCAC
Statistics
Matches: 433, Mismatches: 39, Indels: 57
0.82 0.07 0.11
Matches are distributed among these distances:
229 1 0.00
230 58 0.13
231 53 0.12
232 43 0.10
233 123 0.28
234 15 0.03
235 71 0.16
240 2 0.00
242 5 0.01
243 26 0.06
246 36 0.08
ACGTcount: A:0.27, C:0.16, G:0.22, T:0.34
Consensus pattern (225 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACACGCTGAGGTATTTTCAATTTATG
TTCTCAAAAATTAACTCATATTGCAAGAGGTGAGTTGAGCCTAGGACACGCTGAGGTATTTTCAA
TTTCTGGTTTTAATTTTGTTTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGAC
ACGCTGAGGTATTTCAATTTCTGTTTGTCA
Found at i:59162640 original size:160 final size:161
Alignment explanation
Indices: 59162371--59162858 Score: 586
Period size: 160 Copynumber: 3.0 Consensus size: 161
59162361 GCTGAGGTAA
*
59162371 TTTCAATTTTTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
1 TTTCAA-TTTTGTTTATCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
** * * ** * * *
59162436 TGAGGTGGTTTTAATTTATGTTCATCAAAAATTAGCTCATATTGCAAGAGGTGAGTTGAGCCTTG
65 TGAGGTAATTTCAATTTCTGTTTGTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTAG
59162501 GCTCACACGCTGAGGTATTTTCAATTTCTGGT
130 GCTCACACGCTGAGGTATTTTCAATTTCTGGT
* * *
59162533 TTTCAATTTCTGTTTTTCAAAAAT-GACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGC
1 TTTCAATTT-TGTTTATCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
*
59162597 TGAGGT-ATTTCAATTTCTGTTTGTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCG
65 TGAGGTAATTTCAATTTCTGTTTGTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTAG
* *
59162661 GCTCACATGCTGAGGTCTTTTCAATTTCT-G-
130 GCTCACACGCTGAGGTATTTTCAATTTCTGGT
** *
59162691 -TTC--TTTTGTTCGTAAAAAAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCT-AGGACAC
1 TTTCAATTTTGTT--T-ATCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAC
* *
59162752 GCTGAGGTAATTTCAATTTCTG-TTGTTAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
63 GCTGAGGTAATTTCAATTTCTGTTTG-T---CAAAAATTAACTCATATTGCGAGAGGTGAGTTGA
* *
59162816 GCCTCAGG---ACACGCTGAGGTATTTTTAAATTTCTGTT
124 GCCT-AGGCTCACACGCTGAGGTA-TTTTCAATTTCTGGT
59162853 TTTCAA
1 TTTCAA
59162859 AAATCAACTC
Statistics
Matches: 283, Mismatches: 26, Indels: 31
0.83 0.08 0.09
Matches are distributed among these distances:
154 4 0.01
155 3 0.01
156 1 0.00
157 26 0.09
158 42 0.15
159 12 0.04
160 88 0.31
161 83 0.29
162 21 0.07
163 3 0.01
ACGTcount: A:0.27, C:0.16, G:0.22, T:0.35
Consensus pattern (161 bp):
TTTCAATTTTGTTTATCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCT
GAGGTAATTTCAATTTCTGTTTGTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTAGG
CTCACACGCTGAGGTATTTTCAATTTCTGGT
Found at i:59162877 original size:74 final size:74
Alignment explanation
Indices: 59162705--59162892 Score: 281
Period size: 75 Copynumber: 2.5 Consensus size: 74
59162695 TTTGTTCGTA
* *
59162705 AAAAAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTAGGACACGCTGAGGTAATTTCAATT
1 AAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTAGGACACGCTGAGGTAATTTAAATT
59162770 TCTGTTGTT
66 TCTGTTGTT
*
59162779 AAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAA
1 -AAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-AGGACACGCTGAGGTA-ATTTAA
59162844 ATTTCTGTT-TT
63 ATTTCTGTTGTT
** *
59162855 -TCAAAAATCAACTCATATTGCGAGATGTGAGTTGAGCC
1 AAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
59162893 CTGGGTTCAC
Statistics
Matches: 105, Mismatches: 6, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
74 35 0.33
75 39 0.37
76 18 0.17
77 13 0.12
ACGTcount: A:0.33, C:0.15, G:0.21, T:0.30
Consensus pattern (74 bp):
AAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTAGGACACGCTGAGGTAATTTAAATT
TCTGTTGTT
Found at i:59163664 original size:15 final size:15
Alignment explanation
Indices: 59163644--59163672 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
59163634 ACTAGCCACA
59163644 CTTTTTCCACCACCT
1 CTTTTTCCACCACCT
59163659 CTTTTTCCACCACC
1 CTTTTTCCACCACC
59163673 AACTCCACTA
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:0.14, C:0.48, G:0.00, T:0.38
Consensus pattern (15 bp):
CTTTTTCCACCACCT
Found at i:59163666 original size:45 final size:44
Alignment explanation
Indices: 59163616--59163701 Score: 154
Period size: 45 Copynumber: 1.9 Consensus size: 44
59163606 TAGCCACTCC
59163616 TTTTCCACCACCAACTCCACTAGCCACACTTTTTCCACCACCTCT
1 TTTTCCACCACCAACTCCACTAGCCACAC-TTTTCCACCACCTCT
*
59163661 TTTTCCACCACCAACTCCACTAGCCACTCTTTTCCACCACC
1 TTTTCCACCACCAACTCCACTAGCCACACTTTTCCACCACC
59163702 AACTCCACTA
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
44 12 0.30
45 28 0.70
ACGTcount: A:0.22, C:0.48, G:0.02, T:0.28
Consensus pattern (44 bp):
TTTTCCACCACCAACTCCACTAGCCACACTTTTCCACCACCTCT
Found at i:59163693 original size:29 final size:30
Alignment explanation
Indices: 59163661--59163732 Score: 119
Period size: 29 Copynumber: 2.4 Consensus size: 30
59163651 CACCACCTCT
*
59163661 TTTTCCACCACCAACTCCACTAGCCAC-TC
1 TTTTCCACCACCAACTCCACTAGCCACACC
59163690 TTTTCCACCACCAACTCCACTAGCCACACC
1 TTTTCCACCACCAACTCCACTAGCCACACC
*
59163720 TTCTCCACCACCA
1 TTTTCCACCACCA
59163733 CTTGTACCTA
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
29 27 0.68
30 13 0.32
ACGTcount: A:0.25, C:0.50, G:0.03, T:0.22
Consensus pattern (30 bp):
TTTTCCACCACCAACTCCACTAGCCACACC
Found at i:59164245 original size:23 final size:23
Alignment explanation
Indices: 59164208--59164289 Score: 62
Period size: 23 Copynumber: 3.5 Consensus size: 23
59164198 TCTTTTTTGT
59164208 TATTAT-TATATTTCTTAATATTA
1 TATTATATATA-TTCTTAATATTA
* *
59164231 TATTATATATATTCTT-TTAATA
1 TATTATATATATTCTTAATATTA
** *
59164253 TATTAGGTATATT-TTAAATTTTA
1 TATTATATATATTCTT-AATATTA
59164276 TATTACGTATATAT
1 TATTA--TATATAT
59164290 ATATATTTTA
Statistics
Matches: 45, Mismatches: 9, Indels: 8
0.73 0.15 0.13
Matches are distributed among these distances:
21 2 0.04
22 15 0.33
23 19 0.42
24 4 0.09
25 5 0.11
ACGTcount: A:0.35, C:0.04, G:0.04, T:0.57
Consensus pattern (23 bp):
TATTATATATATTCTTAATATTA
Found at i:59164314 original size:29 final size:29
Alignment explanation
Indices: 59164282--59164349 Score: 75
Period size: 29 Copynumber: 2.3 Consensus size: 29
59164272 TTTATATTAC
*
59164282 GTATATATATAT-ATTTTATACTATTTTAT
1 GTATATATATATAATATTATACTA-TTTAT
* * *
59164311 GTATATATCTTTAATATTATATTATTTAT
1 GTATATATATATAATATTATACTATTTAT
*
59164340 ATATATATAT
1 GTATATATAT
59164350 TTTACATGTT
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
29 23 0.72
30 9 0.28
ACGTcount: A:0.37, C:0.03, G:0.03, T:0.57
Consensus pattern (29 bp):
GTATATATATATAATATTATACTATTTAT
Found at i:59164335 original size:25 final size:25
Alignment explanation
Indices: 59164287--59164429 Score: 96
Period size: 25 Copynumber: 5.6 Consensus size: 25
59164277 ATTACGTATA
*
59164287 TATATATATTTT-ATACTATTTTATG
1 TATATAT-TTTTAATACTATATTATG
* * *
59164312 TATATATCTTTAATATTATATTATTTATA
1 TATATATTTTTAATA--CTA-TA-TTATG
** *
59164341 TATATATATTTTACATGTTATCTTATG
1 TATATAT-TTTTA-ATACTATATTATG
*
59164368 TATATA-TCTT-A-ACTATATTATG
1 TATATATTTTTAATACTATATTATG
* *
59164390 TATGTATTTTTAACACTATATTATG
1 TATATATTTTTAATACTATATTATG
*
59164415 TACATATTTTTAATA
1 TATATATTTTTAATA
59164430 TTATCACGTA
Statistics
Matches: 90, Mismatches: 18, Indels: 20
0.70 0.14 0.16
Matches are distributed among these distances:
22 13 0.14
23 4 0.04
24 4 0.04
25 36 0.40
27 12 0.13
28 2 0.02
29 13 0.14
30 4 0.04
31 2 0.02
ACGTcount: A:0.34, C:0.06, G:0.04, T:0.55
Consensus pattern (25 bp):
TATATATTTTTAATACTATATTATG
Found at i:59164369 original size:56 final size:55
Alignment explanation
Indices: 59164260--59164377 Score: 150
Period size: 54 Copynumber: 2.1 Consensus size: 55
59164250 ATATATTAGG
* *
59164260 TATAT-TTTAAATTTTATATTACGTATATATATATATTTTATACTATTTTATGTA
1 TATATCTTTAAATATTATATTACGTATATATATATATTTTATACTATCTTATGTA
** **
59164314 TATATCTTT-AATATTATATTATTTATATATATATATTTTACATGTTATCTTATGTA
1 TATATCTTTAAATATTATATTACGTATATATATATATTTT--ATACTATCTTATGTA
59164370 TATATCTT
1 TATATCTT
59164378 AACTATATTA
Statistics
Matches: 55, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
54 32 0.58
55 3 0.05
56 20 0.36
ACGTcount: A:0.34, C:0.05, G:0.03, T:0.58
Consensus pattern (55 bp):
TATATCTTTAAATATTATATTACGTATATATATATATTTTATACTATCTTATGTA
Found at i:59164372 original size:31 final size:31
Alignment explanation
Indices: 59164312--59164374 Score: 83
Period size: 31 Copynumber: 2.0 Consensus size: 31
59164302 CTATTTTATG
*
59164312 TATATATCTTTAATATTATATTATTTATATA
1 TATATATCTTTAATATTATATTATGTATATA
* *
59164343 TATATAT-TTTACATGTTATCTTATGTATATA
1 TATATATCTTTA-ATATTATATTATGTATATA
59164374 T
1 T
59164375 CTTAACTATA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
30 4 0.14
31 24 0.86
ACGTcount: A:0.35, C:0.05, G:0.03, T:0.57
Consensus pattern (31 bp):
TATATATCTTTAATATTATATTATGTATATA
Found at i:59164388 original size:27 final size:26
Alignment explanation
Indices: 59164306--59164396 Score: 76
Period size: 27 Copynumber: 3.3 Consensus size: 26
59164296 TTTATACTAT
*
59164306 TTTATGTATATATCTTTAATATTATATTA
1 TTTATGTATATATC-TT-A-ACTATATTA
* * * *
59164335 TTTATATATATATATTTTAC-ATGTTA
1 TTTATGTATATAT-CTTAACTATATTA
59164361 TCTTATGTATATATCTTAACTATATTA
1 T-TTATGTATATATCTTAACTATATTA
*
59164388 TGTATGTAT
1 TTTATGTAT
59164397 TTTTAACACT
Statistics
Matches: 49, Mismatches: 10, Indels: 9
0.72 0.15 0.13
Matches are distributed among these distances:
26 17 0.35
27 18 0.37
29 14 0.29
ACGTcount: A:0.33, C:0.05, G:0.05, T:0.56
Consensus pattern (26 bp):
TTTATGTATATATCTTAACTATATTA
Found at i:59164432 original size:20 final size:20
Alignment explanation
Indices: 59164407--59164462 Score: 60
Period size: 19 Copynumber: 2.8 Consensus size: 20
59164397 TTTTAACACT
59164407 ATATTATGTACATATTTTTA
1 ATATTATGTACATATTTTTA
* * *
59164427 ATATTAT-CACGTATTTTTT
1 ATATTATGTACATATTTTTA
*
59164446 TTATATATGTACATATT
1 ATAT-TATGTACATATT
59164463 GATGTAGTAT
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
19 12 0.43
20 10 0.36
21 6 0.21
ACGTcount: A:0.32, C:0.07, G:0.05, T:0.55
Consensus pattern (20 bp):
ATATTATGTACATATTTTTA
Found at i:59164611 original size:7 final size:7
Alignment explanation
Indices: 59164583--59164622 Score: 53
Period size: 8 Copynumber: 5.3 Consensus size: 7
59164573 TATTATTCTA
59164583 ATATTTT
1 ATATTTT
59164590 GATATTTT
1 -ATATTTT
59164598 GATATTTT
1 -ATATTTT
59164606 ATATTTT
1 ATATTTT
59164613 ATATATTT
1 ATAT-TTT
59164621 AT
1 AT
59164623 TATTCACATC
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
7 11 0.35
8 20 0.65
ACGTcount: A:0.30, C:0.00, G:0.05, T:0.65
Consensus pattern (7 bp):
ATATTTT
Found at i:59164626 original size:16 final size:15
Alignment explanation
Indices: 59164583--59164622 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 15
59164573 TATTATTCTA
59164583 ATATTTTGATATTTTG
1 ATATTTT-ATATTTTG
59164599 ATATTTTATATTTT-
1 ATATTTTATATTTTG
59164613 ATATATTTAT
1 ATAT-TTTAT
59164623 TATTCACATC
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 4 0.17
15 12 0.52
16 7 0.30
ACGTcount: A:0.30, C:0.00, G:0.05, T:0.65
Consensus pattern (15 bp):
ATATTTTATATTTTG
Found at i:59171455 original size:26 final size:27
Alignment explanation
Indices: 59171425--59171487 Score: 72
Period size: 29 Copynumber: 2.2 Consensus size: 27
59171415 CTTTGTTAAA
*
59171425 TTTCTTGAAAGTTAACAAATCAGAAGC
1 TTTCTTCAAAGTTAACAAATCAGAAGC
* *
59171452 TTCTCTTTCAAATTTAACTAATCAGAAGC
1 TT-TC-TTCAAAGTTAACAAATCAGAAGC
59171481 TTCTCTT
1 TT-TCTT
59171488 TCAACTCCTC
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
27 2 0.06
28 4 0.13
29 25 0.81
ACGTcount: A:0.33, C:0.19, G:0.10, T:0.38
Consensus pattern (27 bp):
TTTCTTCAAAGTTAACAAATCAGAAGC
Found at i:59171468 original size:29 final size:29
Alignment explanation
Indices: 59171436--59171491 Score: 103
Period size: 29 Copynumber: 1.9 Consensus size: 29
59171426 TTCTTGAAAG
59171436 TTAACAAATCAGAAGCTTCTCTTTCAAAT
1 TTAACAAATCAGAAGCTTCTCTTTCAAAT
*
59171465 TTAACTAATCAGAAGCTTCTCTTTCAA
1 TTAACAAATCAGAAGCTTCTCTTTCAA
59171492 CTCCTCAAGT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.36, C:0.21, G:0.07, T:0.36
Consensus pattern (29 bp):
TTAACAAATCAGAAGCTTCTCTTTCAAAT
Found at i:59174928 original size:17 final size:20
Alignment explanation
Indices: 59174906--59174949 Score: 67
Period size: 17 Copynumber: 2.4 Consensus size: 20
59174896 ACGTGCTTCC
59174906 TCTTTTTTTTTC-CT-T-TT
1 TCTTTTTTTTTCTCTCTCTT
59174923 TCTTTTTTTTTCTCTCTCTT
1 TCTTTTTTTTTCTCTCTCTT
59174943 TCTTTTT
1 TCTTTTT
59174950 GGAGAAACAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
17 12 0.50
18 2 0.08
19 1 0.04
20 9 0.38
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (20 bp):
TCTTTTTTTTTCTCTCTCTT
Found at i:59193270 original size:23 final size:22
Alignment explanation
Indices: 59193245--59193287 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
59193235 ATAAAAGTAA
*
59193245 AAAAATTA-AATATATATTTTAG
1 AAAAATTACAATAAAT-TTTTAG
59193267 AAAAATTACAATAAATTTTTA
1 AAAAATTACAATAAATTTTTA
59193288 ATTTTTTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (22 bp):
AAAAATTACAATAAATTTTTAG
Found at i:59193607 original size:15 final size:14
Alignment explanation
Indices: 59193583--59193613 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
59193573 AAAGTTTAAC
59193583 TTTTTTTTTATATT
1 TTTTTTTTTATATT
59193597 TTTTATTTTTATATT
1 TTTT-TTTTTATATT
59193612 TT
1 TT
59193614 AATTTAAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.25
15 12 0.75
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (14 bp):
TTTTTTTTTATATT
Found at i:59195413 original size:22 final size:22
Alignment explanation
Indices: 59195385--59195429 Score: 63
Period size: 25 Copynumber: 1.9 Consensus size: 22
59195375 AATTTACAGA
59195385 AGAAGAAGATAGAAAGAAAGAAAGG
1 AGAAGAAGA-A-AAA-AAAGAAAGG
59195410 AGAAGAAGAAAAAAAAGAAA
1 AGAAGAAGAAAAAAAAGAAA
59195430 AGGTAATTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 7 0.35
23 3 0.15
24 1 0.05
25 9 0.45
ACGTcount: A:0.71, C:0.00, G:0.27, T:0.02
Consensus pattern (22 bp):
AGAAGAAGAAAAAAAAGAAAGG
Found at i:59198231 original size:86 final size:86
Alignment explanation
Indices: 59198086--59198256 Score: 342
Period size: 86 Copynumber: 2.0 Consensus size: 86
59198076 TGTTTTAATA
59198086 ATTTAGGCCAATACTATAACTTATCTTTCCTTAATACATATACAGCGCACGAGCTGGAGCCACAT
1 ATTTAGGCCAATACTATAACTTATCTTTCCTTAATACATATACAGCGCACGAGCTGGAGCCACAT
59198151 ATTTTTCGCCAAAGAATGGCG
66 ATTTTTCGCCAAAGAATGGCG
59198172 ATTTAGGCCAATACTATAACTTATCTTTCCTTAATACATATACAGCGCACGAGCTGGAGCCACAT
1 ATTTAGGCCAATACTATAACTTATCTTTCCTTAATACATATACAGCGCACGAGCTGGAGCCACAT
59198237 ATTTTTCGCCAAAGAATGGC
66 ATTTTTCGCCAAAGAATGGC
59198257 TCGACTTGAG
Statistics
Matches: 85, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
86 85 1.00
ACGTcount: A:0.32, C:0.23, G:0.16, T:0.29
Consensus pattern (86 bp):
ATTTAGGCCAATACTATAACTTATCTTTCCTTAATACATATACAGCGCACGAGCTGGAGCCACAT
ATTTTTCGCCAAAGAATGGCG
Found at i:59201888 original size:15 final size:15
Alignment explanation
Indices: 59201842--59201889 Score: 53
Period size: 16 Copynumber: 3.2 Consensus size: 15
59201832 TTATTTTCGG
*
59201842 ATTTTA-TTTTTTAA
1 ATTTTATTTTTTTAT
* *
59201856 AATTTATTATTTTCAT
1 ATTTTATT-TTTTTAT
59201872 ATTTTATTTTTTTAT
1 ATTTTATTTTTTTAT
59201887 ATT
1 ATT
59201890 ATTTTAGTAC
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
14 5 0.19
15 10 0.37
16 12 0.44
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (15 bp):
ATTTTATTTTTTTAT
Found at i:59202039 original size:142 final size:142
Alignment explanation
Indices: 59201707--59202413 Score: 927
Period size: 143 Copynumber: 5.0 Consensus size: 142
59201697 GATTTTAAAA
59201707 TTTTAAAATATACTATTTTCGTATTTTATTGTTTTATATTATTTTAGTACATAATGTTTCAAATG
1 TTTTAAAATATACTATTTTCGTATTTTATT-TTTTATATTATTTTAGTACATAATGTTTC-AATG
* *
59201772 TATTATTTTAG-TTTTTTATATTAATTTAGAAAAAAACTCTGATTTTGGCTTTTTTTATTTTTAT
64 TATTATTTTAGTTTTTTTATATTAATTTAGTAAAAAACTCTGATTTTGGCCTTTTTTATTTTTAT
59201836 TTTCGGATTTTATT
129 TTTCGGATTTTATT
* * *
59201850 TTTTAAAATTTATTATTTTCATATTTTATTTTTTTATATTATTTTAGTACATAATGTTTC-ATGT
1 TTTTAAAATATACTATTTTCGTATTTTA-TTTTTTATATTATTTTAGTACATAATGTTTCAATGT
* * *
59201914 ATTATTTTAGTTTTTTTATATTAATTTAGAAAAAAACCCTGATTTTGGGCCCTTTTTATTTTTAT
65 ATTATTTTAGTTTTTTTATATTAATTTAGTAAAAAACTCTGATTTT-GGCCTTTTTTATTTTTAT
*
59201979 TTTTGGATTTTATT
129 TTTCGGATTTTATT
* * *
59201993 TTTTAAGATATATTATTTTCGTATTTTGTTTTTTATATTATTTTAGTACATAATG-TTCAATGTA
1 TTTTAAAATATACTATTTTCGTATTTTATTTTTTATATTATTTTAGTACATAATGTTTCAATGTA
* * * * *
59202057 TTATTTTTG-TTTTTTATATTAATTTAGTAAAAATCTGTGATTTTGGCCTTTTTTTTATTTTGTT
66 TTATTTTAGTTTTTTTATATTAATTTAGTAAAAAACTCTGATTTTGGCCTTTTTTAT-TTTTATT
59202121 TTCGGA---T-TT
130 TTCGGATTTTATT
* *
59202130 TTTAAAAATATACTATTTTCGTATTTTATTTTTTATATTATTTTAGTATATAATGTTTCAAATG-
1 TTTTAAAATATACTATTTTCGTATTTTATTTTTTATATTATTTTAGTACATAATGTTTC-AATGT
* * ** * *
59202194 AATAATTT-GTTTTTTTTATATTAATTTAGTAAAAATTTCTGATTTTAGCCGTTTGTTTTTTATT
65 ATTATTTTAG-TTTTTTTATATTAATTTAGTAAAAAACTCTGATTTTGGCC--TT-TTTTAT-TT
59202258 TTATTTTCGGATTTTATT
125 TTATTTTCGGATTTTATT
** *
59202276 TTCCAAAATATACTATTTTCGTATTTTATTTTTT-TATTATTTTAGTACATAATGTTTCATATAT
1 TTTTAAAATATACTATTTTCGTATTTTATTTTTTATATTATTTTAGTACATAATGTTTCA-ATGT
* * *
59202340 ATTATTTTAGTATATTTATATTAATTTAGTAAAAAACCTCTAATTTT-GCCTTTTTTA-TTTTAT
65 ATTATTTTAGTTTTTTTATATTAATTTAGTAAAAAA-CTCTGATTTTGGCCTTTTTTATTTTTAT
59202403 TTTCGGATTTT
129 TTTCGGATTTT
59202414 TTAAAATATA
Statistics
Matches: 501, Mismatches: 43, Indels: 42
0.85 0.07 0.07
Matches are distributed among these distances:
137 53 0.11
138 10 0.02
139 40 0.08
140 10 0.02
141 78 0.16
142 93 0.19
143 111 0.22
144 5 0.01
145 26 0.05
146 66 0.13
147 9 0.02
ACGTcount: A:0.27, C:0.06, G:0.08, T:0.59
Consensus pattern (142 bp):
TTTTAAAATATACTATTTTCGTATTTTATTTTTTATATTATTTTAGTACATAATGTTTCAATGTA
TTATTTTAGTTTTTTTATATTAATTTAGTAAAAAACTCTGATTTTGGCCTTTTTTATTTTTATTT
TCGGATTTTATT
Found at i:59202272 original size:283 final size:279
Alignment explanation
Indices: 59201707--59202424 Score: 948
Period size: 283 Copynumber: 2.5 Consensus size: 279
59201697 GATTTTAAAA
59201707 TTTTAAAATATACTATTTTCGTATTTTATTGTTTTATATTATTTTAGTACATAATGTTTCAAATG
1 TTTTAAAATATACTATTTTCGTATTTTATT-TTTTATATTATTTTAGTACATAATGTTTC-AATG
*
59201772 TATTATTTTAGTTTTTTATATTAATTTAGAAAAAAACTCTGATTTTGG-CTTTTTTTATTTTTAT
64 TATTATTTTAGTTTTTTATATTAATTTAGTAAAAAACTCTGATTTTGGCCTTTTTTTA-TTTTAT
* * *
59201836 TTTCGGATTTTATTTTTTAAAATTTATTATTTTCATATTTTATTTTTTTATATTATTTTAGTACA
128 TTTCGGA---T-TTTTTAAAAATATACTATTTTCATATTTTATTTTTTTATATTATTTTAGTACA
* * *
59201901 TAATGTTTCATGTATTATTTTAGTTTTTTTATATTAATTTAGAAAAAAACCCTGATTTTGGGCCC
189 TAATGTTTCATGAATAATTTTA-TTTTTTTATATTAATTTAGAAAAAAACCCTGATTTTGAGCCC
*
59201966 TTTTTATTTTTATTTTTGGATTTTATT
253 TTTTTATTTTTATTTTCGGATTTTATT
* * *
59201993 TTTTAAGATATATTATTTTCGTATTTTGTTTTTTATATTATTTTAGTACATAATG-TTCAATGTA
1 TTTTAAAATATACTATTTTCGTATTTTATTTTTTATATTATTTTAGTACATAATGTTTCAATGTA
* * * *
59202057 TTATTTTTGTTTTTTATATTAATTTAGTAAAAATCTGTGATTTTGGCCTTTTTTTTATTTTGTTT
66 TTATTTTAGTTTTTTATATTAATTTAGTAAAAAACTCTGATTTTGGCC-TTTTTTTATTTTATTT
* *
59202122 TCGGATTTTTTAAAAATATACTATTTTCGTATTTTA-TTTTTTATATTATTTTAGTATATAATGT
130 TCGGATTTTTTAAAAATATACTATTTTCATATTTTATTTTTTTATATTATTTTAGTACATAATGT
* *** *
59202186 TTCAAATGAATAATTTGT-TTTTTTTATATTAATTTAGTAAAAATTTCTGATTTT-AGCCGTTTG
195 TTC--ATGAATAATTT-TATTTTTTTATATTAATTTAGAAAAAAACCCTGATTTTGAGCC--CT-
*
59202249 TTTTTTATTTTATTTTCGGATTTTATT
254 TTTTAT-TTTTATTTTCGGATTTTATT
** *
59202276 TTCCAAAATATACTATTTTCGTATTTTATTTTTT-TATTATTTTAGTACATAATGTTTCATATAT
1 TTTTAAAATATACTATTTTCGTATTTTATTTTTTATATTATTTTAGTACATAATGTTTCA-ATGT
* *
59202340 ATTATTTTAGTATATTTATATTAATTTAGTAAAAAACCTCTAATTTT-GCC-TTTTTTATTTTAT
65 ATTATTTTAGT-TTTTTATATTAATTTAGTAAAAAA-CTCTGATTTTGGCCTTTTTTTATTTTAT
59202403 TTTCGGATTTTTTAAAATATAT
128 TTTCGGATTTTTTAAAA-ATAT
59202425 TTTTTTAAAT
Statistics
Matches: 383, Mismatches: 35, Indels: 30
0.85 0.08 0.07
Matches are distributed among these distances:
279 33 0.09
280 58 0.15
281 11 0.03
282 26 0.07
283 129 0.34
284 33 0.09
285 58 0.15
286 35 0.09
ACGTcount: A:0.27, C:0.06, G:0.08, T:0.58
Consensus pattern (279 bp):
TTTTAAAATATACTATTTTCGTATTTTATTTTTTATATTATTTTAGTACATAATGTTTCAATGTA
TTATTTTAGTTTTTTATATTAATTTAGTAAAAAACTCTGATTTTGGCCTTTTTTTATTTTATTTT
CGGATTTTTTAAAAATATACTATTTTCATATTTTATTTTTTTATATTATTTTAGTACATAATGTT
TCATGAATAATTTTATTTTTTTATATTAATTTAGAAAAAAACCCTGATTTTGAGCCCTTTTTATT
TTTATTTTCGGATTTTATT
Found at i:59202884 original size:20 final size:20
Alignment explanation
Indices: 59202855--59202893 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
59202845 TTTTTTTTCT
*
59202855 TTCTCTTTCTCTTCTTCTTC
1 TTCTCCTTCTCTTCTTCTTC
*
59202875 TTCTCCTTCTCTTTTTCTT
1 TTCTCCTTCTCTTCTTCTT
59202894 TCTCTTTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (20 bp):
TTCTCCTTCTCTTCTTCTTC
Found at i:59202900 original size:12 final size:12
Alignment explanation
Indices: 59202848--59202908 Score: 61
Period size: 12 Copynumber: 4.8 Consensus size: 12
59202838 ATTACCTTTT
59202848 TTTTTCTTTCTC
1 TTTTTCTTTCTC
*
59202860 TTTCTC-TTCTTC
1 TTTTTCTTTC-TC
*
59202872 TTCTTCTCCTTCTC
1 TT-TT-TCTTTCTC
59202886 TTTTTCTTTCTC
1 TTTTTCTTTCTC
59202898 TTTTTTCTTTC
1 -TTTTTCTTTC
59202909 CCTCACCAAT
Statistics
Matches: 41, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
11 3 0.07
12 16 0.39
13 13 0.32
14 6 0.15
15 3 0.07
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (12 bp):
TTTTTCTTTCTC
Found at i:59202983 original size:3 final size:3
Alignment explanation
Indices: 59202933--59202966 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
59202923 CCTCCTCCTC
*
59202933 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTC CTT C
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT C
59202967 CCCCTTTCTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.00, C:0.38, G:0.00, T:0.62
Consensus pattern (3 bp):
CTT
Found at i:59203077 original size:22 final size:22
Alignment explanation
Indices: 59203049--59203090 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
59203039 ACAAAAGCAA
*
59203049 TGGCAGTGAGGAGTCTCGTCCG
1 TGGCAGTGAGGAGTCCCGTCCG
*
59203071 TGGCAGTGCGGAGTCCCGTC
1 TGGCAGTGAGGAGTCCCGTC
59203091 GGTGCAGAGG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.12, C:0.26, G:0.40, T:0.21
Consensus pattern (22 bp):
TGGCAGTGAGGAGTCCCGTCCG
Found at i:59203146 original size:27 final size:27
Alignment explanation
Indices: 59203108--59203160 Score: 106
Period size: 27 Copynumber: 2.0 Consensus size: 27
59203098 AGGAGAGACC
59203108 GGTGCCGCCTGTGGGGTACCCTCCACT
1 GGTGCCGCCTGTGGGGTACCCTCCACT
59203135 GGTGCCGCCTGTGGGGTACCCTCCAC
1 GGTGCCGCCTGTGGGGTACCCTCCAC
59203161 CCCTATTTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.08, C:0.38, G:0.34, T:0.21
Consensus pattern (27 bp):
GGTGCCGCCTGTGGGGTACCCTCCACT
Found at i:59204068 original size:16 final size:16
Alignment explanation
Indices: 59204049--59204079 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
59204039 ATATTAATTT
*
59204049 TATTTAATCTTAAAAA
1 TATTTAATATTAAAAA
59204065 TATTTAATATTAAAA
1 TATTTAATATTAAAA
59204080 CAATACAAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (16 bp):
TATTTAATATTAAAAA
Found at i:59214693 original size:40 final size:38
Alignment explanation
Indices: 59214573--59214704 Score: 132
Period size: 35 Copynumber: 3.6 Consensus size: 38
59214563 TCCTCATTGA
* * *
59214573 AATACCATACCTACATTTTACAACTCGGTTTGG--GA-
1 AATACCATACCTACATTTCACAACTCAGTATGGATGAT
* * ** *
59214608 AATGCCATACCTATATTTCTTAACTGAGTATGGATTTGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGA--TGAT
59214648 AATACCATACCTACATTTCACAACTCAGTATGGATG--
1 AATACCATACCTACATTTCACAACTCAGTATGGATGAT
59214684 -ATACCATACCTACATTTCACA
1 AATACCATACCTACATTTCACA
59214705 CTTTGCCATG
Statistics
Matches: 79, Mismatches: 13, Indels: 10
0.77 0.13 0.10
Matches are distributed among these distances:
35 46 0.58
38 2 0.03
39 2 0.03
40 29 0.37
ACGTcount: A:0.33, C:0.23, G:0.11, T:0.33
Consensus pattern (38 bp):
AATACCATACCTACATTTCACAACTCAGTATGGATGAT
Found at i:59216360 original size:23 final size:23
Alignment explanation
Indices: 59216314--59216360 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
59216304 TTGTTCGCAC
* *
59216314 AAGTGATAGTGACACTATGATGT
1 AAGTAATAGTGACACTATCATGT
59216337 AAGTAATAGTGACACT-TCAGTGT
1 AAGTAATAGTGACACTATCA-TGT
59216360 A
1 A
59216361 GTGACAATAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 2 0.10
23 19 0.90
ACGTcount: A:0.36, C:0.11, G:0.23, T:0.30
Consensus pattern (23 bp):
AAGTAATAGTGACACTATCATGT
Found at i:59219622 original size:34 final size:34
Alignment explanation
Indices: 59219576--59219642 Score: 107
Period size: 34 Copynumber: 2.0 Consensus size: 34
59219566 CCCTGACGAT
* *
59219576 GATCCTTAATCTATCATGGGCTAACTGGGTCCTC
1 GATCCTTAATCTATCATAGGCTAACTAGGTCCTC
*
59219610 GATCCTTGATCTATCATAGGCTAACTAGGTCCT
1 GATCCTTAATCTATCATAGGCTAACTAGGTCCT
59219643 TCCTCAAGTT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.22, C:0.25, G:0.19, T:0.33
Consensus pattern (34 bp):
GATCCTTAATCTATCATAGGCTAACTAGGTCCTC
Found at i:59222849 original size:13 final size:13
Alignment explanation
Indices: 59222831--59222856 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
59222821 GCATCTAACA
59222831 TTTTTATTTTTAT
1 TTTTTATTTTTAT
59222844 TTTTTATTTTTAT
1 TTTTTATTTTTAT
59222857 CACTTTATTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (13 bp):
TTTTTATTTTTAT
Found at i:59227509 original size:6 final size:6
Alignment explanation
Indices: 59227498--59227529 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
59227488 TTAAATAATA
*
59227498 ATTTAT ATTTAT ATTTGT ATTTAT ATTTAT AT
1 ATTTAT ATTTAT ATTTAT ATTTAT ATTTAT AT
59227530 CAAAACACTA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (6 bp):
ATTTAT
Found at i:59231267 original size:6 final size:6
Alignment explanation
Indices: 59231256--59231292 Score: 74
Period size: 6 Copynumber: 6.2 Consensus size: 6
59231246 CATTTTACAG
59231256 ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA A
1 ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA A
59231293 CTATATTAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
ATAAAA
Found at i:59232386 original size:3 final size:3
Alignment explanation
Indices: 59232371--59232416 Score: 74
Period size: 3 Copynumber: 15.3 Consensus size: 3
59232361 ATATTGTGCT
* *
59232371 TTA TTA ATA TTA TTA TTA TCA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
59232417 AACTTGATAA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:59232613 original size:21 final size:20
Alignment explanation
Indices: 59232569--59232633 Score: 77
Period size: 19 Copynumber: 3.5 Consensus size: 20
59232559 TTTATGATGT
59232569 TATA-ATTTTTATATTTA-A
1 TATATATTTTTATATTTATA
*
59232587 -ATAT-TTTTATAAATTTATA
1 TATATATTTT-TATATTTATA
59232606 T-TATATTTTTATATTTATA
1 TATATATTTTTATATTTATA
59232625 TATATATTT
1 TATATATTT
59232634 CAAAATAACA
Statistics
Matches: 39, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
17 7 0.18
18 7 0.18
19 14 0.36
20 11 0.28
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (20 bp):
TATATATTTTTATATTTATA
Found at i:59233270 original size:29 final size:31
Alignment explanation
Indices: 59233211--59233271 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 31
59233201 AAAACACCCC
* *
59233211 TTTAAGACAAAAAAAAAAGTCCATGTTAACA
1 TTTAAGACAAAAAAAAAAGTCCAAGTCAACA
59233242 TTTAAGACAAAAAAAAAA-T-CAAGTCAACA
1 TTTAAGACAAAAAAAAAAGTCCAAGTCAACA
59233271 T
1 T
59233272 AATAGGTAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 9 0.32
30 1 0.04
31 18 0.64
ACGTcount: A:0.57, C:0.13, G:0.08, T:0.21
Consensus pattern (31 bp):
TTTAAGACAAAAAAAAAAGTCCAAGTCAACA
Found at i:59241401 original size:27 final size:27
Alignment explanation
Indices: 59241371--59241425 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
59241361 TCAATTTTGT
59241371 ACTTGTATTTGAGCCTGAGGATAAATA
1 ACTTGTATTTGAGCCTGAGGATAAATA
59241398 ACTTGTATTTGAGCCTGAGGATAAATA
1 ACTTGTATTTGAGCCTGAGGATAAATA
59241425 A
1 A
59241426 TCGAGCATGG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.35, C:0.11, G:0.22, T:0.33
Consensus pattern (27 bp):
ACTTGTATTTGAGCCTGAGGATAAATA
Found at i:59242694 original size:64 final size:65
Alignment explanation
Indices: 59242570--59242694 Score: 175
Period size: 64 Copynumber: 1.9 Consensus size: 65
59242560 CAAACATAAA
59242570 CATGCAATCATCTAAAAAATAAGAAGAGACATAACAGCGAAAACTTAAAAAGACCATAAAAATCA
1 CATGCAATCATCTAAAAAATAAGAAGAGA-ATAACAGCGAAAACTTAAAAAGACCATAAAAATCA
59242635 G
65 G
* * *
59242636 CATGCAATTATCTAAAAAAATAAGAAGAG-ATAGA-AGTG-AAGCTTAAAAAGACCATAAAA
1 CATGCAATCATCT-AAAAAATAAGAAGAGAATA-ACAGCGAAAACTTAAAAAGACCATAAAA
59242695 TTAACATCTT
Statistics
Matches: 54, Mismatches: 3, Indels: 6
0.86 0.05 0.10
Matches are distributed among these distances:
64 20 0.37
65 6 0.11
66 13 0.24
67 15 0.28
ACGTcount: A:0.56, C:0.14, G:0.14, T:0.17
Consensus pattern (65 bp):
CATGCAATCATCTAAAAAATAAGAAGAGAATAACAGCGAAAACTTAAAAAGACCATAAAAATCAG
Found at i:59242760 original size:79 final size:78
Alignment explanation
Indices: 59242652--59242801 Score: 212
Period size: 80 Copynumber: 1.9 Consensus size: 78
59242642 ATTATCTAAA
* ** *
59242652 AAAATAAGAAGAGATAGAAGTGAAGCTT-AAAAAGACCATAAAATTAACATCTTTCTCAAACACA
1 AAAATAAGAAGAGATAGAAGTGAAACTTAAAAAAGACCATAAAACCAACATCTTCCTCAAACACA
59242716 AACATGTAATCAG
66 AACATGTAATCAG
* *
59242729 AAAATAAGAAGAGACATAGAAGTGAAACTTAAAAAAGACCATAAAACCAGCATCTTCCTCGAACA
1 AAAATAAGAAGAG--ATAGAAGTGAAACTTAAAAAAGACCATAAAACCAACATCTTCCTCAAACA
*
59242794 CGAACATG
64 CAAACATG
59242802 CAATTATCTA
Statistics
Matches: 63, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
77 13 0.21
79 14 0.22
80 36 0.57
ACGTcount: A:0.51, C:0.17, G:0.14, T:0.18
Consensus pattern (78 bp):
AAAATAAGAAGAGATAGAAGTGAAACTTAAAAAAGACCATAAAACCAACATCTTCCTCAAACACA
AACATGTAATCAG
Found at i:59250199 original size:18 final size:18
Alignment explanation
Indices: 59250172--59250218 Score: 67
Period size: 18 Copynumber: 2.6 Consensus size: 18
59250162 TGGGGTCGAT
59250172 AACAAAGAGGAAGCTGAG
1 AACAAAGAGGAAGCTGAG
* * *
59250190 AACGAAGAGGGAGTTGAG
1 AACAAAGAGGAAGCTGAG
59250208 AACAAAGAGGA
1 AACAAAGAGGA
59250219 TCTGAAAACA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.49, C:0.09, G:0.36, T:0.06
Consensus pattern (18 bp):
AACAAAGAGGAAGCTGAG
Found at i:59250860 original size:84 final size:85
Alignment explanation
Indices: 59250711--59250880 Score: 220
Period size: 84 Copynumber: 2.0 Consensus size: 85
59250701 AATGTTTCAC
* * *
59250711 ATACTTGTGTTGTTACAGGTATGTCACAAGATCATCCGAAATTGGATTCTAACCTGATTGCTGAC
1 ATACTTGTGTTGTTACAAGTATGTCACAAGATCATCCGAAACTAGATTCTAACCTGATTGCTGAC
*
59250776 ATTGA-CTTACGTATGGTGAA
66 ATT-ATCTTACCTATGGTGAA
* * * * *
59250796 ATACTTGTGTTGTTGCAAGTATGTTAC-TGATCATCTGAAACTAGATTCTAACCTGATCT-TTGA
1 ATACTTGTGTTGTTACAAGTATGTCACAAGATCATCCGAAACTAGATTCTAACCTGAT-TGCTGA
59250859 CATTATCTTACCTATGGTGAA
65 CATTATCTTACCTATGGTGAA
59250880 A
1 A
59250881 ACAAGTCCTA
Statistics
Matches: 74, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
83 1 0.01
84 48 0.65
85 25 0.34
ACGTcount: A:0.28, C:0.16, G:0.19, T:0.36
Consensus pattern (85 bp):
ATACTTGTGTTGTTACAAGTATGTCACAAGATCATCCGAAACTAGATTCTAACCTGATTGCTGAC
ATTATCTTACCTATGGTGAA
Found at i:59258075 original size:19 final size:18
Alignment explanation
Indices: 59258047--59258086 Score: 62
Period size: 19 Copynumber: 2.2 Consensus size: 18
59258037 CACCATTTTG
59258047 TTTGCTAATCCATTTCCC
1 TTTGCTAATCCATTTCCC
*
59258065 TTTGTCTAATCCATTTTCC
1 TTTG-CTAATCCATTTCCC
59258084 TTT
1 TTT
59258087 TACGGGGTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 4 0.20
19 16 0.80
ACGTcount: A:0.15, C:0.28, G:0.05, T:0.53
Consensus pattern (18 bp):
TTTGCTAATCCATTTCCC
Found at i:59260076 original size:1 final size:1
Alignment explanation
Indices: 59260070--59260100 Score: 62
Period size: 1 Copynumber: 31.0 Consensus size: 1
59260060 TTCTTTGCTT
59260070 CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
1 CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
59260101 TTTTTTTTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 30 1.00
ACGTcount: A:0.00, C:1.00, G:0.00, T:0.00
Consensus pattern (1 bp):
C
Found at i:59261593 original size:13 final size:13
Alignment explanation
Indices: 59261575--59261601 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
59261565 GATATTTGAC
59261575 TGCTTTTTACGGG
1 TGCTTTTTACGGG
59261588 TGCTTTTTACGGG
1 TGCTTTTTACGGG
59261601 T
1 T
59261602 TAGGTATTGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.07, C:0.15, G:0.30, T:0.48
Consensus pattern (13 bp):
TGCTTTTTACGGG
Found at i:59261940 original size:31 final size:31
Alignment explanation
Indices: 59261896--59261966 Score: 81
Period size: 31 Copynumber: 2.3 Consensus size: 31
59261886 ATAGTCCCTA
** * *
59261896 AACTATTCGAAAGTT-TTCATTTAAGTTATTG
1 AACTATTAAAAAGTTGTT-ATTTAAATCATTG
59261927 AACTATTAAAAAGTTGTTATTTAAATCATTG
1 AACTATTAAAAAGTTGTTATTTAAATCATTG
*
59261958 AGCTATTAA
1 AACTATTAA
59261967 GTTTTTTTTT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
31 32 0.94
32 2 0.06
ACGTcount: A:0.38, C:0.08, G:0.11, T:0.42
Consensus pattern (31 bp):
AACTATTAAAAAGTTGTTATTTAAATCATTG
Found at i:59263138 original size:42 final size:42
Alignment explanation
Indices: 59263077--59263162 Score: 120
Period size: 42 Copynumber: 2.0 Consensus size: 42
59263067 GCTAATCTTG
* *
59263077 CAACAAATTCTGGTGTTAGATTGTATCAA-CAGTCTTATTTGA
1 CAACAAATTCTGGTATTAGATTGTAT-AAGCAGTCTTATTCGA
* *
59263119 CAACAGATTCTGGTATTAGATTGTATAAGTAGTCTTATTCGA
1 CAACAAATTCTGGTATTAGATTGTATAAGCAGTCTTATTCGA
59263161 CA
1 CA
59263163 GTCGATTTAG
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
41 2 0.05
42 37 0.95
ACGTcount: A:0.31, C:0.14, G:0.17, T:0.37
Consensus pattern (42 bp):
CAACAAATTCTGGTATTAGATTGTATAAGCAGTCTTATTCGA
Found at i:59267687 original size:9 final size:9
Alignment explanation
Indices: 59267673--59267698 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
59267663 TGAAGATGGG
59267673 GCATGAAAT
1 GCATGAAAT
59267682 GCATGAAAT
1 GCATGAAAT
59267691 GCATGAAA
1 GCATGAAA
59267699 AGGAAACCAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.46, C:0.12, G:0.23, T:0.19
Consensus pattern (9 bp):
GCATGAAAT
Found at i:59271359 original size:15 final size:15
Alignment explanation
Indices: 59271322--59271361 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
59271312 AATTTTTTAA
*
59271322 TAAAATTTT-ACATT
1 TAAAATTTTAACACT
*
59271336 TATAATTTTAACACT
1 TAAAATTTTAACACT
59271351 TAAAATTTTAA
1 TAAAATTTTAA
59271362 TTTATGAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
14 8 0.36
15 14 0.64
ACGTcount: A:0.45, C:0.07, G:0.00, T:0.47
Consensus pattern (15 bp):
TAAAATTTTAACACT
Found at i:59289065 original size:31 final size:31
Alignment explanation
Indices: 59289004--59289065 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
59288994 TCAGTCATGA
*
59289004 AATTATTAATAATTTTATAATTTAGTCACTC
1 AATTATTAATAAATTTATAATTTAGTCACTC
59289035 AATTATTAATAAATTTATAATTTAGTCACTC
1 AATTATTAATAAATTTATAATTTAGTCACTC
59289066 TCAACATAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.40, C:0.10, G:0.03, T:0.47
Consensus pattern (31 bp):
AATTATTAATAAATTTATAATTTAGTCACTC
Found at i:59289463 original size:40 final size:40
Alignment explanation
Indices: 59289408--59289491 Score: 168
Period size: 40 Copynumber: 2.1 Consensus size: 40
59289398 AAAAATAACA
59289408 TGGCATATGACAGCGTACTTGGTGTCATTAATCATCCAGT
1 TGGCATATGACAGCGTACTTGGTGTCATTAATCATCCAGT
59289448 TGGCATATGACAGCGTACTTGGTGTCATTAATCATCCAGT
1 TGGCATATGACAGCGTACTTGGTGTCATTAATCATCCAGT
59289488 TGGC
1 TGGC
59289492 CGATTAGCAC
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 44 1.00
ACGTcount: A:0.24, C:0.20, G:0.24, T:0.32
Consensus pattern (40 bp):
TGGCATATGACAGCGTACTTGGTGTCATTAATCATCCAGT
Found at i:59294127 original size:12 final size:10
Alignment explanation
Indices: 59294094--59294145 Score: 61
Period size: 10 Copynumber: 5.3 Consensus size: 10
59294084 ATCTTAATTC
59294094 TAAAAAAAT-
1 TAAAAAAATA
59294103 TAAAAAAATA
1 TAAAAAAATA
59294113 TAAAAAAATA
1 TAAAAAAATA
* * * *
59294123 CATAAATATT
1 TAAAAAAATA
59294133 TAAAAAAATA
1 TAAAAAAATA
59294143 TAA
1 TAA
59294146 TAAATTTTTA
Statistics
Matches: 34, Mismatches: 8, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
9 9 0.26
10 25 0.74
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.25
Consensus pattern (10 bp):
TAAAAAAATA
Found at i:59294138 original size:21 final size:21
Alignment explanation
Indices: 59294094--59294160 Score: 77
Period size: 20 Copynumber: 3.3 Consensus size: 21
59294084 ATCTTAATTC
* *
59294094 TAAAAAAAT-TAA-AAAAATA
1 TAAAAAAATATAATAAATATT
*
59294113 TAAAAAAATA-CATAAATATT
1 TAAAAAAATATAATAAATATT
*
59294133 TAAAAAAATATAATAAATTTT
1 TAAAAAAATATAATAAATATT
59294154 TAAAAAA
1 TAAAAAA
59294161 TGTAAAATAA
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
19 10 0.25
20 15 0.38
21 15 0.38
ACGTcount: A:0.70, C:0.01, G:0.00, T:0.28
Consensus pattern (21 bp):
TAAAAAAATATAATAAATATT
Found at i:59294169 original size:22 final size:21
Alignment explanation
Indices: 59294094--59294171 Score: 74
Period size: 21 Copynumber: 3.8 Consensus size: 21
59294084 ATCTTAATTC
59294094 TAAAAAAATTAAAA-AAATA--
1 TAAAAAAA-TAAAATAAATATT
*
59294113 TAAAAAAAT-ACATAAATATT
1 TAAAAAAATAAAATAAATATT
* *
59294133 TAAAAAAATATAATAAATTTT
1 TAAAAAAATAAAATAAATATT
*
59294154 TAAAAAATGTAAAATAAA
1 TAAAAAA-ATAAAATAAA
59294172 AAATGATTTA
Statistics
Matches: 48, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
17 2 0.04
18 6 0.12
19 8 0.17
20 9 0.19
21 15 0.31
22 8 0.17
ACGTcount: A:0.69, C:0.01, G:0.01, T:0.28
Consensus pattern (21 bp):
TAAAAAAATAAAATAAATATT
Found at i:59294208 original size:25 final size:24
Alignment explanation
Indices: 59294179--59294227 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 24
59294169 AAAAAATGAT
*
59294179 TTATATTAATATTAAATATAAATAA
1 TTATATTAATATCAAATA-AAATAA
59294204 TTATATTAATATCAAATAAAATAA
1 TTATATTAATATCAAATAAAATAA
59294228 AAATACCCCA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 6 0.26
25 17 0.74
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (24 bp):
TTATATTAATATCAAATAAAATAA
Found at i:59298973 original size:18 final size:18
Alignment explanation
Indices: 59298950--59298986 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
59298940 TAATTCTTCT
*
59298950 AATGAATTAGAAACTTAA
1 AATGAATTAAAAACTTAA
59298968 AATGAATTAAAAACTTAA
1 AATGAATTAAAAACTTAA
59298986 A
1 A
59298987 CTACCCCTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.59, C:0.05, G:0.08, T:0.27
Consensus pattern (18 bp):
AATGAATTAAAAACTTAA
Found at i:59302079 original size:20 final size:20
Alignment explanation
Indices: 59302051--59302088 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
59302041 TTCCGTTTAG
59302051 CTCACATGAGCTTCAGTTAA
1 CTCACATGAGCTTCAGTTAA
* *
59302071 CTCATATGAGTTTCAGTT
1 CTCACATGAGCTTCAGTT
59302089 TAACGCTATT
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:0.26, C:0.21, G:0.16, T:0.37
Consensus pattern (20 bp):
CTCACATGAGCTTCAGTTAA
Found at i:59302755 original size:21 final size:20
Alignment explanation
Indices: 59302731--59302770 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
59302721 TATGAGCTTT
*
59302731 AATGATTGATGGTAGATTATG
1 AATGATTGATGATAG-TTATG
*
59302752 AATGTTTGATGATAGTTAT
1 AATGATTGATGATAGTTAT
59302771 ACAAGTTTTG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.33, C:0.00, G:0.25, T:0.42
Consensus pattern (20 bp):
AATGATTGATGATAGTTATG
Found at i:59308113 original size:26 final size:26
Alignment explanation
Indices: 59308077--59308160 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
59308067 CATGAAATTC
59308077 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
59308103 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
59308129 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
59308155 TTATCA
1 TTATCA
59308161 ATTTGTATCA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:59314749 original size:31 final size:31
Alignment explanation
Indices: 59314711--59314770 Score: 111
Period size: 31 Copynumber: 1.9 Consensus size: 31
59314701 TTGTGACACT
59314711 TATCAAAAACCTTCTAACTATTTTCAGGGCA
1 TATCAAAAACCTTCTAACTATTTTCAGGGCA
*
59314742 TATCAAAAGCCTTCTAACTATTTTCAGGG
1 TATCAAAAACCTTCTAACTATTTTCAGGG
59314771 TATTTTTGTA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.33, C:0.22, G:0.12, T:0.33
Consensus pattern (31 bp):
TATCAAAAACCTTCTAACTATTTTCAGGGCA
Found at i:59315012 original size:10 final size:10
Alignment explanation
Indices: 59314999--59315032 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
59314989 AAATTAAACG
*
59314999 CACCGCACCG
1 CACCGCACCA
59315009 CACCGCACCA
1 CACCGCACCA
*
59315019 CACTGCACCA
1 CACCGCACCA
59315029 CACC
1 CACC
59315033 ACCCATTCAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.26, C:0.59, G:0.12, T:0.03
Consensus pattern (10 bp):
CACCGCACCA
Found at i:59329608 original size:21 final size:22
Alignment explanation
Indices: 59329582--59329622 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
59329572 TTAATAAAAT
*
59329582 TGAATCAATA-AATTAAAATTA
1 TGAATCAATAGAATAAAAATTA
59329603 TGAATCAATAGAATAAAAAT
1 TGAATCAATAGAATAAAAAT
59329623 AACATCACCT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.59, C:0.05, G:0.07, T:0.29
Consensus pattern (22 bp):
TGAATCAATAGAATAAAAATTA
Found at i:59332020 original size:42 final size:42
Alignment explanation
Indices: 59331971--59332055 Score: 170
Period size: 42 Copynumber: 2.0 Consensus size: 42
59331961 ATGCCTACCA
59331971 TAATTAATTACCAACAAATAAGGGAAAGAAAATCCATCTCTT
1 TAATTAATTACCAACAAATAAGGGAAAGAAAATCCATCTCTT
59332013 TAATTAATTACCAACAAATAAGGGAAAGAAAATCCATCTCTT
1 TAATTAATTACCAACAAATAAGGGAAAGAAAATCCATCTCTT
59332055 T
1 T
59332056 CTCTTTCTCT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.47, C:0.16, G:0.09, T:0.27
Consensus pattern (42 bp):
TAATTAATTACCAACAAATAAGGGAAAGAAAATCCATCTCTT
Found at i:59332778 original size:17 final size:18
Alignment explanation
Indices: 59332753--59332786 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
59332743 CTAGGTCTTC
59332753 TTTTGTGGTTTT-TTTTT
1 TTTTGTGGTTTTGTTTTT
*
59332770 TTTTTTGGTTTTGTTTT
1 TTTTGTGGTTTTGTTTT
59332787 GTTTCTCTCT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.00, C:0.00, G:0.18, T:0.82
Consensus pattern (18 bp):
TTTTGTGGTTTTGTTTTT
Found at i:59333235 original size:25 final size:25
Alignment explanation
Indices: 59333176--59333223 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
59333166 TTAATTAATT
*
59333176 TAATTGATTTTAATATTAAAGAAGA
1 TAATTGATTTTAACATTAAAGAAGA
59333201 TAATTGATTTTAACATTAAAGAA
1 TAATTGATTTTAACATTAAAGAA
59333224 AAATTTTGAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.48, C:0.02, G:0.10, T:0.40
Consensus pattern (25 bp):
TAATTGATTTTAACATTAAAGAAGA
Found at i:59335992 original size:3 final size:3
Alignment explanation
Indices: 59335979--59336020 Score: 75
Period size: 3 Copynumber: 13.7 Consensus size: 3
59335969 GTCCGTTCTT
59335979 TAC TCAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TA
1 TAC T-AC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TA
59336021 TTGTTATTAT
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 35 0.92
4 3 0.08
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (3 bp):
TAC
Found at i:59351148 original size:130 final size:130
Alignment explanation
Indices: 59350937--59351398 Score: 513
Period size: 130 Copynumber: 3.6 Consensus size: 130
59350927 TAATTATTTA
* ** ** * * * *
59350937 TTTAAAATTCTTTAAAACGAAGGCAATGTTTGATATTTGGCAATTCGCGGAATCGTGCCTTATCG
1 TTTAAAATTCTTCAAAAC-AAGATAATGTTCAATGTTTGGAAATTCGAGGAATCGTGCCCTATCG
* * * *
59351002 TGCTGGGTTGCAATTTCTCGTTTGCTCAAAATAATCGAATGTCCCTTTAGAATTTCACTCATGTT
65 TGCTGGGTTGCAATTTCTCGTTTGTTCAAAATAATCGAATATTCCTTTGGAATTTCACTCATGTT
59351067 T
130 T
* *
59351068 TTTAAAATTCTTCAAAATAAAGATAATGTTCAATGTTTGGCAATTCG-GGAATCGTGCCCTATCG
1 TTTAAAATTCTTCAAAA-CAAGATAATGTTCAATGTTTGGAAATTCGAGGAATCGTGCCCTATCG
* * *
59351132 TGCTGGGTTGCGATTTCTCGTTTGTTCAAAACAATCAAATATTCCTTTGGAATTTCACTCAT-TT
65 TGCTGGGTTGCAATTTCTCGTTTGTTCAAAATAATCGAATATTCCTTTGGAATTTCACTCATGTT
59351196 CT
130 -T
* * * * * *
59351198 TTAAAAATTCTTCAAAACGAGCATAATATTCGATGTTTGGAAATTCGGGGAATCATGCCCTATCG
1 TTTAAAATTCTTCAAAACAAG-ATAATGTTCAATGTTTGGAAATTCGAGGAATCGTGCCCTATCG
* * * *
59351263 TGCTGGGTTGCAATTTCCCTTTTTTTTAAAATAATCGAATATTCCTTTGGAA-TTCTACTCATGT
65 TGCTGGGTTGCAATTTCTCGTTTGTTCAAAATAATCGAATATTCCTTTGGAATTTC-ACTCATGT
59351327 TT
129 TT
* * * ** * * *
59351329 TCT-AAATGC-T-AAAGCAAGGCAATGTTCAATGTTTAGAAATTTGAGGAATCGTGCCCTACCGT
1 TTTAAAATTCTTCAAAACAAGATAATGTTCAATGTTTGGAAATTCGAGGAATCGTGCCCTATCGT
59351391 GCTGGGTT
66 GCTGGGTT
59351399 TCGATTTTTC
Statistics
Matches: 282, Mismatches: 43, Indels: 16
0.83 0.13 0.05
Matches are distributed among these distances:
127 43 0.15
128 6 0.02
129 5 0.02
130 118 0.42
131 108 0.38
132 2 0.01
ACGTcount: A:0.27, C:0.17, G:0.18, T:0.37
Consensus pattern (130 bp):
TTTAAAATTCTTCAAAACAAGATAATGTTCAATGTTTGGAAATTCGAGGAATCGTGCCCTATCGT
GCTGGGTTGCAATTTCTCGTTTGTTCAAAATAATCGAATATTCCTTTGGAATTTCACTCATGTTT
Found at i:59355470 original size:13 final size:13
Alignment explanation
Indices: 59355452--59355509 Score: 80
Period size: 13 Copynumber: 4.5 Consensus size: 13
59355442 AGTTCTTCAT
*
59355452 TGCTTTTGAAAAG
1 TGCTTTTGAGAAG
59355465 TGCTTTTGAGAAG
1 TGCTTTTGAGAAG
* * *
59355478 TTCTATGGAGAAG
1 TGCTTTTGAGAAG
59355491 TGCTTTTGAGAAG
1 TGCTTTTGAGAAG
59355504 TGCTTT
1 TGCTTT
59355510 AAAAAAATTT
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
13 38 1.00
ACGTcount: A:0.24, C:0.09, G:0.28, T:0.40
Consensus pattern (13 bp):
TGCTTTTGAGAAG
Found at i:59359196 original size:24 final size:24
Alignment explanation
Indices: 59359159--59359221 Score: 67
Period size: 24 Copynumber: 2.6 Consensus size: 24
59359149 TCATTTACAC
*
59359159 ATTATT-TATATTATTTTCA-TGATT
1 ATTATTGTAT-TTATTTTCACT-ACT
* *
59359183 ATTATTGTGTTTATTTTTACTACT
1 ATTATTGTATTTATTTTCACTACT
59359207 ATTATTGTATTTATT
1 ATTATTGTATTTATT
59359222 ATTAGTATTA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
24 30 0.91
25 3 0.09
ACGTcount: A:0.25, C:0.05, G:0.06, T:0.63
Consensus pattern (24 bp):
ATTATTGTATTTATTTTCACTACT
Found at i:59359236 original size:24 final size:24
Alignment explanation
Indices: 59359180--59359236 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 24
59359170 TATTTTCATG
* *
59359180 ATTATTATTGTGTTTATTTTTACT
1 ATTATTATTGTATTTATTATTACT
* *
59359204 ACTATTATTGTATTTATTATTAGT
1 ATTATTATTGTATTTATTATTACT
*
59359228 ATTAGTATT
1 ATTATTATT
59359237 ATAATTACTA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.26, C:0.04, G:0.09, T:0.61
Consensus pattern (24 bp):
ATTATTATTGTATTTATTATTACT
Found at i:59359472 original size:16 final size:16
Alignment explanation
Indices: 59359428--59359482 Score: 53
Period size: 16 Copynumber: 3.6 Consensus size: 16
59359418 TTCTAATGTG
59359428 TATGTAT-TATATATAT
1 TATGTATATAT-TATAT
* *
59359444 T-TTTA-ATACTATAT
1 TATGTATATATTATAT
59359458 TATGTATATATTATAT
1 TATGTATATATTATAT
*
59359474 TATATATAT
1 TATGTATAT
59359483 GTATTTATTA
Statistics
Matches: 31, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
14 6 0.19
15 8 0.26
16 17 0.55
ACGTcount: A:0.38, C:0.02, G:0.04, T:0.56
Consensus pattern (16 bp):
TATGTATATATTATAT
Found at i:59359502 original size:41 final size:39
Alignment explanation
Indices: 59359432--59359510 Score: 106
Period size: 41 Copynumber: 2.0 Consensus size: 39
59359422 AATGTGTATG
59359432 TATTATATATATTTTTAATACTATATTATGTATATATTA
1 TATTATATATATTTTTAATACTATATTATGTATATATTA
* *
59359471 TATTATATATATGTATTTATTA-TATTTTTATGTATATATT
1 TATTATATATAT-T-TTTAATACTA-TATTATGTATATATT
59359511 TTTAATATCA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
39 12 0.34
40 3 0.09
41 20 0.57
ACGTcount: A:0.35, C:0.01, G:0.04, T:0.59
Consensus pattern (39 bp):
TATTATATATATTTTTAATACTATATTATGTATATATTA
Found at i:59359693 original size:3 final size:3
Alignment explanation
Indices: 59359687--59359782 Score: 122
Period size: 3 Copynumber: 31.3 Consensus size: 3
59359677 CTTTTTTCAT
* *
59359687 TTA TTA TTA TCA TTA TTT TCTA CGTTA -TA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA T-TA --TTA TTA TTA TTA TTA TTA TTA TTA
* *
59359734 TCA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TCA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
59359782 T
1 T
59359783 CGTTTTCATT
Statistics
Matches: 81, Mismatches: 8, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
2 2 0.02
3 75 0.93
4 1 0.01
5 2 0.02
6 1 0.01
ACGTcount: A:0.31, C:0.05, G:0.01, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:59372239 original size:44 final size:44
Alignment explanation
Indices: 59372121--59372560 Score: 589
Period size: 44 Copynumber: 10.3 Consensus size: 44
59372111 TCCTTGAAAC
* *
59372121 AGATAACAGATTTGGCATTTCTGTAGCGGCGGAGAGCAGATCGA
1 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
* *
59372165 AGAT----GATTTGGCATCTCTGTAGCGGTGGAGAGCAGATCGA
1 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
* * *
59372205 AGATAACATATTTGGCATCTCTGTAACGGCGGAGAGCAGATCGA
1 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
*
59372249 AGATAACAGATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCGA
1 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
* * *
59372293 AGATAACAAATTTGGCGTCTCTGTAGCAGCGGAGAGCAGATCAA
1 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
* *
59372337 AGAT----GATTTGGCATCTCTGTAGCGGGGGAGAGCAGATCGA
1 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
59372377 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
1 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
* * *
59372421 AGAT----GATTTGGCGTCTCTGTAGCAGTGGAGAGCAGATCAA
1 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
*
59372461 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGT
1 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
* ** * *
59372505 AGGTAACAGATTTGGTATCTCTATAGCGGCAGAGAGCAGATCGA
1 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
*
59372549 AAATAACAGATT
1 AGATAACAGATT
59372561 GGTGTTCCTG
Statistics
Matches: 349, Mismatches: 35, Indels: 24
0.86 0.09 0.06
Matches are distributed among these distances:
40 110 0.32
44 239 0.68
ACGTcount: A:0.30, C:0.17, G:0.31, T:0.23
Consensus pattern (44 bp):
AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
Found at i:59372349 original size:128 final size:125
Alignment explanation
Indices: 59372121--59372549 Score: 599
Period size: 128 Copynumber: 3.4 Consensus size: 125
59372111 TCCTTGAAAC
* * *
59372121 AGATAACAGATTTGGCATTTCTGTAGCGGCGGAGAGCAGATCGAAGATGATTTGGCATCTCTGTA
1 AGATAACAGATTTGGCATCTCTGTAGCGGCAGAGAGCAGATCGAAGATGATTTGGCGTCTCTGTA
* * * *
59372186 GCGGTGGAGAGCAGATCGAAGATAACATATTTGGCATCTCTGTAACGGCGGAGAGCAGATCGA
66 GCAGTGGAGAGCAGATCAAAGAT---AGATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGA
* *
59372249 AGATAACAGATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCGAAGATAACAAATTTGGCGTCTC
1 AGATAACAGATTTGGCATCTCTGTAGCGGCAGAGAGCAGATCGAAGAT----GATTTGGCGTCTC
* *
59372314 TGTAGCAGCGGAGAGCAGATCAAAGAT-GATTTGGCATCTCTGTAGCGGGGGAGAGCAGATCGA
62 TGTAGCAGTGGAGAGCAGATCAAAGATAGATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGA
* *
59372377 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATGATTTGGCGTCTCTGTA
1 AGATAACAGATTTGGCATCTCTGTAGCGGCAGAGAGCAGATCGAAGATGATTTGGCGTCTCTGTA
* *
59372442 GCAGTGGAGAGCAGATCAAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGT
66 GCAGTGGAGAGCAGATCAAAGAT---AGATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGA
* * *
59372505 AGGTAACAGATTTGGTATCTCTATAGCGGCAGAGAGCAGATCGAA
1 AGATAACAGATTTGGCATCTCTGTAGCGGCAGAGAGCAGATCGAA
59372550 AATAACAGAT
Statistics
Matches: 271, Mismatches: 22, Indels: 16
0.88 0.07 0.05
Matches are distributed among these distances:
124 38 0.14
128 198 0.73
132 35 0.13
ACGTcount: A:0.29, C:0.17, G:0.32, T:0.22
Consensus pattern (125 bp):
AGATAACAGATTTGGCATCTCTGTAGCGGCAGAGAGCAGATCGAAGATGATTTGGCGTCTCTGTA
GCAGTGGAGAGCAGATCAAAGATAGATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGA
Found at i:59372390 original size:84 final size:84
Alignment explanation
Indices: 59372121--59372560 Score: 610
Period size: 84 Copynumber: 5.1 Consensus size: 84
59372111 TCCTTGAAAC
* *
59372121 AGATAACAGATTTGGCATTTCTGTAGCGGCGGAGAGCAGATCGAAGATGATTTGGCATCTCTGTA
1 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATGATTTGGCATCTCTGTA
*
59372186 GCGGTGGAGAGCAGATCGA
66 GCGGCGGAGAGCAGATCGA
* * * *
59372205 AGATAACATATTTGGCATCTCTGTAACGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTC
1 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGAT----GATTTGGCATCTC
*
59372270 TGTAGCGGCAGAGAGCAGATCGA
62 TGTAGCGGCGGAGAGCAGATCGA
* * *
59372293 AGATAACAAATTTGGCGTCTCTGTAGCAGCGGAGAGCAGATCAAAGATGATTTGGCATCTCTGTA
1 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATGATTTGGCATCTCTGTA
*
59372358 GCGGGGGAGAGCAGATCGA
66 GCGGCGGAGAGCAGATCGA
*
59372377 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATGATTTGGCGTCTCTGTA
1 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATGATTTGGCATCTCTGTA
* * *
59372442 GCAGTGGAGAGCAGATCAA
66 GCGGCGGAGAGCAGATCGA
* * *
59372461 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGTAGGTAACAGATTTGGTATCTC
1 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCG-AAG--A-TGATTTGGCATCTC
* *
59372526 TATAGCGGCAGAGAGCAGATCGA
62 TGTAGCGGCGGAGAGCAGATCGA
*
59372549 AAATAACAGATT
1 AGATAACAGATT
59372561 GGTGTTCCTG
Statistics
Matches: 317, Mismatches: 31, Indels: 12
0.88 0.09 0.03
Matches are distributed among these distances:
84 198 0.62
85 2 0.01
87 1 0.00
88 116 0.37
ACGTcount: A:0.30, C:0.17, G:0.31, T:0.23
Consensus pattern (84 bp):
AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATGATTTGGCATCTCTGTA
GCGGCGGAGAGCAGATCGA
Found at i:59374036 original size:24 final size:24
Alignment explanation
Indices: 59373999--59374061 Score: 67
Period size: 24 Copynumber: 2.6 Consensus size: 24
59373989 TCATGTACAC
*
59373999 ATTATT-TATATTATTTTCA-TGATT
1 ATTATTGTAT-TTATTTTCACT-ACT
* *
59374023 ATTATTGTGTTTATTTTTACTACT
1 ATTATTGTATTTATTTTCACTACT
59374047 ATTATTGTATTTATT
1 ATTATTGTATTTATT
59374062 ATTAGTATTA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
24 30 0.91
25 3 0.09
ACGTcount: A:0.25, C:0.05, G:0.06, T:0.63
Consensus pattern (24 bp):
ATTATTGTATTTATTTTCACTACT
Found at i:59374076 original size:24 final size:24
Alignment explanation
Indices: 59374020--59374076 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 24
59374010 TATTTTCATG
* *
59374020 ATTATTATTGTGTTTATTTTTACT
1 ATTATTATTGTATTTATTATTACT
* *
59374044 ACTATTATTGTATTTATTATTAGT
1 ATTATTATTGTATTTATTATTACT
*
59374068 ATTAGTATT
1 ATTATTATT
59374077 ATAATTACTA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.26, C:0.04, G:0.09, T:0.61
Consensus pattern (24 bp):
ATTATTATTGTATTTATTATTACT
Found at i:59374306 original size:16 final size:16
Alignment explanation
Indices: 59374262--59374316 Score: 53
Period size: 16 Copynumber: 3.6 Consensus size: 16
59374252 TTCTAATGTG
59374262 TATGTAT-TATATATAT
1 TATGTATATAT-TATAT
* *
59374278 T-TTTA-ATACTATAT
1 TATGTATATATTATAT
59374292 TATGTATATATTATAT
1 TATGTATATATTATAT
*
59374308 TATATATAT
1 TATGTATAT
59374317 GTATTTATTA
Statistics
Matches: 31, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
14 6 0.19
15 8 0.26
16 17 0.55
ACGTcount: A:0.38, C:0.02, G:0.04, T:0.56
Consensus pattern (16 bp):
TATGTATATATTATAT
Found at i:59374336 original size:41 final size:39
Alignment explanation
Indices: 59374266--59374344 Score: 106
Period size: 41 Copynumber: 2.0 Consensus size: 39
59374256 AATGTGTATG
59374266 TATTATATATATTTTTAATACTATATTATGTATATATTA
1 TATTATATATATTTTTAATACTATATTATGTATATATTA
* *
59374305 TATTATATATATGTATTTATTA-TATTTTTATGTATATATT
1 TATTATATATAT-T-TTTAATACTA-TATTATGTATATATT
59374345 TTTAATATCA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
39 12 0.34
40 3 0.09
41 20 0.57
ACGTcount: A:0.35, C:0.01, G:0.04, T:0.59
Consensus pattern (39 bp):
TATTATATATATTTTTAATACTATATTATGTATATATTA
Found at i:59374535 original size:3 final size:3
Alignment explanation
Indices: 59374527--59374582 Score: 51
Period size: 3 Copynumber: 18.0 Consensus size: 3
59374517 TTTATTCATA
* *
59374527 TAT TAT TAT CAT TAT TTT CTACGT TAT -AT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT -TA--T TAT TAT TAT TAT TAT TAT TAT TAT
*
59374574 CAT TAT TAT
1 TAT TAT TAT
59374583 CGTTTTCATT
Statistics
Matches: 43, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
2 2 0.05
3 37 0.86
4 1 0.02
5 2 0.05
6 1 0.02
ACGTcount: A:0.30, C:0.07, G:0.02, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:59377493 original size:3 final size:3
Alignment explanation
Indices: 59377487--59377572 Score: 50
Period size: 3 Copynumber: 28.7 Consensus size: 3
59377477 CTTATATCTT
* * * * *
59377487 TAA TAA TAA TAA TAA TAC TTA TAA TATT TAA TAA TCA T-A CAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA
* * * * *
59377532 TAA TAC TTA TAA TATT TAA TAA TAA T-A CAA TAA TAA AAA TA
1 TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TA
59377573 TGTTTAACAA
Statistics
Matches: 60, Mismatches: 19, Indels: 8
0.69 0.22 0.09
Matches are distributed among these distances:
2 2 0.03
3 54 0.90
4 4 0.07
ACGTcount: A:0.57, C:0.06, G:0.00, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:59377532 original size:11 final size:11
Alignment explanation
Indices: 59377494--59377567 Score: 53
Period size: 11 Copynumber: 6.7 Consensus size: 11
59377484 CTTTAATAAT
59377494 AATAATAATAC
1 AATAATAATAC
* **
59377505 TTATAAT-ATTT
1 -AATAATAATAC
*
59377516 AATAATCATAC
1 AATAATAATAC
59377527 AATAATAATAC
1 AATAATAATAC
* **
59377538 TTATAAT-ATTT
1 -AATAATAATAC
59377549 AATAATAATAC
1 AATAATAATAC
59377560 AATAATAA
1 AATAATAA
59377568 AAATATGTTT
Statistics
Matches: 46, Mismatches: 13, Indels: 7
0.70 0.20 0.11
Matches are distributed among these distances:
10 10 0.22
11 26 0.57
12 10 0.22
ACGTcount: A:0.55, C:0.07, G:0.00, T:0.38
Consensus pattern (11 bp):
AATAATAATAC
Found at i:59377536 original size:33 final size:32
Alignment explanation
Indices: 59377467--59377567 Score: 140
Period size: 33 Copynumber: 3.2 Consensus size: 32
59377457 AAATATGTTG
*
59377467 AATAATAATACTTAT-ATCTTTAAT-A-AT--
1 AATAATAATACTTATAATATTTAATAATATAC
59377494 AATAATAATACTTATAATATTTAATAATCATAC
1 AATAATAATACTTATAATATTTAATAAT-ATAC
59377527 AATAATAATACTTATAATATTTAATAATAATAC
1 AATAATAATACTTATAATATTTAATAAT-ATAC
59377560 AATAATAA
1 AATAATAA
59377568 AAATATGTTT
Statistics
Matches: 66, Mismatches: 2, Indels: 6
0.89 0.03 0.08
Matches are distributed among these distances:
27 15 0.23
28 8 0.12
29 1 0.02
31 2 0.03
33 40 0.61
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.40
Consensus pattern (32 bp):
AATAATAATACTTATAATATTTAATAATATAC
Found at i:59379535 original size:48 final size:48
Alignment explanation
Indices: 59379468--59379643 Score: 135
Period size: 48 Copynumber: 3.7 Consensus size: 48
59379458 AATACACCAA
* * *
59379468 GTATGAAACCGTCACTCAGT-AAAATTCAAAATCAGAGCCACGCGTCAC
1 GTATAAAACCGTGATTCAGTGAAAA-TCAAAATCAGAGCCACGCGTCAC
* * ** *
59379516 GTATAAAACCGTGATTCAGTGAGAATCAAAATCAAAGTTA--TGTCAC
1 GTATAAAACCGTGATTCAGTGAAAATCAAAATCAGAGCCACGCGTCAC
* * * * * * *
59379562 TTATGAAACTGTTATTTAAT-AAAAGTCGAAATCAGAGCCACGCGTCAC
1 GTATAAAACCGTGATTCAGTGAAAA-TCAAAATCAGAGCCACGCGTCAC
* * * *
59379610 TTACAAAATCGTGATTCAGTGAGAATCAAAATCA
1 GTATAAAACCGTGATTCAGTGAAAATCAAAATCA
59379644 AAACCACTCA
Statistics
Matches: 94, Mismatches: 29, Indels: 10
0.71 0.22 0.08
Matches are distributed among these distances:
45 3 0.03
46 30 0.32
48 55 0.59
49 6 0.06
ACGTcount: A:0.40, C:0.19, G:0.16, T:0.24
Consensus pattern (48 bp):
GTATAAAACCGTGATTCAGTGAAAATCAAAATCAGAGCCACGCGTCAC
Found at i:59381953 original size:201 final size:201
Alignment explanation
Indices: 59381507--59382058 Score: 844
Period size: 201 Copynumber: 2.7 Consensus size: 201
59381497 AGCTGAAACT
* *
59381507 AAGTACATTGAAACTAGTCTCCTTTTTTCCTTCAATATTGAACAAAAAAATAATTCTGAAATTTG
1 AAGTACATTGAAACTAGTCTCC-TATTTCCTTCGATATTGAAC-AAAAAATAATT-TGAAATTTG
*
59381572 AATTACAATATAATAATGCTTGGTGCAGTGTAATCAATGAATGGAGATTCCCAATGAAAATTTTG
63 AATTACAATATAATAATGCTTGGTGCAGTGTAATTAATGAATGGAGATTCCCAATGAAAATTTTG
* *
59381637 ATTACACGTTTCATTCACACACAAATAATACATTACTTCTGAAACTGTCACTCAGTGAGAGTCGA
128 ATTA-ACGTTTCATTCACACACAAATAATACATCACTTATGAAACTGTCACTCAGTGAGAGTCGA
*
59381702 AACCAAAGTC
192 AACCAAAGCC
*
59381712 AAGTACATTGAAACTAATCTCCTATTTCACTTCGATATTGAACAAAAAATAATTTGGAAATTTGA
1 AAGTACATTGAAACTAGTCTCCTATTTC-CTTCGATATTGAACAAAAAATAATTT-GAAATTTGA
59381777 ATTACAATATAATAATGCTTGGTGCAGTGTAATTAATGAATGGAGATTCCCAATGAAAA-TTTGA
64 ATTACAATATAATAATGCTTGGTGCAGTGTAATTAATGAATGGAGATTCCCAATGAAAATTTTGA
59381841 TT-ACGTTTCATTCACACACAAATGAA-ACATCACTTATGAAACTGTCACTCAGTGAGAGTCGAA
129 TTAACGTTTCATTCACACACAAAT-AATACATCACTTATGAAACTGTCACTCAGTGAGAGTCGAA
59381904 ACCAAAGCC
193 ACCAAAGCC
* * * * *
59381913 AGGTACATCGAAACTAGTCTCCTATTTCCATCTGATATTGAA-AAAAAA-AAATTAAAATTTGAA
1 AAGTACATTGAAACTAGTCTCCTATTTCCTTC-GATATTGAACAAAAAATAATTTGAAATTTGAA
** * *
59381976 TTACAATATAATAATGCTTGGTGTGGTGTAATTAATGAATAGAGATTCTCAATGAAAATTTTGAT
65 TTACAATATAATAATGCTTGGTGCAGTGTAATTAATGAATGGAGATTCCCAATGAAAATTTTGAT
59382041 TACACGTTTCATTCACAC
130 TA-ACGTTTCATTCACAC
59382059 TTATGAAACT
Statistics
Matches: 323, Mismatches: 17, Indels: 18
0.90 0.05 0.05
Matches are distributed among these distances:
198 63 0.20
199 11 0.03
200 9 0.03
201 113 0.35
202 2 0.01
203 8 0.02
204 83 0.26
205 34 0.11
ACGTcount: A:0.39, C:0.16, G:0.14, T:0.32
Consensus pattern (201 bp):
AAGTACATTGAAACTAGTCTCCTATTTCCTTCGATATTGAACAAAAAATAATTTGAAATTTGAAT
TACAATATAATAATGCTTGGTGCAGTGTAATTAATGAATGGAGATTCCCAATGAAAATTTTGATT
AACGTTTCATTCACACACAAATAATACATCACTTATGAAACTGTCACTCAGTGAGAGTCGAAACC
AAAGCC
Found at i:59384319 original size:17 final size:18
Alignment explanation
Indices: 59384294--59384333 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
59384284 TAAAGCTATG
*
59384294 AAAAATGTTCTC-AATAT
1 AAAATTGTTCTCTAATAT
*
59384311 AAAATTGTTCTCTCATAT
1 AAAATTGTTCTCTAATAT
59384329 AAAAT
1 AAAAT
59384334 CAAAAGCTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 11 0.55
18 9 0.45
ACGTcount: A:0.45, C:0.12, G:0.05, T:0.38
Consensus pattern (18 bp):
AAAATTGTTCTCTAATAT
Found at i:59384511 original size:15 final size:15
Alignment explanation
Indices: 59384491--59384521 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
59384481 AAAACAATAT
59384491 AACTCTTGACCTTTC
1 AACTCTTGACCTTTC
59384506 AACTCTTGACCTTTC
1 AACTCTTGACCTTTC
59384521 A
1 A
59384522 CTTACATGAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.23, C:0.32, G:0.06, T:0.39
Consensus pattern (15 bp):
AACTCTTGACCTTTC
Found at i:59387873 original size:15 final size:15
Alignment explanation
Indices: 59387863--59387892 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
59387853 TCCCTTCTTG
59387863 ACCACGACCTTTTCC
1 ACCACGACCTTTTCC
*
59387878 ACCACGACCATTTCC
1 ACCACGACCTTTTCC
59387893 TCGATCTCCA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.23, C:0.47, G:0.07, T:0.23
Consensus pattern (15 bp):
ACCACGACCTTTTCC
Found at i:59388658 original size:17 final size:18
Alignment explanation
Indices: 59388633--59388672 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
59388623 CCAAATTGTG
*
59388633 AAAAATGTTCTC-AATAT
1 AAAATTGTTCTCTAATAT
*
59388650 AAAATTGTTCTCTCATAT
1 AAAATTGTTCTCTAATAT
59388668 AAAAT
1 AAAAT
59388673 CAAAAGCTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 11 0.55
18 9 0.45
ACGTcount: A:0.45, C:0.12, G:0.05, T:0.38
Consensus pattern (18 bp):
AAAATTGTTCTCTAATAT
Found at i:59388850 original size:15 final size:15
Alignment explanation
Indices: 59388830--59388860 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
59388820 AAAACAATAT
59388830 AACTCTTGACCTTTC
1 AACTCTTGACCTTTC
59388845 AACTCTTGACCTTTC
1 AACTCTTGACCTTTC
59388860 A
1 A
59388861 CTTACATGAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.23, C:0.32, G:0.06, T:0.39
Consensus pattern (15 bp):
AACTCTTGACCTTTC
Found at i:59391432 original size:10 final size:10
Alignment explanation
Indices: 59391417--59391451 Score: 61
Period size: 10 Copynumber: 3.4 Consensus size: 10
59391407 TAATACAAGT
59391417 GTAAAATGCA
1 GTAAAATGCA
59391427 GTAAAAATGCA
1 GT-AAAATGCA
59391438 GTAAAATGCA
1 GTAAAATGCA
59391448 GTAA
1 GTAA
59391452 GTTTGTTAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 14 0.58
11 10 0.42
ACGTcount: A:0.51, C:0.09, G:0.20, T:0.20
Consensus pattern (10 bp):
GTAAAATGCA
Found at i:59391435 original size:11 final size:11
Alignment explanation
Indices: 59391419--59391451 Score: 59
Period size: 11 Copynumber: 3.1 Consensus size: 11
59391409 ATACAAGTGT
59391419 AAAATGCAGTA
1 AAAATGCAGTA
59391430 AAAATGCAGT-
1 AAAATGCAGTA
59391440 AAAATGCAGTA
1 AAAATGCAGTA
59391451 A
1 A
59391452 GTTTGTTAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 10 0.48
11 11 0.52
ACGTcount: A:0.55, C:0.09, G:0.18, T:0.18
Consensus pattern (11 bp):
AAAATGCAGTA
Found at i:59407342 original size:15 final size:15
Alignment explanation
Indices: 59407317--59407349 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
59407307 ATTTGGTTAT
59407317 TAATATAATTAAATAA
1 TAATATAATTAAA-AA
59407333 TAAT-TAATTAAAAA
1 TAATATAATTAAAAA
59407347 TAA
1 TAA
59407350 ATACTAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 5 0.29
15 8 0.47
16 4 0.24
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (15 bp):
TAATATAATTAAAAA
Done.