Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032251.1 Gossypioides kirkii chromosome KI_09
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: 38743931
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2800 characters in sequence are not A, C, G, or T
File 94 of 144
Found at i:22020569 original size:32 final size:32
Alignment explanation
Indices: 22020532--22020598 Score: 107
Period size: 32 Copynumber: 2.1 Consensus size: 32
22020522 TGAAATACTG
22020532 ATTACAACCCTATTCCATTACAGCTCTATTAC
1 ATTACAACCCTATTCCATTACAGCTCTATTAC
* * *
22020564 ATTACAACTCTATTCCATTATAGCTCTATTCC
1 ATTACAACCCTATTCCATTACAGCTCTATTAC
22020596 ATT
1 ATT
22020599 CCATTCAACC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.30, C:0.28, G:0.03, T:0.39
Consensus pattern (32 bp):
ATTACAACCCTATTCCATTACAGCTCTATTAC
Found at i:22020615 original size:94 final size:94
Alignment explanation
Indices: 22020486--22020662 Score: 300
Period size: 94 Copynumber: 1.9 Consensus size: 94
22020476 CAAGAATACT
* * *
22020486 ATTACAGCTCTATTCTATTCTATTCAACTAAACAACTGAAATACTGATTACAACCCTATTCCATT
1 ATTACAGCTCTATTCCATTCCATTCAACCAAACAACTGAAATACTGATTACAACCCTATTCCATT
22020551 ACAGCTCTATTACATTACAACTCTATTCC
66 ACAGCTCTATTACATTACAACTCTATTCC
* * *
22020580 ATTATAGCTCTATTCCATTCCATTCAACCAAACAACTGAAATATTGATTACAGCCCTATTCCATT
1 ATTACAGCTCTATTCCATTCCATTCAACCAAACAACTGAAATACTGATTACAACCCTATTCCATT
22020645 ACAGCTCTATTACATTAC
66 ACAGCTCTATTACATTAC
22020663 GGGCACGTTT
Statistics
Matches: 77, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
94 77 1.00
ACGTcount: A:0.34, C:0.27, G:0.05, T:0.34
Consensus pattern (94 bp):
ATTACAGCTCTATTCCATTCCATTCAACCAAACAACTGAAATACTGATTACAACCCTATTCCATT
ACAGCTCTATTACATTACAACTCTATTCC
Found at i:22020647 original size:16 final size:16
Alignment explanation
Indices: 22020626--22020662 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
22020616 TGAAATATTG
*
22020626 ATTACAGCCCTATTCC
1 ATTACAGCCCTATTAC
*
22020642 ATTACAGCTCTATTAC
1 ATTACAGCCCTATTAC
22020658 ATTAC
1 ATTAC
22020663 GGGCACGTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.30, C:0.30, G:0.05, T:0.35
Consensus pattern (16 bp):
ATTACAGCCCTATTAC
Found at i:22020701 original size:16 final size:16
Alignment explanation
Indices: 22020678--22020723 Score: 65
Period size: 16 Copynumber: 2.9 Consensus size: 16
22020668 CGTTTGGTTC
22020678 GCTGTAATGGAATAAA
1 GCTGTAATGGAATAAA
* *
22020694 GGTGTAATGGAATAGA
1 GCTGTAATGGAATAAA
*
22020710 GCTATAATGGAATA
1 GCTGTAATGGAATA
22020724 GGACTGTAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.41, C:0.04, G:0.28, T:0.26
Consensus pattern (16 bp):
GCTGTAATGGAATAAA
Found at i:22020733 original size:16 final size:16
Alignment explanation
Indices: 22020679--22020733 Score: 53
Period size: 16 Copynumber: 3.4 Consensus size: 16
22020669 GTTTGGTTCG
22020679 CTGTAATGGAATAAAGG-
1 CTGTAATGGAAT--AGGA
22020696 -TGTAATGGAATA-GA
1 CTGTAATGGAATAGGA
*
22020710 GCTATAATGGAATAGGA
1 -CTGTAATGGAATAGGA
22020727 CTGTAAT
1 CTGTAAT
22020734 TAGTAATTCA
Statistics
Matches: 32, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
13 1 0.03
14 1 0.03
16 28 0.88
17 2 0.06
ACGTcount: A:0.40, C:0.05, G:0.27, T:0.27
Consensus pattern (16 bp):
CTGTAATGGAATAGGA
Found at i:22020940 original size:26 final size:26
Alignment explanation
Indices: 22020896--22020993 Score: 72
Period size: 26 Copynumber: 3.6 Consensus size: 26
22020886 ATTATTAAAT
* * *
22020896 TTTAATAAGATTATTATTAAATATAA
1 TTTAATAAAATAATAATTAAATATAA
*
22020922 TTTAATAAAATAATAATT-AATTTAA
1 TTTAATAAAATAATAATTAAATATAA
* * *
22020947 TTATATTTTAACATAATTATTATTAAATACAA
1 TT-TA--ATAAAATAA-TA--ATTAAATATAA
22020979 TTTAATAAAATAATA
1 TTTAATAAAATAATA
22020994 TATAATTTAA
Statistics
Matches: 55, Mismatches: 10, Indels: 12
0.71 0.13 0.16
Matches are distributed among these distances:
25 8 0.15
26 17 0.31
28 9 0.16
29 9 0.16
31 5 0.09
32 7 0.13
ACGTcount: A:0.52, C:0.02, G:0.01, T:0.45
Consensus pattern (26 bp):
TTTAATAAAATAATAATTAAATATAA
Found at i:22020966 original size:57 final size:58
Alignment explanation
Indices: 22020905--22021062 Score: 205
Period size: 57 Copynumber: 2.7 Consensus size: 58
22020895 TTTTAATAAG
*
22020905 ATTATTATTAAATATAATTTAATAAAATAATA-ATTAATTTAATTATA-TTTTAACATA
1 ATTATTATTAAATATAATTTAATAAAATAATATA-TAATTTAATAATATTTTTAACATA
* *
22020962 ATTATTATTAAATACAATTTAATAAAATAATATATAATTTAATAATATTTTTAATATA
1 ATTATTATTAAATATAATTTAATAAAATAATATATAATTTAATAATATTTTTAACATA
22021020 ATTATTATTAAAATATGAATTAGTAA-AAATTATAATATATAAT
1 ATTATTATT-AAATAT-AATT--TAATAAA--ATAATATATAAT
22021063 ATTAGAAAAT
Statistics
Matches: 89, Mismatches: 4, Indels: 10
0.86 0.04 0.10
Matches are distributed among these distances:
57 43 0.48
58 19 0.21
59 5 0.06
60 4 0.04
61 3 0.03
62 3 0.03
63 12 0.13
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.46
Consensus pattern (58 bp):
ATTATTATTAAATATAATTTAATAAAATAATATATAATTTAATAATATTTTTAACATA
Found at i:22022436 original size:31 final size:31
Alignment explanation
Indices: 22022397--22022469 Score: 110
Period size: 31 Copynumber: 2.4 Consensus size: 31
22022387 TTTTATTTTG
22022397 ATCATTGAACTATTCGAAAGTTTTCATTTAA
1 ATCATTGAACTATTCGAAAGTTTTCATTTAA
* * *
22022428 GTCATTGAACTATTTGAAAGTTTTTATTTAA
1 ATCATTGAACTATTCGAAAGTTTTCATTTAA
*
22022459 ACCATTGAACT
1 ATCATTGAACT
22022470 GTTAACTTTT
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 37 1.00
ACGTcount: A:0.34, C:0.12, G:0.11, T:0.42
Consensus pattern (31 bp):
ATCATTGAACTATTCGAAAGTTTTCATTTAA
Found at i:22023888 original size:9 final size:9
Alignment explanation
Indices: 22023874--22023902 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
22023864 CTTAAATATT
22023874 TAAAAATAA
1 TAAAAATAA
22023883 TAAAAATAA
1 TAAAAATAA
22023892 TAAAAATAA
1 TAAAAATAA
22023901 TA
1 TA
22023903 TGAGTGGATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (9 bp):
TAAAAATAA
Found at i:22025288 original size:23 final size:23
Alignment explanation
Indices: 22025262--22025305 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
22025252 TTCAAAGCAA
22025262 AAAAAAATACTTAGTATGATATT
1 AAAAAAATACTTAGTATGATATT
* *
22025285 AAAAATATATTTAGTATGATA
1 AAAAAAATACTTAGTATGATA
22025306 AACTTGAATC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.52, C:0.02, G:0.09, T:0.36
Consensus pattern (23 bp):
AAAAAAATACTTAGTATGATATT
Found at i:22026158 original size:14 final size:15
Alignment explanation
Indices: 22026139--22026169 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
22026129 ATGACCCGTA
22026139 TTATATTATATT-TT
1 TTATATTATATTATT
22026153 TTATATTATATTATT
1 TTATATTATATTATT
22026168 TT
1 TT
22026170 TAATTTAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 12 0.75
15 4 0.25
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (15 bp):
TTATATTATATTATT
Found at i:22026169 original size:17 final size:17
Alignment explanation
Indices: 22026137--22026222 Score: 52
Period size: 17 Copynumber: 4.9 Consensus size: 17
22026127 AAATGACCCG
22026137 TATTATATTATATTTTTTA
1 TATTATA-T-TATTTTTTA
*
22026156 TATTATATTATTTTTAA
1 TATTATATTATTTTTTA
22026173 T-TTAATATTTAATTTTTTA
1 TATT-ATA-TT-ATTTTTTA
* *
22026192 T-TAAAAATTATTTTTTA
1 TAT-TATATTATTTTTTA
* *
22026209 AATT-TAATATTTTT
1 TATTATATTATTTTT
22026223 ACTTAAATTC
Statistics
Matches: 54, Mismatches: 8, Indels: 13
0.72 0.11 0.17
Matches are distributed among these distances:
16 10 0.19
17 20 0.37
18 6 0.11
19 18 0.33
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (17 bp):
TATTATATTATTTTTTA
Found at i:22026189 original size:19 final size:19
Alignment explanation
Indices: 22026165--22026220 Score: 60
Period size: 18 Copynumber: 2.9 Consensus size: 19
22026155 ATATTATATT
22026165 ATTTTTAATTTAATATTTA
1 ATTTTTAATTTAATATTTA
* * *
22026184 ATTTTTTA-TTAAAAATTA
1 ATTTTTAATTTAATATTTA
*
22026202 TTTTTTAAATTTAATATTT
1 ATTTTT-AATTTAATATTT
22026221 TTACTTAAAT
Statistics
Matches: 28, Mismatches: 7, Indels: 3
0.74 0.18 0.08
Matches are distributed among these distances:
18 13 0.46
19 8 0.29
20 7 0.25
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (19 bp):
ATTTTTAATTTAATATTTA
Found at i:22028084 original size:18 final size:19
Alignment explanation
Indices: 22028048--22028086 Score: 55
Period size: 18 Copynumber: 2.1 Consensus size: 19
22028038 ATTTATACAA
22028048 AAAATTATTTTAAATAAAT
1 AAAATTATTTTAAATAAAT
22028067 AAAA-TATTATTAAA-AAAT
1 AAAATTATT-TTAAATAAAT
22028085 AA
1 AA
22028087 TTATTTTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 10 0.53
19 9 0.47
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (19 bp):
AAAATTATTTTAAATAAAT
Found at i:22028840 original size:28 final size:28
Alignment explanation
Indices: 22028798--22028917 Score: 74
Period size: 28 Copynumber: 4.5 Consensus size: 28
22028788 GTATATTAAT
*
22028798 TAAAAATATAAAAAATCATATATAATATA
1 TAAAAAT-TTAAAAATCATATATAATATA
** * ** *
22028827 TAAAAATTTAAAAATGTTACATTTTTTA
1 TAAAAATTTAAAAATCATATATAATATA
*
22028855 T-AAAATTT-TAAA--ATATATAAT-TA
1 TAAAAATTTAAAAATCATATATAATATA
* *
22028878 T-AAATTTTAAAAAGTCA-AAATAATATA
1 TAAAAATTTAAAAA-TCATATATAATATA
*
22028905 TAAAAATTGAAAA
1 TAAAAATTTAAAA
22028918 TTGTTATAAA
Statistics
Matches: 68, Mismatches: 17, Indels: 13
0.69 0.17 0.13
Matches are distributed among these distances:
23 9 0.13
24 8 0.12
26 9 0.13
27 11 0.16
28 24 0.35
29 7 0.10
ACGTcount: A:0.58, C:0.03, G:0.03, T:0.37
Consensus pattern (28 bp):
TAAAAATTTAAAAATCATATATAATATA
Found at i:22033631 original size:3 final size:3
Alignment explanation
Indices: 22033623--22033648 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
22033613 TCTTGATCAT
22033623 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
22033649 CTTTTACCTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:22036812 original size:9 final size:9
Alignment explanation
Indices: 22036765--22036804 Score: 73
Period size: 9 Copynumber: 4.6 Consensus size: 9
22036755 TAAACAGATT
22036765 ATATTTAT-
1 ATATTTATA
22036773 ATATTTATA
1 ATATTTATA
22036782 ATATTTATA
1 ATATTTATA
22036791 ATATTTATA
1 ATATTTATA
22036800 ATATT
1 ATATT
22036805 ATAGATATGT
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
8 8 0.26
9 23 0.74
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.57
Consensus pattern (9 bp):
ATATTTATA
Found at i:22042308 original size:17 final size:18
Alignment explanation
Indices: 22042288--22042329 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
22042278 CTCCCTTGAC
*
22042288 CTTTAACCTTTT-ATCTT
1 CTTTAACCTTTTCATATT
22042305 CTTTAA-CTTTTCATATT
1 CTTTAACCTTTTCATATT
22042322 CTTATAAC
1 CTT-TAAC
22042330 TATTTTTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
16 5 0.24
17 13 0.62
18 3 0.14
ACGTcount: A:0.24, C:0.21, G:0.00, T:0.55
Consensus pattern (18 bp):
CTTTAACCTTTTCATATT
Found at i:22044084 original size:19 final size:19
Alignment explanation
Indices: 22044060--22044098 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
22044050 GACTTATGCT
22044060 TAGCAGACAGTGCAACTAC
1 TAGCAGACAGTGCAACTAC
*
22044079 TAGCAGATAGTGCAACTAC
1 TAGCAGACAGTGCAACTAC
22044098 T
1 T
22044099 CACACTATAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.36, C:0.23, G:0.21, T:0.21
Consensus pattern (19 bp):
TAGCAGACAGTGCAACTAC
Found at i:22047693 original size:34 final size:34
Alignment explanation
Indices: 22047655--22047744 Score: 144
Period size: 34 Copynumber: 2.6 Consensus size: 34
22047645 ACAATAAACA
*
22047655 TTAACCCTCCATCTTCCTTAACCTCCCTTGACCT
1 TTAACCTTCCATCTTCCTTAACCTCCCTTGACCT
* *
22047689 TTAACCTTCCATCTTCCTTAACCTCTCTTGACTT
1 TTAACCTTCCATCTTCCTTAACCTCCCTTGACCT
*
22047723 TTAACCTTTCATCTTCCTTAAC
1 TTAACCTTCCATCTTCCTTAAC
22047745 TTTTCATATT
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
34 52 1.00
ACGTcount: A:0.19, C:0.38, G:0.02, T:0.41
Consensus pattern (34 bp):
TTAACCTTCCATCTTCCTTAACCTCCCTTGACCT
Found at i:22047712 original size:17 final size:17
Alignment explanation
Indices: 22047655--22047712 Score: 59
Period size: 17 Copynumber: 3.4 Consensus size: 17
22047645 ACAATAAACA
*
22047655 TTAACCCTCCATCTTCC
1 TTAACCTTCCATCTTCC
22047672 TTAACC-TCC--CTTGACC
1 TTAACCTTCCATCTT--CC
22047688 TTTAACCTTCCATCTTCC
1 -TTAACCTTCCATCTTCC
22047706 TTAACCT
1 TTAACCT
22047713 CTCTTGACTT
Statistics
Matches: 35, Mismatches: 0, Indels: 12
0.74 0.00 0.26
Matches are distributed among these distances:
14 3 0.09
16 5 0.14
17 19 0.54
18 5 0.14
20 3 0.09
ACGTcount: A:0.19, C:0.41, G:0.02, T:0.38
Consensus pattern (17 bp):
TTAACCTTCCATCTTCC
Found at i:22047743 original size:17 final size:17
Alignment explanation
Indices: 22047689--22047751 Score: 58
Period size: 17 Copynumber: 3.7 Consensus size: 17
22047679 CCCTTGACCT
*
22047689 TTAACCTTCCATCTTCC
1 TTAACCTTTCATCTTCC
* *
22047706 TTAACCTCTCTTGACTT--
1 TTAACCTTTCAT--CTTCC
22047723 TTAACCTTTCATCTTCC
1 TTAACCTTTCATCTTCC
*
22047740 TTAACTTTTCAT
1 TTAACCTTTCAT
22047752 ATTCTTGTAA
Statistics
Matches: 36, Mismatches: 6, Indels: 8
0.72 0.12 0.16
Matches are distributed among these distances:
15 3 0.08
17 30 0.83
19 3 0.08
ACGTcount: A:0.19, C:0.32, G:0.02, T:0.48
Consensus pattern (17 bp):
TTAACCTTTCATCTTCC
Found at i:22048387 original size:2 final size:2
Alignment explanation
Indices: 22048380--22048405 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
22048370 AAACATAGAA
22048380 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
22048406 TACTTAACGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:22051646 original size:11 final size:11
Alignment explanation
Indices: 22051597--22051671 Score: 51
Period size: 11 Copynumber: 6.8 Consensus size: 11
22051587 TAATTCTAAC
*
22051597 CGTTGACCAAG
1 CGTTGACCGAG
* *
22051608 TGTTGACCGAC
1 CGTTGACCGAG
* * *
22051619 CATTGACCAAA
1 CGTTGACCGAG
*
22051630 CATTGACCGAG
1 CGTTGACCGAG
**
22051641 CGTTGATTGAG
1 CGTTGACCGAG
* *
22051652 CATTGACCAAG
1 CGTTGACCGAG
22051663 CGTTGACCG
1 CGTTGACCG
22051672 TTGACTTTTT
Statistics
Matches: 46, Mismatches: 18, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
11 46 1.00
ACGTcount: A:0.27, C:0.25, G:0.25, T:0.23
Consensus pattern (11 bp):
CGTTGACCGAG
Found at i:22051646 original size:22 final size:22
Alignment explanation
Indices: 22051610--22051670 Score: 59
Period size: 22 Copynumber: 2.8 Consensus size: 22
22051600 TGACCAAGTG
* *
22051610 TTGACCGACCATTGACCAAACA
1 TTGACCGAGCGTTGACCAAACA
*** *
22051632 TTGACCGAGCGTTGATTGAGCA
1 TTGACCGAGCGTTGACCAAACA
*
22051654 TTGACCAAGCGTTGACC
1 TTGACCGAGCGTTGACC
22051671 GTTGACTTTT
Statistics
Matches: 30, Mismatches: 9, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.28, C:0.26, G:0.23, T:0.23
Consensus pattern (22 bp):
TTGACCGAGCGTTGACCAAACA
Found at i:22051646 original size:33 final size:33
Alignment explanation
Indices: 22051599--22051671 Score: 83
Period size: 33 Copynumber: 2.2 Consensus size: 33
22051589 ATTCTAACCG
* *
22051599 TTGACCAAGTGTTGACCGACCATTGACCAAACA
1 TTGACCGAGCGTTGACCGACCATTGACCAAACA
** * * *
22051632 TTGACCGAGCGTTGATTGAGCATTGACCAAGCG
1 TTGACCGAGCGTTGACCGACCATTGACCAAACA
22051665 TTGACCG
1 TTGACCG
22051672 TTGACTTTTT
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.27, C:0.25, G:0.25, T:0.23
Consensus pattern (33 bp):
TTGACCGAGCGTTGACCGACCATTGACCAAACA
Found at i:22054803 original size:21 final size:20
Alignment explanation
Indices: 22054753--22054803 Score: 50
Period size: 21 Copynumber: 2.5 Consensus size: 20
22054743 TTTCATCTTG
*
22054753 AAAAATA-TCAAATTCAAAT
1 AAAAATATTGAAATTCAAAT
* *
22054772 AAAAATCTTGAAATTCAGGAT
1 AAAAATATTGAAATTCA-AAT
*
22054793 AAAATTATTGA
1 AAAAATATTGA
22054804 TGTGACTTTA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
19 6 0.24
20 8 0.32
21 11 0.44
ACGTcount: A:0.55, C:0.08, G:0.08, T:0.29
Consensus pattern (20 bp):
AAAAATATTGAAATTCAAAT
Found at i:22064070 original size:23 final size:23
Alignment explanation
Indices: 22064044--22064168 Score: 94
Period size: 23 Copynumber: 5.4 Consensus size: 23
22064034 ACATTAGCGC
*
22064044 GCTTACTGTTCAGCATTGTGTGT
1 GCTTACTGTTCAGCACTGTGTGT
* *
22064067 GCTTACTGATTC-GCACTATATGT
1 GCTTACTG-TTCAGCACTGTGTGT
*
22064090 GCTTACTGATT-TGCACTGTGTGT
1 GCTTACTG-TTCAGCACTGTGTGT
** * *
22064113 GCTTACTGTTTTGCATTGCGTGT
1 GCTTACTGTTCAGCACTGTGTGT
* * *
22064136 GCCTACTAATTTA-CACTGTGTGT
1 GCTTACT-GTTCAGCACTGTGTGT
*
22064159 GTTTACTGTT
1 GCTTACTGTT
22064169 TCCCCAGCAC
Statistics
Matches: 83, Mismatches: 15, Indels: 9
0.78 0.14 0.08
Matches are distributed among these distances:
22 4 0.05
23 73 0.88
24 6 0.07
ACGTcount: A:0.15, C:0.18, G:0.22, T:0.44
Consensus pattern (23 bp):
GCTTACTGTTCAGCACTGTGTGT
Found at i:22064111 original size:46 final size:46
Alignment explanation
Indices: 22064060--22064166 Score: 124
Period size: 46 Copynumber: 2.3 Consensus size: 46
22064050 TGTTCAGCAT
* * * *
22064060 TGTGTGTGCTTACTGATTCGCACTATATGTGCTTACTGATTTGCAC
1 TGTGTGTGCTTACTGATTCGCACTACATGTGCCTACTAATTTACAC
* * * * *
22064106 TGTGTGTGCTTACTGTTTTGCATTGCGTGTGCCTACTAATTTACAC
1 TGTGTGTGCTTACTGATTCGCACTACATGTGCCTACTAATTTACAC
*
22064152 TGTGTGTGTTTACTG
1 TGTGTGTGCTTACTG
22064167 TTTCCCCAGC
Statistics
Matches: 51, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
46 51 1.00
ACGTcount: A:0.15, C:0.18, G:0.23, T:0.44
Consensus pattern (46 bp):
TGTGTGTGCTTACTGATTCGCACTACATGTGCCTACTAATTTACAC
Found at i:22067705 original size:24 final size:25
Alignment explanation
Indices: 22067678--22067724 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
22067668 TTAAAAATTA
*
22067678 ATTAAAAATTA-AATAAAATAAAAC
1 ATTAAAAAATAGAATAAAATAAAAC
22067702 ATTAAAAAATAGAATAAAATAAA
1 ATTAAAAAATAGAATAAAATAAA
22067725 TAACTTAAGT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 10 0.48
25 11 0.52
ACGTcount: A:0.72, C:0.02, G:0.02, T:0.23
Consensus pattern (25 bp):
ATTAAAAAATAGAATAAAATAAAAC
Found at i:22072720 original size:2 final size:2
Alignment explanation
Indices: 22072715--22072740 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
22072705 GATGTATATA
22072715 TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG
22072741 GTTAGTATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:22080532 original size:16 final size:17
Alignment explanation
Indices: 22080513--22080550 Score: 69
Period size: 16 Copynumber: 2.3 Consensus size: 17
22080503 AAAGTAAAAA
22080513 AAAAGGATTAAA-TTTT
1 AAAAGGATTAAATTTTT
22080529 AAAAGGATTAAATTTTT
1 AAAAGGATTAAATTTTT
22080546 AAAAG
1 AAAAG
22080551 AATATAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 12 0.57
17 9 0.43
ACGTcount: A:0.53, C:0.00, G:0.13, T:0.34
Consensus pattern (17 bp):
AAAAGGATTAAATTTTT
Found at i:22082939 original size:19 final size:19
Alignment explanation
Indices: 22082917--22082958 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
22082907 ATAATAAAAT
*
22082917 TTAAATAATAAT-ATTAATA
1 TTAAATAAAAATAATT-ATA
22082936 TTAAATAAAAATAATTATA
1 TTAAATAAAAATAATTATA
22082955 TTAA
1 TTAA
22082959 TATTAAGTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 18 0.86
20 3 0.14
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (19 bp):
TTAAATAAAAATAATTATA
Found at i:22082947 original size:25 final size:25
Alignment explanation
Indices: 22082919--22082970 Score: 86
Period size: 25 Copynumber: 2.1 Consensus size: 25
22082909 AATAAAATTT
22082919 AAATAATAATATTAATATTAAATAA
1 AAATAATAATATTAATATTAAATAA
* *
22082944 AAATAATTATATTAATATTAAGTAA
1 AAATAATAATATTAATATTAAATAA
22082969 AA
1 AA
22082971 TAAAAAAACA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.37
Consensus pattern (25 bp):
AAATAATAATATTAATATTAAATAA
Found at i:22083204 original size:21 final size:23
Alignment explanation
Indices: 22083154--22083204 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 23
22083144 TATAAATTTT
22083154 ATTTTATTATTATATTTTTAAAA
1 ATTTTATTATTATATTTTTAAAA
* *
22083177 ATGTTTA-TA-TATTTTTTTGAAA
1 AT-TTTATTATTATATTTTTAAAA
22083199 ATTTTA
1 ATTTTA
22083205 GAATTAAGAT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
21 4 0.16
22 13 0.52
23 4 0.16
24 4 0.16
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.61
Consensus pattern (23 bp):
ATTTTATTATTATATTTTTAAAA
Found at i:22083375 original size:8 final size:9
Alignment explanation
Indices: 22083346--22083374 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
22083336 CAATTTGCTC
22083346 TTTATGATT
1 TTTATGATT
22083355 TTTATGATT
1 TTTATGATT
22083364 TTTATGATT
1 TTTATGATT
22083373 TT
1 TT
22083375 AACGGGAGTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.21, C:0.00, G:0.10, T:0.69
Consensus pattern (9 bp):
TTTATGATT
Found at i:22093710 original size:10 final size:8
Alignment explanation
Indices: 22093672--22093708 Score: 65
Period size: 8 Copynumber: 4.6 Consensus size: 8
22093662 TAATATATAT
22093672 TATATTTA
1 TATATTTA
22093680 TATATTTA
1 TATATTTA
22093688 TATATTTA
1 TATATTTA
22093696 TATATTTA
1 TATATTTA
*
22093704 AATAT
1 TATAT
22093709 ATACTATTGT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
8 28 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (8 bp):
TATATTTA
Found at i:22097696 original size:49 final size:49
Alignment explanation
Indices: 22097624--22097717 Score: 136
Period size: 49 Copynumber: 1.9 Consensus size: 49
22097614 TTGTTTGAAC
*
22097624 ATTTGTGCTTGATATGGAAATAAATGGA-AAATGTTAAATTTATATAAGA
1 ATTTGTGCTTGATATGCAAATAAATGGAGAAA-GTTAAATTTATATAAGA
* * *
22097673 ATTTGTGTTTGATTTGCAAATAAATGGAGGAAGTTAAATTTATAT
1 ATTTGTGCTTGATATGCAAATAAATGGAGAAAGTTAAATTTATAT
22097718 CTATTCCAAT
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
49 38 0.95
50 2 0.05
ACGTcount: A:0.39, C:0.02, G:0.19, T:0.39
Consensus pattern (49 bp):
ATTTGTGCTTGATATGCAAATAAATGGAGAAAGTTAAATTTATATAAGA
Found at i:22105042 original size:2 final size:2
Alignment explanation
Indices: 22105037--22105076 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
22105027 ACACACACAC
22105037 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
22105077 TACCCTCAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:22105467 original size:18 final size:18
Alignment explanation
Indices: 22105444--22105508 Score: 69
Period size: 18 Copynumber: 3.6 Consensus size: 18
22105434 ATTATAAAAA
22105444 ATAATTTTTTACATTTTT
1 ATAATTTTTTACATTTTT
* *
22105462 ATAATTTTATATATTTTT
1 ATAATTTTTTACATTTTT
**
22105480 A-AATTTTTTTACATCTTAA
1 ATAA-TTTTTTACAT-TTTT
22105499 ATAATTTTTT
1 ATAATTTTTT
22105509 TTTATATTGT
Statistics
Matches: 38, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
17 2 0.05
18 25 0.66
19 9 0.24
20 2 0.05
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.63
Consensus pattern (18 bp):
ATAATTTTTTACATTTTT
Found at i:22114223 original size:29 final size:29
Alignment explanation
Indices: 22114185--22114330 Score: 148
Period size: 29 Copynumber: 5.0 Consensus size: 29
22114175 TGTAATTTTT
* *
22114185 GGGGTCAAAAATGGAATTTTTTGAAATTTG
1 GGGGT-AAAAATGGAATTTTTGGAAGTTTG
* *
22114215 GGGGTAAAAATAGAATTTTTGGAAGTTCG
1 GGGGTAAAAATGGAATTTTTGGAAGTTTG
* * *
22114244 GGGGCAAAAATGTAATTTTTGGAAGTTTC
1 GGGGTAAAAATGGAATTTTTGGAAGTTTG
* * * *
22114273 GAGGCAAAAATGCAATTTTTTGAAGTTTG
1 GGGGTAAAAATGGAATTTTTGGAAGTTTG
* **
22114302 GGGGTCAAAATATAATTTTTGGACAGTTT
1 GGGGTAAAAATGGAATTTTTGGA-AGTTT
22114331 AGGGACCTCC
Statistics
Matches: 96, Mismatches: 19, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
29 86 0.90
30 10 0.10
ACGTcount: A:0.33, C:0.05, G:0.27, T:0.35
Consensus pattern (29 bp):
GGGGTAAAAATGGAATTTTTGGAAGTTTG
Found at i:22116395 original size:6 final size:6
Alignment explanation
Indices: 22116386--22116444 Score: 52
Period size: 6 Copynumber: 10.0 Consensus size: 6
22116376 TTAATATTAT
* **
22116386 TTTAAA TTT-AA -TTAAA TTTAAA TTTAAA -GTAAA TTTAAA TAGCCAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA T--TTAAA
22116433 TTTAAA TTTAAA
1 TTTAAA TTTAAA
22116445 ATCAATTTAA
Statistics
Matches: 42, Mismatches: 6, Indels: 10
0.72 0.10 0.17
Matches are distributed among these distances:
4 2 0.05
5 8 0.19
6 28 0.67
8 4 0.10
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.42
Consensus pattern (6 bp):
TTTAAA
Found at i:22116395 original size:17 final size:16
Alignment explanation
Indices: 22116386--22116425 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 16
22116376 TTAATATTAT
22116386 TTTAAATTTAATTAAA
1 TTTAAATTTAATTAAA
*
22116402 TTTAAATTTAAAGTAAA
1 TTTAAATTT-AATTAAA
22116419 TTTAAAT
1 TTTAAAT
22116426 AGCCAAATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 9 0.41
17 13 0.59
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (16 bp):
TTTAAATTTAATTAAA
Found at i:22117183 original size:92 final size:91
Alignment explanation
Indices: 22117063--22118125 Score: 1714
Period size: 92 Copynumber: 11.6 Consensus size: 91
22117053 ATTTGGTACC
* * * * * *
22117063 GAAGCTTTATCCTGCTCTTACTACAACTTCAGAGAGATAAAAATTTGCTATCCAACTTTACTGCA
1 GAAGCTTCATCTTACTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACA
22117128 ACTTCAAGAGGATAGGAATTGATGTTT
66 ACTTCAAGAGGATAGG-ATTGATGTTT
* *
22117155 GAAGCTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACCTGCTATCCAACTTTACTACA
1 GAAGCTTCATCTTACTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACA
22117220 ACTTCAAGAGGATAAGGATTGATGTTT
66 ACTTCAAGAGGAT-AGGATTGATGTTT
* *
22117247 GAAGCTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTGCA
1 GAAGCTTCATCTTACTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACA
22117312 ACTTCAAGAGGATAGGAATTGATGTTT
66 ACTTCAAGAGGATAGG-ATTGATGTTT
**
22117339 GAAGCTTCATCTTACTCTTACTACAACTTCAGAGAGATAAAGACTTATTATCCAACTTTACTACA
1 GAAGCTTCATCTTACTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACA
*
22117404 ACTTTAAGAGGATAAGGATTGATGTTT
66 ACTTCAAGAGGAT-AGGATTGATGTTT
*
22117431 GAAGCTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACA
1 GAAGCTTCATCTTACTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACA
*
22117496 ACTTCAAGAGGTTAAGGATTGATGTTT
66 ACTTCAAGAGGAT-AGGATTGATGTTT
* *
22117523 GAAGCTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGTTATCCAACTTTACTACA
1 GAAGCTTCATCTTACTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACA
22117588 ACTTCAAGAGGATAGGGATTGATGTTT
66 ACTTCAAGAGGATA-GGATTGATGTTT
* *
22117615 GAAGTTTCATCTTACTTTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACA
1 GAAGCTTCATCTTACTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACA
22117680 ACTTCAAGAGGATAGGGATTGATGTTT
66 ACTTCAAGAGGATA-GGATTGATGTTT
*
22117707 GAAGCTTCATCTTACTCTTACTACAACTTCAGAGAGATAAAAACTTGCTATCCAACTTTACTACA
1 GAAGCTTCATCTTACTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACA
*
22117772 CCTTCAAGAGGATAGGGATTGATGTTT
66 ACTTCAAGAGGATA-GGATTGATGTTT
* *
22117799 GAAGCTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATTCAACTTTACTACA
1 GAAGCTTCATCTTACTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACA
*
22117864 ACTTCAAGAGGATAAGGATTGATGCTT
66 ACTTCAAGAGGAT-AGGATTGATGTTT
* * *
22117891 GAAGCTTCATCTTACTCTTACTATAACTTCAGAAAGATAAAGACTTGCTATCCAAC-ATATCTAC
1 GAAGCTTCATCTTACTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTA-CTAC
22117955 AACTTCAAGAGGATAAGGATTGATGTTT
65 AACTTCAAGAGGAT-AGGATTGATGTTT
* *
22117983 GAAGCTTCATCTTACTCTTACTACAACTTCAGAAAGATAAAGACTTGCTATCCAACTTTACTGCA
1 GAAGCTTCATCTTACTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACA
22118048 ACTTCAAGAGGATAGGAATTGATGTTT
66 ACTTCAAGAGGATAGG-ATTGATGTTT
* * * *
22118075 GAAGCTTCATCTTACTTTTACTATAACTTTAGAGAGATAAAGATTTGCTAT
1 GAAGCTTCATCTTACTCTTACTACAACTTCAGAGAGATAAAGACTTGCTAT
22118126 TATTTATTTT
Statistics
Matches: 916, Mismatches: 47, Indels: 16
0.94 0.05 0.02
Matches are distributed among these distances:
91 9 0.01
92 898 0.98
93 9 0.01
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.32
Consensus pattern (91 bp):
GAAGCTTCATCTTACTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACA
ACTTCAAGAGGATAGGATTGATGTTT
Found at i:22118314 original size:50 final size:51
Alignment explanation
Indices: 22118260--22118413 Score: 131
Period size: 51 Copynumber: 3.1 Consensus size: 51
22118250 TGGTACTAGA
22118260 TCCACCGCTACGGTCTTAGATCTTTCCCTTCATG-CTTTTGAGGTACACGG
1 TCCACCGCTACGGTCTTAGATCTTTCCCTTCATGTCTTTTGAGGTACACGG
* * * * * *
22118310 TCCACCGTTAC-GACTTAGA-CATTTCCCTT-TTGTGTCTTTGCGGTAC-TGG
1 TCCACCGCTACGGTCTTAGATC-TTTCCCTTCATGTCT-TTTGAGGTACACGG
** * * *
22118359 ATCTGCCGTCGA-GGTCTTAGATCTTTCCCTTCGTGTCTTCTGAGGTACACGG
1 -TCCACCG-CTACGGTCTTAGATCTTTCCCTTCATGTCTTTTGAGGTACACGG
22118411 TCC
1 TCC
22118414 GCCATTGCAA
Statistics
Matches: 78, Mismatches: 17, Indels: 17
0.70 0.15 0.15
Matches are distributed among these distances:
48 3 0.04
49 18 0.23
50 24 0.31
51 26 0.33
52 7 0.09
ACGTcount: A:0.14, C:0.29, G:0.21, T:0.36
Consensus pattern (51 bp):
TCCACCGCTACGGTCTTAGATCTTTCCCTTCATGTCTTTTGAGGTACACGG
Found at i:22118436 original size:101 final size:101
Alignment explanation
Indices: 22118271--22118495 Score: 317
Period size: 101 Copynumber: 2.2 Consensus size: 101
22118261 CCACCGCTAC
* * * *
22118271 GGTCTTAGATCTTTCCCTTCATG-CTTTTGAGGTACACGGTCCACCGTTACGACTTAGACATTTC
1 GGTCTTAGATCTTTCCCTTCGTGTCTTCTGAGGTACACGGTCCACCATTACAACTTAGACATTTC
* *
22118335 CCTTTTGTGTCTTTGCGGTACTGGATCTGCCGTCGA
66 CCTTTTGTATCTTTGCGGTACTGGATCCGCCGTCGA
* * *
22118371 GGTCTTAGATCTTTCCCTTCGTGTCTTCTGAGGTACACGGTCCGCCATTGCAACTTAGACCTTTC
1 GGTCTTAGATCTTTCCCTTCGTGTCTTCTGAGGTACACGGTCCACCATTACAACTTAGACATTTC
* * * *
22118436 CTTTTTGTATCTTTGCGGTACTGGATCCGTCGTTGC
66 CCTTTTGTATCTTTGCGGTACTGGATCCGCCGTCGA
*
22118472 GGTCTTAGATCTTTCCCGTCGTGT
1 GGTCTTAGATCTTTCCCTTCGTGT
22118496 TTTTGTGGTA
Statistics
Matches: 110, Mismatches: 14, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
100 22 0.20
101 88 0.80
ACGTcount: A:0.13, C:0.26, G:0.22, T:0.38
Consensus pattern (101 bp):
GGTCTTAGATCTTTCCCTTCGTGTCTTCTGAGGTACACGGTCCACCATTACAACTTAGACATTTC
CCTTTTGTATCTTTGCGGTACTGGATCCGCCGTCGA
Found at i:22118526 original size:50 final size:50
Alignment explanation
Indices: 22118271--22118542 Score: 180
Period size: 50 Copynumber: 5.4 Consensus size: 50
22118261 CCACCGCTAC
* * * * * *
22118271 GGTCTTAGATCTTTCCCTTCATG-CTTTTGAGGTACACGG-TCCACCGTTA
1 GGTCTTAGATCTTTCCCTTCGTGTATTTTGCGGTAC-TGGATCCGCCGTTG
* * * * * *
22118320 CGACTTAGA-CATTTCCCTTTTGTGT-CTTTGCGGTACTGGATCTGCCGTCG
1 GGTCTTAGATC-TTTCCC-TTCGTGTATTTTGCGGTACTGGATCCGCCGTTG
* * * * *
22118370 AGGTCTTAGATCTTTCCCTTCGTGTCTTCTGAGGTACACGG-TCCGCCATTG
1 -GGTCTTAGATCTTTCCCTTCGTGTATTTTGCGGTAC-TGGATCCGCCGTTG
*** * ** *
22118421 CAACTTAGACCTTT-CCTTTTTGTATCTTTGCGGTACTGGATCCGTCGTTG
1 GGTCTTAGATCTTTCCCTTCGTGTAT-TTTGCGGTACTGGATCCGCCGTTG
* *
22118471 CGGTCTTAGATCTTTCCCGTCGTGT-TTTTGTGGTACTGGATCCGCCGTTG
1 -GGTCTTAGATCTTTCCCTTCGTGTATTTTGCGGTACTGGATCCGCCGTTG
*
22118521 TGGTCTTATATCTTTCCCTTCG
1 -GGTCTTAGATCTTTCCCTTCG
22118543 AATTTCATGT
Statistics
Matches: 166, Mismatches: 45, Indels: 23
0.71 0.19 0.10
Matches are distributed among these distances:
48 1 0.01
49 25 0.15
50 92 0.55
51 39 0.23
52 9 0.05
ACGTcount: A:0.12, C:0.26, G:0.22, T:0.39
Consensus pattern (50 bp):
GGTCTTAGATCTTTCCCTTCGTGTATTTTGCGGTACTGGATCCGCCGTTG
Found at i:22125554 original size:29 final size:30
Alignment explanation
Indices: 22125516--22125710 Score: 192
Period size: 29 Copynumber: 6.7 Consensus size: 30
22125506 CCGAGGGTAG
*
22125516 AATGGTAA-TTTTGAAAGTTTTGAGGTCAAA
1 AATGG-AATTTTTGGAAGTTTTGAGGTCAAA
*
22125546 AATGGAATTTTTGGAAGTTTTAAGGTC-AA
1 AATGGAATTTTTGGAAGTTTTGAGGTCAAA
*
22125575 AATGGAATTTTTGGAAG-TTCGAGGGT-AAA
1 AATGGAATTTTTGGAAGTTTTGA-GGTCAAA
* * *
22125604 AATGTAATTTTTGGAAGTTTCGGGGT-AAA
1 AATGGAATTTTTGGAAGTTTTGAGGTCAAA
* *
22125633 AATGAAATTTTTGGAAG-TTTGAGGGCAAA
1 AATGGAATTTTTGGAAGTTTTGAGGTCAAA
* * *
22125662 AATGTAATTTTTGGAAG-TTCGGGGTCAAA
1 AATGGAATTTTTGGAAGTTTTGAGGTCAAA
22125691 ATAT--AATTTTTGGACAGTTT
1 A-ATGGAATTTTTGGA-AGTTT
22125711 AGGGACCTCC
Statistics
Matches: 143, Mismatches: 14, Indels: 16
0.83 0.08 0.09
Matches are distributed among these distances:
28 18 0.13
29 95 0.66
30 30 0.21
ACGTcount: A:0.34, C:0.04, G:0.26, T:0.36
Consensus pattern (30 bp):
AATGGAATTTTTGGAAGTTTTGAGGTCAAA
Found at i:22125710 original size:58 final size:57
Alignment explanation
Indices: 22125524--22125714 Score: 233
Period size: 58 Copynumber: 3.3 Consensus size: 57
22125514 AGAATGGTAA
* * * *** *
22125524 TTTTGAAAGTTTTGAGGTCAAAAATGGAATTTTTGGAAGTTTTAAGGTCAAAATGGAAT
1 TTTTGGAAG-TTTGAGGGCAAAAATGTAATTTTTGGAAGTTTCGGGGTCAAAAT-AAAT
* * *
22125583 TTTTGGAAGTTCGAGGGTAAAAATGTAATTTTTGGAAGTTTCGGGGTAAAAATGAAAT
1 TTTTGGAAGTTTGAGGGCAAAAATGTAATTTTTGGAAGTTTCGGGGTCAAAAT-AAAT
22125641 TTTTGGAAGTTTGAGGGCAAAAATGTAATTTTTGGAAG-TTCGGGGTCAAAATATAAT
1 TTTTGGAAGTTTGAGGGCAAAAATGTAATTTTTGGAAGTTTCGGGGTCAAAATA-AAT
22125698 TTTTGGACAGTTT-AGGG
1 TTTTGGA-AGTTTGAGGG
22125715 ACCTCCAGGG
Statistics
Matches: 117, Mismatches: 13, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
56 1 0.01
57 27 0.23
58 81 0.69
59 8 0.07
ACGTcount: A:0.33, C:0.04, G:0.27, T:0.36
Consensus pattern (57 bp):
TTTTGGAAGTTTGAGGGCAAAAATGTAATTTTTGGAAGTTTCGGGGTCAAAATAAAT
Found at i:22125710 original size:87 final size:87
Alignment explanation
Indices: 22125524--22125710 Score: 252
Period size: 87 Copynumber: 2.1 Consensus size: 87
22125514 AGAATGGTAA
* * * * *
22125524 TTTTGAAAGTTTTGAGGTCAAAAATGGAATTTTTGGAAGTTTTAAGGTCAAAATGGAATTTTTGG
1 TTTTGGAAGTTTCGGGGT-AAAAATGAAATTTTTGGAAGTTTTAAGGGCAAAATGGAATTTTTGG
*
22125589 AAGTTCGAGGGTAAAAATGTAAT
65 AAGTTCGAGGGTAAAAATATAAT
* *
22125612 TTTTGGAAGTTTCGGGGTAAAAATGAAATTTTTGGAAG-TTTGAGGGCAAAAATGTAATTTTTGG
1 TTTTGGAAGTTTCGGGGTAAAAATGAAATTTTTGGAAGTTTTAAGGGC-AAAATGGAATTTTTGG
*
22125676 AAGTTCG-GGGTCAAAATATAAT
65 AAGTTCGAGGGTAAAAATATAAT
22125698 TTTTGGACAGTTT
1 TTTTGGA-AGTTT
22125711 AGGGACCTCC
Statistics
Matches: 88, Mismatches: 9, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
86 27 0.31
87 46 0.52
88 15 0.17
ACGTcount: A:0.33, C:0.04, G:0.26, T:0.37
Consensus pattern (87 bp):
TTTTGGAAGTTTCGGGGTAAAAATGAAATTTTTGGAAGTTTTAAGGGCAAAATGGAATTTTTGGA
AGTTCGAGGGTAAAAATATAAT
Found at i:22127191 original size:13 final size:13
Alignment explanation
Indices: 22127175--22127209 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
22127165 TCTTGATTTA
*
22127175 TAATTGGACCTTG
1 TAATTGGACATTG
22127188 TAATTGGACATTG
1 TAATTGGACATTG
22127201 TAATTGGAC
1 TAATTGGAC
22127210 TTTAAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.29, C:0.11, G:0.23, T:0.37
Consensus pattern (13 bp):
TAATTGGACATTG
Found at i:22127249 original size:6 final size:6
Alignment explanation
Indices: 22127240--22127318 Score: 58
Period size: 6 Copynumber: 13.3 Consensus size: 6
22127230 TTAATATTAT
* * **
22127240 TTTAAA TTTAAA CTTAAA -GTAAA TTTAAA TAGCCAAA TTTAAA TTTAAGA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA T--TTAAA TTTAAA TTTAA-A
*
22127290 --TAAA TTTAAA TTTAAA ATT-AA TTTAAA TT
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TT
22127319 CTAATTGAAA
Statistics
Matches: 57, Mismatches: 9, Indels: 14
0.71 0.11 0.17
Matches are distributed among these distances:
4 1 0.02
5 11 0.19
6 40 0.70
7 1 0.02
8 4 0.07
ACGTcount: A:0.51, C:0.04, G:0.04, T:0.42
Consensus pattern (6 bp):
TTTAAA
Found at i:22127296 original size:17 final size:17
Alignment explanation
Indices: 22127274--22127318 Score: 72
Period size: 17 Copynumber: 2.6 Consensus size: 17
22127264 TTAAATAGCC
*
22127274 AAATTTAAATTTAAGAT
1 AAATTTAAATTTAAAAT
22127291 AAATTTAAATTTAAAAT
1 AAATTTAAATTTAAAAT
*
22127308 TAATTTAAATT
1 AAATTTAAATT
22127319 CTAATTGAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.44
Consensus pattern (17 bp):
AAATTTAAATTTAAAAT
Found at i:22127312 original size:11 final size:11
Alignment explanation
Indices: 22127275--22127324 Score: 55
Period size: 11 Copynumber: 4.4 Consensus size: 11
22127265 TAAATAGCCA
22127275 AATTTAAATTT
1 AATTTAAATTT
**
22127286 AAGATAAATTT
1 AATTTAAATTT
*
22127297 AAATTTAAAATT
1 -AATTTAAATTT
22127309 AATTTAAATTCT
1 AATTTAAATT-T
22127321 AATT
1 AATT
22127325 GAAAACCAAA
Statistics
Matches: 31, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
11 18 0.58
12 13 0.42
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (11 bp):
AATTTAAATTT
Found at i:22130156 original size:11 final size:11
Alignment explanation
Indices: 22130140--22130189 Score: 57
Period size: 11 Copynumber: 4.6 Consensus size: 11
22130130 TATTTGTAAA
22130140 AAATTAATTTT
1 AAATTAATTTT
22130151 AAATTAATTTT
1 AAATTAATTTT
* *
22130162 AAATTTA-TTC
1 AAATTAATTTT
* *
22130172 ATATTACTTTT
1 AAATTAATTTT
22130183 AAATTAA
1 AAATTAA
22130190 AAAATTTATA
Statistics
Matches: 30, Mismatches: 8, Indels: 2
0.75 0.20 0.05
Matches are distributed among these distances:
10 6 0.20
11 24 0.80
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.52
Consensus pattern (11 bp):
AAATTAATTTT
Found at i:22133975 original size:19 final size:19
Alignment explanation
Indices: 22133932--22133975 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
22133922 ATTATTTATA
22133932 ACAAAAAATATTAAAAATT
1 ACAAAAAATATTAAAAATT
* *
22133951 -CAAAAAAATCTTAAAACTT
1 AC-AAAAAATATTAAAAATT
22133970 ACAAAA
1 ACAAAA
22133976 TTATCATAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
18 1 0.05
19 19 0.90
20 1 0.05
ACGTcount: A:0.66, C:0.11, G:0.00, T:0.23
Consensus pattern (19 bp):
ACAAAAAATATTAAAAATT
Found at i:22134129 original size:15 final size:16
Alignment explanation
Indices: 22134091--22134130 Score: 55
Period size: 17 Copynumber: 2.5 Consensus size: 16
22134081 TATTGTAGGT
22134091 TATTTTTAAATATATG
1 TATTTTTAAATATATG
*
22134107 TATATTTTAAATATGTG
1 TAT-TTTTAAATATATG
22134124 -ATTTTTA
1 TATTTTTA
22134131 TACGTATACG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
15 5 0.23
16 5 0.23
17 12 0.55
ACGTcount: A:0.35, C:0.00, G:0.07, T:0.57
Consensus pattern (16 bp):
TATTTTTAAATATATG
Found at i:22135009 original size:19 final size:20
Alignment explanation
Indices: 22134973--22135033 Score: 74
Period size: 19 Copynumber: 3.1 Consensus size: 20
22134963 ATTTAAAAAA
22134973 TTAAAAATATATAAAATTATT
1 TTAAAAATATA-AAAATTATT
22134994 TTAAAAAT-TAAAAATTA--
1 TTAAAAATATAAAAATTATT
*
22135011 TTAAAAAGTATAAAAAATATT
1 TTAAAAA-TATAAAAATTATT
22135032 TT
1 TT
22135034 TTTTAAAATT
Statistics
Matches: 35, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
17 7 0.20
18 1 0.03
19 15 0.43
20 2 0.06
21 10 0.29
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (20 bp):
TTAAAAATATAAAAATTATT
Found at i:22135017 original size:29 final size:28
Alignment explanation
Indices: 22134963--22135016 Score: 83
Period size: 28 Copynumber: 1.9 Consensus size: 28
22134953 TTTTTGTTAA
22134963 ATTTAAAAAATTAAAAATATATAAAATT
1 ATTTAAAAAATTAAAAATATATAAAATT
*
22134991 ATTTTAAAAATTAAAAAT-TATTAAAA
1 ATTTAAAAAATTAAAAATATA-TAAAA
22135017 AGTATAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 2 0.08
28 22 0.92
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (28 bp):
ATTTAAAAAATTAAAAATATATAAAATT
Found at i:22136181 original size:9 final size:9
Alignment explanation
Indices: 22136156--22136201 Score: 56
Period size: 9 Copynumber: 5.1 Consensus size: 9
22136146 CCGATGAGGA
*
22136156 AACAGCAAC
1 AACAGCAGC
*
22136165 AACTGCAGC
1 AACAGCAGC
22136174 AACAGCAGC
1 AACAGCAGC
*
22136183 AGCAGCAGC
1 AACAGCAGC
*
22136192 AGCAGCAGC
1 AACAGCAGC
22136201 A
1 A
22136202 GATGACGACG
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 33 1.00
ACGTcount: A:0.41, C:0.33, G:0.24, T:0.02
Consensus pattern (9 bp):
AACAGCAGC
Found at i:22136182 original size:3 final size:3
Alignment explanation
Indices: 22136169--22136202 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
22136159 AGCAACAACT
*
22136169 GCA GCA ACA GCA GCA GCA GCA GCA GCA GCA GCA G
1 GCA GCA GCA GCA GCA GCA GCA GCA GCA GCA GCA G
22136203 ATGACGACGA
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:0.35, C:0.32, G:0.32, T:0.00
Consensus pattern (3 bp):
GCA
Found at i:22136184 original size:12 final size:12
Alignment explanation
Indices: 22136158--22136198 Score: 55
Period size: 12 Copynumber: 3.4 Consensus size: 12
22136148 GATGAGGAAA
* *
22136158 CAGCAACAACTG
1 CAGCAACAGCAG
22136170 CAGCAACAGCAG
1 CAGCAACAGCAG
*
22136182 CAGCAGCAGCAG
1 CAGCAACAGCAG
22136194 CAGCA
1 CAGCA
22136199 GCAGATGACG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.39, C:0.34, G:0.24, T:0.02
Consensus pattern (12 bp):
CAGCAACAGCAG
Found at i:22139753 original size:31 final size:31
Alignment explanation
Indices: 22139717--22139780 Score: 83
Period size: 31 Copynumber: 2.1 Consensus size: 31
22139707 CAAGCGCATA
* *
22139717 TTGAACTTGTCAATTGTTCTCAAATTAAAAT
1 TTGAACTTGACAATTATTCTCAAATTAAAAT
* * *
22139748 TTGAACTTGACAATTATTTTCATATTGAAAT
1 TTGAACTTGACAATTATTCTCAAATTAAAAT
22139779 TT
1 TT
22139781 AAATTTTAGG
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.34, C:0.11, G:0.09, T:0.45
Consensus pattern (31 bp):
TTGAACTTGACAATTATTCTCAAATTAAAAT
Found at i:22147611 original size:27 final size:27
Alignment explanation
Indices: 22147575--22147639 Score: 94
Period size: 27 Copynumber: 2.4 Consensus size: 27
22147565 TCTTACGAGC
***
22147575 CCAGAATCAGAATAATGCTCTTTCAAG
1 CCAGAATCAGAATAACAATCTTTCAAG
*
22147602 CCAGAATCAGAATAACAATCTTTCGAG
1 CCAGAATCAGAATAACAATCTTTCAAG
22147629 CCAGAATCAGA
1 CCAGAATCAGA
22147640 TTACTACTCA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.40, C:0.23, G:0.15, T:0.22
Consensus pattern (27 bp):
CCAGAATCAGAATAACAATCTTTCAAG
Found at i:22150168 original size:6 final size:6
Alignment explanation
Indices: 22150151--22150206 Score: 89
Period size: 6 Copynumber: 9.7 Consensus size: 6
22150141 TCCTTACTTA
*
22150151 CCCACC CTCACC CCCACC CCCACC CCCACC CCCACC CCCA-C CCC-CC
1 CCCACC CCCACC CCCACC CCCACC CCCACC CCCACC CCCACC CCCACC
22150197 CCCACC CCCA
1 CCCACC CCCA
22150207 TTCCCATCTT
Statistics
Matches: 46, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
5 8 0.17
6 38 0.83
ACGTcount: A:0.16, C:0.82, G:0.00, T:0.02
Consensus pattern (6 bp):
CCCACC
Found at i:22153082 original size:3 final size:3
Alignment explanation
Indices: 22153074--22153102 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
22153064 TCTACCTTTA
22153074 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
22153103 ATACACCTTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:22155690 original size:21 final size:22
Alignment explanation
Indices: 22155666--22155707 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
22155656 AACCTGTTGC
22155666 TTTTTGTAGCTGTTT-TCACTA
1 TTTTTGTAGCTGTTTGTCACTA
* *
22155687 TTTTTGTTGTTGTTTGTCACT
1 TTTTTGTAGCTGTTTGTCACT
22155708 GTTTCATTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.10, C:0.12, G:0.17, T:0.62
Consensus pattern (22 bp):
TTTTTGTAGCTGTTTGTCACTA
Found at i:22157851 original size:209 final size:209
Alignment explanation
Indices: 22157491--22157908 Score: 827
Period size: 209 Copynumber: 2.0 Consensus size: 209
22157481 GAATTCCGAA
22157491 CTTGGAGAAAGCTCTTGAGGAGGTCATTCCTGGTATTTTCGAATCCATGAACACTAGTCTTTCTC
1 CTTGGAGAAAGCTCTTGAGGAGGTCATTCCTGGTATTTTCGAATCCATGAACACTAGTCTTTCTC
22157556 GCCTTTTTACTACTACGGAGATTATTTGTGCACTCAAATCCATGGCGCCTTTAAAAGCCTCGGGG
66 GCCTTTTTACTACTACGGAGATTATTTGTGCACTCAAATCCATGGCGCCTTTAAAAGCCTCGGGG
22157621 GCTGATGGCTTAGGAGCTATTTTTTACCAGTGGTTCTACATATTCTGGGTGACGAGGTGGCGACT
131 GCTGATGGCTTAGGAGCTATTTTTTACCAGTGGTTCTACATATTCTGGGTGACGAGGTGGCGACT
22157686 TTCTGCATAAGTCT
196 TTCTGCATAAGTCT
22157700 CTTGGAGAAAGCTCTTGAGGAGGTCATTCCTGGTATTTTCGAATCCATGAACACTAGTCTTTCTC
1 CTTGGAGAAAGCTCTTGAGGAGGTCATTCCTGGTATTTTCGAATCCATGAACACTAGTCTTTCTC
22157765 GCCTTTTTACTACTACGGAGATTATTTGTGCACTCAAATCCATGGCGCCTTTAAAAGCCTCGGGG
66 GCCTTTTTACTACTACGGAGATTATTTGTGCACTCAAATCCATGGCGCCTTTAAAAGCCTCGGGG
*
22157830 GCTGATGGCTTAGGAGCTATTTTTTACCAGTGGTTCTGCATATTCTGGGTGACGAGGTGGCGACT
131 GCTGATGGCTTAGGAGCTATTTTTTACCAGTGGTTCTACATATTCTGGGTGACGAGGTGGCGACT
22157895 TTCTGCATAAGTCT
196 TTCTGCATAAGTCT
22157909 TTTTCGAGGT
Statistics
Matches: 208, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
209 208 1.00
ACGTcount: A:0.21, C:0.21, G:0.24, T:0.33
Consensus pattern (209 bp):
CTTGGAGAAAGCTCTTGAGGAGGTCATTCCTGGTATTTTCGAATCCATGAACACTAGTCTTTCTC
GCCTTTTTACTACTACGGAGATTATTTGTGCACTCAAATCCATGGCGCCTTTAAAAGCCTCGGGG
GCTGATGGCTTAGGAGCTATTTTTTACCAGTGGTTCTACATATTCTGGGTGACGAGGTGGCGACT
TTCTGCATAAGTCT
Found at i:22161874 original size:51 final size:51
Alignment explanation
Indices: 22161770--22161866 Score: 140
Period size: 51 Copynumber: 1.9 Consensus size: 51
22161760 CTCAAGGCCG
* **
22161770 CAAATCAGCCATCGCATGTTCGGAGTTCATCGGCTACAATTCCGCCACCGA
1 CAAATCAGCCATCGCATGTTCGGAGTTCATCGACTACAATTCAACCACCGA
* * *
22161821 CAAATCAGGCATCGCATGTTCGGAGTTCATCGACTCCGATTCAACC
1 CAAATCAGCCATCGCATGTTCGGAGTTCATCGACTACAATTCAACC
22161867 GGTGACAATC
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
51 40 1.00
ACGTcount: A:0.26, C:0.32, G:0.20, T:0.23
Consensus pattern (51 bp):
CAAATCAGCCATCGCATGTTCGGAGTTCATCGACTACAATTCAACCACCGA
Found at i:22162664 original size:15 final size:15
Alignment explanation
Indices: 22162626--22162667 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 15
22162616 TTTATATTGA
*
22162626 ATAAATATA-ATTAT
1 ATAAATATACAATAT
* *
22162640 TTATATATACAATAT
1 ATAAATATACAATAT
22162655 ATAAATATACAAT
1 ATAAATATACAAT
22162668 TATGTTATAT
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
14 7 0.32
15 15 0.68
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.40
Consensus pattern (15 bp):
ATAAATATACAATAT
Found at i:22162681 original size:29 final size:29
Alignment explanation
Indices: 22162626--22162682 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
22162616 TTTATATTGA
*
22162626 ATAAATATAATTATTTATATATACAATAT
1 ATAAATATAATTATGTATATATACAATAT
22162655 ATAAATATACAATTATGT-TATAT-CAATA
1 ATAAATAT--AATTATGTATATATACAATA
22162683 ATTGTGTTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
29 13 0.52
30 5 0.20
31 7 0.28
ACGTcount: A:0.51, C:0.05, G:0.02, T:0.42
Consensus pattern (29 bp):
ATAAATATAATTATGTATATATACAATAT
Found at i:22164041 original size:17 final size:17
Alignment explanation
Indices: 22164019--22164053 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
22164009 ATAAGCTCAT
22164019 AAAAGTGACCAAAATGC
1 AAAAGTGACCAAAATGC
22164036 AAAAGTGACCAAAATGC
1 AAAAGTGACCAAAATGC
22164053 A
1 A
22164054 TACCATGCTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.54, C:0.17, G:0.17, T:0.11
Consensus pattern (17 bp):
AAAAGTGACCAAAATGC
Found at i:22165010 original size:40 final size:39
Alignment explanation
Indices: 22164961--22165099 Score: 172
Period size: 40 Copynumber: 3.5 Consensus size: 39
22164951 ACTAAGCACA
* * *
22164961 AAGCTCGATAAATACACTGGCACTAAACCTGCTAGGTACT
1 AAGCCCGATAAATACACCGGCACTAAGCCTGCTAGG-ACT
* * *
22165001 AAGCCCGATAAATACACCAGCACTAAGCCTACTAGGCACC
1 AAGCCCGATAAATACACCGGCACTAAGCCTGCTAGG-ACT
* *
22165041 AAGCCCGATAAATACACCGACACTAAGCTTGCTAGCG-CT
1 AAGCCCGATAAATACACCGGCACTAAGCCTGCTAG-GACT
22165080 AAGCCCGATAAATACACCGG
1 AAGCCCGATAAATACACCGG
22165100 AGAATTTACA
Statistics
Matches: 85, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
39 20 0.24
40 64 0.75
41 1 0.01
ACGTcount: A:0.36, C:0.30, G:0.17, T:0.17
Consensus pattern (39 bp):
AAGCCCGATAAATACACCGGCACTAAGCCTGCTAGGACT
Found at i:22165050 original size:80 final size:79
Alignment explanation
Indices: 22164945--22165097 Score: 218
Period size: 80 Copynumber: 1.9 Consensus size: 79
22164935 CATCGGCATG
* * *
22164945 AAGCCTACTAAGCACAAAGCTCGATAAATACACTGGCACTAAACCTGCTAG-GTACTAAGCCCGA
1 AAGCCTACTAAGCACAAAGCCCGATAAATACACCGACACTAAACCTGCTAGCG--CTAAGCCCGA
22165009 TAAATACACCAGCACT
64 TAAATACACCAGCACT
* * * *
22165025 AAGCCTACTAGGCACCAAGCCCGATAAATACACCGACACTAAGCTTGCTAGCGCTAAGCCCGATA
1 AAGCCTACTAAGCACAAAGCCCGATAAATACACCGACACTAAACCTGCTAGCGCTAAGCCCGATA
22165090 AATACACC
66 AATACACC
22165098 GGAGAATTTA
Statistics
Matches: 65, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
79 20 0.31
80 44 0.68
81 1 0.02
ACGTcount: A:0.37, C:0.31, G:0.16, T:0.16
Consensus pattern (79 bp):
AAGCCTACTAAGCACAAAGCCCGATAAATACACCGACACTAAACCTGCTAGCGCTAAGCCCGATA
AATACACCAGCACT
Found at i:22168334 original size:23 final size:23
Alignment explanation
Indices: 22168304--22168449 Score: 147
Period size: 23 Copynumber: 6.3 Consensus size: 23
22168294 ACACTAGCGC
* *
22168304 GCTCTCTGTTTAGCACGTCT-CGT
1 GCTCTCTGTTTAGCAC-TTTGTGT
*
22168327 GCTCTCTGATTAGCACTTTGTGT
1 GCTCTCTGTTTAGCACTTTGTGT
*
22168350 GCTCTCTGATTAGCACTTTGTGT
1 GCTCTCTGTTTAGCACTTTGTGT
*
22168373 GCTCTCTGTTTAGCACTGTGTGT
1 GCTCTCTGTTTAGCACTTTGTGT
* *
22168396 GCTCTCTGTTGCCCAGCAC-TTATGT
1 GCTCTCTGTT---TAGCACTTTGTGT
*
22168421 GCTCTCTG-TTAGTACTTTG-GT
1 GCTCTCTGTTTAGCACTTTGTGT
*
22168442 ACTCTCTG
1 GCTCTCTG
22168450 CTTGTTCCGT
Statistics
Matches: 106, Mismatches: 12, Indels: 12
0.82 0.09 0.09
Matches are distributed among these distances:
21 13 0.12
22 4 0.04
23 71 0.67
24 1 0.01
25 12 0.11
26 5 0.05
ACGTcount: A:0.11, C:0.25, G:0.22, T:0.42
Consensus pattern (23 bp):
GCTCTCTGTTTAGCACTTTGTGT
Found at i:22168447 original size:69 final size:69
Alignment explanation
Indices: 22168305--22168449 Score: 174
Period size: 69 Copynumber: 2.1 Consensus size: 69
22168295 CACTAGCGCG
*
22168305 CTCTCTGTTTAGCACGTCTCGTGCTCTCTGATTAGCACTTTGTGTGCTCTCTGATTAGCACTTTG
1 CTCTCTGTTTAGCACGTCTCGTGCTCTCTGATTAGCACTTTATGTGCTCTCTGATTAGCACTTTG
*
22168370 TGTG
66 TGTA
* *
22168374 CTCTCTGTTTAGCACTGTGT-GTGCTCTCTG-TTGCCCAGCAC-TTATGTGCTCTCTG-TTAGTA
1 CTCTCTGTTTAGCAC-GTCTCGTGCTCTCTGATT----AGCACTTTATGTGCTCTCTGATTAGCA
22168435 CTTTG-GTA
61 CTTTGTGTA
22168443 CTCTCTG
1 CTCTCTG
22168450 CTTGTTCCGT
Statistics
Matches: 67, Mismatches: 4, Indels: 10
0.83 0.05 0.12
Matches are distributed among these distances:
68 2 0.03
69 34 0.51
70 13 0.19
71 13 0.19
72 5 0.07
ACGTcount: A:0.11, C:0.26, G:0.21, T:0.42
Consensus pattern (69 bp):
CTCTCTGTTTAGCACGTCTCGTGCTCTCTGATTAGCACTTTATGTGCTCTCTGATTAGCACTTTG
TGTA
Found at i:22170256 original size:21 final size:21
Alignment explanation
Indices: 22170232--22170272 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
22170222 CTATAATTTA
*
22170232 TAAAACCGATGTTTATGTTTC
1 TAAAACCGATATTTATGTTTC
**
22170253 TAAAATTGATATTTATGTTT
1 TAAAACCGATATTTATGTTT
22170273 GCTATTTTTC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.32, C:0.07, G:0.12, T:0.49
Consensus pattern (21 bp):
TAAAACCGATATTTATGTTTC
Found at i:22170863 original size:131 final size:131
Alignment explanation
Indices: 22170629--22170893 Score: 530
Period size: 131 Copynumber: 2.0 Consensus size: 131
22170619 TTTTACAAAG
22170629 TATCCCTTACTCCTATTAAATTAGGTCATTTTCCTCAATATCGAAATTGTGAGTCAAGCTTAAAG
1 TATCCCTTACTCCTATTAAATTAGGTCATTTTCCTCAATATCGAAATTGTGAGTCAAGCTTAAAG
22170694 GATATCACTTACGATAATTGATCAAAATTACTACAATGAAATAGAACATATATATATATATATAT
66 GATATCACTTACGATAATTGATCAAAATTACTACAATGAAATAGAACATATATATATATATATAT
22170759 A
131 A
22170760 TATCCCTTACTCCTATTAAATTAGGTCATTTTCCTCAATATCGAAATTGTGAGTCAAGCTTAAAG
1 TATCCCTTACTCCTATTAAATTAGGTCATTTTCCTCAATATCGAAATTGTGAGTCAAGCTTAAAG
22170825 GATATCACTTACGATAATTGATCAAAATTACTACAATGAAATAGAACATATATATATATATATAT
66 GATATCACTTACGATAATTGATCAAAATTACTACAATGAAATAGAACATATATATATATATATAT
22170890 A
131 A
22170891 TAT
1 TAT
22170894 ATATATTATC
Statistics
Matches: 134, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
131 134 1.00
ACGTcount: A:0.40, C:0.15, G:0.10, T:0.35
Consensus pattern (131 bp):
TATCCCTTACTCCTATTAAATTAGGTCATTTTCCTCAATATCGAAATTGTGAGTCAAGCTTAAAG
GATATCACTTACGATAATTGATCAAAATTACTACAATGAAATAGAACATATATATATATATATAT
A
Found at i:22170879 original size:2 final size:2
Alignment explanation
Indices: 22170872--22170899 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
22170862 GAAATAGAAC
22170872 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
22170900 TATCGTTCAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:22173285 original size:7 final size:7
Alignment explanation
Indices: 22173266--22173301 Score: 56
Period size: 7 Copynumber: 5.1 Consensus size: 7
22173256 AAATCATATA
22173266 TATTTA-
1 TATTTAT
22173272 TATTTTAT
1 TA-TTTAT
22173280 TATTTAT
1 TATTTAT
22173287 TATTTAT
1 TATTTAT
22173294 TATTTAT
1 TATTTAT
22173301 T
1 T
22173302 CTTATCATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
6 2 0.07
7 24 0.86
8 2 0.07
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (7 bp):
TATTTAT
Found at i:22191668 original size:16 final size:17
Alignment explanation
Indices: 22191626--22191672 Score: 69
Period size: 16 Copynumber: 2.8 Consensus size: 17
22191616 GAGATTATTT
*
22191626 TATTTAATTCATTTGATA
1 TATTTAAAT-ATTTGATA
22191644 TATTTAAATATTTGATA
1 TATTTAAATATTTGATA
22191661 TA-TTAAATATTT
1 TATTTAAATATTT
22191673 TTTAAAAATA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
16 10 0.36
17 10 0.36
18 8 0.29
ACGTcount: A:0.38, C:0.02, G:0.04, T:0.55
Consensus pattern (17 bp):
TATTTAAATATTTGATA
Found at i:22191693 original size:12 final size:13
Alignment explanation
Indices: 22191665--22191692 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
22191655 TTGATATATT
22191665 AAATATTTTTTAA
1 AAATATTTTTTAA
22191678 AAATATTTTTTAA
1 AAATATTTTTTAA
22191691 AA
1 AA
22191693 TGAAAAATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (13 bp):
AAATATTTTTTAA
Found at i:22193653 original size:6 final size:6
Alignment explanation
Indices: 22193637--22193667 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
22193627 TTTCAGCCGG
*
22193637 CTGAGC TTGAGC CTGAGC CTGAGC CTGAGC C
1 CTGAGC CTGAGC CTGAGC CTGAGC CTGAGC C
22193668 GCAGCACTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.16, C:0.32, G:0.32, T:0.19
Consensus pattern (6 bp):
CTGAGC
Found at i:22194105 original size:6 final size:6
Alignment explanation
Indices: 22194094--22194134 Score: 57
Period size: 6 Copynumber: 6.8 Consensus size: 6
22194084 GGCCATTAAA
*
22194094 TATGTT TATGTT TATGTT TATGTT CT-TATT TATGTT TATGT
1 TATGTT TATGTT TATGTT TATGTT -TATGTT TATGTT TATGT
22194135 ATGCAAATAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
5 1 0.03
6 29 0.94
7 1 0.03
ACGTcount: A:0.17, C:0.02, G:0.15, T:0.66
Consensus pattern (6 bp):
TATGTT
Found at i:22194263 original size:26 final size:26
Alignment explanation
Indices: 22194207--22194283 Score: 73
Period size: 26 Copynumber: 2.9 Consensus size: 26
22194197 TGCTAAACCT
*
22194207 AATTAAATAAATTCAAACATAAAAAT
1 AATTAAATAAATTCAAACATAAAAAG
* ** *
22194233 TATTAAATAAATTCAAATTTAAATAG
1 AATTAAATAAATTCAAACATAAAAAG
* *
22194259 AATTAATTCCAAATTCAATCATAAA
1 AATTAAAT--AAATTCAAACATAAA
22194284 CTTAATTAAT
Statistics
Matches: 39, Mismatches: 10, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
26 27 0.69
28 12 0.31
ACGTcount: A:0.57, C:0.09, G:0.01, T:0.32
Consensus pattern (26 bp):
AATTAAATAAATTCAAACATAAAAAG
Found at i:22197213 original size:27 final size:27
Alignment explanation
Indices: 22197175--22197238 Score: 128
Period size: 27 Copynumber: 2.4 Consensus size: 27
22197165 GCATTGACAA
22197175 AGGCACCACTAGTGCCGCCTACCCAGT
1 AGGCACCACTAGTGCCGCCTACCCAGT
22197202 AGGCACCACTAGTGCCGCCTACCCAGT
1 AGGCACCACTAGTGCCGCCTACCCAGT
22197229 AGGCACCACT
1 AGGCACCACT
22197239 TGTCAAATTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.23, C:0.41, G:0.22, T:0.14
Consensus pattern (27 bp):
AGGCACCACTAGTGCCGCCTACCCAGT
Found at i:22197555 original size:15 final size:15
Alignment explanation
Indices: 22197515--22197556 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
22197505 TAAGTTACTA
*
22197515 ATTTTTTTGTATTAT
1 ATTTTTTTGTATAAT
**
22197530 ATTTTGGTGTATAAT
1 ATTTTTTTGTATAAT
22197545 ATTTTTTTGTAT
1 ATTTTTTTGTAT
22197557 TAGTTTTGTA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.21, C:0.00, G:0.12, T:0.67
Consensus pattern (15 bp):
ATTTTTTTGTATAAT
Found at i:22197650 original size:26 final size:27
Alignment explanation
Indices: 22197599--22197687 Score: 146
Period size: 27 Copynumber: 3.3 Consensus size: 27
22197589 CTTGATAGAA
*
22197599 AGGCACCA-TCGGTGCCGCCTGACAGGT
1 AGGCACCACT-GGTGCCGCCTGTCAGGT
22197626 AGGCACCACTGGTG-CGCCTGTCAGGT
1 AGGCACCACTGGTGCCGCCTGTCAGGT
22197652 AGGCACCACTGGTGCCGCCTGTCAGGT
1 AGGCACCACTGGTGCCGCCTGTCAGGT
22197679 AGGCACCAC
1 AGGCACCAC
22197688 CCATTTATAC
Statistics
Matches: 59, Mismatches: 1, Indels: 4
0.92 0.02 0.06
Matches are distributed among these distances:
26 25 0.42
27 33 0.56
28 1 0.02
ACGTcount: A:0.18, C:0.34, G:0.33, T:0.16
Consensus pattern (27 bp):
AGGCACCACTGGTGCCGCCTGTCAGGT
Found at i:22197973 original size:16 final size:17
Alignment explanation
Indices: 22197952--22197985 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
22197942 TTTTCATATG
*
22197952 ATAAAT-TATGAAGTTT
1 ATAAATCTATCAAGTTT
22197968 ATAAATCTATCAAGTTT
1 ATAAATCTATCAAGTTT
22197985 A
1 A
22197986 ATTAATCAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.44, C:0.06, G:0.09, T:0.41
Consensus pattern (17 bp):
ATAAATCTATCAAGTTT
Found at i:22198221 original size:20 final size:21
Alignment explanation
Indices: 22198173--22198222 Score: 61
Period size: 19 Copynumber: 2.4 Consensus size: 21
22198163 AAAATATGAT
22198173 TAATAATTTTTTTCATGTGAAA
1 TAAT-ATTTTTTTCATGTGAAA
22198195 TTAAT-TTTTTTT-AT-TGAAA
1 -TAATATTTTTTTCATGTGAAA
22198214 TAATATTTT
1 TAATATTTT
22198223 AATTAAGATA
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
18 4 0.15
19 9 0.35
20 2 0.08
21 7 0.27
23 4 0.15
ACGTcount: A:0.34, C:0.02, G:0.06, T:0.58
Consensus pattern (21 bp):
TAATATTTTTTTCATGTGAAA
Found at i:22198222 original size:19 final size:19
Alignment explanation
Indices: 22198174--22198222 Score: 64
Period size: 20 Copynumber: 2.6 Consensus size: 19
22198164 AAATATGATT
22198174 AATAATTTTTTTCATGTGA
1 AATAATTTTTTTCATGTGA
*
22198193 AATTAATTTTTTTTAT-TGA
1 AA-TAATTTTTTTCATGTGA
*
22198212 AATAATATTTT
1 AATAATTTTTT
22198223 AATTAAGATA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
18 8 0.30
19 7 0.26
20 12 0.44
ACGTcount: A:0.35, C:0.02, G:0.06, T:0.57
Consensus pattern (19 bp):
AATAATTTTTTTCATGTGA
Found at i:22199529 original size:214 final size:214
Alignment explanation
Indices: 22199028--22203030 Score: 7138
Period size: 214 Copynumber: 18.7 Consensus size: 214
22199018 ATTAATAATA
* * * * *
22199028 TTATTGAAATAATTTTATACATATATTTTTTAATATAAAATTGTGGATGTAACATATAAAATCTA
1 TTATTAAAATAATTTTATAAATATA-TTTTTAATATAAAATTGTGAATGTGATATATAAAATCTA
* * * * *
22199093 ATTTCCCTTATCCGATTTGTGTAGCTTAATTTAGTGGGTTAAAAGGTTACCATCATGTCAATTTT
65 ATTTCCCTTATCCGGTTTGTGCAGCTTGACTTAGTGGGTT-AAAGGCTACCATCATGTCAATTTT
* *
22199158 CCACCTTTCTAAATGTAGAATTTTTCAAGTTTATTCTCATCCCTTGCTTCAATATTTATTAATCA
129 CCACCTTTCCAAATGTAGAA-TTTTCAAGTTTATTCTCATCCCTTGCTTCAATATCTATTAATCA
22199223 TGAATAAATTAAAGGTTTTCTT
193 TGAATAAATTAAAGGTTTTCTT
22199245 TTATTAAAATAATTTTATAAATATATTTTTAATATAAAATTGTGAATGTGATATATAAAATCTAA
1 TTATTAAAATAATTTTATAAATATATTTTTAATATAAAATTGTGAATGTGATATATAAAATCTAA
22199310 TTTCCCTTATCCGGTTTGTGCAGCTTGACTTAGTGGGTTAAAGGCTACCATCATGTCAATTTTCC
66 TTTCCCTTATCCGGTTTGTGCAGCTTGACTTAGTGGGTTAAAGGCTACCATCATGTCAATTTTCC
*
22199375 ATCTTTCCAAATGTAGAATTTTCAAGTTTATTCTCATCCCTT-CTTCAATATCTATTAATCATGA
131 ACCTTTCCAAATGTAGAATTTTCAAGTTTATTCTCATCCCTTGCTTCAATATCTATTAATCATGA
22199439 ATAAATTAAAGGTTTTCTT
196 ATAAATTAAAGGTTTTCTT
22199458 TTATTAAAATAATTTTATAAATATATTTTTTAATATAAAATTGTGAATGTGATATATAAAATCTA
1 TTATTAAAATAATTTTATAAATATA-TTTTTAATATAAAATTGTGAATGTGATATATAAAATCTA
22199523 ATTTCCCTTATCCGGTTTGTGCAGCTTGACTTAGTGGGTTAAAGGCTACCATCATGTCAATTTTC
65 ATTTCCCTTATCCGGTTTGTGCAGCTTGACTTAGTGGGTTAAAGGCTACCATCATGTCAATTTTC
* * *
22199588 CATCTTTTCAAATGTAGAATTTTCAAGTTTATTCTCATCTCTT-CTTCAATATCTATTAATCATG
130 CACCTTTCCAAATGTAGAATTTTCAAGTTTATTCTCATCCCTTGCTTCAATATCTATTAATCATG
22199652 AATAAATTAAAGGTTTTCTT
195 AATAAATTAAAGGTTTTCTT
*
22199672 TTATTAAAATAATTTTATAAATATATTTTTAATATAAAATTGTGAATGTGATATCTAAAATCTAA
1 TTATTAAAATAATTTTATAAATATATTTTTAATATAAAATTGTGAATGTGATATATAAAATCTAA
* *
22199737 TTTTCCTTATCCGGTTTGTGCAGCTTGACTTAGT-GGTTAAAGGCTACCATCATGTCAATTTTTC
66 TTTCCCTTATCCGGTTTGTGCAGCTTGACTTAGTGGGTTAAAGGCTACCATCATGTCAATTTTCC
22199801 ACCTTTCCAAATGTAGAATTTTCAAGTTTATTCTCATCCCTTGCTTCAATATCTATTAATCATGA
131 ACCTTTCCAAATGTAGAATTTTCAAGTTTATTCTCATCCCTTGCTTCAATATCTATTAATCATGA
*
22199866 ATAAATTAAAGATTTTCTT
196 ATAAATTAAAGGTTTTCTT
22199885 TTATTAAAATAATTTTATAAATATATTTTTAATATAAAATTGTGAATGTGATATATAAAATCTAA
1 TTATTAAAATAATTTTATAAATATATTTTTAATATAAAATTGTGAATGTGATATATAAAATCTAA
* *
22199950 TTTCCCTTATCCGGTTTGTGC-GACTTGACTTAGTGGGTTAAAGGCTAACATCATGTCAATTTTT
66 TTTCCCTTATCCGGTTTGTGCAG-CTTGACTTAGTGGGTTAAAGGCTACCATCATGTCAATTTTC
*
22200014 CACCTTTCCAAATGTAGAATTTTCAAGTTTATTCTCATCCATTGCTTCAATATCTATTAATCATG
130 CACCTTTCCAAATGTAGAATTTTCAAGTTTATTCTCATCCCTTGCTTCAATATCTATTAATCATG
22200079 AATAAATTAAAGGTTTTCTT
195 AATAAATTAAAGGTTTTCTT
*
22200099 TTATTAAAATAATTTTATAAATATATTTTTAATATAAAATTGTGAATGTGATATCTAAAATCTAA
1 TTATTAAAATAATTTTATAAATATATTTTTAATATAAAATTGTGAATGTGATATATAAAATCTAA
*
22200164 TTTTCCTTATCCGGTTTGTGCAGCTTGACTTAGTGGGTTAAAGGCTACCATCATGTCAATTTTCC
66 TTTCCCTTATCCGGTTTGTGCAGCTTGACTTAGTGGGTTAAAGGCTACCATCATGTCAATTTTCC
22200229 ACCTTTCCAAATGTAGAATTTTCAAGTTTATTCTCATCCCTTGCTTCAATATCTATTAATCATGA
131 ACCTTTCCAAATGTAGAATTTTCAAGTTTATTCTCATCCCTTGCTTCAATATCTATTAATCATGA
*
22200294 ATAAATTAAAGATTTTCTT
196 ATAAATTAAAGGTTTTCTT
22200313 TTATTAAAATAATTTTATAAATATATTTTTAATATAAAATTGTGAATGTGATATATAAAATCTAA
1 TTATTAAAATAATTTTATAAATATATTTTTAATATAAAATTGTGAATGTGATATATAAAATCTAA
22200378 TTTCCCTTATCCGGTTTGTGC-GACTTGACTTAGTGGGTTAAAGGCTACCATCATGTCAATTTTC
66 TTTCCCTTATCCGGTTTGTGCAG-CTTGACTTAGTGGGTTAAAGGCTACCATCATGTCAATTTTC
22200442 CACCTTTCCAAATGTAGAATTTTCAAGTTTATTCTCATCCCTTGCTTCAATATCTATTAATCATG
130 CACCTTTCCAAATGTAGAATTTTCAAGTTTATTCTCATCCCTTGCTTCAATATCTATTAATCATG
22200507 AATAAATTAAAGGTTTTCTT
195 AATAAATTAAAGGTTTTCTT
*
22200527 TTATTAAAATAATTTTATAAATATATTTTTAATATAAAATTGTTAATGTGATATATAAAATCTAA
1 TTATTAAAATAATTTTATAAATATATTTTTAATATAAAATTGTGAATGTGATATATAAAATCTAA
* *
22200592 TTTCCCTTATCCGGTTTGTGCAGCTTGACTTAGTGGGTTAAAGGCTACGATCATGTCACTTTTCC
66 TTTCCCTTATCCGGTTTGTGCAGCTTGACTTAGTGGGTTAAAGGCTACCATCATGTCAATTTTCC
*
22200657 ACCTTTCCAAAGGTAGAATTTTCAAGTTTATTCTCATCCCTTGCTTCAATATCTATTAATCATGA
131 ACCTTTCCAAATGTAGAATTTTCAAGTTTATTCTCATCCCTTGCTTCAATATCTATTAATCATGA
22200722 ATAAATTAAAGGTTTTCTT
196 ATAAATTAAAGGTTTTCTT
*
22200741 TTATTAAAATAATTTTATAAATATATTTTTATTATAAAATTGTGAATGTGATATATAAAATCTAA
1 TTATTAAAATAATTTTATAAATATATTTTTAATATAAAATTGTGAATGTGATATATAAAATCTAA
22200806 TTTCCCTTATCCGGTTTGTGCAGCTTGACTTAGTGGGTTAAAGGCTACCATCATGTCAATTTTCC
66 TTTCCCTTATCCGGTTTGTGCAGCTTGACTTAGTGGGTTAAAGGCTACCATCATGTCAATTTTCC
*
22200871 ACCTTTCCAAATGTAGAATTTTCAAGTTTATTCTCATCCATTGCTTCAATATCTATTAATCATGA
131 ACCTTTCCAAATGTAGAATTTTCAAGTTTATTCTCATCCCTTGCTTCAATATCTATTAATCATGA
22200936 ATAAATTAAAGGTTTTCTT
196 ATAAATTAAAGGTTTTCTT
* *
22200955 TTATTAAAATAATTTTATAAATATATTTTTAATATAAAATTATGAATGTGATATATAAAATCCAA
1 TTATTAAAATAATTTTATAAATATATTTTTAATATAAAATTGTGAATGTGATATATAAAATCTAA
*
22201020 TTTCCCTTATCCGGTTTGTGCAGCTTGACTTAGTGGGTTAAAGGCTACGATCATGTCAATTTTCC
66 TTTCCCTTATCCGGTTTGTGCAGCTTGACTTAGTGGGTTAAAGGCTACCATCATGTCAATTTTCC
*
22201085 ACCTTTCTAAATGTAGAATTTTCAAGTTTATTCTCAT-CCTTGCTTCAATATCTATTAATCATGA
131 ACCTTTCCAAATGTAGAATTTTCAAGTTTATTCTCATCCCTTGCTTCAATATCTATTAATCATGA
22201149 ATAAATTAAAGGTTTTCTT
196 ATAAATTAAAGGTTTTCTT
*
22201168 TTATTAAAATAATTTTATAAATATATTTTTAATATAAAATTGTGAATGTGATATATAAAATCCAA
1 TTATTAAAATAATTTTATAAATATATTTTTAATATAAAATTGTGAATGTGATATATAAAATCTAA
* * *
22201233 TTTCCCTTATCCGGTTTGTGCAGCTTGACTTAGTGGGTTAAAGGGTACGATCATGTCACTTTTCC
66 TTTCCCTTATCCGGTTTGTGCAGCTTGACTTAGTGGGTTAAAGGCTACCATCATGTCAATTTTCC
* *
22201298 ACCTTTCCAAATGTAGAATTTTCAAGTTTATTATCATCCCTTGTTTCAATATCTATTAATCATGA
131 ACCTTTCCAAATGTAGAATTTTCAAGTTTATTCTCATCCCTTGCTTCAATATCTATTAATCATGA
22201363 ATAAATTAAAGGTTTTCTT
196 ATAAATTAAAGGTTTTCTT
*
22201382 TTATTAAAATAATTTTATAAATATATTTTTATTATAAAATTGTGAATGTGATATATAAAATCTAA
1 TTATTAAAATAATTTTATAAATATATTTTTAATATAAAATTGTGAATGTGATATATAAAATCTAA
22201447 TTTCCCTTATCCGGTTTGTGCAGCTTGACTTAGTGGGTTAAAGGCTACCATCATGTCAATTTTCC
66 TTTCCCTTATCCGGTTTGTGCAGCTTGACTTAGTGGGTTAAAGGCTACCATCATGTCAATTTTCC
*
22201512 ACCTTTCCAAATGTAGAATTTTCAAGTTTATTCTCATCCATTGCTTCAATATCTATTAATCATGA
131 ACCTTTCCAAATGTAGAATTTTCAAGTTTATTCTCATCCCTTGCTTCAATATCTATTAATCATGA
22201577 ATAAATTAAAGGTTTTCTT
196 ATAAATTAAAGGTTTTCTT
*
22201596 TTATTAAAATAATTTTATAAATATATTTTTAATATAAAATTATGAATGTGATATATAAAATCTAA
1 TTATTAAAATAATTTTATAAATATATTTTTAATATAAAATTGTGAATGTGATATATAAAATCTAA
* *
22201661 TTTCCCTTATCCGGTTTGTGCAGCTTGACTTAGTGGGTTAAAGGCTACGATCATGTCACTTTTCC
66 TTTCCCTTATCCGGTTTGTGCAGCTTGACTTAGTGGGTTAAAGGCTACCATCATGTCAATTTTCC
22201726 ACCTTTCCAAATGTAGAATTTTCAAGTTTATTCTCATCCCTTGCTTCAATATCTATTAATCATGA
131 ACCTTTCCAAATGTAGAATTTTCAAGTTTATTCTCATCCCTTGCTTCAATATCTATTAATCATGA
22201791 ATAAATTAAAGGTTTTCTT
196 ATAAATTAAAGGTTTTCTT
*
22201810 TTATTAAAATAA-TTTATAAATATATTTTTATTATAAAATTGTGAATGTGATATATAAAATCTAA
1 TTATTAAAATAATTTTATAAATATATTTTTAATATAAAATTGTGAATGTGATATATAAAATCTAA
*
22201874 TTTCTCTTATCCGGTTTGTGCAGCTTGACTTAGTGGGTTAAAGGCTACCATCATGTCAATTTTCC
66 TTTCCCTTATCCGGTTTGTGCAGCTTGACTTAGTGGGTTAAAGGCTACCATCATGTCAATTTTCC
*
22201939 ACCTTTCCAAATGTAGAATTTTCAAGTTTATTCTCATCCCTTGCTTCAATATCTATTAATCATTA
131 ACCTTTCCAAATGTAGAATTTTCAAGTTTATTCTCATCCCTTGCTTCAATATCTATTAATCATGA
22202004 ATAAATTAAAGGTTTTCTT
196 ATAAATTAAAGGTTTTCTT
* *
22202023 TTATTAAAATAATTTTATAAATATATTTTTAATATAAAATTATGAATGTGATATATAAAATCTAG
1 TTATTAAAATAATTTTATAAATATATTTTTAATATAAAATTGTGAATGTGATATATAAAATCTAA
* *
22202088 TTTCCCTTATCCGGTTTGTGCAGCTTGACTTAGTGGGTTAAAGGCTACGATCATGTCACTTTTCC
66 TTTCCCTTATCCGGTTTGTGCAGCTTGACTTAGTGGGTTAAAGGCTACCATCATGTCAATTTTCC
22202153 ACCTTTCCAAATGTAGAATTTTCAAGTTTATTCTCATCCCTTGCTTCAATATCTATTAATCATGA
131 ACCTTTCCAAATGTAGAATTTTCAAGTTTATTCTCATCCCTTGCTTCAATATCTATTAATCATGA
22202218 ATAAATTAAAGGTTTTCTT
196 ATAAATTAAAGGTTTTCTT
* *
22202237 TTATTAAAATAATTTCATAAATATATTTTTATTATAAAATTGTGAATGTGATATATAAAATCTAA
1 TTATTAAAATAATTTTATAAATATATTTTTAATATAAAATTGTGAATGTGATATATAAAATCTAA
* * *
22202302 TTTCCCTTATCCGGTTTGTGCAACTTGACTTAGTGGGTTAAAGGCTACTATCATGTCAATTTTTC
66 TTTCCCTTATCCGGTTTGTGCAGCTTGACTTAGTGGGTTAAAGGCTACCATCATGTCAATTTTCC
*
22202367 ACCTTTCCAAATGTAGAATTTTCAAGTTTATTCTCATCCATTGCTTCAATATCTATTAATCATGA
131 ACCTTTCCAAATGTAGAATTTTCAAGTTTATTCTCATCCCTTGCTTCAATATCTATTAATCATGA
22202432 ATAAATTAAAGGTTTTCTT
196 ATAAATTAAAGGTTTTCTT
* *
22202451 TTATTAAAATAATTTTATAAATATATTTTTAATATAAAATTATGAATGTGATATATAAAATCTAG
1 TTATTAAAATAATTTTATAAATATATTTTTAATATAAAATTGTGAATGTGATATATAAAATCTAA
* *
22202516 TTTCCCTTATCCGGTTTGTGCAGCTTGACTTAGTGGGTTAAAGGCTACGATCATGTCACTTTTCC
66 TTTCCCTTATCCGGTTTGTGCAGCTTGACTTAGTGGGTTAAAGGCTACCATCATGTCAATTTTCC
*
22202581 ACCTTTCCAAAGGTAGAATTTTCAAGTTTATTCTCATCCCTTGCTTCAATATCTATTAATCATGA
131 ACCTTTCCAAATGTAGAATTTTCAAGTTTATTCTCATCCCTTGCTTCAATATCTATTAATCATGA
22202646 ATAAATTAAAGGTTTTCTT
196 ATAAATTAAAGGTTTTCTT
*
22202665 TTATTAAAATAATTTTATAAATATATTTTTAATATAAAATTGTAAATGTGATATATAAAATCTAA
1 TTATTAAAATAATTTTATAAATATATTTTTAATATAAAATTGTGAATGTGATATATAAAATCTAA
* **
22202730 TTTCCCTTATTCGGTTTGTGCAGCTTGACTTAGTGGGTTAAAGGCTACCATCATACCAATTTTCC
66 TTTCCCTTATCCGGTTTGTGCAGCTTGACTTAGTGGGTTAAAGGCTACCATCATGTCAATTTTCC
* * * *
22202795 ACCTTTTCAAGTGTAGAATTTTCAAGTTTATTCTCATGCCTTGCGTCAATATCTATTAATCATGA
131 ACCTTTCCAAATGTAGAATTTTCAAGTTTATTCTCATCCCTTGCTTCAATATCTATTAATCATGA
22202860 ATAAATTAAAGGTTTTCTT
196 ATAAATTAAAGGTTTTCTT
* *
22202879 TTATTAAAATAATTTTATAAATATATTTTTATTATAAAATTGTGAATGTGATATAGAAAATCTAA
1 TTATTAAAATAATTTTATAAATATATTTTTAATATAAAATTGTGAATGTGATATATAAAATCTAA
** * * * * * * *
22202944 TTTTTCTTATCCGGTTTATGTAGCTTGACTTCGTTGGTTAAAAGCCACCATCATGTAAATTTTCC
66 TTTCCCTTATCCGGTTTGTGCAGCTTGACTTAGTGGGTTAAAGGCTACCATCATGTCAATTTTCC
*
22203009 ACCTTTTCAAATGTAGAATTTT
131 ACCTTTCCAAATGTAGAATTTT
22203031 TAACTTTCTT
Statistics
Matches: 3645, Mismatches: 132, Indels: 21
0.96 0.03 0.01
Matches are distributed among these distances:
212 69 0.02
213 687 0.19
214 2751 0.75
215 43 0.01
216 72 0.02
217 23 0.01
ACGTcount: A:0.32, C:0.14, G:0.11, T:0.43
Consensus pattern (214 bp):
TTATTAAAATAATTTTATAAATATATTTTTAATATAAAATTGTGAATGTGATATATAAAATCTAA
TTTCCCTTATCCGGTTTGTGCAGCTTGACTTAGTGGGTTAAAGGCTACCATCATGTCAATTTTCC
ACCTTTCCAAATGTAGAATTTTCAAGTTTATTCTCATCCCTTGCTTCAATATCTATTAATCATGA
ATAAATTAAAGGTTTTCTT
Found at i:22201317 original size:855 final size:856
Alignment explanation
Indices: 22199028--22203030 Score: 7138
Period size: 855 Copynumber: 4.7 Consensus size: 856
22199018 ATTAATAATA
* * * * *
22199028 TTATTGAAATAATTTTATACATATATTTTTTAATATAAAATTGTGGATGTAACATATAAAATCTA
1 TTATTAAAATAATTTTATAAATATA-TTTTTAATATAAAATTGTGAATGTGATATATAAAATCTA
* * * * *
22199093 ATTTCCCTTATCCGATTTGTGTAGCTTAATTTAGTGGGTTAAAAGGTTACCATCATGTCAATTTT
65 ATTTCCCTTATCCGGTTTGTGCAGCTTGACTTAGTGGGTT-AAAGGCTACCATCATGTCAATTTT
* *
22199158 CCACCTTTCTAAATGTAGAATTTTTCAAGTTTATTCTCATCCCTTGCTTCAATATTTATTAATCA
129 CCACCTTTCCAAATGTAGAA-TTTTCAAGTTTATTCTCATCCCTTGCTTCAATATCTATTAATCA
22199223 TGAATAAATTAAAGGTTTTCTTTTATTAAAATAATTTTATAAATATATTTTTAATATAAAATTGT
193 TGAATAAATTAAAGGTTTTCTTTTATTAAAATAATTTTATAAATATATTTTTAATATAAAATTGT
22199288 GAATGTGATATATAAAATCTAATTTCCCTTATCCGGTTTGTGCAGCTTGACTTAGTGGGTTAAAG
258 GAATGTGATATATAAAATCTAATTTCCCTTATCCGGTTTGTGCAGCTTGACTTAGTGGGTTAAAG
*
22199353 GCTACCATCATGTCAATTTTCCATCTTTCCAAATGTAGAATTTTCAAGTTTATTCTCATCCCTT-
323 GCTACCATCATGTCAATTTTCCACCTTTCCAAATGTAGAATTTTCAAGTTTATTCTCATCCCTTG
22199417 CTTCAATATCTATTAATCATGAATAAATTAAAGGTTTTCTTTTATTAAAATAATTTTATAAATAT
388 CTTCAATATCTATTAATCATGAATAAATTAAAGGTTTTCTTTTATTAAAATAATTTTATAAATAT
22199482 ATTTTTTAATATAAAATTGTGAATGTGATATATAAAATCTAATTTCCCTTATCCGGTTTGTGCAG
453 A-TTTTTAATATAAAATTGTGAATGTGATATATAAAATCTAATTTCCCTTATCCGGTTTGTGCAG
* *
22199547 CTTGACTTAGTGGGTTAAAGGCTACCATCATGTCAATTTTCCATCTTTTCAAATGTAGAATTTTC
517 CTTGACTTAGTGGGTTAAAGGCTACCATCATGTCAATTTTCCACCTTTCCAAATGTAGAATTTTC
*
22199612 AAGTTTATTCTCATCTCTT-CTTCAATATCTATTAATCATGAATAAATTAAAGGTTTTCTTTTAT
582 AAGTTTATTCTCATCCCTTGCTTCAATATCTATTAATCATGAATAAATTAAAGGTTTTCTTTTAT
* *
22199676 TAAAATAATTTTATAAATATATTTTTAATATAAAATTGTGAATGTGATATCTAAAATCTAATTTT
647 TAAAATAATTTTATAAATATATTTTTAATATAAAATTGTGAATGTGATATATAAAATCTAATTTC
*
22199741 CCTTATCCGGTTTGTGCAGCTTGACTTAGT-GGTTAAAGGCTACCATCATGTCAATTTTTCACCT
712 CCTTATCCGGTTTGTGCAGCTTGACTTAGTGGGTTAAAGGCTACCATCATGTCAATTTTCCACCT
*
22199805 TTCCAAATGTAGAATTTTCAAGTTTATTCTCATCCCTTGCTTCAATATCTATTAATCATGAATAA
777 TTCCAAATGTAGAATTTTCAAGTTTATTCTCATCCATTGCTTCAATATCTATTAATCATGAATAA
*
22199870 ATTAAAGATTTTCTT
842 ATTAAAGGTTTTCTT
22199885 TTATTAAAATAATTTTATAAATATATTTTTAATATAAAATTGTGAATGTGATATATAAAATCTAA
1 TTATTAAAATAATTTTATAAATATATTTTTAATATAAAATTGTGAATGTGATATATAAAATCTAA
* *
22199950 TTTCCCTTATCCGGTTTGTGC-GACTTGACTTAGTGGGTTAAAGGCTAACATCATGTCAATTTTT
66 TTTCCCTTATCCGGTTTGTGCAG-CTTGACTTAGTGGGTTAAAGGCTACCATCATGTCAATTTTC
*
22200014 CACCTTTCCAAATGTAGAATTTTCAAGTTTATTCTCATCCATTGCTTCAATATCTATTAATCATG
130 CACCTTTCCAAATGTAGAATTTTCAAGTTTATTCTCATCCCTTGCTTCAATATCTATTAATCATG
22200079 AATAAATTAAAGGTTTTCTTTTATTAAAATAATTTTATAAATATATTTTTAATATAAAATTGTGA
195 AATAAATTAAAGGTTTTCTTTTATTAAAATAATTTTATAAATATATTTTTAATATAAAATTGTGA
* *
22200144 ATGTGATATCTAAAATCTAATTTTCCTTATCCGGTTTGTGCAGCTTGACTTAGTGGGTTAAAGGC
260 ATGTGATATATAAAATCTAATTTCCCTTATCCGGTTTGTGCAGCTTGACTTAGTGGGTTAAAGGC
22200209 TACCATCATGTCAATTTTCCACCTTTCCAAATGTAGAATTTTCAAGTTTATTCTCATCCCTTGCT
325 TACCATCATGTCAATTTTCCACCTTTCCAAATGTAGAATTTTCAAGTTTATTCTCATCCCTTGCT
*
22200274 TCAATATCTATTAATCATGAATAAATTAAAGATTTTCTTTTATTAAAATAATTTTATAAATATAT
390 TCAATATCTATTAATCATGAATAAATTAAAGGTTTTCTTTTATTAAAATAATTTTATAAATATAT
22200339 TTTTAATATAAAATTGTGAATGTGATATATAAAATCTAATTTCCCTTATCCGGTTTGTGC-GACT
455 TTTTAATATAAAATTGTGAATGTGATATATAAAATCTAATTTCCCTTATCCGGTTTGTGCAG-CT
22200403 TGACTTAGTGGGTTAAAGGCTACCATCATGTCAATTTTCCACCTTTCCAAATGTAGAATTTTCAA
519 TGACTTAGTGGGTTAAAGGCTACCATCATGTCAATTTTCCACCTTTCCAAATGTAGAATTTTCAA
22200468 GTTTATTCTCATCCCTTGCTTCAATATCTATTAATCATGAATAAATTAAAGGTTTTCTTTTATTA
584 GTTTATTCTCATCCCTTGCTTCAATATCTATTAATCATGAATAAATTAAAGGTTTTCTTTTATTA
*
22200533 AAATAATTTTATAAATATATTTTTAATATAAAATTGTTAATGTGATATATAAAATCTAATTTCCC
649 AAATAATTTTATAAATATATTTTTAATATAAAATTGTGAATGTGATATATAAAATCTAATTTCCC
* *
22200598 TTATCCGGTTTGTGCAGCTTGACTTAGTGGGTTAAAGGCTACGATCATGTCACTTTTCCACCTTT
714 TTATCCGGTTTGTGCAGCTTGACTTAGTGGGTTAAAGGCTACCATCATGTCAATTTTCCACCTTT
* *
22200663 CCAAAGGTAGAATTTTCAAGTTTATTCTCATCCCTTGCTTCAATATCTATTAATCATGAATAAAT
779 CCAAATGTAGAATTTTCAAGTTTATTCTCATCCATTGCTTCAATATCTATTAATCATGAATAAAT
22200728 TAAAGGTTTTCTT
844 TAAAGGTTTTCTT
*
22200741 TTATTAAAATAATTTTATAAATATATTTTTATTATAAAATTGTGAATGTGATATATAAAATCTAA
1 TTATTAAAATAATTTTATAAATATATTTTTAATATAAAATTGTGAATGTGATATATAAAATCTAA
22200806 TTTCCCTTATCCGGTTTGTGCAGCTTGACTTAGTGGGTTAAAGGCTACCATCATGTCAATTTTCC
66 TTTCCCTTATCCGGTTTGTGCAGCTTGACTTAGTGGGTTAAAGGCTACCATCATGTCAATTTTCC
*
22200871 ACCTTTCCAAATGTAGAATTTTCAAGTTTATTCTCATCCATTGCTTCAATATCTATTAATCATGA
131 ACCTTTCCAAATGTAGAATTTTCAAGTTTATTCTCATCCCTTGCTTCAATATCTATTAATCATGA
*
22200936 ATAAATTAAAGGTTTTCTTTTATTAAAATAATTTTATAAATATATTTTTAATATAAAATTATGAA
196 ATAAATTAAAGGTTTTCTTTTATTAAAATAATTTTATAAATATATTTTTAATATAAAATTGTGAA
*
22201001 TGTGATATATAAAATCCAATTTCCCTTATCCGGTTTGTGCAGCTTGACTTAGTGGGTTAAAGGCT
261 TGTGATATATAAAATCTAATTTCCCTTATCCGGTTTGTGCAGCTTGACTTAGTGGGTTAAAGGCT
* *
22201066 ACGATCATGTCAATTTTCCACCTTTCTAAATGTAGAATTTTCAAGTTTATTCTCAT-CCTTGCTT
326 ACCATCATGTCAATTTTCCACCTTTCCAAATGTAGAATTTTCAAGTTTATTCTCATCCCTTGCTT
22201130 CAATATCTATTAATCATGAATAAATTAAAGGTTTTCTTTTATTAAAATAATTTTATAAATATATT
391 CAATATCTATTAATCATGAATAAATTAAAGGTTTTCTTTTATTAAAATAATTTTATAAATATATT
*
22201195 TTTAATATAAAATTGTGAATGTGATATATAAAATCCAATTTCCCTTATCCGGTTTGTGCAGCTTG
456 TTTAATATAAAATTGTGAATGTGATATATAAAATCTAATTTCCCTTATCCGGTTTGTGCAGCTTG
* * *
22201260 ACTTAGTGGGTTAAAGGGTACGATCATGTCACTTTTCCACCTTTCCAAATGTAGAATTTTCAAGT
521 ACTTAGTGGGTTAAAGGCTACCATCATGTCAATTTTCCACCTTTCCAAATGTAGAATTTTCAAGT
* *
22201325 TTATTATCATCCCTTGTTTCAATATCTATTAATCATGAATAAATTAAAGGTTTTCTTTTATTAAA
586 TTATTCTCATCCCTTGCTTCAATATCTATTAATCATGAATAAATTAAAGGTTTTCTTTTATTAAA
*
22201390 ATAATTTTATAAATATATTTTTATTATAAAATTGTGAATGTGATATATAAAATCTAATTTCCCTT
651 ATAATTTTATAAATATATTTTTAATATAAAATTGTGAATGTGATATATAAAATCTAATTTCCCTT
22201455 ATCCGGTTTGTGCAGCTTGACTTAGTGGGTTAAAGGCTACCATCATGTCAATTTTCCACCTTTCC
716 ATCCGGTTTGTGCAGCTTGACTTAGTGGGTTAAAGGCTACCATCATGTCAATTTTCCACCTTTCC
22201520 AAATGTAGAATTTTCAAGTTTATTCTCATCCATTGCTTCAATATCTATTAATCATGAATAAATTA
781 AAATGTAGAATTTTCAAGTTTATTCTCATCCATTGCTTCAATATCTATTAATCATGAATAAATTA
22201585 AAGGTTTTCTT
846 AAGGTTTTCTT
*
22201596 TTATTAAAATAATTTTATAAATATATTTTTAATATAAAATTATGAATGTGATATATAAAATCTAA
1 TTATTAAAATAATTTTATAAATATATTTTTAATATAAAATTGTGAATGTGATATATAAAATCTAA
* *
22201661 TTTCCCTTATCCGGTTTGTGCAGCTTGACTTAGTGGGTTAAAGGCTACGATCATGTCACTTTTCC
66 TTTCCCTTATCCGGTTTGTGCAGCTTGACTTAGTGGGTTAAAGGCTACCATCATGTCAATTTTCC
22201726 ACCTTTCCAAATGTAGAATTTTCAAGTTTATTCTCATCCCTTGCTTCAATATCTATTAATCATGA
131 ACCTTTCCAAATGTAGAATTTTCAAGTTTATTCTCATCCCTTGCTTCAATATCTATTAATCATGA
*
22201791 ATAAATTAAAGGTTTTCTTTTATTAAAATAA-TTTATAAATATATTTTTATTATAAAATTGTGAA
196 ATAAATTAAAGGTTTTCTTTTATTAAAATAATTTTATAAATATATTTTTAATATAAAATTGTGAA
*
22201855 TGTGATATATAAAATCTAATTTCTCTTATCCGGTTTGTGCAGCTTGACTTAGTGGGTTAAAGGCT
261 TGTGATATATAAAATCTAATTTCCCTTATCCGGTTTGTGCAGCTTGACTTAGTGGGTTAAAGGCT
22201920 ACCATCATGTCAATTTTCCACCTTTCCAAATGTAGAATTTTCAAGTTTATTCTCATCCCTTGCTT
326 ACCATCATGTCAATTTTCCACCTTTCCAAATGTAGAATTTTCAAGTTTATTCTCATCCCTTGCTT
*
22201985 CAATATCTATTAATCATTAATAAATTAAAGGTTTTCTTTTATTAAAATAATTTTATAAATATATT
391 CAATATCTATTAATCATGAATAAATTAAAGGTTTTCTTTTATTAAAATAATTTTATAAATATATT
* *
22202050 TTTAATATAAAATTATGAATGTGATATATAAAATCTAGTTTCCCTTATCCGGTTTGTGCAGCTTG
456 TTTAATATAAAATTGTGAATGTGATATATAAAATCTAATTTCCCTTATCCGGTTTGTGCAGCTTG
* *
22202115 ACTTAGTGGGTTAAAGGCTACGATCATGTCACTTTTCCACCTTTCCAAATGTAGAATTTTCAAGT
521 ACTTAGTGGGTTAAAGGCTACCATCATGTCAATTTTCCACCTTTCCAAATGTAGAATTTTCAAGT
22202180 TTATTCTCATCCCTTGCTTCAATATCTATTAATCATGAATAAATTAAAGGTTTTCTTTTATTAAA
586 TTATTCTCATCCCTTGCTTCAATATCTATTAATCATGAATAAATTAAAGGTTTTCTTTTATTAAA
* *
22202245 ATAATTTCATAAATATATTTTTATTATAAAATTGTGAATGTGATATATAAAATCTAATTTCCCTT
651 ATAATTTTATAAATATATTTTTAATATAAAATTGTGAATGTGATATATAAAATCTAATTTCCCTT
* * *
22202310 ATCCGGTTTGTGCAACTTGACTTAGTGGGTTAAAGGCTACTATCATGTCAATTTTTCACCTTTCC
716 ATCCGGTTTGTGCAGCTTGACTTAGTGGGTTAAAGGCTACCATCATGTCAATTTTCCACCTTTCC
22202375 AAATGTAGAATTTTCAAGTTTATTCTCATCCATTGCTTCAATATCTATTAATCATGAATAAATTA
781 AAATGTAGAATTTTCAAGTTTATTCTCATCCATTGCTTCAATATCTATTAATCATGAATAAATTA
22202440 AAGGTTTTCTT
846 AAGGTTTTCTT
* *
22202451 TTATTAAAATAATTTTATAAATATATTTTTAATATAAAATTATGAATGTGATATATAAAATCTAG
1 TTATTAAAATAATTTTATAAATATATTTTTAATATAAAATTGTGAATGTGATATATAAAATCTAA
* *
22202516 TTTCCCTTATCCGGTTTGTGCAGCTTGACTTAGTGGGTTAAAGGCTACGATCATGTCACTTTTCC
66 TTTCCCTTATCCGGTTTGTGCAGCTTGACTTAGTGGGTTAAAGGCTACCATCATGTCAATTTTCC
*
22202581 ACCTTTCCAAAGGTAGAATTTTCAAGTTTATTCTCATCCCTTGCTTCAATATCTATTAATCATGA
131 ACCTTTCCAAATGTAGAATTTTCAAGTTTATTCTCATCCCTTGCTTCAATATCTATTAATCATGA
*
22202646 ATAAATTAAAGGTTTTCTTTTATTAAAATAATTTTATAAATATATTTTTAATATAAAATTGTAAA
196 ATAAATTAAAGGTTTTCTTTTATTAAAATAATTTTATAAATATATTTTTAATATAAAATTGTGAA
*
22202711 TGTGATATATAAAATCTAATTTCCCTTATTCGGTTTGTGCAGCTTGACTTAGTGGGTTAAAGGCT
261 TGTGATATATAAAATCTAATTTCCCTTATCCGGTTTGTGCAGCTTGACTTAGTGGGTTAAAGGCT
** * * * *
22202776 ACCATCATACCAATTTTCCACCTTTTCAAGTGTAGAATTTTCAAGTTTATTCTCATGCCTTGCGT
326 ACCATCATGTCAATTTTCCACCTTTCCAAATGTAGAATTTTCAAGTTTATTCTCATCCCTTGCTT
22202841 CAATATCTATTAATCATGAATAAATTAAAGGTTTTCTTTTATTAAAATAATTTTATAAATATATT
391 CAATATCTATTAATCATGAATAAATTAAAGGTTTTCTTTTATTAAAATAATTTTATAAATATATT
* * ** * *
22202906 TTTATTATAAAATTGTGAATGTGATATAGAAAATCTAATTTTTCTTATCCGGTTTATGTAGCTTG
456 TTTAATATAAAATTGTGAATGTGATATATAAAATCTAATTTCCCTTATCCGGTTTGTGCAGCTTG
* * * * * *
22202971 ACTTCGTTGGTTAAAAGCCACCATCATGTAAATTTTCCACCTTTTCAAATGTAGAATTTT
521 ACTTAGTGGGTTAAAGGCTACCATCATGTCAATTTTCCACCTTTCCAAATGTAGAATTTT
22203031 TAACTTTCTT
Statistics
Matches: 3034, Mismatches: 103, Indels: 19
0.96 0.03 0.01
Matches are distributed among these distances:
853 1 0.00
854 523 0.17
855 1610 0.53
856 876 0.29
857 24 0.01
ACGTcount: A:0.32, C:0.14, G:0.11, T:0.43
Consensus pattern (856 bp):
TTATTAAAATAATTTTATAAATATATTTTTAATATAAAATTGTGAATGTGATATATAAAATCTAA
TTTCCCTTATCCGGTTTGTGCAGCTTGACTTAGTGGGTTAAAGGCTACCATCATGTCAATTTTCC
ACCTTTCCAAATGTAGAATTTTCAAGTTTATTCTCATCCCTTGCTTCAATATCTATTAATCATGA
ATAAATTAAAGGTTTTCTTTTATTAAAATAATTTTATAAATATATTTTTAATATAAAATTGTGAA
TGTGATATATAAAATCTAATTTCCCTTATCCGGTTTGTGCAGCTTGACTTAGTGGGTTAAAGGCT
ACCATCATGTCAATTTTCCACCTTTCCAAATGTAGAATTTTCAAGTTTATTCTCATCCCTTGCTT
CAATATCTATTAATCATGAATAAATTAAAGGTTTTCTTTTATTAAAATAATTTTATAAATATATT
TTTAATATAAAATTGTGAATGTGATATATAAAATCTAATTTCCCTTATCCGGTTTGTGCAGCTTG
ACTTAGTGGGTTAAAGGCTACCATCATGTCAATTTTCCACCTTTCCAAATGTAGAATTTTCAAGT
TTATTCTCATCCCTTGCTTCAATATCTATTAATCATGAATAAATTAAAGGTTTTCTTTTATTAAA
ATAATTTTATAAATATATTTTTAATATAAAATTGTGAATGTGATATATAAAATCTAATTTCCCTT
ATCCGGTTTGTGCAGCTTGACTTAGTGGGTTAAAGGCTACCATCATGTCAATTTTCCACCTTTCC
AAATGTAGAATTTTCAAGTTTATTCTCATCCATTGCTTCAATATCTATTAATCATGAATAAATTA
AAGGTTTTCTT
Found at i:22209142 original size:51 final size:51
Alignment explanation
Indices: 22209066--22209266 Score: 276
Period size: 51 Copynumber: 3.9 Consensus size: 51
22209056 GCTATAACGA
* * *
22209066 AAAAGTCTGATGACTAAGTGTTATCGTGAGTAAATGAATCCTTTACGGATT
1 AAAAGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTATGGATT
* *
22209117 AAAAGTCTGATGACTAAGTGTTATCGTGAGTAAATGAATCCTTTATGGATT
1 AAAAGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTATGGATT
* * * *
22209168 AGAGGTCCGATGACTAAGTGTCATCTTGAGTAAATGAATCCTTTATAGATT
1 AAAAGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTATGGATT
* * * *
22209219 ATAGGTCCGATGACTAAGTGTCATCGTGAGTATATGAATTCCTATATG
1 AAAAGTCCGATGACTAAGTGTCATCGTGAGTAAATGAA-TCCTTTATG
22209267 AACACAATAG
Statistics
Matches: 137, Mismatches: 12, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
51 130 0.95
52 7 0.05
ACGTcount: A:0.32, C:0.12, G:0.22, T:0.34
Consensus pattern (51 bp):
AAAAGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTATGGATT
Found at i:22210066 original size:21 final size:21
Alignment explanation
Indices: 22210042--22210092 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 21
22210032 GAGATAACAA
22210042 TACCGATACAAGT-ATGACTTC
1 TACCGATACAAGTCAT-ACTTC
* *
22210063 TACCGAAACATGTCATACTTC
1 TACCGATACAAGTCATACTTC
22210084 TACCGATAC
1 TACCGATAC
22210093 TAAAAGCTCC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
21 24 0.92
22 2 0.08
ACGTcount: A:0.33, C:0.27, G:0.12, T:0.27
Consensus pattern (21 bp):
TACCGATACAAGTCATACTTC
Found at i:22210519 original size:201 final size:191
Alignment explanation
Indices: 22210172--22210544 Score: 471
Period size: 201 Copynumber: 1.9 Consensus size: 191
22210162 CTGTACTATA
* * *
22210172 AACTGTTCCCTAACGATGCTGCTCACACGAGCTGTCGAGAGTATGCATAGAGCATAGTCCTAGCC
1 AACTGTTCCCTAACGATGCTGCTCACACGAGCTCTCGAGAATATGCATAGAGCATAATCCTAGCC
* * *
22210237 ATTGTAGGGCCTATAATCCATTTAGGATCCATGTCTCTTTCCCGAGTCAAGATGCTGCTCACACG
66 ATCGCAGGGCCTATAATCCATTTAGGATCCATGTCTCTTTCCCGACTCAAGATGCTGCTCACACG
* *
22210302 AGCTGTCCAAGACTCGCAACATATGCGGTTCCTCAGCCATCGATACGATATCTGTGCATAT
131 AGCTGTCCAAGACTCGCAACATATGCGGTACCTCAACCATCGATACGATATCTGTGCATAT
* *
22210363 AACTGTTCCCTAATGATGCTGCTCACACGAGCTCTCGAGAATATGCACTTA-TGCATAAAT-CTC
1 AACTGTTCCCTAACGATGCTGCTCACACGAGCTCTCGAGAATATGCA--TAGAGCAT-AATCCT-
* * * *
22210426 AGCCATCGCAGGGTCTGTAATCCATTTAGGATCCATATTTCTTTTCTCATTTCCCGACTCACGAT
62 AGCCATCGCAGGGCCTATAATCCATTTAGGATCC--A-----TGTCTC-TTTCCCGACTCAAGAT
* * *
22210491 GCTGCTCGCACGAGCTGTCGAGGACTCGCAACATATGCGGTACCTCAACCATCG
119 GCTGCTCACACGAGCTGTCCAAGACTCGCAACATATGCGGTACCTCAACCATCG
22210545 CTTCGGTTTC
Statistics
Matches: 153, Mismatches: 17, Indels: 14
0.83 0.09 0.08
Matches are distributed among these distances:
191 44 0.29
192 6 0.04
193 34 0.22
195 1 0.01
200 5 0.03
201 63 0.41
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.27
Consensus pattern (191 bp):
AACTGTTCCCTAACGATGCTGCTCACACGAGCTCTCGAGAATATGCATAGAGCATAATCCTAGCC
ATCGCAGGGCCTATAATCCATTTAGGATCCATGTCTCTTTCCCGACTCAAGATGCTGCTCACACG
AGCTGTCCAAGACTCGCAACATATGCGGTACCTCAACCATCGATACGATATCTGTGCATAT
Found at i:22212813 original size:21 final size:21
Alignment explanation
Indices: 22212773--22212813 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
22212763 ATGCATGACA
*
22212773 TGTATTAGTAGAAATTATACT
1 TGTATTAGTAGAAATAATACT
* *
22212794 TGTATTGGTAGAACTAATAC
1 TGTATTAGTAGAAATAATAC
22212814 ATATACCGGT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.37, C:0.07, G:0.17, T:0.39
Consensus pattern (21 bp):
TGTATTAGTAGAAATAATACT
Found at i:22218622 original size:60 final size:60
Alignment explanation
Indices: 22218527--22218647 Score: 188
Period size: 60 Copynumber: 2.0 Consensus size: 60
22218517 CGTGAGTAAA
* *
22218527 TGAATCCTTTACGGATTAAAAGTGCAATGAATAAGTGTTATCGTGAGTAAATGAATCCTT
1 TGAATCCTTTACGGATTAAAAGTCCAATGAATAAGTGTCATCGTGAGTAAATGAATCCTT
* * * *
22218587 TGAATCCTTTACGGATTAGAGGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTT
1 TGAATCCTTTACGGATTAAAAGTCCAATGAATAAGTGTCATCGTGAGTAAATGAATCCTT
22218647 T
1 T
22218648 ATGGATTACA
Statistics
Matches: 55, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
60 55 1.00
ACGTcount: A:0.31, C:0.14, G:0.21, T:0.33
Consensus pattern (60 bp):
TGAATCCTTTACGGATTAAAAGTCCAATGAATAAGTGTCATCGTGAGTAAATGAATCCTT
Found at i:22218663 original size:51 final size:51
Alignment explanation
Indices: 22218587--22218686 Score: 173
Period size: 51 Copynumber: 2.0 Consensus size: 51
22218577 ATGAATCCTT
*
22218587 TGAATCCTTTACGGATTAGAGGTCCGATGACTAAGTGTCATCGTGAGTAAA
1 TGAATCCTTTACGGATTACAGGTCCGATGACTAAGTGTCATCGTGAGTAAA
* *
22218638 TGAATCCTTTATGGATTACAGGTCCGATGACTAAGTGTCTTCGTGAGTA
1 TGAATCCTTTACGGATTACAGGTCCGATGACTAAGTGTCATCGTGAGTA
22218687 TCAAAAGAAA
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 46 1.00
ACGTcount: A:0.27, C:0.16, G:0.25, T:0.32
Consensus pattern (51 bp):
TGAATCCTTTACGGATTACAGGTCCGATGACTAAGTGTCATCGTGAGTAAA
Found at i:22223851 original size:15 final size:15
Alignment explanation
Indices: 22223831--22223860 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
22223821 AAATTTTATA
22223831 AAATATATAAAATTT
1 AAATATATAAAATTT
22223846 AAATATATAAAATTT
1 AAATATATAAAATTT
22223861 TAATTTGAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (15 bp):
AAATATATAAAATTT
Found at i:22225866 original size:29 final size:30
Alignment explanation
Indices: 22225816--22225891 Score: 93
Period size: 29 Copynumber: 2.6 Consensus size: 30
22225806 AAAAGGTTGA
* * *
22225816 AAAATG-AAATTTCGAAGAATTTGGGA-TC
1 AAAATGTAATTTTGGAAGAATTTGAGAGTC
*
22225844 AAAATGTAATTTTGGAATAATTTGAGAGTC
1 AAAATGTAATTTTGGAAGAATTTGAGAGTC
22225874 AAAATGTAATTTTTGGAA
1 AAAATGTAA-TTTTGGAA
22225892 AGTTTAAGGG
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
28 6 0.15
29 16 0.39
30 11 0.27
31 8 0.20
ACGTcount: A:0.42, C:0.04, G:0.20, T:0.34
Consensus pattern (30 bp):
AAAATGTAATTTTGGAAGAATTTGAGAGTC
Found at i:22225908 original size:30 final size:30
Alignment explanation
Indices: 22225844--22225957 Score: 133
Period size: 30 Copynumber: 3.8 Consensus size: 30
22225834 ATTTGGGATC
* * * *
22225844 AAAATGTAATTTTGGAATAA-TTTGAGAGTC
1 AAAATATAATTTTGGAA-AAGTTTAAGGGTT
*
22225874 AAAATGTAATTTTTGG-AAAGTTTAAGGGTT
1 AAAATATAA-TTTTGGAAAAGTTTAAGGGTT
* *
22225904 AAAATATGATTTTGGAAAAGTTTAGGGGTT
1 AAAATATAATTTTGGAAAAGTTTAAGGGTT
22225934 AAAATATAATTTTGGAAAAGTTTA
1 AAAATATAATTTTGGAAAAGTTTA
22225958 GGAACCTTTT
Statistics
Matches: 74, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
29 8 0.11
30 60 0.81
31 6 0.08
ACGTcount: A:0.40, C:0.01, G:0.21, T:0.38
Consensus pattern (30 bp):
AAAATATAATTTTGGAAAAGTTTAAGGGTT
Found at i:22226910 original size:11 final size:11
Alignment explanation
Indices: 22226894--22226923 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
22226884 CCCTTCTTTT
22226894 TATTTATTATG
1 TATTTATTATG
*
22226905 TATTTATTATT
1 TATTTATTATG
22226916 TATTTATT
1 TATTTATT
22226924 CAAAACATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.27, C:0.00, G:0.03, T:0.70
Consensus pattern (11 bp):
TATTTATTATG
Found at i:22228199 original size:48 final size:47
Alignment explanation
Indices: 22228120--22228210 Score: 155
Period size: 48 Copynumber: 1.9 Consensus size: 47
22228110 GTGTGTTGTG
**
22228120 GCTTTATTTCTTGGTCTACTTCTCTATATCTCATCAGGAAGATGGTC
1 GCTTTATTTCTTGACCTACTTCTCTATATCTCATCAGGAAGATGGTC
22228167 GCTTTATTTCTTCGACCTACTTCTCTATATCTCATCAGGAAGAT
1 GCTTTATTTCTT-GACCTACTTCTCTATATCTCATCAGGAAGAT
22228211 AAGGGTTTGA
Statistics
Matches: 41, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
47 12 0.29
48 29 0.71
ACGTcount: A:0.21, C:0.23, G:0.14, T:0.42
Consensus pattern (47 bp):
GCTTTATTTCTTGACCTACTTCTCTATATCTCATCAGGAAGATGGTC
Found at i:22228298 original size:48 final size:48
Alignment explanation
Indices: 22228242--22228333 Score: 148
Period size: 48 Copynumber: 1.9 Consensus size: 48
22228232 TATTGAACTT
** * *
22228242 CGCTTCATTGATTTGGTCTACTTCTCTGTTTCTCATCAGGAAGATGTC
1 CGCTTCATTGATTTAATCCACTTCTCTGTATCTCATCAGGAAGATGTC
22228290 CGCTTCATTGATTTAATCCACTTCTCTGTATCTCATCAGGAAGA
1 CGCTTCATTGATTTAATCCACTTCTCTGTATCTCATCAGGAAGA
22228334 CGAATTTGGT
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 40 1.00
ACGTcount: A:0.21, C:0.24, G:0.16, T:0.39
Consensus pattern (48 bp):
CGCTTCATTGATTTAATCCACTTCTCTGTATCTCATCAGGAAGATGTC
Found at i:22228396 original size:85 final size:85
Alignment explanation
Indices: 22228252--22228418 Score: 244
Period size: 85 Copynumber: 2.0 Consensus size: 85
22228242 CGCTTCATTG
* * * * *
22228252 ATTTGGTCTACTTCTCTGTTTCTCATCAGGAAGATGTCCGCTTCATTGATTTAATCCACTTCTCT
1 ATTTGGTCCACTTCTCTGTATCTCATCAGGAAGATGACCGCTTCATTGATTTAACCCACTTCTAT
22228317 GTATCTCATCAGGAAGACGA
66 GTATCTCATCAGGAAGACGA
* * * *
22228337 ATTTGGTCCACTTCTCTGTATCTCATCAGGAAGATGACCTCTTTATTGCTTTGACCCACTTCTAT
1 ATTTGGTCCACTTCTCTGTATCTCATCAGGAAGATGACCGCTTCATTGATTTAACCCACTTCTAT
*
22228402 GTATCTCATTAGGAAGA
66 GTATCTCATCAGGAAGA
22228419 TGGGGTTTGA
Statistics
Matches: 72, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
85 72 1.00
ACGTcount: A:0.23, C:0.23, G:0.16, T:0.38
Consensus pattern (85 bp):
ATTTGGTCCACTTCTCTGTATCTCATCAGGAAGATGACCGCTTCATTGATTTAACCCACTTCTAT
GTATCTCATCAGGAAGACGA
Found at i:22228503 original size:208 final size:208
Alignment explanation
Indices: 22228130--22228788 Score: 919
Period size: 208 Copynumber: 3.2 Consensus size: 208
22228120 GCTTTATTTC
* * ** * * * *
22228130 TTGGTCTACTTCTCTATATCTCATCAGGAAGATGGTCGCTTTATTTCTTCGACCTACTTCTCTAT
1 TTGGTCCACTTCTCTGTATCTCATCAGGAAGATGACCACTTTATTGCTTTGACCCACTTCTCTAT
* * *
22228195 ATCTCATCAGGAAGATAAGGGTTTGAAGT-TTCACTCGTATTGA-ACTTCGCTTCATTGATTTGG
66 ATCTCATCAGGAAGAT-GGGGTTTGAAGTCTT-ATTCGTATTGAGA-TTCGTTTCATTGATTTGG
* *
22228258 TCTACTTCTCTGTTTCTCATCAGGAAGATGTCCGCTTCATTGATTTAATCCACTTCTCTGTATCT
128 TCTACTTCTCTGTATCTCATCAGGAAGATGACCGCTTCATTGATTTAATCCACTTCTCTGTATCT
22228323 CATCAGGAAGACGAAT
193 CATCAGGAAGACGAAT
* * *
22228339 TTGGTCCACTTCTCTGTATCTCATCAGGAAGATGACCTCTTTATTGCTTTGACCCACTTCTATGT
1 TTGGTCCACTTCTCTGTATCTCATCAGGAAGATGACCACTTTATTGCTTTGACCCACTTCTCTAT
* * * *
22228404 ATCTCATTAGGAAGATGGGGTTTGAAGTCTTATTCGTATTGAGATTCATTTTATTGATTTGGTAT
66 ATCTCATCAGGAAGATGGGGTTTGAAGTCTTATTCGTATTGAGATTCGTTTCATTGATTTGGTCT
* * *
22228469 ACTTCTTTGTATCTCATCAGGAAGATGACCGCTTCATTGATTTAATCGACTTATCTGTATCTCAT
131 ACTTCTCTGTATCTCATCAGGAAGATGACCGCTTCATTGATTTAATCCACTTCTCTGTATCTCAT
* *
22228534 TAGGAAGGC-AGAT
196 CAGGAAGACGA-AT
* * *
22228547 TTGGTCCACTTCTCTGTATCTCATCAGGAAGACGACCACTTTATTGCTTTAACCCACTTTTCTAT
1 TTGGTCCACTTCTCTGTATCTCATCAGGAAGATGACCACTTTATTGCTTTGACCCACTTCTCTAT
* *
22228612 ATCTCATCAGGAAGATGGGGTTTGAAGTCTCATTCGTATTGAGCTTCGTTTCATTGATTTGGTCT
66 ATCTCATCAGGAAGATGGGGTTTGAAGTCTTATTCGTATTGAGATTCGTTTCATTGATTTGGTCT
* * * * * *
22228677 ACTTCTCTATATCTCATCGGGAAGATTACCGCCTCATTAATTTAATTCACTTCTCTGTATCTCAT
131 ACTTCTCTGTATCTCATCAGGAAGATGACCGCTTCATTGATTTAATCCACTTCTCTGTATCTCAT
*
22228742 CAGGAAGACGGAT
196 CAGGAAGACGAAT
*
22228755 TTGGTCCACTTCTCTGTATCTCATCAGAAAGATG
1 TTGGTCCACTTCTCTGTATCTCATCAGGAAGATG
22228789 GGGTTTGAAG
Statistics
Matches: 396, Mismatches: 50, Indels: 9
0.87 0.11 0.02
Matches are distributed among these distances:
207 1 0.00
208 322 0.81
209 73 0.18
ACGTcount: A:0.23, C:0.21, G:0.17, T:0.39
Consensus pattern (208 bp):
TTGGTCCACTTCTCTGTATCTCATCAGGAAGATGACCACTTTATTGCTTTGACCCACTTCTCTAT
ATCTCATCAGGAAGATGGGGTTTGAAGTCTTATTCGTATTGAGATTCGTTTCATTGATTTGGTCT
ACTTCTCTGTATCTCATCAGGAAGATGACCGCTTCATTGATTTAATCCACTTCTCTGTATCTCAT
CAGGAAGACGAAT
Found at i:22228615 original size:85 final size:85
Alignment explanation
Indices: 22228459--22228625 Score: 226
Period size: 85 Copynumber: 2.0 Consensus size: 85
22228449 TCATTTTATT
* * * * * *
22228459 GATTTGGTATACTTCTTTGTATCTCATCAGGAAGATGACCGCTTCATTGATTTAATCGACTTATC
1 GATTTGGTACACTTCTCTGTATCTCATCAGGAAGACGACCACTTCATTGATTTAACCCACTTATC
* *
22228524 TGTATCTCATTAGGAAGGCA
66 TATATCTCATCAGGAAGGCA
* * * *
22228544 GATTTGGTCCACTTCTCTGTATCTCATCAGGAAGACGACCACTTTATTGCTTTAACCCACTTTTC
1 GATTTGGTACACTTCTCTGTATCTCATCAGGAAGACGACCACTTCATTGATTTAACCCACTTATC
22228609 TATATCTCATCAGGAAG
66 TATATCTCATCAGGAAG
22228626 ATGGGGTTTG
Statistics
Matches: 70, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
85 70 1.00
ACGTcount: A:0.25, C:0.22, G:0.17, T:0.37
Consensus pattern (85 bp):
GATTTGGTACACTTCTCTGTATCTCATCAGGAAGACGACCACTTCATTGATTTAACCCACTTATC
TATATCTCATCAGGAAGGCA
Found at i:22228927 original size:140 final size:139
Alignment explanation
Indices: 22228662--22228928 Score: 437
Period size: 140 Copynumber: 1.9 Consensus size: 139
22228652 GAGCTTCGTT
* * *
22228662 TCATTGATTTGGTCTACTTCTCTATATCTCATCGGGAAGATTACCGCCTCATTAATTTAATTCAC
1 TCATTCATTTGGTCTACTTCTCTATATCTCATCAGGAAGATTACCGCCTCATTAATTTAATCCAC
*
22228727 TTCTCTGTATCTCATCAGGAAGACGGATTTGGTCCACTTCTCTGTATCTCATCAGAAAGATGGGG
66 TTCTCTGTATCTCATCAGGAAGACGGATTTGGTCCACTTCTCTCTATCTCATCAGAAAGATGGGG
22228792 TTTGAAGTC
131 TTTGAAGTC
* * *
22228801 TCATTCATATTGGTCTACTTCTCTGTATCTCATTAGGAAGATTACCGCCTCATTGATTTAATCCA
1 TCATTCAT-TTGGTCTACTTCTCTATATCTCATCAGGAAGATTACCGCCTCATTAATTTAATCCA
*
22228866 CTTCTCTGTATCTCATCAGGAAGGCGGATTTGGTCCACTTCTCTCTATCTCATCA-AGAAGATG
65 CTTCTCTGTATCTCATCAGGAAGACGGATTTGGTCCACTTCTCTCTATCTCATCAGA-AAGATG
22228929 ACTACTTTAT
Statistics
Matches: 118, Mismatches: 8, Indels: 3
0.91 0.06 0.02
Matches are distributed among these distances:
139 8 0.07
140 110 0.93
ACGTcount: A:0.24, C:0.23, G:0.17, T:0.37
Consensus pattern (139 bp):
TCATTCATTTGGTCTACTTCTCTATATCTCATCAGGAAGATTACCGCCTCATTAATTTAATCCAC
TTCTCTGTATCTCATCAGGAAGACGGATTTGGTCCACTTCTCTCTATCTCATCAGAAAGATGGGG
TTTGAAGTC
Found at i:22229112 original size:348 final size:348
Alignment explanation
Indices: 22228462--22229135 Score: 1062
Period size: 348 Copynumber: 1.9 Consensus size: 348
22228452 TTTTATTGAT
* * *
22228462 TTGGTATACTTCTTTGTATCTCATCAGGAAGATGACCGCTTCATTGATTTAATCGACTTATCTGT
1 TTGGTATACTTCTCTGTATCTCATCAGGAAGATGACCGCCTCATTGATTTAATCCACTTATCTGT
* * *
22228527 ATCTCATTAGGAAGGCAGATTTGGTCCACTTCTCTGTATCTCATCAGGAAGACGACCACTTTATT
66 ATCTCATCAGGAAGGCAGATTTGGTCCACTTCTCTCTATCTCATCAAGAAGACGACCACTTTATT
*
22228592 GCTTTAACCCACTTTTCTATATCTCATCAGGAAGATGGGGTTTGAAGTCTCATTCGTATTGAGCT
131 GCTTTAACCCACTTTTCTATATCTCATCAGGAAGATGAGGTTTGAAGTCTCATTCGTATTGAGCT
** * * *
22228657 TCGTTTCATTGATTTGGTCTACTTCTCTATATCTCATCGGGAAGATTACCGCCTCATTAATTTAA
196 TCGTTTCATTGATTTGGTCTACTTCTCTATATCTCATCAAGAAGATGACCACATCATTAATTTAA
* * * *
22228722 TTCACTTCTCTGTATCTCATCAGGAAGACGGATTTGGTCCACTTCTCTGTATCTCATCAGAAAGA
261 TCCACTTCTCTGTATCTCATCAGGAAGACAGATTTAGTCCACTTCTCTATATCTCATCAGAAAGA
22228787 TGGGGTTTGAAGTCTCATTCATA
326 TGGGGTTTGAAGTCTCATTCATA
* * * *
22228810 TTGGTCTACTTCTCTGTATCTCATTAGGAAGATTACCGCCTCATTGATTTAATCCACTTCTCTGT
1 TTGGTATACTTCTCTGTATCTCATCAGGAAGATGACCGCCTCATTGATTTAATCCACTTATCTGT
* * *
22228875 ATCTCATCAGGAAGGCGGATTTGGTCCACTTCTCTCTATCTCATCAAGAAGATGACTACTTTATT
66 ATCTCATCAGGAAGGCAGATTTGGTCCACTTCTCTCTATCTCATCAAGAAGACGACCACTTTATT
* *
22228940 GCTTTGACCCACTTCTT-TTTATCTCATCAGGAAGATGAGGTTTGAAGTCTCATTCGTATTGAGC
131 GCTTTAACCCACTT-TTCTATATCTCATCAGGAAGATGAGGTTTGAAGTCTCATTCGTATTGAGC
* * *
22229004 TTCGTTTCATTGATTTGGTCTAGTTCTCTGTATCTCATCAAGAAGATGACCACATCATTGATTTA
195 TTCGTTTCATTGATTTGGTCTACTTCTCTATATCTCATCAAGAAGATGACCACATCATTAATTTA
* *
22229069 ATCCACTTCTCTGTATCTCATCAGGAAGGCAGATTTAGTCCACTTTTCTATATCTCATCAGAAAG
260 ATCCACTTCTCTGTATCTCATCAGGAAGACAGATTTAGTCCACTTCTCTATATCTCATCAGAAAG
22229134 AT
325 AT
22229136 AATCGCTTTA
Statistics
Matches: 295, Mismatches: 30, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
348 293 0.99
349 2 0.01
ACGTcount: A:0.24, C:0.22, G:0.17, T:0.38
Consensus pattern (348 bp):
TTGGTATACTTCTCTGTATCTCATCAGGAAGATGACCGCCTCATTGATTTAATCCACTTATCTGT
ATCTCATCAGGAAGGCAGATTTGGTCCACTTCTCTCTATCTCATCAAGAAGACGACCACTTTATT
GCTTTAACCCACTTTTCTATATCTCATCAGGAAGATGAGGTTTGAAGTCTCATTCGTATTGAGCT
TCGTTTCATTGATTTGGTCTACTTCTCTATATCTCATCAAGAAGATGACCACATCATTAATTTAA
TCCACTTCTCTGTATCTCATCAGGAAGACAGATTTAGTCCACTTCTCTATATCTCATCAGAAAGA
TGGGGTTTGAAGTCTCATTCATA
Found at i:22229193 original size:208 final size:208
Alignment explanation
Indices: 22228801--22229249 Score: 625
Period size: 208 Copynumber: 2.2 Consensus size: 208
22228791 GTTTGAAGTC
* * * * * *
22228801 TCATTCATATTGGTCTACTTCTCTGTATCTCATTAGGAAGATTACCGCCTCATTGATTTAATCCA
1 TCATTGAT-TTGGTCTACTTCTCTGTATCTCATCAAGAAGATGACCACATCATTGATTTAATCCA
* * * *
22228866 CTTCTCTGTATCTCATCAGGAAGGCGGATTTGGTCCACTTCTCTCTATCTCATCAAGAAGATGAC
65 CTTCTCTGTATCTCATCAGGAAGGCAGATTTAGTCCACTTCTCTATATCTCATCAAGAAGATAAC
* * * *
22228931 TACTTTATTGCTTTGACCCACTTCTTTTTATCTCATCAGGAAGATGAGGTTTGAAGTCTCATTCG
130 TACTTTATTACTTTGACCCACTTCTCTGTATCTCATCAGAAAGATGAGGTTTGAAGTCTCATTCG
**
22228996 TATTGAGCTTCGTT
195 TATTGAGCTTCACT
*
22229010 TCATTGATTTGGTCTAGTTCTCTGTATCTCATCAAGAAGATGACCACATCATTGATTTAATCCAC
1 TCATTGATTTGGTCTACTTCTCTGTATCTCATCAAGAAGATGACCACATCATTGATTTAATCCAC
*
22229075 TTCTCTGTATCTCATCAGGAAGGCAGATTTAGTCCACTTTTCTATATCTCATC-AGAAAGATAA-
66 TTCTCTGTATCTCATCAGGAAGGCAGATTTAGTCCACTTCTCTATATCTCATCAAG-AAGATAAC
* *
22229138 TCGCTTTATTACTTTGACCCACTTCTCTGTATCTCCTCAGAAAGATG-GAGTTTGAAGTCTCATT
130 T-ACTTTATTACTTTGACCCACTTCTCTGTATCTCATCAGAAAGATGAG-GTTTGAAGTCTCATT
*
22229202 TGTATTGAGCTTCACT
193 CGTATTGAGCTTCACT
* * *
22229218 TCATTGATTTGGTTTATTTTTCTGTATCTCAT
1 TCATTGATTTGGTCTACTTCTCTGTATCTCAT
22229250 TAGGAAAGCG
Statistics
Matches: 213, Mismatches: 24, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
207 4 0.02
208 202 0.95
209 7 0.03
ACGTcount: A:0.24, C:0.21, G:0.15, T:0.40
Consensus pattern (208 bp):
TCATTGATTTGGTCTACTTCTCTGTATCTCATCAAGAAGATGACCACATCATTGATTTAATCCAC
TTCTCTGTATCTCATCAGGAAGGCAGATTTAGTCCACTTCTCTATATCTCATCAAGAAGATAACT
ACTTTATTACTTTGACCCACTTCTCTGTATCTCATCAGAAAGATGAGGTTTGAAGTCTCATTCGT
ATTGAGCTTCACT
Found at i:22229248 original size:160 final size:160
Alignment explanation
Indices: 22229073--22229412 Score: 448
Period size: 160 Copynumber: 2.1 Consensus size: 160
22229063 GATTTAATCC
* *
22229073 ACTTCTCTGTATCTCATCAGGAAGGCAGATTTAGTCCACTTTTCTATATCTCATCAGAAAGATAA
1 ACTTCTCTGTATCTCATCAGGAAAGCAGATTTAGTCCACTTCTCTATATCTCATCAGAAAGATAA
* * * *
22229138 TCGCTTTATTACTTTGACCCACTTCTCTGTATCTCCTCAGAAAGAT-GGAGTTTGAAGTCTCATT
66 CCGCTTTATTACTTTAACCCACTTCTCTGTATCTCATCAGAAAGATAAG-GTTTGAAGTCTCATT
* * *
22229202 TGTATTGAGCTTCACTTCATTGATTTGGTTT
130 CGTATTGAGCTTCACTTCATCGATTTGGTCT
* * * * * * * *
22229233 ATTTTTCTGTATCTCATTAGGAAAGCGGATTTGGTCCACTTCTCTGTATCTCATCAGGAAGATGA
1 ACTTCTCTGTATCTCATCAGGAAAGCAGATTTAGTCCACTTCTCTATATCTCATCAGAAAGATAA
* * * *
22229298 CCGCTTTATTATTTTAACCCACTTTTCTGTATCTCATTAGGAAGATAAGGTTTGAAGTCTCATTC
66 CCGCTTTATTACTTTAACCCACTTCTCTGTATCTCATCAGAAAGATAAGGTTTGAAGTCTCATTC
** *
22229363 GTATTGAGCTTCGTTTCATCGCTTTGGTCT
131 GTATTGAGCTTCACTTCATCGATTTGGTCT
22229393 ACTTCTCTGTATCTCATCAG
1 ACTTCTCTGTATCTCATCAG
22229413 AAAAATGACT
Statistics
Matches: 152, Mismatches: 27, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
160 151 0.99
161 1 0.01
ACGTcount: A:0.23, C:0.21, G:0.16, T:0.40
Consensus pattern (160 bp):
ACTTCTCTGTATCTCATCAGGAAAGCAGATTTAGTCCACTTCTCTATATCTCATCAGAAAGATAA
CCGCTTTATTACTTTAACCCACTTCTCTGTATCTCATCAGAAAGATAAGGTTTGAAGTCTCATTC
GTATTGAGCTTCACTTCATCGATTTGGTCT
Found at i:22229329 original size:556 final size:550
Alignment explanation
Indices: 22228246--22229619 Score: 1612
Period size: 556 Copynumber: 2.4 Consensus size: 550
22228236 GAACTTCGCT
* * *
22228246 TCATTGAT-TTGGTCTACTTCTCTGTTTCTCATCAGGAAGATGT-CCGCTTCATTGATTTAATCC
1 TCATTCATATTGGTCTACTTCTCTGTATCTCATCAGGAAGAT-TACCGCCTCATTGATTTAATCC
* *
22228309 ACTTCTCTGTATCTCATCAGGAAGACGAATTTGGTCCACTTCTCTGTATCTCATCAGGAAGATGA
65 ACTTCTCTGTATCTCATCAGGAAGGCGGATTTGGTCCACTTCTCTGTATCTCATCAGGAAGATGA
* *
22228374 CCTCTTTATTGCTTTGACCCACTTCTATGTATCTCATTAGGAAGATGGGGTTTGAAGTCTTATTC
130 -CTCTTTATTGCTTTGACCCACTTCTATGTATCTCATTAGGAAGATGAGGTTTGAAGTCTCATTC
* * * * * *
22228439 GTATTGAGATTCATTTTATTGATTTGGTATACTTCTTTGTATCTCATCAGGAAGATGACCGCTTC
194 GTATTGAGATTCATTTCATTGATTTGGTCTACTTCTCTGTATCTCATCAAGAAGATGACCACATC
* * * *
22228504 ATTGATTTAATCGACTTATCTGTATCTCATTAGGAAGGCAGATTTGGTCCACTTCTCTGTATCTC
259 ATTGATTTAATCCACTTATCTGTATCTCATCAGGAAGGCAGATTTAGTCCACTTCTCTATATCTC
* * * * * *
22228569 ATCAGGAAGACGACCACTTTATTGCTTTAACCCACTTTTCTATATCTCATCAGGAAGATGGGGTT
324 ATCAGAAAGACAACCACTTTATTACTTTAACCCACTTCTCTATATCTCATCAGAAAGATGGAGTT
** *
22228634 TGAAGTCTCATTCGTATTGAGCTTCGTTTCATTGATTTGGTCTACTTCTCTATATCTCATCGGGA
389 TGAAGTCTCATTCGTATTGAGCTTCACTTCATTGATTTGGTCTACTTCTCTATATCTCATCAGGA
* *
22228699 AGATTACCGCCTCATTAATTTAATTCACTTCTCTGTATCTCATCAGGAAGACGGATTTGGTCCAC
454 AGA-TA-CG-C-CA-GAATTTAATCCACTTCTCTGTATCTCATCAGGAAGACGGATTTGGTCCAC
**
22228764 TTCTCTGTATCTCATCAGAAAGATGGGGTTTGAAGTC
514 TTCTCTGTATCTCATCAGAAAGATAAGGTTTGAAGTC
*
22228801 TCATTCATATTGGTCTACTTCTCTGTATCTCATTAGGAAGATTACCGCCTCATTGATTTAATCCA
1 TCATTCATATTGGTCTACTTCTCTGTATCTCATCAGGAAGATTACCGCCTCATTGATTTAATCCA
* *
22228866 CTTCTCTGTATCTCATCAGGAAGGCGGATTTGGTCCACTTCTCTCTATCTCATCAAGAAGATGAC
66 CTTCTCTGTATCTCATCAGGAAGGCGGATTTGGTCCACTTCTCTGTATCTCATCAGGAAGATGAC
* * *
22228931 TACTTTATTGCTTTGACCCACTTCTTTTTATCTCATCAGGAAGATGAGGTTTGAAGTCTCATTCG
131 T-CTTTATTGCTTTGACCCACTTCTATGTATCTCATTAGGAAGATGAGGTTTGAAGTCTCATTCG
* * *
22228996 TATTGAGCTTCGTTTCATTGATTTGGTCTAGTTCTCTGTATCTCATCAAGAAGATGACCACATCA
195 TATTGAGATTCATTTCATTGATTTGGTCTACTTCTCTGTATCTCATCAAGAAGATGACCACATCA
* *
22229061 TTGATTTAATCCACTTCTCTGTATCTCATCAGGAAGGCAGATTTAGTCCACTTTTCTATATCTCA
260 TTGATTTAATCCACTTATCTGTATCTCATCAGGAAGGCAGATTTAGTCCACTTCTCTATATCTCA
* * * * * *
22229126 TCAGAAAGATAATCGCTTTATTACTTTGACCCACTTCTCTGTATCTCCTCAGAAAGATGGAGTTT
325 TCAGAAAGACAACCACTTTATTACTTTAACCCACTTCTCTATATCTCATCAGAAAGATGGAGTTT
* * * * * *
22229191 GAAGTCTCATTTGTATTGAGCTTCACTTCATTGATTTGGTTTATTTTTCTGTATCTCATTAGG-A
390 GAAGTCTCATTCGTATTGAGCTTCACTTCATTGATTTGGTCTACTTCTCTATATCTCATCAGGAA
* ** * **
22229255 -A-A-G-C-GGATTTGGTCCACTTCTCTGTATCTCATCAGGAAGATGACCGCTTTATTATTTTAA
455 GATACGCCAGAATTTAATCCACTTCTCTGTATCTCATCAGG-A-A-GA-CG---GATT-TGGT--
* * *
22229315 CCCACTTTTCTGTATCTCATTAGGAAGATAAGGTTTGAAGTC
510 -CCACTTCTCTGTATCTCATCAGAAAGATAAGGTTTGAAGTC
* * *
22229357 TCATTCGTATTGAGCTTCGTTTCATCGCTTTGGTCTACTTCTCTGTATCTCATCAGAAAAATGAC
1 TCATTC------A--------T-A-----TTGGTCTACTTCTCTGTATCTCATCAGGAAGATTAC
* * *
22229422 TGCCTCATTGATTTAATCCACTTCTCTGTATCTCATCAAGAAGGCAGATTTGGTCCACTTCTCTG
46 CGCCTCATTGATTTAATCCACTTCTCTGTATCTCATCAGGAAGGCGGATTTGGTCCACTTCTCTG
* * * * * * *
22229487 TATCTCATCAGGTAGATTACCGCTTTATTGCTTTCACTCACTTCTCTGTATCTCATTTGGAAGAT
111 TATCTCATCAGGAAGATGA-CTCTTTATTGCTTTGACCCACTTCTATGTATCTCATTAGGAAGAT
* * * * *
22229552 GAGGTTTGAAGTCTCATTCGTATTAAGTTTCACTTCATTAATTTGGTCTACTTCTCTGTTTCTCA
175 GAGGTTTGAAGTCTCATTCGTATTGAGATTCATTTCATTGATTTGGTCTACTTCTCTGTATCTCA
22229617 TCA
240 TCA
22229620 GAAAAATGAT
Statistics
Matches: 697, Mismatches: 87, Indels: 49
0.84 0.10 0.06
Matches are distributed among these distances:
545 27 0.04
546 1 0.00
547 2 0.00
548 2 0.00
549 2 0.00
550 1 0.00
552 4 0.01
553 2 0.00
554 1 0.00
555 11 0.02
556 433 0.62
562 1 0.00
570 1 0.00
571 1 0.00
576 207 0.30
577 1 0.00
ACGTcount: A:0.23, C:0.21, G:0.17, T:0.39
Consensus pattern (550 bp):
TCATTCATATTGGTCTACTTCTCTGTATCTCATCAGGAAGATTACCGCCTCATTGATTTAATCCA
CTTCTCTGTATCTCATCAGGAAGGCGGATTTGGTCCACTTCTCTGTATCTCATCAGGAAGATGAC
TCTTTATTGCTTTGACCCACTTCTATGTATCTCATTAGGAAGATGAGGTTTGAAGTCTCATTCGT
ATTGAGATTCATTTCATTGATTTGGTCTACTTCTCTGTATCTCATCAAGAAGATGACCACATCAT
TGATTTAATCCACTTATCTGTATCTCATCAGGAAGGCAGATTTAGTCCACTTCTCTATATCTCAT
CAGAAAGACAACCACTTTATTACTTTAACCCACTTCTCTATATCTCATCAGAAAGATGGAGTTTG
AAGTCTCATTCGTATTGAGCTTCACTTCATTGATTTGGTCTACTTCTCTATATCTCATCAGGAAG
ATACGCCAGAATTTAATCCACTTCTCTGTATCTCATCAGGAAGACGGATTTGGTCCACTTCTCTG
TATCTCATCAGAAAGATAAGGTTTGAAGTC
Found at i:22229435 original size:208 final size:208
Alignment explanation
Indices: 22229238--22229628 Score: 593
Period size: 208 Copynumber: 1.9 Consensus size: 208
22229228 GGTTTATTTT
* * *
22229238 TCTGTATCTCATTAGGAAAGCGGATTTGGTCCACTTCTCTGTATCTCATCAGGAAGATGACCGCT
1 TCTGTATCTCATCAAGAAAGCAGATTTGGTCCACTTCTCTGTATCTCATCAGGAAGATGACCGCT
* *
22229303 TTATTATTTTAACCCACTTTTCTGTATCTCATTAGGAAGATAAGGTTTGAAGTCTCATTCGTATT
66 TTATTACTTTAACCCACTTCTCTGTATCTCATTAGGAAGATAAGGTTTGAAGTCTCATTCGTATT
* ** **
22229368 GAGCTTCGTTTCATCGCTTTGGTCTACTTCTCTGTATCTCATCAGAAAAATGACTGCCTCATTGA
131 AAGCTTCACTTCATCAATTTGGTCTACTTCTCTGTATCTCATCAGAAAAATGACTGCCTCATTGA
22229433 TTTAATCCACTTC
196 TTTAATCCACTTC
* * *
22229446 TCTGTATCTCATCAAGAAGGCAGATTTGGTCCACTTCTCTGTATCTCATCAGGTAGATTACCGCT
1 TCTGTATCTCATCAAGAAAGCAGATTTGGTCCACTTCTCTGTATCTCATCAGGAAGATGACCGCT
* * * * *
22229511 TTATTGCTTTCACTCACTTCTCTGTATCTCATTTGGAAGATGAGGTTTGAAGTCTCATTCGTATT
66 TTATTACTTTAACCCACTTCTCTGTATCTCATTAGGAAGATAAGGTTTGAAGTCTCATTCGTATT
* * *
22229576 AAGTTTCACTTCATTAATTTGGTCTACTTCTCTGTTTCTCATCAGAAAAATGA
131 AAGCTTCACTTCATCAATTTGGTCTACTTCTCTGTATCTCATCAGAAAAATGA
22229629 TCGTCTCATC
Statistics
Matches: 162, Mismatches: 21, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
208 162 1.00
ACGTcount: A:0.24, C:0.21, G:0.16, T:0.39
Consensus pattern (208 bp):
TCTGTATCTCATCAAGAAAGCAGATTTGGTCCACTTCTCTGTATCTCATCAGGAAGATGACCGCT
TTATTACTTTAACCCACTTCTCTGTATCTCATTAGGAAGATAAGGTTTGAAGTCTCATTCGTATT
AAGCTTCACTTCATCAATTTGGTCTACTTCTCTGTATCTCATCAGAAAAATGACTGCCTCATTGA
TTTAATCCACTTC
Found at i:22229529 original size:85 final size:85
Alignment explanation
Indices: 22229385--22229542 Score: 210
Period size: 85 Copynumber: 1.9 Consensus size: 85
22229375 GTTTCATCGC
* *
22229385 TTTGGTCTACTTCTCTGTATCTCATCAGAAAAATGACTGCCTCATTGATTTAATCCACTTCTCTG
1 TTTGGTCCACTTCTCTGTATCTCATCAGAAAAATGACCGCCTCATTGATTTAATCCACTTCTCTG
22229450 TATCTCATCAAGAAGGCAGA
66 TATCTCATCAAGAAGGCAGA
** * * * * * *
22229470 TTTGGTCCACTTCTCTGTATCTCATCAGGTAGATTACCGCTTTATTGCTTTCA-CTCACTTCTCT
1 TTTGGTCCACTTCTCTGTATCTCATCAGAAAAATGACCGCCTCATTGATTTAATC-CACTTCTCT
22229534 GTATCTCAT
65 GTATCTCAT
22229543 TTGGAAGATG
Statistics
Matches: 62, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
84 1 0.02
85 61 0.98
ACGTcount: A:0.22, C:0.25, G:0.13, T:0.39
Consensus pattern (85 bp):
TTTGGTCCACTTCTCTGTATCTCATCAGAAAAATGACCGCCTCATTGATTTAATCCACTTCTCTG
TATCTCATCAAGAAGGCAGA
Found at i:22229531 original size:368 final size:368
Alignment explanation
Indices: 22228865--22229620 Score: 1086
Period size: 368 Copynumber: 2.1 Consensus size: 368
22228855 GATTTAATCC
*
22228865 ACTTCTCTGTATCTCATCAGGAAGGCGGATTTGGTCCACTTCTCTCTATCTCATCAAGAAGATGA
1 ACTTCTCTGTATCTCATCAGGAAAGCGGATTTGGTCCACTTCTCTCTATCTCATCAAGAAGATGA
* * * * *
22228930 CTACTTTATTGCTTTGACCCACTTCTTTTTATCTCATCAGGAAGATGAGGTTTGAAGTCTCATTC
66 CCACTTTATTACTTTAACCCACTTCTTTGTATCTCATCAGGAAGATAAGGTTTGAAGTCTCATTC
* * *
22228995 GTATTGAGCTTCGTTTCATTGATTTGGTCTAGTTCTCTGTATCTCATCAAGAAGATGACCACATC
131 GTATTGAGCTTCGTTTCATCGATTTGGTCTACTTCTCTGTATCTCATCAAGAAAATGACCACATC
* *
22229060 ATTGATTTAATCCACTTCTCTGTATCTCATCAGGAAGGCAGATTTAGTCCACTTTTCTATATCTC
196 ATTGATTTAATCCACTTCTCTGTATCTCATCAAGAAGGCAGATTTAGTCCACTTCTCTATATCTC
* * *
22229125 ATCAGAAAGATAATCGCTTTATTACTTTGACCCACTTCTCTGTATCTCCTCAGAAAGATG-GAGT
261 ATCAGAAAGATAACCGCTTTATTACTTTCACCCACTTCTCTGTATCTCATCAGAAAGATGAG-GT
* * * *
22229189 TTGAAGTCTCATTTGTATTGAGCTTCACTTCATTGATTTGGTTT
325 TTGAAGTCTCATTCGTATTAAGCTTCACTTCATTAATTTGGTCT
* * * * *
22229233 ATTTTTCTGTATCTCATTAGGAAAGCGGATTTGGTCCACTTCTCTGTATCTCATCAGGAAGATGA
1 ACTTCTCTGTATCTCATCAGGAAAGCGGATTTGGTCCACTTCTCTCTATCTCATCAAGAAGATGA
* * *
22229298 CCGCTTTATTATTTTAACCCACTT-TTCTGTATCTCATTAGGAAGATAAGGTTTGAAGTCTCATT
66 CCACTTTATTACTTTAACCCACTTCTT-TGTATCTCATCAGGAAGATAAGGTTTGAAGTCTCATT
* ** *
22229362 CGTATTGAGCTTCGTTTCATCGCTTTGGTCTACTTCTCTGTATCTCATC-AGAAAAATGACTGCC
130 CGTATTGAGCTTCGTTTCATCGATTTGGTCTACTTCTCTGTATCTCATCAAG-AAAATGACCACA
* *
22229426 TCATTGATTTAATCCACTTCTCTGTATCTCATCAAGAAGGCAGATTTGGTCCACTTCTCTGTATC
194 TCATTGATTTAATCCACTTCTCTGTATCTCATCAAGAAGGCAGATTTAGTCCACTTCTCTATATC
** * * * ** *
22229491 TCATCAGGTAGATTACCGCTTTATTGCTTTCACTCACTTCTCTGTATCTCATTTGGAAGATGAGG
259 TCATCAGAAAGATAACCGCTTTATTACTTTCACCCACTTCTCTGTATCTCATCAGAAAGATGAGG
*
22229556 TTTGAAGTCTCATTCGTATTAAGTTTCACTTCATTAATTTGGTCT
324 TTTGAAGTCTCATTCGTATTAAGCTTCACTTCATTAATTTGGTCT
*
22229601 ACTTCTCTGTTTCTCATCAG
1 ACTTCTCTGTATCTCATCAG
22229621 AAAAATGATC
Statistics
Matches: 340, Mismatches: 45, Indels: 6
0.87 0.12 0.02
Matches are distributed among these distances:
367 4 0.01
368 335 0.99
369 1 0.00
ACGTcount: A:0.23, C:0.21, G:0.16, T:0.39
Consensus pattern (368 bp):
ACTTCTCTGTATCTCATCAGGAAAGCGGATTTGGTCCACTTCTCTCTATCTCATCAAGAAGATGA
CCACTTTATTACTTTAACCCACTTCTTTGTATCTCATCAGGAAGATAAGGTTTGAAGTCTCATTC
GTATTGAGCTTCGTTTCATCGATTTGGTCTACTTCTCTGTATCTCATCAAGAAAATGACCACATC
ATTGATTTAATCCACTTCTCTGTATCTCATCAAGAAGGCAGATTTAGTCCACTTCTCTATATCTC
ATCAGAAAGATAACCGCTTTATTACTTTCACCCACTTCTCTGTATCTCATCAGAAAGATGAGGTT
TGAAGTCTCATTCGTATTAAGCTTCACTTCATTAATTTGGTCT
Found at i:22236481 original size:10 final size:12
Alignment explanation
Indices: 22236455--22236481 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
22236445 AATGTTAGGT
22236455 GAGAGCTCGAAA
1 GAGAGCTCGAAA
22236467 GAGAGCTCGAAA
1 GAGAGCTCGAAA
22236479 GAG
1 GAG
22236482 GTGTTTGTCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.41, C:0.15, G:0.37, T:0.07
Consensus pattern (12 bp):
GAGAGCTCGAAA
Found at i:22238263 original size:30 final size:29
Alignment explanation
Indices: 22238199--22238407 Score: 190
Period size: 30 Copynumber: 7.0 Consensus size: 29
22238189 AAGAATTTAA
** *
22238199 GGTTAAAATGTAATTTT-GAAAAATTCGAG
1 GGTTAAAATGTAATTTTGGAAAGTTTAG-G
*
22238228 AGTTAAAATGTAATTTTTGGAAAGTTTAGG
1 GGTTAAAATGTAA-TTTTGGAAAGTTTAGG
* * * *
22238258 GGTTAAAGTATGATTTTAGAAAAGTTTAGG
1 GGTTAAAATGTAATTTT-GGAAAGTTTAGG
* *
22238288 GGTCAAAATGTAATTTTGGAAAAATTTAGG
1 GGTTAAAATGTAATTTTGG-AAAGTTTAGG
*
22238318 GGTTAAAATGTAATTTTGTAAAAGTTTAGG
1 GGTTAAAATGTAATTTTG-GAAAGTTTAGG
* *
22238348 GGTCAAAATGTAATTTTAGAAAAGTTT-GG
1 GGTTAAAATGTAATTTT-GGAAAGTTTAGG
* *
22238377 GGTCAAAAAT-AAATTTTGGAAAAGTTTAGG
1 GGT-TAAAATGTAATTTTGG-AAAGTTTAGG
22238407 G
1 G
22238408 ACCTTTTAAG
Statistics
Matches: 149, Mismatches: 22, Indels: 17
0.79 0.12 0.09
Matches are distributed among these distances:
28 1 0.01
29 35 0.23
30 105 0.70
31 8 0.05
ACGTcount: A:0.39, C:0.02, G:0.24, T:0.35
Consensus pattern (29 bp):
GGTTAAAATGTAATTTTGGAAAGTTTAGG
Found at i:22238391 original size:29 final size:30
Alignment explanation
Indices: 22238232--22238407 Score: 214
Period size: 30 Copynumber: 5.9 Consensus size: 30
22238222 TTCGAGAGTT
* * *
22238232 AAAATGTAATTTTTGGAAAGTTTAGGGGTT
1 AAAATGTAATTTTAGAAAAGTTTAGGGGTC
* * *
22238262 AAAGTATGATTTTAGAAAAGTTTAGGGGTC
1 AAAATGTAATTTTAGAAAAGTTTAGGGGTC
* * *
22238292 AAAATGTAATTTTGGAAAAATTTAGGGGTT
1 AAAATGTAATTTTAGAAAAGTTTAGGGGTC
22238322 AAAATGTAATTTT-GTAAAAGTTTAGGGGTC
1 AAAATGTAATTTTAG-AAAAGTTTAGGGGTC
22238352 AAAATGTAATTTTAGAAAAGTTT-GGGGTC
1 AAAATGTAATTTTAGAAAAGTTTAGGGGTC
* *
22238381 AAAAAT-AAATTTTGGAAAAGTTTAGGG
1 -AAAATGTAATTTTAGAAAAGTTTAGGG
22238408 ACCTTTTAAG
Statistics
Matches: 126, Mismatches: 16, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
29 22 0.17
30 103 0.82
31 1 0.01
ACGTcount: A:0.39, C:0.02, G:0.24, T:0.35
Consensus pattern (30 bp):
AAAATGTAATTTTAGAAAAGTTTAGGGGTC
Found at i:22238949 original size:21 final size:22
Alignment explanation
Indices: 22238923--22238964 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
22238913 TTTAAAACAT
*
22238923 AGATCGAG-CTCGGATCTATCA
1 AGATCGAGCCTCGAATCTATCA
22238944 AGATCGAGCCTCGAATCTATC
1 AGATCGAGCCTCGAATCTATC
22238965 CCTTTTTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.29, C:0.26, G:0.21, T:0.24
Consensus pattern (22 bp):
AGATCGAGCCTCGAATCTATCA
Done.