Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr1
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: 35726063
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1821929 characters in sequence are not A, C, G, or T
File 68 of 109
Found at i:21887991 original size:29 final size:29
Alignment explanation
Indices: 21887948--21888044 Score: 104
Period size: 30 Copynumber: 3.2 Consensus size: 29
21887938 TGTACTCTTC
*
21887948 AAAATTTACATTTTGACCCAAAAACTTTCT
1 AAAA-TTACATTTTGACCCATAAACTTTCT
* *
21887978 AAAATTACATTTTGACCCTTAGACTTTCT
1 AAAATTACATTTTGACCCATAAACTTTCT
* * * *
21888007 CACAATTGCACTTTGACCCCTAAACTTTCTT
1 -AAAATTACATTTTGACCCATAAACTTTC-T
21888038 AAAATTA
1 AAAATTA
21888045 TGTTTTGGCC
Statistics
Matches: 55, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
29 22 0.40
30 32 0.58
31 1 0.02
ACGTcount: A:0.35, C:0.23, G:0.05, T:0.37
Consensus pattern (29 bp):
AAAATTACATTTTGACCCATAAACTTTCT
Found at i:21888782 original size:12 final size:12
Alignment explanation
Indices: 21888757--21888805 Score: 50
Period size: 12 Copynumber: 4.2 Consensus size: 12
21888747 GAAGAAGAAG
21888757 AAGAAGAAAGGAGA
1 AAGAA-AAA-GAGA
21888771 AAGAAAAAGAG-
1 AAGAAAAAGAGA
21888782 -AGAAAAA-AGA
1 AAGAAAAAGAGA
*
21888792 AAGAAAAAAAGA
1 AAGAAAAAGAGA
21888804 AA
1 AA
21888806 ATAAAAAGTA
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
9 2 0.06
10 7 0.22
11 7 0.22
12 8 0.25
13 3 0.09
14 5 0.16
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (12 bp):
AAGAAAAAGAGA
Found at i:21888788 original size:11 final size:11
Alignment explanation
Indices: 21888768--21888805 Score: 51
Period size: 12 Copynumber: 3.5 Consensus size: 11
21888758 AGAAGAAAGG
21888768 AGAAAG-AAAA
1 AGAAAGAAAAA
*
21888778 AGAGAGAAAAA
1 AGAAAGAAAAA
21888789 AGAAAGAAAAAA
1 AGAAAG-AAAAA
21888801 AGAAA
1 AGAAA
21888806 ATAAAAAGTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
10 5 0.21
11 9 0.38
12 10 0.42
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (11 bp):
AGAAAGAAAAA
Found at i:21888792 original size:21 final size:20
Alignment explanation
Indices: 21888751--21888806 Score: 69
Period size: 21 Copynumber: 2.8 Consensus size: 20
21888741 CAAAGGGAAG
* **
21888751 AAGAAGAAGAAGAAAGGAGA
1 AAGAAAAAGAAGAAAAAAGA
21888771 AAGAAAAAGAGAGAAAAAAGA
1 AAGAAAAAGA-AGAAAAAAGA
21888792 AAGAAAAA-AAGAAAA
1 AAGAAAAAGAAGAAAA
21888807 TAAAAAGTAG
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
19 6 0.19
20 10 0.31
21 16 0.50
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (20 bp):
AAGAAAAAGAAGAAAAAAGA
Found at i:21889264 original size:20 final size:20
Alignment explanation
Indices: 21889239--21889276 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
21889229 AAAAATATTC
21889239 AAAAATCCTCGTATTTTAAT
1 AAAAATCCTCGTATTTTAAT
* *
21889259 AAAAATTCTCGTGTTTTA
1 AAAAATCCTCGTATTTTA
21889277 TTAGAATCCC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.37, C:0.13, G:0.08, T:0.42
Consensus pattern (20 bp):
AAAAATCCTCGTATTTTAAT
Found at i:21889529 original size:17 final size:17
Alignment explanation
Indices: 21889501--21889571 Score: 74
Period size: 17 Copynumber: 4.2 Consensus size: 17
21889491 TTCTTTAAAA
21889501 AAAAATTC-CGTGTTTC
1 AAAAATTCTCGTGTTTC
** *
21889517 AAAAATTCTCGTGAATA
1 AAAAATTCTCGTGTTTC
*
21889534 AAAAATTTTCGTGTTTTC
1 AAAAATTCTCGTG-TTTC
*
21889552 AAAAATTCCCGTGTTT-
1 AAAAATTCTCGTGTTTC
21889568 AAAA
1 AAAA
21889572 TTTTTTTCGT
Statistics
Matches: 44, Mismatches: 9, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
16 12 0.27
17 20 0.45
18 12 0.27
ACGTcount: A:0.38, C:0.14, G:0.11, T:0.37
Consensus pattern (17 bp):
AAAAATTCTCGTGTTTC
Found at i:21889552 original size:35 final size:35
Alignment explanation
Indices: 21889499--21889587 Score: 99
Period size: 35 Copynumber: 2.5 Consensus size: 35
21889489 CTTTCTTTAA
* * *
21889499 AAAAAAATTCCGTG-TTTCAAAAATTCTCGTGAAT
1 AAAAAATTTTCGTGTTTTCAAAAATTCCCGTGAAT
**
21889533 AAAAAATTTTCGTGTTTTCAAAAATTCCCGTGTTT
1 AAAAAATTTTCGTGTTTTCAAAAATTCCCGTGAAT
**
21889568 AAAATTTTTTTCGTGTTTTC
1 AAAA-AATTTTCGTGTTTTC
21889588 GTGTGTTCAA
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
34 12 0.26
35 21 0.46
36 13 0.28
ACGTcount: A:0.33, C:0.13, G:0.11, T:0.43
Consensus pattern (35 bp):
AAAAAATTTTCGTGTTTTCAAAAATTCCCGTGAAT
Found at i:21889623 original size:44 final size:43
Alignment explanation
Indices: 21889539--21889631 Score: 107
Period size: 44 Copynumber: 2.1 Consensus size: 43
21889529 GAATAAAAAA
* * *
21889539 TTTTCGTGTTTTCAAAAATTCCCGTGTTTAAAATTTTTTTCGTG
1 TTTTCGTGTGTTCAAAAATTCCCGTATTTAAAA-TATTTTCGTG
*
21889583 TTTTCGTGTGTTCAAAAAATTCTCGTATTTCAAAA-ATTTTCGTG
1 TTTTCGTGTGTTC-AAAAATTCCCGTATTT-AAAATATTTTCGTG
*
21889627 GTTTC
1 TTTTC
21889632 AAAATTTTCA
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
44 24 0.57
45 14 0.33
46 4 0.10
ACGTcount: A:0.23, C:0.14, G:0.14, T:0.49
Consensus pattern (43 bp):
TTTTCGTGTGTTCAAAAATTCCCGTATTTAAAATATTTTCGTG
Found at i:21889787 original size:19 final size:19
Alignment explanation
Indices: 21889765--21889841 Score: 97
Period size: 19 Copynumber: 4.2 Consensus size: 19
21889755 TCATGTATCG
*
21889765 AAAATTTCCTTGTTTTCAA
1 AAAATTTCCGTGTTTTCAA
*
21889784 AAAAATTCCGTGTTTTCAA
1 AAAATTTCCGTGTTTTCAA
*
21889803 AAAATTTTCGTG-TTTC-A
1 AAAATTTCCGTGTTTTCAA
21889820 AAAATCTT-CGTGTTTTCAA
1 AAAAT-TTCCGTGTTTTCAA
21889839 AAA
1 AAA
21889842 TTATTATTGT
Statistics
Matches: 51, Mismatches: 4, Indels: 6
0.84 0.07 0.10
Matches are distributed among these distances:
17 10 0.20
18 10 0.20
19 31 0.61
ACGTcount: A:0.35, C:0.14, G:0.09, T:0.42
Consensus pattern (19 bp):
AAAATTTCCGTGTTTTCAA
Found at i:21889822 original size:17 final size:18
Alignment explanation
Indices: 21889583--21889843 Score: 108
Period size: 17 Copynumber: 14.1 Consensus size: 18
21889573 TTTTTTCGTG
*
21889583 TTTTCGTGTGTTCAAAAAA
1 TTTTCGTGTTTTC-AAAAA
* *
21889602 TTCTCGT-ATTTCAAAAA
1 TTTTCGTGTTTTCAAAAA
*
21889619 TTTTCGTGGTTTCAAAATTTTCA
1 TTTTCGTGTTTTCAAAA-----A
21889642 TGTTTTCGTGTTTTCAAAAAA
1 --TTTTCGTGTTTTC-AAAAA
*
21889663 TTTCTCGTGTTTTTTAAAAAA
1 TTT-TCGTG--TTTTCAAAAA
** *
21889684 AATTCATGTTTT-AAAGAA
1 TTTTCGTGTTTTCAAA-AA
* * *
21889702 -ATTCATGTTTTC-GAAA
1 TTTTCGTGTTTTCAAAAA
** *
21889718 TTTTTTTGTTTTCAAAAT
1 TTTTCGTGTTTTCAAAAA
21889736 TTTTCGTG---TCAAAAAA
1 TTTTCGTGTTTTC-AAAAA
* * * *
21889752 TTCTCATG-TATCGAAAA
1 TTTTCGTGTTTTCAAAAA
* *
21889769 TTTCCTTGTTTTCAAAAAA
1 TTTTCGTGTTTTC-AAAAA
* *
21889788 ATTCCGTGTTTTCAAAAAA
1 TTTTCGTGTTTTC-AAAAA
21889807 TTTTCGTG-TTTCAAAAA
1 TTTTCGTGTTTTCAAAAA
*
21889824 TCTTCGTGTTTTCAAAAA
1 TTTTCGTGTTTTCAAAAA
21889842 TT
1 TT
21889844 ATTATTGTGT
Statistics
Matches: 187, Mismatches: 33, Indels: 45
0.71 0.12 0.17
Matches are distributed among these distances:
15 2 0.01
16 12 0.06
17 56 0.30
18 44 0.24
19 36 0.19
20 9 0.05
21 7 0.04
22 4 0.02
23 1 0.01
25 12 0.06
26 4 0.02
ACGTcount: A:0.31, C:0.12, G:0.11, T:0.46
Consensus pattern (18 bp):
TTTTCGTGTTTTCAAAAA
Found at i:21889832 original size:36 final size:38
Alignment explanation
Indices: 21889774--21889859 Score: 108
Period size: 36 Copynumber: 2.3 Consensus size: 38
21889764 GAAAATTTCC
21889774 TTGT-TTTCAAAAAAATTCCGTGTTTTCAAAAA-ATT-
1 TTGTGTTTCAAAAAAATTCCGTGTTTTCAAAAATATTA
**
21889809 TTCGTGTTTCAAAAATCTT-CGTGTTTTCAAAAATTATTA
1 TT-GTGTTTCAAAAAAATTCCGTGTTTTCAAAAA-TATTA
21889848 TTGTGTTTCAAA
1 TTGTGTTTCAAA
21889860 GTTCTCGTGT
Statistics
Matches: 44, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
35 2 0.05
36 16 0.36
37 11 0.25
38 13 0.30
39 2 0.05
ACGTcount: A:0.33, C:0.12, G:0.10, T:0.45
Consensus pattern (38 bp):
TTGTGTTTCAAAAAAATTCCGTGTTTTCAAAAATATTA
Found at i:21889842 original size:18 final size:18
Alignment explanation
Indices: 21889775--21889842 Score: 84
Period size: 18 Copynumber: 3.7 Consensus size: 18
21889765 AAAATTTCCT
*
21889775 TGTTTTCAAAAAAATTCCG
1 TGTTTTCAAAAATATT-CG
*
21889794 TGTTTTCAAAAAATTTTCG
1 TGTTTTC-AAAAATATTCG
*
21889813 TG-TTTCAAAAATCTTCG
1 TGTTTTCAAAAATATTCG
21889830 TGTTTTCAAAAAT
1 TGTTTTCAAAAAT
21889843 TATTATTGTG
Statistics
Matches: 44, Mismatches: 3, Indels: 5
0.85 0.06 0.10
Matches are distributed among these distances:
17 12 0.27
18 14 0.32
19 11 0.25
20 7 0.16
ACGTcount: A:0.34, C:0.13, G:0.10, T:0.43
Consensus pattern (18 bp):
TGTTTTCAAAAATATTCG
Found at i:21893171 original size:25 final size:25
Alignment explanation
Indices: 21893136--21893274 Score: 119
Period size: 25 Copynumber: 5.7 Consensus size: 25
21893126 CACACCGCAA
* *
21893136 CTCTTATGAGCATCCCGATATATGG
1 CTCTTAGGAGCTTCCCGATATATGG
21893161 CTCTCT-GGAGCTTCCC-AT-TATGG
1 CTCT-TAGGAGCTTCCCGATATATGG
*
21893184 CTCTTATGAGCTTCCCGATA-ACTGG
1 CTCTTAGGAGCTTCCCGATATA-TGG
* **
21893209 CTCTTATGAGCTTCCTAAT-TAATGG
1 CTCTTAGGAGCTTCCCGATAT-ATGG
**
21893234 CTCTCCGGAGCTTCCCGATAT-TGG
1 CTCTTAGGAGCTTCCCGATATATGG
* *
21893258 CTCGTATGAGCTTCCCG
1 CTCTTAGGAGCTTCCCG
21893275 TTGCATGGCT
Statistics
Matches: 92, Mismatches: 14, Indels: 17
0.75 0.11 0.14
Matches are distributed among these distances:
22 1 0.01
23 18 0.20
24 21 0.23
25 49 0.53
26 3 0.03
ACGTcount: A:0.18, C:0.28, G:0.21, T:0.33
Consensus pattern (25 bp):
CTCTTAGGAGCTTCCCGATATATGG
Found at i:21893172 original size:105 final size:105
Alignment explanation
Indices: 21892987--21893175 Score: 243
Period size: 105 Copynumber: 1.8 Consensus size: 105
21892977 GATACAGGGT
** * * * *
21892987 TCCCGATTGGCTATGATCCTGCATGTGTTGTGCACACACTATAGCTCTTACGAGAATCTCGATAT
1 TCCCGATTGGCTATGATCCTGCATGTGTTACGCACACACCACAACTCTTACGAGAATCCCGATAT
*
21893052 TTGGCTCTCACGAGCTTCCTGTTAATAGCTCTTCGGAGCA
66 ATGGCTCTCACGAGCTTCCTGTTAATAGCTCTTCGGAGCA
* * * * * *
21893092 TCCCGATTGGTTCTGATCCTGCATGTGTTACGGACACACCGCAACTCTTATGAGCATCCCGATAT
1 TCCCGATTGGCTATGATCCTGCATGTGTTACGCACACACCACAACTCTTACGAGAATCCCGATAT
**
21893157 ATGGCTCTCTGGAGCTTCC
66 ATGGCTCTCACGAGCTTCC
21893176 CATTATGGCT
Statistics
Matches: 69, Mismatches: 15, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
105 69 1.00
ACGTcount: A:0.20, C:0.28, G:0.21, T:0.31
Consensus pattern (105 bp):
TCCCGATTGGCTATGATCCTGCATGTGTTACGCACACACCACAACTCTTACGAGAATCCCGATAT
ATGGCTCTCACGAGCTTCCTGTTAATAGCTCTTCGGAGCA
Found at i:21893283 original size:49 final size:46
Alignment explanation
Indices: 21893143--21893297 Score: 139
Period size: 49 Copynumber: 3.2 Consensus size: 46
21893133 CAACTCTTAT
* * * *
21893143 GAGCATCCCGATATATGGCTCTCTGGAGCTTCCCATTATGGCTCTTAT
1 GAGCTTCCCGATAT-TGGCTCTAT-GAGCTTCCCATTATGGCTCTCAG
* * *
21893191 GAGCTTCCCGATAACTGGCTCTTATGAGCTTCCTAATTAATGGCTCTCCG
1 GAGCTTCCCGAT-ATTGGCTC-TATGAGCTTCC-CATT-ATGGCTCTCAG
* * *
21893241 GAGCTTCCCGATATTGGCTCGTATGAGCTTCCCGTTGCATGGCTCACAT
1 GAGCTTCCCGATATTGGCTC-TATGAGCTTCCCATT--ATGGCTCTCAG
21893290 GAGCTTCC
1 GAGCTTCC
21893298 TATTATATGG
Statistics
Matches: 87, Mismatches: 15, Indels: 9
0.78 0.14 0.08
Matches are distributed among these distances:
48 27 0.31
49 40 0.46
50 20 0.23
ACGTcount: A:0.18, C:0.28, G:0.22, T:0.32
Consensus pattern (46 bp):
GAGCTTCCCGATATTGGCTCTATGAGCTTCCCATTATGGCTCTCAG
Found at i:21893292 original size:74 final size:73
Alignment explanation
Indices: 21893154--21893310 Score: 203
Period size: 74 Copynumber: 2.1 Consensus size: 73
21893144 AGCATCCCGA
* * **
21893154 TATATGGCTCTCTGGAGCTTCCCATTATGGCTCTTATGAGCTTCCCGATAACTGGCTCTTATGAG
1 TATATGGCTCTCCGGAGCTTCCCATTATGGCTCGTATGAGCTTCCCGATAACTGGCTCACATGAG
21893219 CTTCCTAAT
66 CTTCCT-AT
**
21893228 TA-ATGGCTCTCCGGAGCTTCCCGA-TATTGGCTCGTATGAGCTTCCCG-TTGCATGGCTCACAT
1 TATATGGCTCTCCGGAGCTTCCC-ATTA-TGGCTCGTATGAGCTTCCCGATAAC-TGGCTCACAT
21893290 GAGCTTCCTAT
63 GAGCTTCCTAT
21893301 TATATGGCTC
1 TATATGGCTC
21893311 GAAAGAAAGT
Statistics
Matches: 73, Mismatches: 6, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
73 27 0.37
74 46 0.63
ACGTcount: A:0.18, C:0.27, G:0.21, T:0.34
Consensus pattern (73 bp):
TATATGGCTCTCCGGAGCTTCCCATTATGGCTCGTATGAGCTTCCCGATAACTGGCTCACATGAG
CTTCCTAT
Found at i:21893307 original size:25 final size:25
Alignment explanation
Indices: 21893214--21893310 Score: 65
Period size: 25 Copynumber: 3.9 Consensus size: 25
21893204 ACTGGCTCTT
*
21893214 ATGAGCTTCCTAATTA-ATGGCTCTC
1 ATGAGCTTCCT-ATTATATGGCTCAC
** * **
21893239 CGGAGCTTCCCGA-TAT-TGGCTCGT
1 ATGAGCTT-CCTATTATATGGCTCAC
** **
21893263 ATGAGCTTCCCGTTGCATGGCTCAC
1 ATGAGCTTCCTATTATATGGCTCAC
21893288 ATGAGCTTCCTATTATATGGCTC
1 ATGAGCTTCCTATTATATGGCTC
21893311 GAAAGAAAGT
Statistics
Matches: 51, Mismatches: 17, Indels: 8
0.67 0.22 0.11
Matches are distributed among these distances:
23 2 0.04
24 15 0.29
25 32 0.63
26 2 0.04
ACGTcount: A:0.19, C:0.27, G:0.22, T:0.33
Consensus pattern (25 bp):
ATGAGCTTCCTATTATATGGCTCAC
Found at i:21897966 original size:27 final size:28
Alignment explanation
Indices: 21897912--21897966 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
21897902 TTTCTTATGG
* *
21897912 CTTTTTTGTTTGATTCGTGCTTCGTTTC
1 CTTTTGTGTTTGATTCGTGCTTCATTTC
* *
21897940 CTTTTGTGTTTGCTTC-TGCTTTATTTC
1 CTTTTGTGTTTGATTCGTGCTTCATTTC
21897967 GGTGCCTTAC
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
27 9 0.39
28 14 0.61
ACGTcount: A:0.04, C:0.18, G:0.16, T:0.62
Consensus pattern (28 bp):
CTTTTGTGTTTGATTCGTGCTTCATTTC
Found at i:21899804 original size:24 final size:24
Alignment explanation
Indices: 21899767--21899817 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
21899757 CGGCGCTATG
**
21899767 GTCACTACCACCATCATCGTCATT
1 GTCACTACCACCATCATAATCATT
* *
21899791 GTCACTGCCGCCATCATAATCATT
1 GTCACTACCACCATCATAATCATT
21899815 GTC
1 GTC
21899818 GTCGTTTCCG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.24, C:0.35, G:0.12, T:0.29
Consensus pattern (24 bp):
GTCACTACCACCATCATAATCATT
Found at i:21899875 original size:15 final size:15
Alignment explanation
Indices: 21899839--21899879 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
21899829 CAGCCTCATC
21899839 ATTGTCATCGTCACT
1 ATTGTCATCGTCACT
* *
21899854 ATCGTCATCGTCATT
1 ATTGTCATCGTCACT
*
21899869 GTTGTCATCGT
1 ATTGTCATCGT
21899880 GGTAGTCCCA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.17, C:0.24, G:0.17, T:0.41
Consensus pattern (15 bp):
ATTGTCATCGTCACT
Found at i:21902872 original size:13 final size:13
Alignment explanation
Indices: 21902854--21902878 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
21902844 ATAAGATAAA
21902854 ATATTAAAAATAT
1 ATATTAAAAATAT
21902867 ATATTAAAAATA
1 ATATTAAAAATA
21902879 AAAAGTTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (13 bp):
ATATTAAAAATAT
Found at i:21903380 original size:33 final size:32
Alignment explanation
Indices: 21903335--21903398 Score: 92
Period size: 33 Copynumber: 2.0 Consensus size: 32
21903325 CTTAGCATTA
*
21903335 GCAGATATGCATAGTTTGCCAAGTTAAGGTTC
1 GCAGATAGGCATAGTTTGCCAAGTTAAGGTTC
* *
21903367 GCAGACTAGGCATAGTTTTCCAAGTTGAGGTT
1 GCAGA-TAGGCATAGTTTGCCAAGTTAAGGTT
21903399 TGCGAATGAA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 5 0.18
33 23 0.82
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.31
Consensus pattern (32 bp):
GCAGATAGGCATAGTTTGCCAAGTTAAGGTTC
Found at i:21907519 original size:22 final size:23
Alignment explanation
Indices: 21907483--21907528 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 23
21907473 AATGTTTTTT
* *
21907483 AAAATTTTTATAAATTTGTAAAA
1 AAAATTATTATAAATTTATAAAA
21907506 AAAATTATTA-AAATTTATAAAA
1 AAAATTATTATAAATTTATAAAA
21907528 A
1 A
21907529 TATTAAATGA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 12 0.57
23 9 0.43
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (23 bp):
AAAATTATTATAAATTTATAAAA
Found at i:21910356 original size:11 final size:13
Alignment explanation
Indices: 21910340--21910373 Score: 54
Period size: 11 Copynumber: 2.8 Consensus size: 13
21910330 AATTTTACGG
21910340 AAAAATTTCG-T-
1 AAAAATTTCGTTC
21910351 AAAAATTTCGTTC
1 AAAAATTTCGTTC
21910364 AAAAATTTCG
1 AAAAATTTCG
21910374 ACGTTTGGGC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 10 0.48
12 1 0.05
13 10 0.48
ACGTcount: A:0.44, C:0.12, G:0.09, T:0.35
Consensus pattern (13 bp):
AAAAATTTCGTTC
Found at i:21917115 original size:23 final size:23
Alignment explanation
Indices: 21917088--21917133 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
21917078 CATAAAATTA
*
21917088 TTGGT-TCTTAATTATGATTGTAT
1 TTGGTGTCTTAATTA-GATAGTAT
*
21917111 TTGGTGTCTTCATTAGATAGTAT
1 TTGGTGTCTTAATTAGATAGTAT
21917134 ATCTTTCTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 12 0.60
24 8 0.40
ACGTcount: A:0.22, C:0.07, G:0.20, T:0.52
Consensus pattern (23 bp):
TTGGTGTCTTAATTAGATAGTAT
Found at i:21937736 original size:14 final size:15
Alignment explanation
Indices: 21937717--21937748 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
21937707 GTGGTTATAG
21937717 TTAAAATA-ATAAAA
1 TTAAAATAGATAAAA
21937731 TTAAAATAGATAAAA
1 TTAAAATAGATAAAA
21937746 TTA
1 TTA
21937749 TGATGTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (15 bp):
TTAAAATAGATAAAA
Found at i:21958975 original size:13 final size:16
Alignment explanation
Indices: 21958941--21958978 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 16
21958931 TTTATTATTT
21958941 ATTATTTATTTGAAAA
1 ATTATTTATTTGAAAA
21958957 ATTATTT-TTT-AAAA
1 ATTATTTATTTGAAAA
21958971 A-TATTTAT
1 ATTATTTAT
21958979 GAAAAAATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
13 5 0.24
14 6 0.29
15 3 0.14
16 7 0.33
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (16 bp):
ATTATTTATTTGAAAA
Found at i:21959105 original size:17 final size:17
Alignment explanation
Indices: 21959083--21959115 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
21959073 GAAAATGATT
21959083 AATTATGATTTTTTTAC
1 AATTATGATTTTTTTAC
21959100 AATTATGATTTTTTTA
1 AATTATGATTTTTTTA
21959116 TAAAATAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.30, C:0.03, G:0.06, T:0.61
Consensus pattern (17 bp):
AATTATGATTTTTTTAC
Found at i:21963250 original size:51 final size:48
Alignment explanation
Indices: 21963081--21964411 Score: 370
Period size: 44 Copynumber: 29.5 Consensus size: 48
21963071 ATGGCGAATT
* *
21963081 TTATCTCCCTGAAGTTGCAATGGAGCAGATTGAAG-TCAT---TAG-TC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCT-ATAAGCAGATC
* ** *
21963125 TTATCTTCCTGAAGTTATAGTGGAGCAGACTGAAG--AT-AGC-GAATC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTATAAGCAG-ATC
* * *
21963170 TTATTTCCCTGAAGTTGCAATGGAACAGATTGAAGCTATAAATTGCAGATC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTAT-AA--GCAGATC
* * *
21963221 TTATCTCTCTGAAGTTGCAGTAGAGCAGA-T----C-AT-AGCAAATC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTATAAGCAGATC
*
21963262 TTATCTCCCTGAAGTTGCAGTGGAGTATG-TTGAAG-T-T-A-CA-AGTC
1 TTATCTCCCTGAAGTTGCAGTGGAGCA-GATTGAAGCTATAAGCAGA-TC
* *
21963306 TTATCTCCCTAAAGTTGCAGTGGAGCAGACTGAAG--AT-AGC-GAATC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTATAAGCAG-ATC
* * * * *
21963351 TTATTTCCCTGAAGTTGTAATGGAGCAGATTAAAGCTATAAATTACAGATC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTAT-AA--GCAGATC
* * * * *
21963402 TTATCTCTCTGAAGTTGCAGT--AG-AG-TAG-ATC-AT-AGCAAACC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTATAAGCAGATC
* * *
21963443 TTATCTCCCTGAAGTTGTAGTAGAGCAGATTGAAGC---CA-CTAG-TC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTATAAGC-AGATC
* * * *
21963487 TTATCTCCATGAGGTTACAGTGGAGCAGACTGAAG--AT-AGC-GAATC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTATAAGCAG-ATC
* * * *
21963532 TTATTTCCCTAAAGTTGCAATGGAACAGATTGAAGCTATAAATTGCAGATC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTAT-AA--GCAGATC
* * * * * * * *
21963583 TTAACTCTCTAAAGTTACAGTAGAGCAGA-T----C-AT-AGAAAACC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTATAAGCAGATC
** * *
21963624 TTATCTCCCAAAAGTTACAGTGGAGCAGGTTGAAG-T-T-A-CA-AGTC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTATAAGCAGA-TC
* * ** * *
21963668 TTATCTCCCTAAAGCTGCAGTGGAATAGACTGGAG--AT-AGC-GAATC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTATAAGCAG-ATC
* * * * *
21963713 TTATTTCACTGAAGTTGCAGTGGAACAGATTAAAGCTATAAATTACAGATC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTAT-AA--GCAGATC
* * * * * * *
21963764 TTATCTCTCTAAAGTTGCAGT--AG-AG-TAG-ATC-AT-ATCAAACC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTATAAGCAGATC
* * * * ** * * ** *
21963805 TTATCTCACTGAAGCTGTAGTGCAATAGGTTAAAAATA-AACCA-ATC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTATAAGCAGATC
* * * *
21963851 TTATCT-CCTGGAAGTTGCAGTGGAGCTGACTGAA--TATAGGGA-ATC
1 TTATCTCCCT-GAAGTTGCAGTGGAGCAGATTGAAGCTATAAGCAGATC
* * * * *
21963896 TTATTTCCTTGAAGTTGCAGTGGAACAAATTGAAGCTATAAATTGTAGATC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTAT-AA--GCAGATC
* * * * *
21963947 TTATCTCTCTAAAGTTGCAGTAGAGCAGATCGTAGC-A-AA-C----C
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTATAAGCAGATC
* *
21963988 TTATCTCCCTGAAGTTGTAGTGGAGCAGGTTGAAG-T-T-A-CA-AGTC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTATAAGCAGA-TC
* * * *
21964032 TTATCTCCCTGAAGCTGTA-TGGAACAGACTGAAG--ATAA-C-GAATC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTATAAGCAG-ATC
* * * * * * *
21964076 TCATTTCCTTGAAGTTGCAGTGGAACAGATTAAAGCCATAAATTACAGATC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTAT-AA--GCAGATC
* * * * *
21964127 TTATCTCTCTGAAGTTGCAGTAGAGCAGA-T----C-AT-ATCAAACC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTATAAGCAGATC
* * ** * * ** *
21964168 TTATCTCCCTAAAGCTGCAGTGGAATAGGTTAAAAATA-AACCA-ATC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTATAAGCAGATC
* * * * *
21964214 TTATCTCCCTGAAGTTACA---GAGCAGATTAAAGC---CA-CAAACC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTATAAGCAGATC
* * * * ** *
21964255 TTATCTCCTTGAAGTTGCAGTGGAACAGGTTAAAAATA-AACCA-ATC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTATAAGCAGATC
* * *
21964301 TTATCTCCCTGAAGTTGCAGTGGAACAGGTTGAAG--AT-ACCA-ATC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTATAAGCAGATC
*
21964345 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTAT---TA-ATC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTATAAGCAGATC
* *
21964389 CTATCTCCCTGAAGTTGTAGTGG
1 TTATCTCCCTGAAGTTGCAGTGG
21964412 CCCAATTTCG
Statistics
Matches: 957, Mismatches: 211, Indels: 238
0.68 0.15 0.17
Matches are distributed among these distances:
40 4 0.00
41 177 0.18
42 6 0.01
43 35 0.04
44 248 0.26
45 187 0.20
46 92 0.10
47 25 0.03
48 9 0.01
49 7 0.01
50 6 0.01
51 156 0.16
52 5 0.01
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (48 bp):
TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTATAAGCAGATC
Found at i:21963275 original size:41 final size:41
Alignment explanation
Indices: 21963218--21963472 Score: 161
Period size: 41 Copynumber: 5.8 Consensus size: 41
21963208 TAAATTGCAG
*
21963218 ATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCATAGCAA
1 ATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATCATAGCAA
* * * *
21963259 ATCTTATCTCCCTGAAGTTGCAGTGGAGTATGTTGA-AGTTACAA
1 ATCTTATCTCCCTGAAGTTGCAGTAGAGCA-GATCATAG---CAA
* * * * *
21963303 GTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTGAAGATAGCGA
1 ATCTTATCTCCCTGAAGTTGCAGTAGAGCAGA-T---CATAGCAA
* * * * * *
21963348 ATCTTATTTCCCTGAAGTTGTAATGGAGCAGATTAAAGCTATAAATTACAG
1 ATCTTATCTCCCTGAAGTTGCAGTAGAGCAGA-T----C-AT--A--GCAA
* *
21963399 ATCTTATCTCTCTGAAGTTGCAGTAGAGTAGATCATAGCAA
1 ATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATCATAGCAA
* *
21963440 ACCTTATCTCCCTGAAGTTGTAGTAGAGCAGAT
1 ATCTTATCTCCCTGAAGTTGCAGTAGAGCAGAT
21963473 TGAAGCCACT
Statistics
Matches: 165, Mismatches: 34, Indels: 30
0.72 0.15 0.13
Matches are distributed among these distances:
41 60 0.36
42 3 0.02
43 2 0.01
44 31 0.19
45 32 0.19
46 2 0.01
47 4 0.02
48 2 0.01
49 1 0.01
50 1 0.01
51 27 0.16
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.31
Consensus pattern (41 bp):
ATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATCATAGCAA
Found at i:21963295 original size:92 final size:91
Alignment explanation
Indices: 21963081--21964383 Score: 730
Period size: 92 Copynumber: 14.4 Consensus size: 91
21963071 ATGGCGAATT
* * *
21963081 TTATCTCCCTGAAGTTGCAATGGAGCAGATTGAAG---T-CATT-AG-TCTTATCT-TCCTGAAG
1 TTATCTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTATAAATTCAGATCTTATCTCT-CTGAAG
** * * *
21963139 TTATAGTGGAGCAGACTGAAGATAGCGAATC
65 TTGCAGTAGAGCAGA-T---CATAGCAAATC
* *
21963170 TTATTTCCCTGAAGTTGCAATGGAACAGATTGAAGCTATAAATTGCAGATCTTATCTCTCTGAAG
1 TTATCTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTATAAATT-CAGATCTTATCTCTCTGAAG
21963235 TTGCAGTAGAGCAGATCATAGCAAATC
65 TTGCAGTAGAGCAGATCATAGCAAATC
** * * *
21963262 TTATCTCCCTGAAGTTGCAGTGGAGTATG-TTGAAG-T-TACA---AG-TCTTATCTCCCTAAAG
1 TTATCTCCCTGAAGTTGCAGTGGAACA-GATTGAAGCTATAAATTCAGATCTTATCTCTCTGAAG
* * *
21963320 TTGCAGTGGAGCAGACTGAAGATAGCGAATC
65 TTGCAGTAGAGCAGA-T---CATAGCAAATC
* * * * *
21963351 TTATTTCCCTGAAGTTGTAATGGAGCAGATTAAAGCTATAAATTACAGATCTTATCTCTCTGAAG
1 TTATCTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTATAAATT-CAGATCTTATCTCTCTGAAG
* *
21963416 TTGCAGTAGAGTAGATCATAGCAAACC
65 TTGCAGTAGAGCAGATCATAGCAAATC
* * * * * *
21963443 TTATCTCCCTGAAGTTGTAGTAGAGCAGATTGAAGC----CACT-AG-TCTTATCTC-CATGAGG
1 TTATCTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTATAAATTCAGATCTTATCTCTC-TGAAG
* * * *
21963501 TTACAGTGGAGCAGACTGAAGATAGCGAATC
65 TTGCAGTAGAGCAGA-T---CATAGCAAATC
* * * * *
21963532 TTATTTCCCTAAAGTTGCAATGGAACAGATTGAAGCTATAAATTGCAGATCTTAACTCTCTAAAG
1 TTATCTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTATAAATT-CAGATCTTATCTCTCTGAAG
* * *
21963597 TTACAGTAGAGCAGATCATAGAAAACC
65 TTGCAGTAGAGCAGATCATAGCAAATC
** * * * * * * *
21963624 TTATCTCCCAAAAGTTACAGTGGAGCAGGTTGAAG-T-TACA---AG-TCTTATCTCCCTAAAGC
1 TTATCTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTATAAATTCAGATCTTATCTCTCTGAAGT
* ** * *
21963683 TGCAGTGGAATAGACTGGAGATAGCGAATC
66 TGCAGTAGAGCAGA-T---CATAGCAAATC
* * * *
21963713 TTATTTCACTGAAGTTGCAGTGGAACAGATTAAAGCTATAAATTACAGATCTTATCTCTCTAAAG
1 TTATCTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTATAAATT-CAGATCTTATCTCTCTGAAG
* * *
21963778 TTGCAGTAGAGTAGATCATATCAAACC
65 TTGCAGTAGAGCAGATCATAGCAAATC
* * * * * * ** *
21963805 TTATCTCACTGAAGCTGTAGTGCAATAGGTT-AA-AAATAAA-CCA-ATCTTATCTC-CTGGAAG
1 TTATCTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTATAAATTCAGATCTTATCTCTCT-GAAG
* **
21963865 TTGCAGTGGAGCTGACTGAAT-ATAGGGAATC
65 TTGCAGTAGAGC--A--G-ATCATAGCAAATC
* * * * *
21963896 TTATTTCCTTGAAGTTGCAGTGGAACAAATTGAAGCTATAAATTGTAGATCTTATCTCTCTAAAG
1 TTATCTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTATAAATT-CAGATCTTATCTCTCTGAAG
* *
21963961 TTGCAGTAGAGCAGATCGTAGCAAACC
65 TTGCAGTAGAGCAGATCATAGCAAATC
* * * * * *
21963988 TTATCTCCCTGAAGTTGTAGTGGAGCAGGTTGAAG-T-TACA---AG-TCTTATCTCCCTGAAGC
1 TTATCTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTATAAATTCAGATCTTATCTCTCTGAAGT
* * * * * *
21964047 TGTA-TGGAACAGACTGAAGATAACGAATC
66 TGCAGTAGAGCAGA-T---CATAGCAAATC
* * * * *
21964076 TCATTTCCTTGAAGTTGCAGTGGAACAGATTAAAGCCATAAATTACAGATCTTATCTCTCTGAAG
1 TTATCTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTATAAATT-CAGATCTTATCTCTCTGAAG
* *
21964141 TTGCAGTAGAGCAGATCATATCAAACC
65 TTGCAGTAGAGCAGATCATAGCAAATC
* * * * ** * *
21964168 TTATCTCCCTAAAGCTGCAGTGGAATAGGTT-AA-AAATAAA-CCA-ATCTTATCTCCCTGAAGT
1 TTATCTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTATAAATTCAGATCTTATCTCTCTGAAGT
* * * *
21964229 T--A-CAGAGCAGATTAAAGCCACAAACC
66 TGCAGTAGAGCAGATCATAG---CAAATC
* * ** * *
21964255 TTATCTCCTTGAAGTTGCAGTGGAACAGGTT-AA-AAATAAA-CCA-ATCTTATCTCCCTGAAGT
1 TTATCTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTATAAATTCAGATCTTATCTCTCTGAAGT
* * * * *
21964316 TGCAGTGGAACAGGTTGA-AGATACCAATC
66 TGCAGTAGAGCA-GATCATAG---CAAATC
*
21964345 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTAT
1 TTATCTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTAT
21964384 TAATCCTATC
Statistics
Matches: 936, Mismatches: 199, Indels: 155
0.73 0.15 0.12
Matches are distributed among these distances:
84 19 0.02
85 96 0.10
86 13 0.01
87 105 0.11
88 41 0.04
89 144 0.15
90 63 0.07
91 49 0.05
92 220 0.24
93 11 0.01
94 3 0.00
95 32 0.03
96 136 0.15
97 4 0.00
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.29
Consensus pattern (91 bp):
TTATCTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTATAAATTCAGATCTTATCTCTCTGAAGT
TGCAGTAGAGCAGATCATAGCAAATC
Found at i:21963389 original size:181 final size:181
Alignment explanation
Indices: 21963081--21964411 Score: 1468
Period size: 181 Copynumber: 7.4 Consensus size: 181
21963071 ATGGCGAATT
* * * ** * **
21963081 TTATCTCCCTGAAGTTGCAATGGAGCAGATTGAAGTCATTAGTCTTATCTTCCTGAAGTTATAGT
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGT
*
21963146 GGAGCAGACTGAAGATAGCGAATCTTATTTCCCTGAAGTTGCAATGGAACAGATTGAAGCTATAA
66 GGAGCAGACTGAAGATAGCGAATCTTATTTCCCTGAAGTTGCAATGGAACAGATTAAAGCTATAA
* * *
21963211 ATTGCAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCATAGCAAATC
131 ATTACAGATCTTATCTCTCTAAAGTTGCAGTAGAGCAGATCATAGCAAACC
* * *
21963262 TTATCTCCCTGAAGTTGCAGTGGAGTATGTTGAAGTTACAAGTCTTATCTCCCTAAAGTTGCAGT
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGT
* *
21963327 GGAGCAGACTGAAGATAGCGAATCTTATTTCCCTGAAGTTGTAATGGAGCAGATTAAAGCTATAA
66 GGAGCAGACTGAAGATAGCGAATCTTATTTCCCTGAAGTTGCAATGGAACAGATTAAAGCTATAA
* *
21963392 ATTACAGATCTTATCTCTCTGAAGTTGCAGTAGAGTAGATCATAGCAAACC
131 ATTACAGATCTTATCTCTCTAAAGTTGCAGTAGAGCAGATCATAGCAAACC
* * * ** * * * *
21963443 TTATCTCCCTGAAGTTGTAGTAGAGCAGATTGAAGCCACTAGTCTTATCTCCATGAGGTTACAGT
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGT
* *
21963508 GGAGCAGACTGAAGATAGCGAATCTTATTTCCCTAAAGTTGCAATGGAACAGATTGAAGCTATAA
66 GGAGCAGACTGAAGATAGCGAATCTTATTTCCCTGAAGTTGCAATGGAACAGATTAAAGCTATAA
* * * *
21963573 ATTGCAGATCTTAACTCTCTAAAGTTACAGTAGAGCAGATCATAGAAAACC
131 ATTACAGATCTTATCTCTCTAAAGTTGCAGTAGAGCAGATCATAGCAAACC
** * * *
21963624 TTATCTCCCAAAAGTTACAGTGGAGCAGGTTGAAGTTACAAGTCTTATCTCCCTAAAGCTGCAGT
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGT
** * * *
21963689 GGAATAGACTGGAGATAGCGAATCTTATTTCACTGAAGTTGCAGTGGAACAGATTAAAGCTATAA
66 GGAGCAGACTGAAGATAGCGAATCTTATTTCCCTGAAGTTGCAATGGAACAGATTAAAGCTATAA
* *
21963754 ATTACAGATCTTATCTCTCTAAAGTTGCAGTAGAGTAGATCATATCAAACC
131 ATTACAGATCTTATCTCTCTAAAGTTGCAGTAGAGCAGATCATAGCAAACC
* * * * ** * * *
21963805 TTATCTCACTGAAGCTGTAGTGCAATAGGTTAAAAATAAACCAA-TCTTATCT-CCTGGAAGTTG
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGGTT-GAAGT-TA-CAAGTCTTATCTCCCT-GAAGTTG
* * * * * * *
21963868 CAGTGGAGCTGACTGAATATAGGGAATCTTATTTCCTTGAAGTTGCAGTGGAACAAATTGAAGCT
62 CAGTGGAGCAGACTGAAGATAGCGAATCTTATTTCCCTGAAGTTGCAATGGAACAGATTAAAGCT
** *
21963933 ATAAATTGTAGATCTTATCTCTCTAAAGTTGCAGTAGAGCAGATCGTAGCAAACC
127 ATAAATTACAGATCTTATCTCTCTAAAGTTGCAGTAGAGCAGATCATAGCAAACC
* * *
21963988 TTATCTCCCTGAAGTTGTAGTGGAGCAGGTTGAAGTTACAAGTCTTATCTCCCTGAAGCTGTA-T
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGT
* * * * * *
21964052 GGAACAGACTGAAGATAACGAATCTCATTTCCTTGAAGTTGCAGTGGAACAGATTAAAGCCATAA
66 GGAGCAGACTGAAGATAGCGAATCTTATTTCCCTGAAGTTGCAATGGAACAGATTAAAGCTATAA
* *
21964117 ATTACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCATATCAAACC
131 ATTACAGATCTTATCTCTCTAAAGTTGCAGTAGAGCAGATCATAGCAAACC
* * ** * * * *
21964168 TTATCTCCCTAAAGCTGCAGTGGAATAGGTTAAAAATAAACCAA-TCTTATCTCCCTGAAGTTAC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGGTT-GAAGT-TA-CAAGTCTTATCTCCCTGAAGTTGC
* * ** * * * * * * *
21964232 A---GAGCAGATTAAAGCCA-CAAACCTTATCTCCTTGAAGTTGCAGTGGAACAGGTTAAA--AA
63 AGTGGAGCAGACTGAAGATAGCGAATCTTATTTCCCTGAAGTTGCAATGGAACAGATTAAAGCTA
* * * * * * * * *
21964291 TAAA--CCA-ATCTTATCTCCCTGAAGTTGCAGTGGAACAGGTTGA-AGATACCAATC
128 TAAATTACAGATCTTATCTCTCTAAAGTTGCAGTAGAGCA-GATCATAG---CAAACC
* * * * *
21964345 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTATTAA-TCCTATCTCCCTGAAGTTGTAG
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTA-CAAGTCTTATCTCCCTGAAGTTGCAG
21964409 TGG
65 TGG
21964412 CCCAATTTCG
Statistics
Matches: 970, Mismatches: 164, Indels: 35
0.83 0.14 0.03
Matches are distributed among these distances:
174 28 0.03
175 26 0.03
176 2 0.00
177 35 0.04
178 1 0.00
179 35 0.04
180 143 0.15
181 518 0.53
182 31 0.03
183 148 0.15
184 3 0.00
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (181 bp):
TTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGT
GGAGCAGACTGAAGATAGCGAATCTTATTTCCCTGAAGTTGCAATGGAACAGATTAAAGCTATAA
ATTACAGATCTTATCTCTCTAAAGTTGCAGTAGAGCAGATCATAGCAAACC
Found at i:21964930 original size:6 final size:6
Alignment explanation
Indices: 21964910--21964945 Score: 54
Period size: 6 Copynumber: 5.7 Consensus size: 6
21964900 CTTTATTTTT
21964910 TAAAAA TATAAAA TAAAAA TAAAAA TAAAAAA TAAA
1 TAAAAA TA-AAAA TAAAAA TAAAAA T-AAAAA TAAA
21964946 CGCTTACTGG
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
6 16 0.57
7 12 0.43
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (6 bp):
TAAAAA
Found at i:21966679 original size:18 final size:19
Alignment explanation
Indices: 21966656--21966696 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 19
21966646 TTAAAATACA
21966656 TTTATTTTA-TTATATCGT
1 TTTATTTTATTTATATCGT
*
21966674 TTTA-TTTATTTATATCTT
1 TTTATTTTATTTATATCGT
21966692 TTTAT
1 TTTAT
21966697 ATATTTTCAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
17 4 0.20
18 16 0.80
ACGTcount: A:0.22, C:0.05, G:0.02, T:0.71
Consensus pattern (19 bp):
TTTATTTTATTTATATCGT
Found at i:21966701 original size:18 final size:18
Alignment explanation
Indices: 21966665--21966702 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
21966655 ATTTATTTTA
*
21966665 TTATATCGTTTTATTTAT
1 TTATATCGTTTTATATAT
*
21966683 TTATATCTTTTTATATAT
1 TTATATCGTTTTATATAT
21966701 TT
1 TT
21966703 TCAAACTCTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.24, C:0.05, G:0.03, T:0.68
Consensus pattern (18 bp):
TTATATCGTTTTATATAT
Found at i:21966735 original size:3 final size:3
Alignment explanation
Indices: 21966714--21966761 Score: 53
Period size: 3 Copynumber: 15.7 Consensus size: 3
21966704 CAAACTCTAG
* *
21966714 ATT ATTT ATT ATT CA-T ATT ATT ATT AAT ATT ATT ATT ATC ATT ATT
1 ATT A-TT ATT ATT -ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
21966760 AT
1 AT
21966762 CTTTTTAATT
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
2 1 0.03
3 33 0.87
4 4 0.11
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.60
Consensus pattern (3 bp):
ATT
Found at i:21966736 original size:12 final size:11
Alignment explanation
Indices: 21966714--21966761 Score: 62
Period size: 12 Copynumber: 4.2 Consensus size: 11
21966704 CAAACTCTAG
21966714 ATTAT-TTATT
1 ATTATATTATT
21966724 ATTCATATTATT
1 ATT-ATATTATT
21966736 ATTAATATTATT
1 ATT-ATATTATT
21966748 ATTATCATTATT
1 ATTAT-ATTATT
21966760 AT
1 AT
21966762 CTTTTTAATT
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
10 3 0.09
11 4 0.12
12 27 0.79
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.60
Consensus pattern (11 bp):
ATTATATTATT
Found at i:21969648 original size:29 final size:30
Alignment explanation
Indices: 21969596--21969653 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 30
21969586 ATGTTGGTTG
*
21969596 TGATTTTGATTTTTACTGTTAATGGTGTTC
1 TGATTTTGATTTTTACTGTTAATGCTGTTC
*
21969626 TGATTTTGA-TTTTGCTGTTAATGCTGTT
1 TGATTTTGATTTTTACTGTTAATGCTGTT
21969654 AATGGTGTTC
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 17 0.65
30 9 0.35
ACGTcount: A:0.16, C:0.07, G:0.21, T:0.57
Consensus pattern (30 bp):
TGATTTTGATTTTTACTGTTAATGCTGTTC
Found at i:21969656 original size:38 final size:38
Alignment explanation
Indices: 21969611--21969728 Score: 168
Period size: 38 Copynumber: 3.1 Consensus size: 38
21969601 TTGATTTTTA
21969611 CTGTTAATGGTGTTCTGATTTTGATTTTGCTGTTAATG
1 CTGTTAATGGTGTTCTGATTTTGATTTTGCTGTTAATG
*
21969649 CTGTTAATGGTGTTCTGATTTTGATTTTGTTGTTAATG
1 CTGTTAATGGTGTTCTGATTTTGATTTTGCTGTTAATG
* * *
21969687 CTGTTAAT-G-GTTGTGTTTTTTATTTTTGCTGTTAATG
1 CTGTTAATGGTGTTCTGATTTTGA-TTTTGCTGTTAATG
*
21969724 GTGTT
1 CTGTT
21969729 CTGTTAATGT
Statistics
Matches: 73, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
36 10 0.14
37 18 0.25
38 45 0.62
ACGTcount: A:0.14, C:0.06, G:0.24, T:0.56
Consensus pattern (38 bp):
CTGTTAATGGTGTTCTGATTTTGATTTTGCTGTTAATG
Found at i:21972531 original size:25 final size:25
Alignment explanation
Indices: 21972497--21972544 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
21972487 TTAAGATTTG
21972497 ATTGTTTGTAATTAAATTCAAATTA
1 ATTGTTTGTAATTAAATTCAAATTA
21972522 ATTGTTTGTAATTAAATTCAAAT
1 ATTGTTTGTAATTAAATTCAAAT
21972545 AAGTAATCTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.40, C:0.04, G:0.08, T:0.48
Consensus pattern (25 bp):
ATTGTTTGTAATTAAATTCAAATTA
Found at i:21974098 original size:31 final size:31
Alignment explanation
Indices: 21974063--21974128 Score: 89
Period size: 31 Copynumber: 2.1 Consensus size: 31
21974053 AAAAAAAAAC
*
21974063 AATTCAACTC-TTTCTAAAAGGTTAATAGTCA
1 AATTCAACTCGTTT-TAAAAGGCTAATAGTCA
* *
21974094 AATTCAACTCGTTTTAAAAGGCTGATGGTCA
1 AATTCAACTCGTTTTAAAAGGCTAATAGTCA
21974125 AATT
1 AATT
21974129 AGTTTAAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
31 28 0.90
32 3 0.10
ACGTcount: A:0.36, C:0.15, G:0.14, T:0.35
Consensus pattern (31 bp):
AATTCAACTCGTTTTAAAAGGCTAATAGTCA
Found at i:21974296 original size:30 final size:32
Alignment explanation
Indices: 21974262--21974327 Score: 91
Period size: 31 Copynumber: 2.1 Consensus size: 32
21974252 TTTTATTCTA
* *
21974262 AATTTAG-CCTTCAACCTTTTAAAAAGAGTC-
1 AATTTAGACCATCAACCTTTCAAAAAGAGTCT
*
21974292 AATTTTGACCATCAACCTTTCAAAAAGAGTCT
1 AATTTAGACCATCAACCTTTCAAAAAGAGTCT
21974324 AATT
1 AATT
21974328 ATTTTTTTAA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
30 6 0.19
31 21 0.68
32 4 0.13
ACGTcount: A:0.38, C:0.20, G:0.09, T:0.33
Consensus pattern (32 bp):
AATTTAGACCATCAACCTTTCAAAAAGAGTCT
Found at i:21975622 original size:11 final size:12
Alignment explanation
Indices: 21975596--21975624 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
21975586 TGTTCATTCA
21975596 TTCATCAAGTTT
1 TTCATCAAGTTT
21975608 TTCATCAAG-TT
1 TTCATCAAGTTT
21975619 TTCATC
1 TTCATC
21975625 TTCTGAAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 8 0.47
12 9 0.53
ACGTcount: A:0.24, C:0.21, G:0.07, T:0.48
Consensus pattern (12 bp):
TTCATCAAGTTT
Found at i:21991371 original size:13 final size:13
Alignment explanation
Indices: 21991353--21991378 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
21991343 CGTATACAAA
21991353 AAAAACCTGACCC
1 AAAAACCTGACCC
21991366 AAAAACCTGACCC
1 AAAAACCTGACCC
21991379 GCTGTCATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.38, G:0.08, T:0.08
Consensus pattern (13 bp):
AAAAACCTGACCC
Found at i:21991660 original size:5 final size:5
Alignment explanation
Indices: 21991650--21991674 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
21991640 AGGAGAGGGC
21991650 GGGAA GGGAA GGGAA GGGAA GGGAA
1 GGGAA GGGAA GGGAA GGGAA GGGAA
21991675 AAAGAAAGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.60, T:0.00
Consensus pattern (5 bp):
GGGAA
Found at i:21992117 original size:48 final size:50
Alignment explanation
Indices: 21992017--21992120 Score: 126
Period size: 50 Copynumber: 2.1 Consensus size: 50
21992007 GAATGTTTTA
** * *
21992017 TTTTTTATGTAATTTATTTGTTATGTGTGTTTTAGGTTGATTAGATATAT
1 TTTTTTATGTAATTTATTTGGCATGTGTATTTTAGATTGATTAGATATAT
21992067 TTTTTTATGTAATTTATTTGGCATGT-TATTTT-GATT-ATTTTA-ATATAT
1 TTTTTTATGTAATTTATTTGGCATGTGTATTTTAGATTGA--TTAGATATAT
21992115 TTTTTT
1 TTTTTT
21992121 TATTTTTTTA
Statistics
Matches: 48, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
47 1 0.02
48 15 0.31
49 8 0.17
50 24 0.50
ACGTcount: A:0.22, C:0.01, G:0.13, T:0.63
Consensus pattern (50 bp):
TTTTTTATGTAATTTATTTGGCATGTGTATTTTAGATTGATTAGATATAT
Found at i:21993967 original size:24 final size:24
Alignment explanation
Indices: 21993917--21993968 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
21993907 GCTAGAGCTA
* * * *
21993917 GAGCCCGAGCTAGAGCCTAAGATC
1 GAGCCCAAGCCAGAGCCGAAGACC
*
21993941 GAGCCCAAGCCAGAGCCGAAGCCC
1 GAGCCCAAGCCAGAGCCGAAGACC
21993965 GAGC
1 GAGC
21993969 AGTCGCATAC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.29, C:0.35, G:0.31, T:0.06
Consensus pattern (24 bp):
GAGCCCAAGCCAGAGCCGAAGACC
Found at i:21994624 original size:62 final size:62
Alignment explanation
Indices: 21994467--21994699 Score: 346
Period size: 62 Copynumber: 3.7 Consensus size: 62
21994457 TAGCATTATA
* ** *
21994467 ACATTACAACATTAAAACTTGGAACAAAATTTGTGGTCATAAA-TTAGATTA-ATTGCAACATTA
1 ACATTACAACATTAAAACTTGGAACAAACTTTGTAAT-ATAAATTTTG-TTATA-T--AA-ATTA
*
21994530 CA-
60 AAT
21994532 ACATTACAACATTAAAACTTGGAACAAACTTTGTAATATAAATTTTGTTATATAAATTAAAT
1 ACATTACAACATTAAAACTTGGAACAAACTTTGTAATATAAATTTTGTTATATAAATTAAAT
21994594 ACATTACAACATTAAAACTTGGAACAAACTTTGTAATATAAATTTTGTTATATAAATTAAAT
1 ACATTACAACATTAAAACTTGGAACAAACTTTGTAATATAAATTTTGTTATATAAATTAAAT
21994656 ACATTACAACATTAAAACTTGGAACAAACTTTGTAATATAAATT
1 ACATTACAACATTAAAACTTGGAACAAACTTTGTAATATAAATT
21994700 AGGTACATTG
Statistics
Matches: 160, Mismatches: 5, Indels: 9
0.92 0.03 0.05
Matches are distributed among these distances:
61 5 0.03
62 108 0.68
64 9 0.06
65 38 0.24
ACGTcount: A:0.46, C:0.12, G:0.08, T:0.34
Consensus pattern (62 bp):
ACATTACAACATTAAAACTTGGAACAAACTTTGTAATATAAATTTTGTTATATAAATTAAAT
Found at i:21996817 original size:15 final size:15
Alignment explanation
Indices: 21996797--21996831 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
21996787 TTAATGTTTC
* *
21996797 CATCGTCATTCATGT
1 CATCGTCATTAATAT
21996812 CATCGTCATTAATAT
1 CATCGTCATTAATAT
21996827 CATCG
1 CATCG
21996832 ATGACCTTGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.26, C:0.26, G:0.11, T:0.37
Consensus pattern (15 bp):
CATCGTCATTAATAT
Found at i:21998443 original size:26 final size:26
Alignment explanation
Indices: 21998409--21998482 Score: 114
Period size: 26 Copynumber: 2.8 Consensus size: 26
21998399 AAGTATACTG
*
21998409 TACTAGCAGCTTTGCTGCGATACTCA-
1 TACTGGCAGCTTTGCTGCGATACT-AT
*
21998435 TACTGGCAGCTTTGCTGCGTTACTAT
1 TACTGGCAGCTTTGCTGCGATACTAT
21998461 TACTGGCAGCTTTGCTGCGATA
1 TACTGGCAGCTTTGCTGCGATA
21998483 TTGGTGTGTT
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
25 1 0.02
26 43 0.98
ACGTcount: A:0.19, C:0.24, G:0.23, T:0.34
Consensus pattern (26 bp):
TACTGGCAGCTTTGCTGCGATACTAT
Found at i:22008126 original size:9 final size:9
Alignment explanation
Indices: 22008112--22008148 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
22008102 TATAGTTTGA
22008112 TATTCGAAT
1 TATTCGAAT
22008121 TATTCGAAT
1 TATTCGAAT
*
22008130 TATTCGAGT
1 TATTCGAAT
22008139 TATTCGAAT
1 TATTCGAAT
22008148 T
1 T
22008149 CGAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:22009629 original size:88 final size:89
Alignment explanation
Indices: 22009479--22009656 Score: 333
Period size: 88 Copynumber: 2.0 Consensus size: 89
22009469 AGGTTTATAC
22009479 ATTGCATACATAAATAATTATATTTATCTAATATAAAAATAAATAAATGTATTTGTTTATTTAAG
1 ATTGCATACATAAATAATTATATTTATCTAATATAAAAATAAATAAATGTATTTGTTTATTTAAG
22009544 TGTGTACAGTTGAATTAAAGTCAA
66 TGTGTACAGTTGAATTAAAGTCAA
22009568 ATTGCATACA-AAATAAATTATATTT-TCTAATATAAAAATAAATAAATGTATTTGTTTATTTAA
1 ATTGCATACATAAAT-AATTATATTTATCTAATATAAAAATAAATAAATGTATTTGTTTATTTAA
22009631 GTGTGTACAGTTGAATTAAAGTCAA
65 GTGTGTACAGTTGAATTAAAGTCAA
22009656 A
1 A
22009657 GTCTCGTATA
Statistics
Matches: 88, Mismatches: 0, Indels: 3
0.97 0.00 0.03
Matches are distributed among these distances:
88 68 0.77
89 20 0.23
ACGTcount: A:0.44, C:0.06, G:0.10, T:0.40
Consensus pattern (89 bp):
ATTGCATACATAAATAATTATATTTATCTAATATAAAAATAAATAAATGTATTTGTTTATTTAAG
TGTGTACAGTTGAATTAAAGTCAA
Found at i:22009721 original size:24 final size:24
Alignment explanation
Indices: 22009684--22009732 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
22009674 ATATCACAAT
22009684 CAAAATTGCATGTAAT-AATTACA
1 CAAAATTGCATGTAATAAATTACA
* *
22009707 CAAAATATTCATGTACTAAATTACA
1 CAAAAT-TGCATGTAATAAATTACA
22009732 C
1 C
22009733 TTTTAATTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 6 0.27
24 8 0.36
25 8 0.36
ACGTcount: A:0.47, C:0.16, G:0.06, T:0.31
Consensus pattern (24 bp):
CAAAATTGCATGTAATAAATTACA
Found at i:22016215 original size:20 final size:20
Alignment explanation
Indices: 22016187--22016225 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
22016177 TGCAAACAAA
* *
22016187 CAGATAGTACACAGAATAAT
1 CAGACAGTAAACAGAATAAT
22016207 CAGACAGTAAACAGAATAA
1 CAGACAGTAAACAGAATAA
22016226 ACTCAGTCTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.54, C:0.15, G:0.15, T:0.15
Consensus pattern (20 bp):
CAGACAGTAAACAGAATAAT
Found at i:22018450 original size:21 final size:21
Alignment explanation
Indices: 22018426--22018468 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
22018416 TTTACACAAC
22018426 GTTGTGGATAAACCACTCATT
1 GTTGTGGATAAACCACTCATT
*
22018447 GTTGTGGATGAACCACTCATT
1 GTTGTGGATAAACCACTCATT
22018468 G
1 G
22018469 CGGATAAACC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.26, C:0.19, G:0.23, T:0.33
Consensus pattern (21 bp):
GTTGTGGATAAACCACTCATT
Found at i:22018478 original size:18 final size:19
Alignment explanation
Indices: 22018431--22018481 Score: 59
Period size: 18 Copynumber: 2.6 Consensus size: 19
22018421 ACAACGTTGT
*
22018431 GGATAAACCACTCATTGTTGT
1 GGATAAACCACTCA-T-TTGC
*
22018452 GGATGAACCACTCA-TTGC
1 GGATAAACCACTCATTTGC
22018470 GGATAAACCACT
1 GGATAAACCACT
22018482 AGTAATAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
18 14 0.52
21 13 0.48
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.25
Consensus pattern (19 bp):
GGATAAACCACTCATTTGC
Found at i:22018879 original size:34 final size:34
Alignment explanation
Indices: 22018829--22018902 Score: 96
Period size: 34 Copynumber: 2.2 Consensus size: 34
22018819 TATTACGGTA
*
22018829 GCAATTATTATCCTTATAACA-ATTCGATTCAGTG
1 GCAAATATTATCCTTATAACATATT-GATTCAGTG
* * *
22018863 GCAAATATTATGCTTATAACATATTGATTTAGTT
1 GCAAATATTATCCTTATAACATATTGATTCAGTG
22018897 GCAAAT
1 GCAAAT
22018903 GACATGCTTG
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
34 32 0.91
35 3 0.09
ACGTcount: A:0.35, C:0.14, G:0.12, T:0.39
Consensus pattern (34 bp):
GCAAATATTATCCTTATAACATATTGATTCAGTG
Found at i:22018910 original size:34 final size:34
Alignment explanation
Indices: 22018841--22018911 Score: 83
Period size: 34 Copynumber: 2.1 Consensus size: 34
22018831 AATTATTATC
*
22018841 CTTATAACAATTCGATTCAGTGGCAAATATTATG
1 CTTATAACAATTCGATTCAGTGGCAAATATCATG
* *
22018875 CTTATAACATATT-GATTTAGTTGCAAATGA-CATG
1 CTTATAACA-ATTCGATTCAGTGGCAAAT-ATCATG
22018909 CTT
1 CTT
22018912 GTCATGTGTT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
34 28 0.88
35 4 0.12
ACGTcount: A:0.34, C:0.14, G:0.14, T:0.38
Consensus pattern (34 bp):
CTTATAACAATTCGATTCAGTGGCAAATATCATG
Found at i:22022199 original size:29 final size:31
Alignment explanation
Indices: 22022145--22022206 Score: 83
Period size: 31 Copynumber: 2.1 Consensus size: 31
22022135 ATCTTAAAAT
* *
22022145 TATAGATAAACTTTGATTTAATGTGTAATTA
1 TATAGATAAACTTTAATTTAATGTGTAACTA
*
22022176 TATATATAAACTTTAATTT-A-GTGTAACTA
1 TATAGATAAACTTTAATTTAATGTGTAACTA
22022205 TA
1 TA
22022207 CACTTGAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
29 10 0.36
30 1 0.04
31 17 0.61
ACGTcount: A:0.40, C:0.05, G:0.10, T:0.45
Consensus pattern (31 bp):
TATAGATAAACTTTAATTTAATGTGTAACTA
Found at i:22025050 original size:50 final size:48
Alignment explanation
Indices: 22024974--22025102 Score: 129
Period size: 49 Copynumber: 2.6 Consensus size: 48
22024964 TTCTTGCGAG
* *** **
22024974 CTTCCCATTTATGGCTCTCCGGAGCTTTTCGATAATTGGCTC-TTTGGAA
1 CTTCCCATTTATAGCTCTCTAAAGCTTCCCGAT-ATTGGCTCGTTT-GAA
22025023 CTTCCCAATTTATAGCTCTCTAAAGCTTCCCGATATTGGCTCGTTTGAA
1 CTTCCC-ATTTATAGCTCTCTAAAGCTTCCCGATATTGGCTCGTTTGAA
*
22025072 CTTCCCGA-TTATAACTCT-TATAAGCTTCCCG
1 CTTCCC-ATTTATAGCTCTCTA-AAGCTTCCCG
22025103 GTTCATGGCT
Statistics
Matches: 69, Mismatches: 8, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
47 2 0.03
48 19 0.28
49 24 0.35
50 24 0.35
ACGTcount: A:0.20, C:0.27, G:0.16, T:0.37
Consensus pattern (48 bp):
CTTCCCATTTATAGCTCTCTAAAGCTTCCCGATATTGGCTCGTTTGAA
Found at i:22025113 original size:49 final size:49
Alignment explanation
Indices: 22025003--22025102 Score: 134
Period size: 48 Copynumber: 2.0 Consensus size: 49
22024993 CGGAGCTTTT
*
22025003 CGATAATTGGCTCTTTGGAACTTCCCAATTTATAGCTCTCTAAAGCTTCC
1 CGAT-ATTGGCTCTTTGGAACTTCCCAATTTATAACTCTCTAAAGCTTCC
*
22025053 CGATATTGGCTCGTTT-GAACTTCCCGA-TTATAACTCT-TATAAGCTTCC
1 CGATATTGGCTC-TTTGGAACTTCCCAATTTATAACTCTCTA-AAGCTTCC
22025101 CG
1 CG
22025103 GTTCATGGCT
Statistics
Matches: 46, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
47 2 0.04
48 19 0.41
49 18 0.39
50 7 0.15
ACGTcount: A:0.23, C:0.26, G:0.15, T:0.36
Consensus pattern (49 bp):
CGATATTGGCTCTTTGGAACTTCCCAATTTATAACTCTCTAAAGCTTCC
Found at i:22027512 original size:33 final size:31
Alignment explanation
Indices: 22027474--22027534 Score: 95
Period size: 33 Copynumber: 1.9 Consensus size: 31
22027464 TATTTGTCTA
*
22027474 TTATTTTAGTAGGATTTTAGTTTATTTTATAAG
1 TTATTTTAGTA-CATTTTAG-TTATTTTATAAG
22027507 TTATTTTAGTACATTTTAGTTATTTTAT
1 TTATTTTAGTACATTTTAGTTATTTTAT
22027535 TTTATTATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
31 9 0.33
32 7 0.26
33 11 0.41
ACGTcount: A:0.26, C:0.02, G:0.11, T:0.61
Consensus pattern (31 bp):
TTATTTTAGTACATTTTAGTTATTTTATAAG
Found at i:22027515 original size:22 final size:20
Alignment explanation
Indices: 22027487--22027550 Score: 58
Period size: 19 Copynumber: 3.1 Consensus size: 20
22027477 TTTTAGTAGG
22027487 ATTTTAGTTTATTTTATAAGTT
1 ATTTTAGTTTATTTT-T-AGTT
**
22027509 ATTTTAGTACA-TTTTAGTT
1 ATTTTAGTTTATTTTTAGTT
* *
22027528 ATTTTATTTTATTATTTAATT
1 ATTTTAGTTTATT-TTTAGTT
22027549 AT
1 AT
22027551 ATATTATTAG
Statistics
Matches: 34, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
19 12 0.35
20 2 0.06
21 11 0.32
22 9 0.26
ACGTcount: A:0.28, C:0.02, G:0.06, T:0.64
Consensus pattern (20 bp):
ATTTTAGTTTATTTTTAGTT
Found at i:22027544 original size:32 final size:32
Alignment explanation
Indices: 22027472--22027540 Score: 90
Period size: 33 Copynumber: 2.2 Consensus size: 32
22027462 GTTATTTGTC
*
22027472 TATTATTTTAGTAGGATTTTAGTTTATTTTAT
1 TATTATTTTAGTAGCATTTTAGTTTATTTTAT
*
22027504 AAGTTATTTTAGTA-CATTTTAG-TTATTTTAT
1 TA-TTATTTTAGTAGCATTTTAGTTTATTTTAT
22027535 T-TTATT
1 TATTATT
22027541 ATTTAATTAT
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
29 5 0.15
31 9 0.27
32 8 0.24
33 11 0.33
ACGTcount: A:0.26, C:0.01, G:0.10, T:0.62
Consensus pattern (32 bp):
TATTATTTTAGTAGCATTTTAGTTTATTTTAT
Found at i:22035327 original size:50 final size:48
Alignment explanation
Indices: 22035251--22035379 Score: 129
Period size: 49 Copynumber: 2.6 Consensus size: 48
22035241 TTCTTGCGAG
* *** **
22035251 CTTCCCATTTATGGCTCTCCGGAGCTTTTCGATAATTGGCTC-TTTGGAA
1 CTTCCCATTTATAGCTCTCTAAAGCTTCCCGAT-ATTGGCTCGTTT-GAA
22035300 CTTCCCAATTTATAGCTCTCTAAAGCTTCCCGATATTGGCTCGTTTGAA
1 CTTCCC-ATTTATAGCTCTCTAAAGCTTCCCGATATTGGCTCGTTTGAA
*
22035349 CTTCCCGA-TTATAACTCT-TATAAGCTTCCCG
1 CTTCCC-ATTTATAGCTCTCTA-AAGCTTCCCG
22035380 GTTCATGGCT
Statistics
Matches: 69, Mismatches: 8, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
47 2 0.03
48 19 0.28
49 24 0.35
50 24 0.35
ACGTcount: A:0.20, C:0.27, G:0.16, T:0.37
Consensus pattern (48 bp):
CTTCCCATTTATAGCTCTCTAAAGCTTCCCGATATTGGCTCGTTTGAA
Found at i:22035390 original size:49 final size:49
Alignment explanation
Indices: 22035280--22035379 Score: 134
Period size: 48 Copynumber: 2.0 Consensus size: 49
22035270 CGGAGCTTTT
*
22035280 CGATAATTGGCTCTTTGGAACTTCCCAATTTATAGCTCTCTAAAGCTTCC
1 CGAT-ATTGGCTCTTTGGAACTTCCCAATTTATAACTCTCTAAAGCTTCC
*
22035330 CGATATTGGCTCGTTT-GAACTTCCCGA-TTATAACTCT-TATAAGCTTCC
1 CGATATTGGCTC-TTTGGAACTTCCCAATTTATAACTCTCTA-AAGCTTCC
22035378 CG
1 CG
22035380 GTTCATGGCT
Statistics
Matches: 46, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
47 2 0.04
48 19 0.41
49 18 0.39
50 7 0.15
ACGTcount: A:0.23, C:0.26, G:0.15, T:0.36
Consensus pattern (49 bp):
CGATATTGGCTCTTTGGAACTTCCCAATTTATAACTCTCTAAAGCTTCC
Found at i:22037789 original size:33 final size:31
Alignment explanation
Indices: 22037751--22037811 Score: 95
Period size: 33 Copynumber: 1.9 Consensus size: 31
22037741 TATTTGTCTA
*
22037751 TTATTTTAGTAGGATTTTAGTTTATTTTATAAG
1 TTATTTTAGTA-CATTTTAG-TTATTTTATAAG
22037784 TTATTTTAGTACATTTTAGTTATTTTAT
1 TTATTTTAGTACATTTTAGTTATTTTAT
22037812 TTTATTATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
31 9 0.33
32 7 0.26
33 11 0.41
ACGTcount: A:0.26, C:0.02, G:0.11, T:0.61
Consensus pattern (31 bp):
TTATTTTAGTACATTTTAGTTATTTTATAAG
Found at i:22037792 original size:22 final size:20
Alignment explanation
Indices: 22037764--22037827 Score: 58
Period size: 19 Copynumber: 3.1 Consensus size: 20
22037754 TTTTAGTAGG
22037764 ATTTTAGTTTATTTTATAAGTT
1 ATTTTAGTTTATTTT-T-AGTT
**
22037786 ATTTTAGTACA-TTTTAGTT
1 ATTTTAGTTTATTTTTAGTT
* *
22037805 ATTTTATTTTATTATTTAATT
1 ATTTTAGTTTATT-TTTAGTT
22037826 AT
1 AT
22037828 ATATTATTAG
Statistics
Matches: 34, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
19 12 0.35
20 2 0.06
21 11 0.32
22 9 0.26
ACGTcount: A:0.28, C:0.02, G:0.06, T:0.64
Consensus pattern (20 bp):
ATTTTAGTTTATTTTTAGTT
Found at i:22037821 original size:32 final size:32
Alignment explanation
Indices: 22037749--22037817 Score: 90
Period size: 33 Copynumber: 2.2 Consensus size: 32
22037739 GTTATTTGTC
*
22037749 TATTATTTTAGTAGGATTTTAGTTTATTTTAT
1 TATTATTTTAGTAGCATTTTAGTTTATTTTAT
*
22037781 AAGTTATTTTAGTA-CATTTTAG-TTATTTTAT
1 TA-TTATTTTAGTAGCATTTTAGTTTATTTTAT
22037812 T-TTATT
1 TATTATT
22037818 ATTTAATTAT
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
29 5 0.15
31 9 0.27
32 8 0.24
33 11 0.33
ACGTcount: A:0.26, C:0.01, G:0.10, T:0.62
Consensus pattern (32 bp):
TATTATTTTAGTAGCATTTTAGTTTATTTTAT
Found at i:22040502 original size:97 final size:97
Alignment explanation
Indices: 22040389--22040583 Score: 381
Period size: 97 Copynumber: 2.0 Consensus size: 97
22040379 TAAAAAAATT
*
22040389 AATAGAAAATATCATAATGTTAAATATTAATAAATATTAATAATTTATTATGTTATTTATAAATT
1 AATACAAAATATCATAATGTTAAATATTAATAAATATTAATAATTTATTATGTTATTTATAAATT
22040454 GTAACACCCCAAAATATAAGAGGTTAGATGAA
66 GTAACACCCCAAAATATAAGAGGTTAGATGAA
22040486 AATACAAAATATCATAATGTTAAATATTAATAAATATTAATAATTTATTATGTTATTTATAAATT
1 AATACAAAATATCATAATGTTAAATATTAATAAATATTAATAATTTATTATGTTATTTATAAATT
22040551 GTAACACCCCAAAATATAAGAGGTTAGATGAA
66 GTAACACCCCAAAATATAAGAGGTTAGATGAA
22040583 A
1 A
22040584 TGAATAATCA
Statistics
Matches: 97, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
97 97 1.00
ACGTcount: A:0.49, C:0.07, G:0.09, T:0.36
Consensus pattern (97 bp):
AATACAAAATATCATAATGTTAAATATTAATAAATATTAATAATTTATTATGTTATTTATAAATT
GTAACACCCCAAAATATAAGAGGTTAGATGAA
Found at i:22046263 original size:16 final size:16
Alignment explanation
Indices: 22046244--22046274 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
22046234 GTAACCATTT
*
22046244 CATATTGTTATAGCAA
1 CATACTGTTATAGCAA
22046260 CATACTGTTATAGCA
1 CATACTGTTATAGCA
22046275 GCATTTCATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.16, G:0.13, T:0.35
Consensus pattern (16 bp):
CATACTGTTATAGCAA
Found at i:22059086 original size:20 final size:20
Alignment explanation
Indices: 22059061--22059099 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
22059051 TACGTAGTTT
22059061 CAATTTACTTTTGGTGTTCC
1 CAATTTACTTTTGGTGTTCC
*
22059081 CAATTTAGTTTTGGTGTTC
1 CAATTTACTTTTGGTGTTC
22059100 AATATTGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.15, C:0.15, G:0.18, T:0.51
Consensus pattern (20 bp):
CAATTTACTTTTGGTGTTCC
Found at i:22065985 original size:14 final size:14
Alignment explanation
Indices: 22065966--22066021 Score: 60
Period size: 14 Copynumber: 3.9 Consensus size: 14
22065956 AACTATTTAA
22065966 ATAATATTAAATTT
1 ATAATATTAAATTT
*
22065980 ATAATATTAAA-TA
1 ATAATATTAAATTT
*
22065993 ATATTATTTAAATAGTT
1 ATAATA-TTAAAT--TT
22066010 ATAATATTAAAT
1 ATAATATTAAAT
22066022 GAATAATTAT
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
13 6 0.18
14 16 0.47
16 6 0.18
17 6 0.18
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (14 bp):
ATAATATTAAATTT
Found at i:22068498 original size:50 final size:50
Alignment explanation
Indices: 22068440--22068540 Score: 150
Period size: 50 Copynumber: 2.0 Consensus size: 50
22068430 ACCTTATTTT
* *
22068440 AATCAATGTCAAATAGAAGGAA-AGTAGTTTTATAAGGATTTTACTTGTGC
1 AATCAATGTCAAATAGAA-GAAGAGTAGTTCTATAAGGATTCTACTTGTGC
* *
22068490 AATCAATGTCAAATAGAATAAGAGTAGTTCTATACGGATTCTACTTGTGC
1 AATCAATGTCAAATAGAAGAAGAGTAGTTCTATAAGGATTCTACTTGTGC
22068540 A
1 A
22068541 GCCTGGTTTA
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
49 2 0.04
50 44 0.96
ACGTcount: A:0.38, C:0.11, G:0.19, T:0.33
Consensus pattern (50 bp):
AATCAATGTCAAATAGAAGAAGAGTAGTTCTATAAGGATTCTACTTGTGC
Found at i:22081051 original size:3 final size:3
Alignment explanation
Indices: 22081043--22081068 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
22081033 CAAGAAAATG
22081043 AAC AAC AAC AAC AAC AAC AAC AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC AA
22081069 AATTGAAGAA
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:0.69, C:0.31, G:0.00, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:22086993 original size:44 final size:46
Alignment explanation
Indices: 22086930--22087018 Score: 139
Period size: 44 Copynumber: 2.0 Consensus size: 46
22086920 TATTACAACA
22086930 TCATTCCATTCAACCAAACACA-AGAA-TA-TTATTACAGCTCTATT
1 TCATTCCATTCAACCAAACA-ATAGAATTACTTATTACAGCTCTATT
*
22086974 TCATTCCATTCAACCAAACAATTGAATTACTTATTACAGCTCTAT
1 TCATTCCATTCAACCAAACAATAGAATTACTTATTACAGCTCTAT
22087019 CCATTATAGT
Statistics
Matches: 41, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
43 1 0.02
44 23 0.56
45 2 0.05
46 15 0.37
ACGTcount: A:0.37, C:0.25, G:0.04, T:0.34
Consensus pattern (46 bp):
TCATTCCATTCAACCAAACAATAGAATTACTTATTACAGCTCTATT
Found at i:22088281 original size:15 final size:16
Alignment explanation
Indices: 22088252--22088282 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
22088242 GTTTGGTTGG
22088252 AAAGAAAAGTAAGAAA
1 AAAGAAAAGTAAGAAA
22088268 AAAGAAAA-TAAGAAA
1 AAAGAAAAGTAAGAAA
22088283 GATGATCATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.77, C:0.00, G:0.16, T:0.06
Consensus pattern (16 bp):
AAAGAAAAGTAAGAAA
Found at i:22090762 original size:27 final size:27
Alignment explanation
Indices: 22090670--22090770 Score: 107
Period size: 27 Copynumber: 3.7 Consensus size: 27
22090660 CCCTGGTCAG
* *
22090670 GCCAAGGTGATTGGCGGCACCAAAGGT
1 GCCAAGCTGATTGGCGGCACCAATGGT
*
22090697 GCCAAAGC-CATTGGCGGCACCAATGGT
1 GCC-AAGCTGATTGGCGGCACCAATGGT
* **
22090724 GTCAAGGAGATTGGCGGCACCAATGGT
1 GCCAAGCTGATTGGCGGCACCAATGGT
*
22090751 GCCATA-CTGATTGACGGCAC
1 GCCA-AGCTGATTGGCGGCAC
22090771 TACTCGTGTT
Statistics
Matches: 61, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
26 3 0.05
27 54 0.89
28 4 0.07
ACGTcount: A:0.26, C:0.25, G:0.33, T:0.17
Consensus pattern (27 bp):
GCCAAGCTGATTGGCGGCACCAATGGT
Found at i:22096956 original size:16 final size:18
Alignment explanation
Indices: 22096937--22096970 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
22096927 AAAAAAAAAA
22096937 TTGGGGG-GG-GGGGGGG
1 TTGGGGGAGGTGGGGGGG
22096953 TTGGGGGAGGTGGGGGGG
1 TTGGGGGAGGTGGGGGGG
22096971 GGGGTGGGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 2 0.12
18 7 0.44
ACGTcount: A:0.03, C:0.00, G:0.82, T:0.15
Consensus pattern (18 bp):
TTGGGGGAGGTGGGGGGG
Found at i:22096984 original size:25 final size:25
Alignment explanation
Indices: 22096938--22096985 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
22096928 AAAAAAAAAT
**
22096938 TGGGGGGGGGGGGGGTTGGGGGAGG
1 TGGGGGGGGGGGGGGTAAGGGGAGG
22096963 TGGGGGGGGGGGTGGG-AAGGGGA
1 TGGGGGGGGGGG-GGGTAAGGGGA
22096986 TAAAAAGTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 17 0.85
26 3 0.15
ACGTcount: A:0.08, C:0.00, G:0.81, T:0.10
Consensus pattern (25 bp):
TGGGGGGGGGGGGGGTAAGGGGAGG
Found at i:22098704 original size:33 final size:33
Alignment explanation
Indices: 22098621--22098778 Score: 139
Period size: 33 Copynumber: 4.7 Consensus size: 33
22098611 ATAAAAATTA
* *
22098621 CCTTTTTTTTCTTTTTTTTCCTTC-CTTCCTTCCTTC
1 CCTTTTCTTTC-TTTTTTT-CTTCTCTT-C-TCCTTT
* *
22098657 CCTCTTC-TTCTTTTTTT-TTCTCTTCTCATTT
1 CCTTTTCTTTCTTTTTTTCTTCTCTTCTCCTTT
*
22098688 CCTTTTCTTTC-TTTTTTCCTCTCCTT-TCCTCTT
1 CCTTTTCTTTCTTTTTTTCTTCT-CTTCTCCT-TT
*
22098721 -CTTCTTCTTTCTTTTTTTTTTCTCTTCTCCTTT
1 CCTT-TTCTTTCTTTTTTTCTTCTCTTCTCCTTT
22098754 CCTTTTCTTTCCTTCTTTTTCTTCT
1 CCTTTTCTTT-CTT-TTTTTCTTCT
22098779 TTCCTCTCCG
Statistics
Matches: 101, Mismatches: 10, Indels: 23
0.75 0.07 0.17
Matches are distributed among these distances:
31 16 0.16
32 16 0.16
33 26 0.26
34 26 0.26
35 12 0.12
36 5 0.05
ACGTcount: A:0.01, C:0.32, G:0.00, T:0.68
Consensus pattern (33 bp):
CCTTTTCTTTCTTTTTTTCTTCTCTTCTCCTTT
Found at i:22098710 original size:27 final size:29
Alignment explanation
Indices: 22098662--22098732 Score: 87
Period size: 27 Copynumber: 2.6 Consensus size: 29
22098652 CCTTCCCTCT
22098662 TCTTCTTT-TTTTTTCTCTTCTCATTTCC
1 TCTTCTTTCTTTTTTCTCTTCTCATTTCC
* *
22098690 TTTTCTTTCTTTTTTC-C-TCTCCTTTCC
1 TCTTCTTTCTTTTTTCTCTTCTCATTTCC
*
22098717 TCTTC-TTCTTCTTTCT
1 TCTTCTTTCTTTTTTCT
22098733 TTTTTTTTTC
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
26 9 0.24
27 13 0.35
28 8 0.22
29 7 0.19
ACGTcount: A:0.01, C:0.31, G:0.00, T:0.68
Consensus pattern (29 bp):
TCTTCTTTCTTTTTTCTCTTCTCATTTCC
Found at i:22098743 original size:66 final size:65
Alignment explanation
Indices: 22098627--22098785 Score: 188
Period size: 66 Copynumber: 2.5 Consensus size: 65
22098617 ATTACCTTTT
22098627 TTTTC-TT-TTTTTTCCT-TCC-TTCCTTCCTTCCCTCTTCTTCTTTTTTTTTCTCTTCTCATTT
1 TTTTCTTTCTTTTTTCCTCTCCTTTCC-T-CTTCCCTCTTCTTCTTTTTTTTTCTCTTCTCATTT
22098688 CC
64 CC
* *
22098690 TTTTCTTTCTTTTTTCCTCTCCTTTCCTCTT-CTTCTTCTTTCTTTTTTTTTTCTCTTCTCCTTT
1 TTTTCTTTCTTTTTTCCTCTCCTTTCCTCTTCCCTCTTC-TTC-TTTTTTTTTCTCTTCTCATTT
22098754 CC
64 CC
*
22098756 TTTTCTTTCCTTCTTTT--TCTTCTTTCCTCT
1 TTTTCTTT-CTT-TTTTCCTCTCCTTTCCTCT
22098786 CCGTCCTTCC
Statistics
Matches: 85, Mismatches: 3, Indels: 13
0.84 0.03 0.13
Matches are distributed among these distances:
63 5 0.06
64 8 0.09
65 15 0.18
66 46 0.54
67 7 0.08
68 4 0.05
ACGTcount: A:0.01, C:0.32, G:0.00, T:0.67
Consensus pattern (65 bp):
TTTTCTTTCTTTTTTCCTCTCCTTTCCTCTTCCCTCTTCTTCTTTTTTTTTCTCTTCTCATTTCC
Found at i:22098762 original size:39 final size:40
Alignment explanation
Indices: 22098691--22098840 Score: 120
Period size: 37 Copynumber: 3.8 Consensus size: 40
22098681 CTCATTTCCT
* *
22098691 TTTCTTTCTTT-TTTC-C-TCTCCTTTCCTCTTCTTCTTC
1 TTTCTTTTTTTCTTTCTCTTCTCCTTTCCTTTTCTTCTTC
22098728 TTTCTTTTTTT-TTTCTCTTCTCCTTTCCTTTTC-T-TTC
1 TTTCTTTTTTTCTTTCTCTTCTCCTTTCCTTTTCTTCTTC
* *
22098765 CTTCTTTTTCTTCTTTCCTCTCCGTCC-TTCCTTCCTTTCTTCCTTCC
1 TTTCTTTTT-TTCTTT-CTCTTC-TCCTTTCC-T--TTTCTT-CTT-C
*
22098812 TTTCTTTTTTTCTTTCT-TTC-CCTCTCCTT
1 TTTCTTTTTTTCTTTCTCTTCTCCTTTCCTT
22098841 CTCCCCCCCC
Statistics
Matches: 92, Mismatches: 7, Indels: 25
0.74 0.06 0.20
Matches are distributed among these distances:
37 25 0.27
38 4 0.04
39 17 0.18
40 10 0.11
41 4 0.04
42 3 0.03
43 7 0.08
44 3 0.03
45 2 0.02
46 8 0.09
47 9 0.10
ACGTcount: A:0.00, C:0.35, G:0.01, T:0.65
Consensus pattern (40 bp):
TTTCTTTTTTTCTTTCTCTTCTCCTTTCCTTTTCTTCTTC
Found at i:22098808 original size:12 final size:12
Alignment explanation
Indices: 22098791--22098817 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
22098781 CCTCTCCGTC
22098791 CTTCCTTCCTTT
1 CTTCCTTCCTTT
22098803 CTTCCTTCCTTT
1 CTTCCTTCCTTT
22098815 CTT
1 CTT
22098818 TTTTTCTTTC
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:0.00, C:0.41, G:0.00, T:0.59
Consensus pattern (12 bp):
CTTCCTTCCTTT
Found at i:22105595 original size:2 final size:2
Alignment explanation
Indices: 22105582--22105611 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
22105572 TTTTGAATAC
*
22105582 AT AT AC 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
22105612 GCATTAGCAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:22110278 original size:13 final size:13
Alignment explanation
Indices: 22110249--22110286 Score: 67
Period size: 13 Copynumber: 2.8 Consensus size: 13
22110239 GTGATGTGAA
22110249 AAAATGAAAAGATG
1 AAAATGAAAA-ATG
22110263 AAAATGAAAAATG
1 AAAATGAAAAATG
22110276 AAAATGAAAAA
1 AAAATGAAAAA
22110287 GTAAAAATGG
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
13 14 0.58
14 10 0.42
ACGTcount: A:0.71, C:0.00, G:0.16, T:0.13
Consensus pattern (13 bp):
AAAATGAAAAATG
Found at i:22110292 original size:13 final size:14
Alignment explanation
Indices: 22110249--22110295 Score: 62
Period size: 13 Copynumber: 3.4 Consensus size: 14
22110239 GTGATGTGAA
22110249 AAAATG-AAAAGATG
1 AAAATGAAAAAG-TG
22110263 AAAATGAAAAA-TG
1 AAAATGAAAAAGTG
*
22110276 AAAATGAAAAAGTA
1 AAAATGAAAAAGTG
22110290 AAAATG
1 AAAATG
22110296 GAGAGGCTAA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
13 13 0.43
14 13 0.43
15 4 0.13
ACGTcount: A:0.68, C:0.00, G:0.17, T:0.15
Consensus pattern (14 bp):
AAAATGAAAAAGTG
Found at i:22111664 original size:88 final size:88
Alignment explanation
Indices: 22111515--22111700 Score: 232
Period size: 88 Copynumber: 2.1 Consensus size: 88
22111505 GGTGAAACTT
* *
22111515 CAGCCTTATCTCCCTGAGCAGCAGTGGAATAGGTTAAAAATAGCAGATCTTGTCTTCCTGTATTG
1 CAGCCTTATCTCCCTGAGCAGCAGTGGAATAGGTTAAAAATAGCAGATCTTGCCTTCCTGTACTG
* *
22111580 GCAGTGAAGTAGATCGAAGATAC
66 GCAGCGAAGCAGATCGAAGATAC
* * * * *
22111603 CAGCCTTGTCTCCCT-AGGTAGTAGTGGAGTAGGTTGAAAAT-GACAGATCTTGCCTTCCTGTAC
1 CAGCCTTATCTCCCTGA-GCAGCAGTGGAATAGGTTAAAAATAG-CAGATCTTGCCTTCCTGTAC
*
22111666 TGGTAGCGAAGCAGATCGAAGATAC
64 TGGCAGCGAAGCAGATCGAAGATAC
* *
22111691 CCGTCTTATC
1 CAGCCTTATC
22111701 GCCTTGACGT
Statistics
Matches: 83, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
87 2 0.02
88 81 0.98
ACGTcount: A:0.27, C:0.21, G:0.25, T:0.27
Consensus pattern (88 bp):
CAGCCTTATCTCCCTGAGCAGCAGTGGAATAGGTTAAAAATAGCAGATCTTGCCTTCCTGTACTG
GCAGCGAAGCAGATCGAAGATAC
Found at i:22112002 original size:167 final size:167
Alignment explanation
Indices: 22111719--22112045 Score: 539
Period size: 167 Copynumber: 2.0 Consensus size: 167
22111709 GTTGCAATGG
*
22111719 AAAAGACTGAAGCCACAATGGCGGATCTTATTTTCCTGGCGTCTCAGCGGAGCAGATTGAAGCCA
1 AAAAGACTGAAGCCACAATGGCGGATCTTATTTTCCTGGCATCTCAGCGGAGCAGATTGAAGCCA
* *
22111784 CGACGGCGAATCTTTTCTCCCTGGTGTTAAGACTTGGATTAGCTGAAGTGGAGCAGATTAAAGCT
66 CGACGGCGAATCTTATCTCCCTGGCGTTAAGACTTGGATTAGCTGAAGTGGAGCAGATTAAAGCT
*
22111849 GTGGGCAGCGAGTCCTATCTCTTTGGCATTGTAATTA
131 GTGGGCAGCGAATCCTATCTCTTTGGCATTGTAATTA
* *
22111886 AAAAGATTGAAGCCACAATGGCGGGTCTTATTTTCCTGGCAT-TGCAGCGGAGCAGATTGAAGCC
1 AAAAGACTGAAGCCACAATGGCGGATCTTATTTTCCTGGCATCT-CAGCGGAGCAGATTGAAGCC
* * * * *
22111950 ACGACGGCGTATCTTATCTCCCTGGCGTTAAGGCTTGGATTAGTTGAAGTGGAGCGGATTGAAGC
65 ACGACGGCGAATCTTATCTCCCTGGCGTTAAGACTTGGATTAGCTGAAGTGGAGCAGATTAAAGC
22112015 TGTGGGCAGCGAATCCTATCTCTTTGGCATT
130 TGTGGGCAGCGAATCCTATCTCTTTGGCATT
22112046 ACAGTGGAAC
Statistics
Matches: 148, Mismatches: 11, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
166 1 0.01
167 147 0.99
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (167 bp):
AAAAGACTGAAGCCACAATGGCGGATCTTATTTTCCTGGCATCTCAGCGGAGCAGATTGAAGCCA
CGACGGCGAATCTTATCTCCCTGGCGTTAAGACTTGGATTAGCTGAAGTGGAGCAGATTAAAGCT
GTGGGCAGCGAATCCTATCTCTTTGGCATTGTAATTA
Found at i:22112093 original size:167 final size:167
Alignment explanation
Indices: 22111713--22112081 Score: 533
Period size: 167 Copynumber: 2.2 Consensus size: 167
22111703 CTTGACGTTG
* * *
22111713 CAATGGAAAAGACTGAAGCCACAATGGCGGATCTTATTTTCCTGGCGTCTCAGCGGAGCAGATTG
1 CAATGAAAAAGATTGAAGCCACAATGGCGGATCTTATTTTCCTGGCATCTCAGCGGAGCAGATTG
* *
22111778 AAGCCACGACGGCGAATCTTTTCTCCCTGGTGTTAAGACTTGGATTAGCTGAAGTGGAGCAGATT
66 AAGCCACGACGGCGAATCTTATCTCCCTGGCGTTAAGACTTGGATTAGCTGAAGTGGAGCAGATT
* *
22111843 AAAGCTGTGGGCAGCGAGTCCTATCTCTTTGGCATTG
131 AAAGCTGTGGGCAGCGAATCCTATCTCTTTGGCATTA
* * *
22111880 TAATTAAAAAGATTGAAGCCACAATGGCGGGTCTTATTTTCCTGGCAT-TGCAGCGGAGCAGATT
1 CAATGAAAAAGATTGAAGCCACAATGGCGGATCTTATTTTCCTGGCATCT-CAGCGGAGCAGATT
* * * *
22111944 GAAGCCACGACGGCGTATCTTATCTCCCTGGCGTTAAGGCTTGGATTAGTTGAAGTGGAGCGGAT
65 GAAGCCACGACGGCGAATCTTATCTCCCTGGCGTTAAGACTTGGATTAGCTGAAGTGGAGCAGAT
*
22112009 TGAAGCTGTGGGCAGCGAATCCTATCTCTTTGGCATTA
130 TAAAGCTGTGGGCAGCGAATCCTATCTCTTTGGCATTA
* * ** * *
22112047 CAGTGGAACGGATTGAAGCCACAACGGCGAATCTT
1 CAATGAAAAAGATTGAAGCCACAATGGCGGATCTT
22112082 GCTTCCCTGG
Statistics
Matches: 177, Mismatches: 24, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
166 1 0.01
167 176 0.99
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.26
Consensus pattern (167 bp):
CAATGAAAAAGATTGAAGCCACAATGGCGGATCTTATTTTCCTGGCATCTCAGCGGAGCAGATTG
AAGCCACGACGGCGAATCTTATCTCCCTGGCGTTAAGACTTGGATTAGCTGAAGTGGAGCAGATT
AAAGCTGTGGGCAGCGAATCCTATCTCTTTGGCATTA
Found at i:22112102 original size:50 final size:50
Alignment explanation
Indices: 22112047--22112364 Score: 195
Period size: 50 Copynumber: 6.4 Consensus size: 50
22112037 TTTGGCATTA
* *
22112047 CAGTGGAACGGATTGAAGCCACAACGGCGAATCTTGCTTCCCTGGCAGTA
1 CAGTGGAACAGATTGAAGCCACAACGGCGAATCTTGCTTCCCTGGCAGTG
* * * * * * * * * ** *
22112097 TAGTGGAACAGATTAAAGCTACGACGACGGATCTGGTTTCCTTAACATTG
1 CAGTGGAACAGATTGAAGCCACAACGGCGAATCTTGCTTCCCTGGCAGTG
* ** * * * * *
22112147 CAATAAAAAAGATTGAAGCCACAATGGCGGATCTTACTTCCCTGGCGGTG
1 CAGTGGAACAGATTGAAGCCACAACGGCGAATCTTGCTTCCCTGGCAGTG
* * * * * * * ** *
22112197 TAGTGGAGCAGATTGAAGCCACGACGGCGGATCTGGTTTCCATGATATTG
1 CAGTGGAACAGATTGAAGCCACAACGGCGAATCTTGCTTCCCTGGCAGTG
* ** * * * *
22112247 CAATTTAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCTTGGCGGTG
1 CAGTGGAACAGATTGAAGCCACAACGGCGAATCTTGCTTCCCTGGCAGTG
* * * ** * * *
22112297 TAGTGGAATAGATTGAAGTCACGGCGGCGAATCTTGTTTCCCTGACACTG
1 CAGTGGAACAGATTGAAGCCACAACGGCGAATCTTGCTTCCCTGGCAGTG
**
22112347 CAGTTAAACAGATTGAAG
1 CAGTGGAACAGATTGAAG
22112365 TAAATAATCA
Statistics
Matches: 186, Mismatches: 82, Indels: 0
0.69 0.31 0.00
Matches are distributed among these distances:
50 186 1.00
ACGTcount: A:0.29, C:0.20, G:0.26, T:0.25
Consensus pattern (50 bp):
CAGTGGAACAGATTGAAGCCACAACGGCGAATCTTGCTTCCCTGGCAGTG
Found at i:22112191 original size:100 final size:100
Alignment explanation
Indices: 22112057--22112364 Score: 364
Period size: 100 Copynumber: 3.1 Consensus size: 100
22112047 CAGTGGAACG
* * * *
22112057 GATTGAAGCCACAACGGCGAATCTTGCTTCCCTGGCAGTATAGTGGAACAGATTAAAGCTACGAC
1 GATTGAAGCCACAACGGCGAATCTTACTTCCCTGGCGGTGTAGTGGAACAGATTAAAGCCACGAC
*
22112122 GACGGATCTGGTTTCCTTAACATTGCAATAAAAAA
66 GACGGATCTGGTTTCCATAACATTGCAATAAAAAA
* * * *
22112157 GATTGAAGCCACAATGGCGGATCTTACTTCCCTGGCGGTGTAGTGGAGCAGATTGAAGCCACGAC
1 GATTGAAGCCACAACGGCGAATCTTACTTCCCTGGCGGTGTAGTGGAACAGATTAAAGCCACGAC
* * * **
22112222 GGCGGATCTGGTTTCCATGATATTGCAATTTAAAA
66 GACGGATCTGGTTTCCATAACATTGCAATAAAAAA
* * * * *
22112257 GATTGAAGCCACAACGGCGAATCTTACTTCCTTGGCGGTGTAGTGGAATAGATTGAAGTCACGGC
1 GATTGAAGCCACAACGGCGAATCTTACTTCCCTGGCGGTGTAGTGGAACAGATTAAAGCCACGAC
* * * * * * * * *
22112322 GGCGAATCTTGTTTCCCTGACACTGCAGTTAAACA
66 GACGGATCTGGTTTCCATAACATTGCAATAAAAAA
22112357 GATTGAAG
1 GATTGAAG
22112365 TAAATAATCA
Statistics
Matches: 179, Mismatches: 29, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
100 179 1.00
ACGTcount: A:0.29, C:0.20, G:0.26, T:0.25
Consensus pattern (100 bp):
GATTGAAGCCACAACGGCGAATCTTACTTCCCTGGCGGTGTAGTGGAACAGATTAAAGCCACGAC
GACGGATCTGGTTTCCATAACATTGCAATAAAAAA
Found at i:22117006 original size:20 final size:19
Alignment explanation
Indices: 22116960--22117008 Score: 54
Period size: 14 Copynumber: 2.8 Consensus size: 19
22116950 TATTTATTTC
22116960 TTAAAATTATAAAAATAAA
1 TTAAAATTATAAAAATAAA
22116979 TT----TT-TAAAAATATAA
1 TTAAAATTATAAAAATA-AA
22116994 TTAAAATTATAAAAA
1 TTAAAATTATAAAAA
22117009 AGTTTTGAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 11
0.69 0.00 0.31
Matches are distributed among these distances:
14 8 0.33
15 6 0.25
19 4 0.17
20 6 0.25
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (19 bp):
TTAAAATTATAAAAATAAA
Found at i:22125176 original size:15 final size:16
Alignment explanation
Indices: 22125151--22125180 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
22125141 TTAGATTAGT
22125151 TTTTATTTAAAAATAA
1 TTTTATTTAAAAATAA
22125167 TTTT-TTTAAAAATA
1 TTTTATTTAAAAATA
22125181 TAATACACTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
TTTTATTTAAAAATAA
Found at i:22132105 original size:14 final size:13
Alignment explanation
Indices: 22132083--22132207 Score: 65
Period size: 13 Copynumber: 10.1 Consensus size: 13
22132073 AAGTGTTTTC
*
22132083 TTTCTTCAAGTGTT
1 TTTCATCAAGT-TT
22132097 TTTCATCAAGTTCT
1 TTTCATCAAGTT-T
22132111 TTT-ATCAAGTTT
1 TTTCATCAAGTTT
22132123 TTT--T-AAG--T
1 TTTCATCAAGTTT
*
22132131 TTGCATCAAGTTCT
1 TTTCATCAAGTT-T
*
22132145 TTT--T-AAG-CT
1 TTTCATCAAGTTT
*
22132154 TTTCATCAAGTCT
1 TTTCATCAAGTTT
*
22132167 TTTCATAAAG-TT
1 TTTCATCAAGTTT
*
22132179 TTCCATCAAGTTT
1 TTTCATCAAGTTT
*
22132192 TTAATCATTAAGTTT
1 TT--TCATCAAGTTT
22132207 T
1 T
22132208 CAATCAAGCT
Statistics
Matches: 87, Mismatches: 10, Indels: 27
0.70 0.08 0.22
Matches are distributed among these distances:
8 3 0.03
9 4 0.05
10 4 0.05
11 8 0.09
12 17 0.20
13 24 0.28
14 17 0.20
15 10 0.11
ACGTcount: A:0.24, C:0.14, G:0.10, T:0.52
Consensus pattern (13 bp):
TTTCATCAAGTTT
Found at i:22132150 original size:22 final size:23
Alignment explanation
Indices: 22132114--22132169 Score: 82
Period size: 22 Copynumber: 2.6 Consensus size: 23
22132104 AAGTTCTTTT
22132114 ATCAAGTT-TTTTTAAG-TTTGC
1 ATCAAGTTCTTTTTAAGCTTTGC
*
22132135 ATCAAGTTCTTTTTAAGCTTTTC
1 ATCAAGTTCTTTTTAAGCTTTGC
22132158 ATCAAG-TCTTTT
1 ATCAAGTTCTTTT
22132170 CATAAAGTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
21 8 0.25
22 14 0.44
23 10 0.31
ACGTcount: A:0.23, C:0.14, G:0.11, T:0.52
Consensus pattern (23 bp):
ATCAAGTTCTTTTTAAGCTTTGC
Found at i:22132170 original size:13 final size:12
Alignment explanation
Indices: 22132094--22132198 Score: 76
Period size: 12 Copynumber: 8.9 Consensus size: 12
22132084 TTCTTCAAGT
22132094 GTTTTTCATCAA
1 GTTTTTCATCAA
*
22132106 GTTCTTTTATCAA
1 GTT-TTTCATCAA
*
22132119 GTTTTT--TTAA
1 GTTTTTCATCAA
*
22132129 G-TTTGCATCAA
1 GTTTTTCATCAA
*
22132140 GTTCTTT--TTAA
1 GTT-TTTCATCAA
*
22132151 GCTTTTCATCAA
1 GTTTTTCATCAA
*
22132163 GTCTTTTCATAAA
1 GT-TTTTCATCAA
*
22132176 GTTTTCCATCAA
1 GTTTTTCATCAA
*
22132188 GTTTTTAATCA
1 GTTTTTCATCA
22132199 TTAAGTTTTC
Statistics
Matches: 71, Mismatches: 14, Indels: 16
0.70 0.14 0.16
Matches are distributed among these distances:
9 3 0.04
10 7 0.10
11 9 0.13
12 28 0.39
13 24 0.34
ACGTcount: A:0.25, C:0.15, G:0.10, T:0.50
Consensus pattern (12 bp):
GTTTTTCATCAA
Found at i:22132205 original size:27 final size:25
Alignment explanation
Indices: 22132147--22132219 Score: 78
Period size: 27 Copynumber: 2.9 Consensus size: 25
22132137 CAAGTTCTTT
22132147 TTAAGCTTTT-CATCAAGTCTTTTCA
1 TTAAG-TTTTCCATCAAGTCTTTTCA
* *
22132172 TAAAGTTTTCCATCAAGTTTTTAATCA
1 TTAAGTTTTCCATCAAGTCTTT--TCA
*
22132199 TTAAGTTTTCAATCAAG-CTTT
1 TTAAGTTTTCCATCAAGTCTTT
22132220 CATCTCTTGA
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
24 4 0.10
25 15 0.38
26 3 0.08
27 18 0.45
ACGTcount: A:0.29, C:0.16, G:0.08, T:0.47
Consensus pattern (25 bp):
TTAAGTTTTCCATCAAGTCTTTTCA
Found at i:22132588 original size:14 final size:13
Alignment explanation
Indices: 22132566--22132690 Score: 65
Period size: 13 Copynumber: 10.1 Consensus size: 13
22132556 AAGTGTTTTC
*
22132566 TTTCTTCAAGTGTT
1 TTTCATCAAGT-TT
22132580 TTTCATCAAGTTCT
1 TTTCATCAAGTT-T
22132594 TTT-ATCAAGTTT
1 TTTCATCAAGTTT
22132606 TTT--T-AAG--T
1 TTTCATCAAGTTT
*
22132614 TTGCATCAAGTTCT
1 TTTCATCAAGTT-T
*
22132628 TTT--T-AAG-CT
1 TTTCATCAAGTTT
*
22132637 TTTCATCAAGTCT
1 TTTCATCAAGTTT
*
22132650 TTTCATAAAG-TT
1 TTTCATCAAGTTT
*
22132662 TTCCATCAAGTTT
1 TTTCATCAAGTTT
*
22132675 TTAATCATTAAGTTT
1 TT--TCATCAAGTTT
22132690 T
1 T
22132691 CAATCAAGCT
Statistics
Matches: 87, Mismatches: 10, Indels: 27
0.70 0.08 0.22
Matches are distributed among these distances:
8 3 0.03
9 4 0.05
10 4 0.05
11 8 0.09
12 17 0.20
13 24 0.28
14 17 0.20
15 10 0.11
ACGTcount: A:0.24, C:0.14, G:0.10, T:0.52
Consensus pattern (13 bp):
TTTCATCAAGTTT
Found at i:22132633 original size:22 final size:23
Alignment explanation
Indices: 22132597--22132652 Score: 82
Period size: 22 Copynumber: 2.6 Consensus size: 23
22132587 AAGTTCTTTT
22132597 ATCAAGTT-TTTTTAAG-TTTGC
1 ATCAAGTTCTTTTTAAGCTTTGC
*
22132618 ATCAAGTTCTTTTTAAGCTTTTC
1 ATCAAGTTCTTTTTAAGCTTTGC
22132641 ATCAAG-TCTTTT
1 ATCAAGTTCTTTT
22132653 CATAAAGTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
21 8 0.25
22 14 0.44
23 10 0.31
ACGTcount: A:0.23, C:0.14, G:0.11, T:0.52
Consensus pattern (23 bp):
ATCAAGTTCTTTTTAAGCTTTGC
Found at i:22132653 original size:13 final size:12
Alignment explanation
Indices: 22132577--22132681 Score: 76
Period size: 12 Copynumber: 8.9 Consensus size: 12
22132567 TTCTTCAAGT
22132577 GTTTTTCATCAA
1 GTTTTTCATCAA
*
22132589 GTTCTTTTATCAA
1 GTT-TTTCATCAA
*
22132602 GTTTTT--TTAA
1 GTTTTTCATCAA
*
22132612 G-TTTGCATCAA
1 GTTTTTCATCAA
*
22132623 GTTCTTT--TTAA
1 GTT-TTTCATCAA
*
22132634 GCTTTTCATCAA
1 GTTTTTCATCAA
*
22132646 GTCTTTTCATAAA
1 GT-TTTTCATCAA
*
22132659 GTTTTCCATCAA
1 GTTTTTCATCAA
*
22132671 GTTTTTAATCA
1 GTTTTTCATCA
22132682 TTAAGTTTTC
Statistics
Matches: 71, Mismatches: 14, Indels: 16
0.70 0.14 0.16
Matches are distributed among these distances:
9 3 0.04
10 7 0.10
11 9 0.13
12 28 0.39
13 24 0.34
ACGTcount: A:0.25, C:0.15, G:0.10, T:0.50
Consensus pattern (12 bp):
GTTTTTCATCAA
Found at i:22132678 original size:483 final size:484
Alignment explanation
Indices: 22131761--22132727 Score: 1927
Period size: 483 Copynumber: 2.0 Consensus size: 484
22131751 TGCACCACTG
22131761 ATTTTTCCATGTTTATGTTAAATTTTATACAGGGATGCAATTTGAGGCTAAATAGAAGAAAAAGG
1 ATTTTTCCATGTTTATGTTAAATTTTATACAGGGATGCAATTTGAGGCTAAATAGAAGAAAAAGG
22131826 AAATAATTGGGCTAGATTGAAGAAAGAAGCAAAGAAGGAGGGCCAAAGCAGAATTTTTCCAAGAT
66 AAATAATTGGGCTAGATTGAAGAAAGAAGCAAAGAAGGAGGGCCAAAGCAGAATTTTTCCAAGAT
22131891 ATAATTAGCTGAAATTTTTGTTGACTTAGTGGGAGATTATGTAGGGATTTTTAATATTTTATTTA
131 ATAATTAGCTGAAATTTTTGTTGACTTAGTGGGAGATTATGTAGGGATTTTTAATATTTTATTTA
22131956 CTTGATTTTCTATGATTAGTGACTCTTAATTTAGCAAGGCTACTAGTATAAATATGGGGCTACAT
196 CTTGATTTTCTATGATTAGTGACTCTTAATTTAGCAAGGCTACTAGTATAAATATGGGGCTACAT
22132021 TGTTCATTTATTCATCAATTCATGAATCAAGCATTCAGTTAAGTCATTCATTAAGTGTTTTCTTT
261 TGTTCATTTATTCATCAATTCATGAATCAAGCATTCAGTTAAGTCATTCATTAAGTGTTTTCTTT
22132086 CTTCAAGTGTTTTTCATCAAGTTCTTTTATCAAGTTTTTTTAAGTTTGCATCAAGTTCTTTTTAA
326 CTTCAAGTGTTTTTCATCAAGTTCTTTTATCAAGTTTTTTTAAGTTTGCATCAAGTTCTTTTTAA
22132151 GCTTTTCATCAAGTCTTTTCATAAAGTTTTCCATCAAGTTTTTAATCATTAAGTTTTCAATCAAG
391 GCTTTTCATCAAGTCTTTTCATAAAGTTTTCCATCAAGTTTTTAATCATTAAGTTTTCAATCAAG
22132216 CTTTCATCTCTTGAATTCAATCTTTTCTT
456 CTTTCATCTCTTGAATTCAATCTTTTCTT
22132245 ATTTTTCCAT-TTTATGTTAAATTTTATACAGGGATGCAATTTGAGGCTAAATAGAAGAAAAAGG
1 ATTTTTCCATGTTTATGTTAAATTTTATACAGGGATGCAATTTGAGGCTAAATAGAAGAAAAAGG
22132309 AAATAATTGGGCTAGATTGAAGAAAGAAGCAAAGAAGGAGGGCCAAAGCAGAATTTTTCCAAGAT
66 AAATAATTGGGCTAGATTGAAGAAAGAAGCAAAGAAGGAGGGCCAAAGCAGAATTTTTCCAAGAT
22132374 ATAATTAGCTGAAATTTTTGTTGACTTAGTGGGAGATTATGTAGGGATTTTTAATATTTTATTTA
131 ATAATTAGCTGAAATTTTTGTTGACTTAGTGGGAGATTATGTAGGGATTTTTAATATTTTATTTA
22132439 CTTGATTTTCTATGATTAGTGACTCTTAATTTAGCAAGGCTACTAGTATAAATATGGGGCTACAT
196 CTTGATTTTCTATGATTAGTGACTCTTAATTTAGCAAGGCTACTAGTATAAATATGGGGCTACAT
22132504 TGTTCATTTATTCATCAATTCATGAATCAAGCATTCAGTTAAGTCATTCATTAAGTGTTTTCTTT
261 TGTTCATTTATTCATCAATTCATGAATCAAGCATTCAGTTAAGTCATTCATTAAGTGTTTTCTTT
22132569 CTTCAAGTGTTTTTCATCAAGTTCTTTTATCAAGTTTTTTTAAGTTTGCATCAAGTTCTTTTTAA
326 CTTCAAGTGTTTTTCATCAAGTTCTTTTATCAAGTTTTTTTAAGTTTGCATCAAGTTCTTTTTAA
22132634 GCTTTTCATCAAGTCTTTTCATAAAGTTTTCCATCAAGTTTTTAATCATTAAGTTTTCAATCAAG
391 GCTTTTCATCAAGTCTTTTCATAAAGTTTTCCATCAAGTTTTTAATCATTAAGTTTTCAATCAAG
22132699 CTTTCATCTCTTGAATTCAATCTTTTCTT
456 CTTTCATCTCTTGAATTCAATCTTTTCTT
22132728 TCCTTTTTGC
Statistics
Matches: 483, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
483 473 0.98
484 10 0.02
ACGTcount: A:0.31, C:0.12, G:0.16, T:0.41
Consensus pattern (484 bp):
ATTTTTCCATGTTTATGTTAAATTTTATACAGGGATGCAATTTGAGGCTAAATAGAAGAAAAAGG
AAATAATTGGGCTAGATTGAAGAAAGAAGCAAAGAAGGAGGGCCAAAGCAGAATTTTTCCAAGAT
ATAATTAGCTGAAATTTTTGTTGACTTAGTGGGAGATTATGTAGGGATTTTTAATATTTTATTTA
CTTGATTTTCTATGATTAGTGACTCTTAATTTAGCAAGGCTACTAGTATAAATATGGGGCTACAT
TGTTCATTTATTCATCAATTCATGAATCAAGCATTCAGTTAAGTCATTCATTAAGTGTTTTCTTT
CTTCAAGTGTTTTTCATCAAGTTCTTTTATCAAGTTTTTTTAAGTTTGCATCAAGTTCTTTTTAA
GCTTTTCATCAAGTCTTTTCATAAAGTTTTCCATCAAGTTTTTAATCATTAAGTTTTCAATCAAG
CTTTCATCTCTTGAATTCAATCTTTTCTT
Found at i:22132688 original size:27 final size:25
Alignment explanation
Indices: 22132630--22132702 Score: 78
Period size: 27 Copynumber: 2.9 Consensus size: 25
22132620 CAAGTTCTTT
22132630 TTAAGCTTTT-CATCAAGTCTTTTCA
1 TTAAG-TTTTCCATCAAGTCTTTTCA
* *
22132655 TAAAGTTTTCCATCAAGTTTTTAATCA
1 TTAAGTTTTCCATCAAGTCTTT--TCA
*
22132682 TTAAGTTTTCAATCAAG-CTTT
1 TTAAGTTTTCCATCAAGTCTTT
22132703 CATCTCTTGA
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
24 4 0.10
25 15 0.38
26 3 0.08
27 18 0.45
ACGTcount: A:0.29, C:0.16, G:0.08, T:0.47
Consensus pattern (25 bp):
TTAAGTTTTCCATCAAGTCTTTTCA
Found at i:22139533 original size:7 final size:7
Alignment explanation
Indices: 22139523--22139551 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
22139513 TAATTTTTCC
22139523 TTATTAT
1 TTATTAT
22139530 TTATT-T
1 TTATTAT
22139536 TTATTAT
1 TTATTAT
22139543 TTATTAT
1 TTATTAT
22139550 TT
1 TT
22139552 TACAGGGAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
6 6 0.29
7 15 0.71
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (7 bp):
TTATTAT
Found at i:22139829 original size:22 final size:20
Alignment explanation
Indices: 22139804--22139856 Score: 70
Period size: 22 Copynumber: 2.5 Consensus size: 20
22139794 ACCCATCAAC
22139804 CTTTCACCTATCAAATCCTAA
1 CTTTCACCTATCAAATCC-AA
*
22139825 TCTTTCACCTATCACATCCAA
1 -CTTTCACCTATCAAATCCAA
22139846 CTTTTCACCTA
1 C-TTTCACCTA
22139857 GAAAACTACA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
20 1 0.03
21 11 0.38
22 17 0.59
ACGTcount: A:0.28, C:0.36, G:0.00, T:0.36
Consensus pattern (20 bp):
CTTTCACCTATCAAATCCAA
Found at i:22143004 original size:23 final size:23
Alignment explanation
Indices: 22142952--22143013 Score: 76
Period size: 22 Copynumber: 2.8 Consensus size: 23
22142942 TCATCAACTT
* *
22142952 CTTTT-ATCAAATTTTTTTTAAG
1 CTTTTCATCAAGTTCTTTTTAAG
*
22142974 -TTTGCATCAAGTTCTTTTTAAG
1 CTTTTCATCAAGTTCTTTTTAAG
22142996 CTTTTCATCAAG-TCTTTT
1 CTTTTCATCAAGTTCTTTT
22143014 CATAAAGTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
21 3 0.09
22 21 0.62
23 10 0.29
ACGTcount: A:0.23, C:0.15, G:0.08, T:0.55
Consensus pattern (23 bp):
CTTTTCATCAAGTTCTTTTTAAG
Found at i:22143042 original size:12 final size:12
Alignment explanation
Indices: 22142937--22143042 Score: 58
Period size: 12 Copynumber: 8.9 Consensus size: 12
22142927 TTCTTCAAGT
22142937 GTTTTTCATCAA
1 GTTTTTCATCAA
* *
22142949 CTTCTTTTATCAA
1 GTT-TTTCATCAA
* * *
22142962 ATTTTT-TTTAA
1 GTTTTTCATCAA
*
22142973 G-TTTGCATCAA
1 GTTTTTCATCAA
*
22142984 GTTCTTT--TTAA
1 GTT-TTTCATCAA
*
22142995 GCTTTTCATCAA
1 GTTTTTCATCAA
*
22143007 GTCTTTTCATAAA
1 GT-TTTTCATCAA
*
22143020 GTTTTCCATCAA
1 GTTTTTCATCAA
*
22143032 GTTTTTAATCA
1 GTTTTTCATCA
22143043 TTAAGTTTTC
Statistics
Matches: 68, Mismatches: 19, Indels: 14
0.67 0.19 0.14
Matches are distributed among these distances:
10 6 0.09
11 12 0.18
12 27 0.40
13 23 0.34
ACGTcount: A:0.25, C:0.16, G:0.08, T:0.51
Consensus pattern (12 bp):
GTTTTTCATCAA
Found at i:22143049 original size:27 final size:25
Alignment explanation
Indices: 22142991--22143063 Score: 78
Period size: 27 Copynumber: 2.9 Consensus size: 25
22142981 CAAGTTCTTT
22142991 TTAAGCTTTT-CATCAAGTCTTTTCA
1 TTAAG-TTTTCCATCAAGTCTTTTCA
* *
22143016 TAAAGTTTTCCATCAAGTTTTTAATCA
1 TTAAGTTTTCCATCAAGTCTTT--TCA
*
22143043 TTAAGTTTTCAATCAAG-CTTT
1 TTAAGTTTTCCATCAAGTCTTT
22143064 CATCTCTTGA
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
24 4 0.10
25 15 0.38
26 3 0.08
27 18 0.45
ACGTcount: A:0.29, C:0.16, G:0.08, T:0.47
Consensus pattern (25 bp):
TTAAGTTTTCCATCAAGTCTTTTCA
Found at i:22150226 original size:20 final size:20
Alignment explanation
Indices: 22150201--22150242 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
22150191 AGCAATAGCT
22150201 ACCAATGGCATAAAAGAGCC
1 ACCAATGGCATAAAAGAGCC
*
22150221 ACCAATGGCATGAAAGAGCC
1 ACCAATGGCATAAAAGAGCC
22150241 AC
1 AC
22150243 AGACAAATCA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.43, C:0.26, G:0.21, T:0.10
Consensus pattern (20 bp):
ACCAATGGCATAAAAGAGCC
Found at i:22153246 original size:16 final size:16
Alignment explanation
Indices: 22153225--22153264 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
22153215 CGTGCGTCTC
22153225 TTCTTTCTCCCTTTCT
1 TTCTTTCTCCCTTTCT
**
22153241 TTCTTTCTCTTTTTCT
1 TTCTTTCTCCCTTTCT
22153257 TTCTTTCT
1 TTCTTTCT
22153265 AATTTGTACG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (16 bp):
TTCTTTCTCCCTTTCT
Found at i:22163766 original size:339 final size:339
Alignment explanation
Indices: 22163166--22163788 Score: 1246
Period size: 339 Copynumber: 1.8 Consensus size: 339
22163156 CATTTATGTT
22163166 TAAAATGTAATCTGAGATAAACAAAAGTGACTATTTTTGTAGTTTACCCTAAAAATTATAATCAC
1 TAAAATGTAATCTGAGATAAACAAAAGTGACTATTTTTGTAGTTTACCCTAAAAATTATAATCAC
22163231 TAAAAAAAGGGAAAATAAATGGACACGTCTCATCTATTGACTTAATCAAGATTTGATTTGGTAAG
66 TAAAAAAAGGGAAAATAAATGGACACGTCTCATCTATTGACTTAATCAAGATTTGATTTGGTAAG
22163296 AAGAAATTCAAATTGGATTAGATGATGGTTGAGTTAAATATGTGGTAAATCCATGTCTTTGAGGA
131 AAGAAATTCAAATTGGATTAGATGATGGTTGAGTTAAATATGTGGTAAATCCATGTCTTTGAGGA
22163361 AAAGATTTAACTTTATCTCTTGAATTGAGTTTTTTAATTATTATTAAAAAGATTTAAATTTTAAA
196 AAAGATTTAACTTTATCTCTTGAATTGAGTTTTTTAATTATTATTAAAAAGATTTAAATTTTAAA
22163426 AATTGGGCTTATGTTGTACTTAGATCAAATAAAATGATATCGTAAGTGACTAAAATGTAACATTT
261 AATTGGGCTTATGTTGTACTTAGATCAAATAAAATGATATCGTAAGTGACTAAAATGTAACATTT
22163491 TAAACATAAGTGAC
326 TAAACATAAGTGAC
22163505 TAAAATGTAATCTGAGATAAACAAAAGTGACTATTTTTGTAGTTTACCCTAAAAATTATAATCAC
1 TAAAATGTAATCTGAGATAAACAAAAGTGACTATTTTTGTAGTTTACCCTAAAAATTATAATCAC
22163570 TAAAAAAAGGGAAAATAAATGGACACGTCTCATCTATTGACTTAATCAAGATTTGATTTGGTAAG
66 TAAAAAAAGGGAAAATAAATGGACACGTCTCATCTATTGACTTAATCAAGATTTGATTTGGTAAG
22163635 AAGAAATTCAAATTGGATTAGATGATGGTTGAGTTAAATATGTGGTAAATCCATGTCTTTGAGGA
131 AAGAAATTCAAATTGGATTAGATGATGGTTGAGTTAAATATGTGGTAAATCCATGTCTTTGAGGA
22163700 AAAGATTTAACTTTATCTCTTGAATTGAGTTTTTTAATTATTATTAAAAAGATTTAAATTTTAAA
196 AAAGATTTAACTTTATCTCTTGAATTGAGTTTTTTAATTATTATTAAAAAGATTTAAATTTTAAA
22163765 AATTGGGCTTATGTTGTACTTAGA
261 AATTGGGCTTATGTTGTACTTAGA
22163789 AATGAGTCTA
Statistics
Matches: 284, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
339 284 1.00
ACGTcount: A:0.39, C:0.09, G:0.16, T:0.36
Consensus pattern (339 bp):
TAAAATGTAATCTGAGATAAACAAAAGTGACTATTTTTGTAGTTTACCCTAAAAATTATAATCAC
TAAAAAAAGGGAAAATAAATGGACACGTCTCATCTATTGACTTAATCAAGATTTGATTTGGTAAG
AAGAAATTCAAATTGGATTAGATGATGGTTGAGTTAAATATGTGGTAAATCCATGTCTTTGAGGA
AAAGATTTAACTTTATCTCTTGAATTGAGTTTTTTAATTATTATTAAAAAGATTTAAATTTTAAA
AATTGGGCTTATGTTGTACTTAGATCAAATAAAATGATATCGTAAGTGACTAAAATGTAACATTT
TAAACATAAGTGAC
Found at i:22164494 original size:56 final size:56
Alignment explanation
Indices: 22164387--22164503 Score: 152
Period size: 56 Copynumber: 2.1 Consensus size: 56
22164377 TTATTTGAAT
* * *
22164387 ACTTAAACTTTCAAAATATATCAAAAAAAAGTCCTCAAATCTTTTCAAAAAAAGCA
1 ACTTAAACTTTCAAAATACATCAAAAAAAAGCCCTCAAATCTTTTCAAAAAAAACA
22164443 ACTTAAACTTTCAAAATACATC-AAAAAAA-CCCTCAAA-CTTTTTCAAGAAAAAAACA
1 ACTTAAACTTTCAAAATACATCAAAAAAAAGCCCTCAAATC-TTTTC-A-AAAAAAACA
22164499 A-TTAA
1 ACTTAA
22164504 GCCTTGCTTT
Statistics
Matches: 55, Mismatches: 3, Indels: 7
0.85 0.05 0.11
Matches are distributed among these distances:
53 1 0.02
54 12 0.22
55 12 0.22
56 30 0.55
ACGTcount: A:0.53, C:0.19, G:0.03, T:0.26
Consensus pattern (56 bp):
ACTTAAACTTTCAAAATACATCAAAAAAAAGCCCTCAAATCTTTTCAAAAAAAACA
Found at i:22164632 original size:39 final size:37
Alignment explanation
Indices: 22164573--22164651 Score: 90
Period size: 37 Copynumber: 2.1 Consensus size: 37
22164563 AAATTTTAAT
* *
22164573 AAAAAAATTTAAATATTAAAAAATTATTAAAA-AC-TAG
1 AAAAAAATATAAAAATTAAAAAA-TA-TAAAATACATAG
22164610 AAAAAAATATAAAAATCCTAAAAAATATAAAATACATAG
1 AAAAAAATATAAAAAT--TAAAAAATATAAAATACATAG
22164649 AAA
1 AAA
22164652 TATAAAAATT
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
37 19 0.53
38 4 0.11
39 13 0.36
ACGTcount: A:0.68, C:0.05, G:0.03, T:0.24
Consensus pattern (37 bp):
AAAAAAATATAAAAATTAAAAAATATAAAATACATAG
Found at i:22164659 original size:18 final size:16
Alignment explanation
Indices: 22164613--22164660 Score: 51
Period size: 18 Copynumber: 2.8 Consensus size: 16
22164603 AAACTAGAAA
*
22164613 AAAATATAAAAATCCT
1 AAAATATAAAAATCAT
*
22164629 AAAAAATATAAAATACAT
1 AAAATATA-AAAAT-CAT
22164647 AGAAATATAAAAAT
1 A-AAATATAAAAAT
22164661 TTTATAAAGC
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
16 7 0.27
17 5 0.19
18 8 0.31
19 6 0.23
ACGTcount: A:0.69, C:0.06, G:0.02, T:0.23
Consensus pattern (16 bp):
AAAATATAAAAATCAT
Found at i:22165041 original size:88 final size:89
Alignment explanation
Indices: 22164946--22165112 Score: 214
Period size: 89 Copynumber: 1.9 Consensus size: 89
22164936 AGCGGGGGCT
* *
22164946 TAATTGTTTTTTTGAA-AAATTTGAGGA-TCCATTTTATGCATTTT-AAAAGTTCAAGTATCCAA
1 TAATTGTTTTTTT-AAGAAATCTAAGGACTCCATTTTATGCATTTTGAAAA-TTCAAGTATCCAA
22165008 TTGAATGAAAAAAAAAAGCAGTGACA
64 TTGAATGAAAAAAAAAAGCAGTGACA
* *** * *
22165034 TAATTGTTTTTTTAAGAAGTCTAAGGACTTTTTTTTATGTATTTTGAAAATTCAAGTATTCAATT
1 TAATTGTTTTTTTAAGAAATCTAAGGACTCCATTTTATGCATTTTGAAAATTCAAGTATCCAATT
*
22165099 GAGTGAAAAAAAAA
66 GAATGAAAAAAAAA
22165113 GACAGTTTTT
Statistics
Matches: 67, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
87 2 0.03
88 21 0.31
89 40 0.60
90 4 0.06
ACGTcount: A:0.40, C:0.07, G:0.14, T:0.39
Consensus pattern (89 bp):
TAATTGTTTTTTTAAGAAATCTAAGGACTCCATTTTATGCATTTTGAAAATTCAAGTATCCAATT
GAATGAAAAAAAAAAGCAGTGACA
Found at i:22193287 original size:132 final size:132
Alignment explanation
Indices: 22193134--22193381 Score: 383
Period size: 132 Copynumber: 1.9 Consensus size: 132
22193124 CATCAGTCTA
* * * * * *
22193134 CTCCACTACTGCTTAGGGAGATAAGATCTGCTATTCTTCGATCGATTCCACTGTTGACCAGGGAG
1 CTCCACTAATGCCTAGGGAGATAAGATCTG-AAATCTTCAATCGATTCCACTGCTGACCAGGGAG
*
22193199 ATAGAATTAC-GGCTTCAATGTACTCCACTGTAACCAC-AGGGAGGTAAAATCTGCCATCTTCGA
65 ATAGAATTACTGGCTTCAATGTACTCCACTATAACCACGA-GGAGGTAAAATCTGCCATCTTCGA
22193262 TCAG
129 TCAG
* *
22193266 CTCCACTAATGCCTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAGA
1 CTCCACTAATGCCTAGGGAGATAAGATCTGAAATCTTCAATCGATTCCACTGCTGACCAGGGAGA
22193331 TAGAATTACTGGCTTCAATGTACTCCACTATAACCACGAGGAGGTAAAATC
66 TAGAATTACTGGCTTCAATGTACTCCACTATAACCACGAGGAGGTAAAATC
22193382 CACCATCCTT
Statistics
Matches: 105, Mismatches: 9, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
131 38 0.36
132 66 0.63
133 1 0.01
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.26
Consensus pattern (132 bp):
CTCCACTAATGCCTAGGGAGATAAGATCTGAAATCTTCAATCGATTCCACTGCTGACCAGGGAGA
TAGAATTACTGGCTTCAATGTACTCCACTATAACCACGAGGAGGTAAAATCTGCCATCTTCGATC
AG
Found at i:22193617 original size:89 final size:89
Alignment explanation
Indices: 22193406--22193869 Score: 646
Period size: 89 Copynumber: 5.2 Consensus size: 89
22193396 TACTCAACTG
* * * *
22193406 CCCAAGGAGACAAGGCTGGTCTCTTCGATCTACTTCTCTGTCAGTACAGGAAGGCAAGATCTGCT
1 CCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCTCTGTCAGTACAGGAAGGCAAGATCTGCT
* * ** * * * **
22193471 ATTTTTAACCTACTCCACTAC-TG
66 ATATTCAGTCTGCTCCGCTGCAAA
* * * * *
22193494 CCCAGGGAGACAAGGCTGGTATCTTCGATATGCTTCTCTGTCAGTACAGGAAGGCAAGATCTTCC
1 CCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCTCTGTCAGTACAGGAAGGCAAGATCTGCT
*
22193559 ATATTCAGTCTCCTCCGCTGCAAA
66 ATATTCAGTCTGCTCCGCTGCAAA
*
22193583 CCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGT-TGTCAGTACAAGAAGGCAAGATCTGC
1 CCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTC-TCTGTCAGTACAGGAAGGCAAGATCTGC
22193647 TATATTCAGTCTGCTCCGCTGC-AA
65 TATATTCAGTCTGCTCCGCTGCAAA
* * *
22193671 CCCAGGGAGGCAAGGCTAGTGTCTTTGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCT
1 CCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCTCTGTCAGTACAGGAAGGCAAGATCTGCT
*
22193736 ATATTCAATCTGCTCCGCTGCAAA
66 ATATTCAGTCTGCTCCGCTGCAAA
* * *
22193760 CCTAGGGAGGCAAGGCTGGTGTCTTTGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCT
1 CCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCTCTGTCAGTACAGGAAGGCAAGATCTGCT
*
22193825 ATATTCAGTCTGCTCCGCTACAAA
66 ATATTCAGTCTGCTCCGCTGCAAA
22193849 CCCAGGGAGGCAAGGCTGGTG
1 CCCAGGGAGGCAAGGCTGGTG
22193870 GTTTCGCCGA
Statistics
Matches: 340, Mismatches: 32, Indels: 7
0.90 0.08 0.02
Matches are distributed among these distances:
88 155 0.46
89 184 0.54
90 1 0.00
ACGTcount: A:0.23, C:0.25, G:0.25, T:0.26
Consensus pattern (89 bp):
CCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCTCTGTCAGTACAGGAAGGCAAGATCTGCT
ATATTCAGTCTGCTCCGCTGCAAA
Found at i:22193628 original size:177 final size:177
Alignment explanation
Indices: 22193406--22193865 Score: 607
Period size: 177 Copynumber: 2.6 Consensus size: 177
22193396 TACTCAACTG
* * * *
22193406 CCCAAGGAGACAAGGCTGGTCTCTTCGATCTACTTC-TCTGTCAGTACAGGAAGGCAAGATCTGC
1 CCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGT-TGTCAGTACAGGAAGGCAAGATCTGC
* * ** * *
22193470 TATTTTTAACCTACTCCACTACTGCCCAGGGAGACAAGGCTGGTATCTTCGATATGCTTCTCTGT
65 TATATTCAACCTACTCCACTACAACCCAGGGAGACAAGGCTAGTATCTTCGATATGCTTCGCTGT
* *
22193535 CAGTACAGGAAGGCAAGATCTTCCATATTCAGTCTCCTCCGCTGCAAA
130 CAGTACAGGAAGGCAAGATCTGCCATATTCAATCTCCTCCGCTGCAAA
*
22193583 CCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGTTGTCAGTACAAGAAGGCAAGATCTGCT
1 CCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGTTGTCAGTACAGGAAGGCAAGATCTGCT
** * * * * * * *
22193648 ATATTCAGTCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTAGTGTCTTTGATCTGCTTCGCTGTC
66 ATATTCAACCTACTCCACTACAACCCAGGGAGACAAGGCTAGTATCTTCGATATGCTTCGCTGTC
* *
22193713 AGTACAGGAAGGCAAGATCTGCTATATTCAATCTGCTCCGCTGCAAA
131 AGTACAGGAAGGCAAGATCTGCCATATTCAATCTCCTCCGCTGCAAA
* * *
22193760 CCTAGGGAGGCAAGGCTGGTGTCTTTGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCT
1 CCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGTTGTCAGTACAGGAAGGCAAGATCTGCT
** * * *
22193825 ATATTCAGTCTGCTCCGCTACAAACCCAGGGAGGCAAGGCT
66 ATATTCAACCTACTCCACTAC-AACCCAGGGAGACAAGGCT
22193866 GGTGGTTTCG
Statistics
Matches: 252, Mismatches: 29, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
177 232 0.92
178 20 0.08
ACGTcount: A:0.23, C:0.26, G:0.25, T:0.26
Consensus pattern (177 bp):
CCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGTTGTCAGTACAGGAAGGCAAGATCTGCT
ATATTCAACCTACTCCACTACAACCCAGGGAGACAAGGCTAGTATCTTCGATATGCTTCGCTGTC
AGTACAGGAAGGCAAGATCTGCCATATTCAATCTCCTCCGCTGCAAA
Found at i:22195487 original size:1 final size:1
Alignment explanation
Indices: 22195481--22195601 Score: 62
Period size: 1 Copynumber: 121.0 Consensus size: 1
22195471 TCGGTAGAGG
* * * * * * * * * * * * *
22195481 TTTTTTTGTTTCTTTTTGTTTTTTTGTTCTTTTGTTCTTTTTTGTTCTCTTTTTTGTTTTTTCTC
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* * * * * * *
22195546 TTTTTTTGTTTTTTTTGTTTTTTTTTTGTTTTTTGTTTTTGTCTTTGTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
22195602 AATTGAATCT
Statistics
Matches: 80, Mismatches: 40, Indels: 0
0.67 0.33 0.00
Matches are distributed among these distances:
1 80 1.00
ACGTcount: A:0.00, C:0.07, G:0.10, T:0.83
Consensus pattern (1 bp):
T
Done.