Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr10
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: 95480121
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.31
Warning! 2980117 characters in sequence are not A, C, G, or T
File 147 of 284
Found at i:49250645 original size:82 final size:81
Alignment explanation
Indices: 49250532--49250687 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
49250522 AAATTGTACA
* *
49250532 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
49250596 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
49250613 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
49250678 TGCGAGTTGA
65 TGCGAATTGA
49250688 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:49250699 original size:82 final size:81
Alignment explanation
Indices: 49250528--49250707 Score: 227
Period size: 82 Copynumber: 2.2 Consensus size: 81
49250518 GATTAAATTG
* *
49250528 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
49250593 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
49250609 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
49250673 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
49250691 TATAGCACTGAGTGTGC
1 TACAGCACTAAGTGTGC
49250708 AGACTCAATA
Statistics
Matches: 83, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.22
82 65 0.78
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:49254222 original size:40 final size:40
Alignment explanation
Indices: 49254167--49254246 Score: 151
Period size: 40 Copynumber: 2.0 Consensus size: 40
49254157 TATAGAGAAA
*
49254167 GGCTTTCCTGCCTCCTTCTCTTTGACTAACCGTAGGGGGT
1 GGCTTTCCTGCCTCCTTCTCTTTGACTAACCATAGGGGGT
49254207 GGCTTTCCTGCCTCCTTCTCTTTGACTAACCATAGGGGGT
1 GGCTTTCCTGCCTCCTTCTCTTTGACTAACCATAGGGGGT
49254247 CTACTATCAG
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.11, C:0.30, G:0.24, T:0.35
Consensus pattern (40 bp):
GGCTTTCCTGCCTCCTTCTCTTTGACTAACCATAGGGGGT
Found at i:49269311 original size:47 final size:47
Alignment explanation
Indices: 49269237--49269390 Score: 272
Period size: 47 Copynumber: 3.3 Consensus size: 47
49269227 TCCTTCGGGA
*
49269237 CTTATCACATATATACACTTTCCCATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
** *
49269284 CTTATCACATATATACACTTTCACATTCATCACATTTGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
49269331 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
49269378 CTTATCACATATA
1 CTTATCACATATA
49269391 CATATCTTGT
Statistics
Matches: 100, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 100 1.00
ACGTcount: A:0.29, C:0.30, G:0.07, T:0.34
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:49270194 original size:26 final size:26
Alignment explanation
Indices: 49270143--49270196 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 26
49270133 ACTCTTCTGA
* *
49270143 CATATCCTTTTAGCACTTCATAATAT
1 CATATCCATTTAGCACATCATAATAT
*
49270169 CATATCCATTTAGCAACAT-ATCATAT
1 CATATCCATTTAGC-ACATCATAATAT
49270195 CA
1 CA
49270197 ATAACTTACC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 21 0.88
27 3 0.12
ACGTcount: A:0.35, C:0.24, G:0.04, T:0.37
Consensus pattern (26 bp):
CATATCCATTTAGCACATCATAATAT
Found at i:49271260 original size:13 final size:13
Alignment explanation
Indices: 49271242--49271266 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
49271232 TACTAAATTT
49271242 TCATGGATTCAAA
1 TCATGGATTCAAA
49271255 TCATGGATTCAA
1 TCATGGATTCAA
49271267 TATACCATTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TCATGGATTCAAA
Found at i:49272132 original size:22 final size:22
Alignment explanation
Indices: 49272107--49272148 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
49272097 TGATGGATGC
*
49272107 GTATTGAGTTA-TAATATGTAAT
1 GTATT-AGTTAGTAAAATGTAAT
49272129 GTATTAGTTAGTAAAATGTA
1 GTATTAGTTAGTAAAATGTA
49272149 TGCCATTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.38, C:0.00, G:0.19, T:0.43
Consensus pattern (22 bp):
GTATTAGTTAGTAAAATGTAAT
Found at i:49273618 original size:47 final size:47
Alignment explanation
Indices: 49273564--49273710 Score: 186
Period size: 47 Copynumber: 3.1 Consensus size: 47
49273554 TTAGGATTTT
** * *
49273564 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
49273611 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * * *
49273658 ATGAGGTGAATATGAACATGCATATATGTGGTAAAGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
49273705 ATGTGA
1 ATGTGA
49273711 AATATGTATG
Statistics
Matches: 84, Mismatches: 16, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
47 84 1.00
ACGTcount: A:0.33, C:0.10, G:0.30, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:49273738 original size:48 final size:48
Alignment explanation
Indices: 49273681--49273818 Score: 206
Period size: 52 Copynumber: 2.8 Consensus size: 48
49273671 GAACATGCAT
49273681 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGC
1 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGC
*
49273729 ATATGTGGTAAAGCCGAATGG-TCAATGTGAAATATATGTATATGAGATATGT
1 ATATGTGGTAAAGCCGAATGGCT-AATGTG-AA-ATATG--TATGAGATATGC
*
49273781 ATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTA
1 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTA
49273819 GGCGATGTGC
Statistics
Matches: 82, Mismatches: 2, Indels: 12
0.85 0.02 0.12
Matches are distributed among these distances:
47 1 0.01
48 29 0.35
49 2 0.02
50 10 0.12
51 2 0.02
52 37 0.45
53 1 0.01
ACGTcount: A:0.36, C:0.07, G:0.27, T:0.30
Consensus pattern (48 bp):
ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGC
Found at i:49274072 original size:37 final size:37
Alignment explanation
Indices: 49273968--49274072 Score: 165
Period size: 37 Copynumber: 2.8 Consensus size: 37
49273958 ATATATTCTG
* * *
49273968 GGTAAGACCCGATGACTACGTGTAGAGATTATGTCCG
1 GGTAAGACCCGATGACTACGTGTGGAGATTTTGTCCA
49274005 GGTAAGACCCGATGACTACGTGTGGAGATTTTGTCCA
1 GGTAAGACCCGATGACTACGTGTGGAGATTTTGTCCA
* *
49274042 GGTAAGACCCGATAACTTCGTGTGGAGATTT
1 GGTAAGACCCGATGACTACGTGTGGAGATTT
49274073 CGTCTGAGCT
Statistics
Matches: 63, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 63 1.00
ACGTcount: A:0.26, C:0.18, G:0.30, T:0.27
Consensus pattern (37 bp):
GGTAAGACCCGATGACTACGTGTGGAGATTTTGTCCA
Found at i:49275534 original size:42 final size:42
Alignment explanation
Indices: 49275426--49275534 Score: 148
Period size: 43 Copynumber: 2.6 Consensus size: 42
49275416 TATACCAATA
* *
49275426 CCATATCCCAGATATGGTCTTACATGAGATCTCATATCGATG
1 CCATATCCTAGATATGGTCTTACATGAAATCTCATATCGATG
* *
49275468 CCAATAGCCTAGCTATGGTCTTACATGAAATCTCATA-CTGATG
1 CC-ATATCCTAGATATGGTCTTACATGAAATCTCATATC-GATG
*
49275511 TCATATCCTAGATATGGTCTTACA
1 CCATATCCTAGATATGGTCTTACA
49275535 CGTAAACTCT
Statistics
Matches: 58, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
42 23 0.40
43 35 0.60
ACGTcount: A:0.29, C:0.23, G:0.16, T:0.32
Consensus pattern (42 bp):
CCATATCCTAGATATGGTCTTACATGAAATCTCATATCGATG
Found at i:49280915 original size:23 final size:20
Alignment explanation
Indices: 49280889--49280936 Score: 53
Period size: 19 Copynumber: 2.3 Consensus size: 20
49280879 CCTTCTGCAG
49280889 TGAATGTCTGCTCAAATATGCTT
1 TGAATGTC--CTC-AATATGCTT
*
49280912 TGAA-GTCCTCCATATGCTT
1 TGAATGTCCTCAATATGCTT
49280931 TGAATG
1 TGAATG
49280937 AACAATTAGT
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
19 12 0.52
20 4 0.17
22 3 0.13
23 4 0.17
ACGTcount: A:0.25, C:0.19, G:0.19, T:0.38
Consensus pattern (20 bp):
TGAATGTCCTCAATATGCTT
Found at i:49282731 original size:14 final size:15
Alignment explanation
Indices: 49282710--49282757 Score: 62
Period size: 15 Copynumber: 3.3 Consensus size: 15
49282700 CCCATTGTCG
49282710 AAAATTTTAAATTTC
1 AAAATTTTAAATTTC
* * *
49282725 -TAATTTTCAATATC
1 AAAATTTTAAATTTC
49282739 AAAATTTTAAATTTC
1 AAAATTTTAAATTTC
49282754 AAAA
1 AAAA
49282758 CATAAAAGTC
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
14 11 0.42
15 15 0.58
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (15 bp):
AAAATTTTAAATTTC
Found at i:49284541 original size:3 final size:3
Alignment explanation
Indices: 49284530--49285037 Score: 231
Period size: 3 Copynumber: 168.7 Consensus size: 3
49284520 AAAAATGATG
* * * *
49284530 ATA AGA ATA ATA ATA ATA A-A ATAA AGA ATA ATTA A-A ATG ATA CCAGA
1 ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA A-TA ATA ATA ATA --ATA
*
49284577 ATA ATGA A-A ATA ATA CCTTA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA AT-A ATA ATA ATA --ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * *
49284624 ATA GAGA ATA ACA ATA CATTG ATA ATA ATA TATG TTA ATA ACA ATA ATA
1 ATA -ATA ATA ATA ATA -A-TA ATA ATA ATA -ATA ATA ATA ATA ATA ATA
* * *
49284673 ATA AT- ATGCA AAA ATA ATA ATA ATA ATA AT- ATA GTA AAA ATA ATA
1 ATA ATA AT--A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * * *
49284718 ATA AT- ATG TTA ATA AGA ATA ATA GTA GTA GTA ATA ATA ATA ATA CATT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA
* ** * * * * *
49284766 A-A ATT ACG ATA GTA A-A TTA ATA ATA ATA GTG ACA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * *
49284812 ATA AT- ATA TTA A-A ACTA ATA ATA ATA GTA ATA GTG ATA ATA ATA
1 ATA ATA ATA ATA ATA A-TA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * *
49284856 ATA ATA A-A ATA ATA ATA ATA GT- ATG TTAA ATA ATA ATA GTA A-A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA
* * * * * *
49284899 A-A GATA GTA GTA ATA ATA ATT ATA AAA ATG ATA ATGA A-C ATA A-A
1 ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA
* * * * * * * * *
49284943 ATG ATA ATA ATA CTA ATG TTA ATA GTA ATA AAA AAA ATA AGA ATA GTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * *
49284991 ATA ATA GTA ATA GTA ATA ATA ATA A-A TATA ATA ATA ATT ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA
49285036 AT
1 AT
49285038 GTGATAAAAC
Statistics
Matches: 371, Mismatches: 99, Indels: 70
0.69 0.18 0.13
Matches are distributed among these distances:
2 28 0.08
3 315 0.85
4 22 0.06
5 6 0.02
ACGTcount: A:0.59, C:0.03, G:0.07, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:49284579 original size:20 final size:20
Alignment explanation
Indices: 49284554--49284611 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 20
49284544 AATAAAATAA
* *
49284554 AGAATAATTAAAATGATACC
1 AGAATAATGAAAATAATACC
49284574 AGAATAATGAAAATAATACC
1 AGAATAATGAAAATAATACC
**
49284594 TTAATAAT-AATAATAATA
1 AGAATAATGAA-AATAATA
49284612 ATAATAATAA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
19 2 0.06
20 31 0.94
ACGTcount: A:0.59, C:0.07, G:0.07, T:0.28
Consensus pattern (20 bp):
AGAATAATGAAAATAATACC
Found at i:49284831 original size:44 final size:38
Alignment explanation
Indices: 49284595--49285037 Score: 224
Period size: 38 Copynumber: 11.4 Consensus size: 38
49284585 AATAATACCT
*
49284595 TAATAATAATAATAATAATAATAATAATAATAGAGAATAA
1 TAATAATAGTAATAATAATAATAATAATAATA-A-AATAA
* * **
49284635 CAATACAT--TGATAATAAT-AT-ATGTTAATAACAATAA
1 TAATA-ATAGTAATAATAATAATAATAATAATAA-AATAA
* * * *
49284671 TAATAATATGCAAAAATAATAATAATAATAATATAGTAA
1 TAATAATA-GTAATAATAATAATAATAATAATAAAATAA
* * ** * * * *
49284710 AAATAATAATAAT-ATGTTAATAAGAATAATAGTAGTAG
1 TAATAATAGTAATAATAATAATAATAATAATA-AAATAA
* * * ** * *
49284748 TAATAATAATAATACATTA-AATTACGATAGTAAATTAA
1 TAATAATAGTAATA-ATAATAATAATAATAATAAAATAA
49284786 TAATAATAGTGACAATAATAATAATAATAATATATTAAAACTAA
1 TAATAATAGT---AATAATAATAATAATAATA-A-TAAAA-TAA
* *
49284830 TAATAATAGTAATAGTGATAATAATAATAATAAAATAA
1 TAATAATAGTAATAATAATAATAATAATAATAAAATAA
** * *
49284868 TAATAATAGT-ATGTTAAATAATAATAGTAA-AAAGATAG
1 TAATAATAGTAATAAT-AATAATAATAATAATAAA-ATAA
* * * * * *
49284906 TAGTAATAATAATTATAAAAATGATAATGAACATAAAATGA
1 TAATAATAGTAATAATAATAATAATAAT--A-ATAAAATAA
* ** *
49284947 TAATAATACTAATGTTAATAGTAATAA-AA-AAAATAA
1 TAATAATAGTAATAATAATAATAATAATAATAAAATAA
* * * * *
49284983 GAATAGTAATAATAGTAATAGTAATAATAATAAATATAA
1 TAATAATAGTAATAATAATAATAATAATAATAAA-ATAA
49285022 TAATAATTA-TAATAAT
1 TAATAA-TAGTAATAAT
49285038 GTGATAAAAC
Statistics
Matches: 306, Mismatches: 70, Indels: 55
0.71 0.16 0.13
Matches are distributed among these distances:
35 2 0.01
36 38 0.12
37 31 0.10
38 89 0.29
39 53 0.17
40 20 0.07
41 53 0.17
42 3 0.01
43 4 0.01
44 13 0.04
ACGTcount: A:0.58, C:0.02, G:0.07, T:0.32
Consensus pattern (38 bp):
TAATAATAGTAATAATAATAATAATAATAATAAAATAA
Found at i:49284905 original size:29 final size:27
Alignment explanation
Indices: 49284827--49284931 Score: 74
Period size: 26 Copynumber: 3.9 Consensus size: 27
49284817 ATATTAAAAC
* * * *
49284827 TAATAATAA-TAGTAATAGTGATAATAA
1 TAATAATAATTA-TAAAAATGATAGTAG
* * *
49284854 TAATAATAA-AATAATAATAATAGTATG
1 TAATAATAATTATAAAAATGATAGTA-G
49284881 TTAAATAATAA-TAGTAAAAA-GATAGTAG
1 -T-AATAATAATTA-TAAAAATGATAGTAG
49284909 TAATAATAATTATAAAAATGATA
1 TAATAATAATTATAAAAATGATA
49284932 ATGAACATAA
Statistics
Matches: 64, Mismatches: 8, Indels: 12
0.76 0.10 0.14
Matches are distributed among these distances:
26 25 0.39
27 17 0.27
28 2 0.03
29 15 0.23
30 5 0.08
ACGTcount: A:0.58, C:0.00, G:0.10, T:0.32
Consensus pattern (27 bp):
TAATAATAATTATAAAAATGATAGTAG
Found at i:49285637 original size:7 final size:7
Alignment explanation
Indices: 49285625--49285649 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
49285615 AAAAGTGACT
49285625 TTTTTTC
1 TTTTTTC
49285632 TTTTTTC
1 TTTTTTC
49285639 TTTTTTC
1 TTTTTTC
49285646 TTTT
1 TTTT
49285650 CTTTGGTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTTTC
Found at i:49285802 original size:18 final size:17
Alignment explanation
Indices: 49285775--49285808 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
49285765 TATTTTGGTT
49285775 TCCTGATTTGGGCTATTC
1 TCCTGATTTGGG-TATTC
*
49285793 TCCTGCTTTGGGTATT
1 TCCTGATTTGGGTATT
49285809 ACTAGAATCT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.09, C:0.21, G:0.24, T:0.47
Consensus pattern (17 bp):
TCCTGATTTGGGTATTC
Found at i:49286093 original size:14 final size:15
Alignment explanation
Indices: 49286066--49286094 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
49286056 ACACCTAGGG
49286066 TTTTCTTTTGTTGTT
1 TTTTCTTTTGTTGTT
49286081 TTTTCTTTT-TTGTT
1 TTTTCTTTTGTTGTT
49286095 AGTTGGGCTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 5 0.36
15 9 0.64
ACGTcount: A:0.00, C:0.07, G:0.10, T:0.83
Consensus pattern (15 bp):
TTTTCTTTTGTTGTT
Found at i:49299898 original size:40 final size:40
Alignment explanation
Indices: 49299843--49300152 Score: 521
Period size: 40 Copynumber: 7.8 Consensus size: 40
49299833 GCATGAGCAA
49299843 TTGATATATCCGGGCTAAAACCCGAAGGCATTTGTGCGAG
1 TTGATATATCCGGGCTAAAACCCGAAGGCATTTGTGCGAG
49299883 TTGATATATCCGGGCTAAAACCCGAAGGCATTTGTGCGAG
1 TTGATATATCCGGGCTAAAACCCGAAGGCATTTGTGCGAG
*
49299923 TTGATATATCCGGGCTAAAACCCGAAGGCATTTGTGCGAA
1 TTGATATATCCGGGCTAAAACCCGAAGGCATTTGTGCGAG
49299963 TTGATATATCCGGGCTAAAACCCGAAGGCATTTGTGCGAG
1 TTGATATATCCGGGCTAAAACCCGAAGGCATTTGTGCGAG
*
49300003 TTGATATATCCGGGCTAAAACCCGAAGGCATTTGTGCAAG
1 TTGATATATCCGGGCTAAAACCCGAAGGCATTTGTGCGAG
* * *
49300043 TTGATATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAG
1 TTGATATATCCGGGCTAAAACCCGAAGGCATTTGTGCGAG
* *
49300083 TTGATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAG
1 TTGATATATCCGGGCTAAAACCCGAAGGCATTTGTGCGAG
* * * *
49300123 TTGCTATACCCGGGTTAAGACCCGAAGGCA
1 TTGATATATCCGGGCTAAAACCCGAAGGCA
49300153 ATTGAGCTTG
Statistics
Matches: 259, Mismatches: 11, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 259 1.00
ACGTcount: A:0.28, C:0.21, G:0.27, T:0.24
Consensus pattern (40 bp):
TTGATATATCCGGGCTAAAACCCGAAGGCATTTGTGCGAG
Found at i:49317486 original size:19 final size:19
Alignment explanation
Indices: 49317462--49317501 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
49317452 GTGTTTTATG
49317462 ATAGAATATGAGGTTTTAA
1 ATAGAATATGAGGTTTTAA
49317481 ATAGAATATGAGGTTTTAA
1 ATAGAATATGAGGTTTTAA
49317500 AT
1 AT
49317502 TATGTTAGAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.42, C:0.00, G:0.20, T:0.38
Consensus pattern (19 bp):
ATAGAATATGAGGTTTTAA
Found at i:49317858 original size:52 final size:52
Alignment explanation
Indices: 49317779--49317883 Score: 158
Period size: 52 Copynumber: 2.0 Consensus size: 52
49317769 TGAGTATTGA
* * * *
49317779 ATAAGCTAATTTTCTTTTATTATAGATCATGAAGAATATAATCCGGAGTTAG
1 ATAAGCTAAATTTCTTTTATTATAGATCAAGAAGAACAAAATCCGGAGTTAG
49317831 NATAAGCTAAATTT-TTTTATTATAGATCAAGAAGAACAAAATCCGGAGTTAG
1 -ATAAGCTAAATTTCTTTTATTATAGATCAAGAAGAACAAAATCCGGAGTTAG
49317883 A
1 A
49317884 CTGGTGAAAG
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
51 1 0.02
52 35 0.73
53 12 0.25
ACGTcount: A:0.40, C:0.10, G:0.15, T:0.34
Consensus pattern (52 bp):
ATAAGCTAAATTTCTTTTATTATAGATCAAGAAGAACAAAATCCGGAGTTAG
Found at i:49318313 original size:53 final size:53
Alignment explanation
Indices: 49318134--49318340 Score: 197
Period size: 53 Copynumber: 3.8 Consensus size: 53
49318124 ATTAGGGTTT
* * *
49318134 AAGGATACCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTC-CAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGG-CATTGGTAA-G-TTCATAAGGC
* * * * * *
49318189 AAGGA-ATCGTGTAAGCCCATGTCACGACATGGCATTGATAAGTTACAATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTT-C-ATAAGGC
* *
49318243 AAAGG-T-CTCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGGC
1 -AAGGATAC-CATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCATAAGGC
* * *
49318296 AAGGATACCATGTAAGACCATGTCAAGACATGGCAATGTTAAGTT
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTT
49318341 TCAAAAGGAT
Statistics
Matches: 122, Mismatches: 22, Indels: 18
0.75 0.14 0.11
Matches are distributed among these distances:
51 2 0.02
52 6 0.05
53 47 0.39
54 28 0.23
55 39 0.32
ACGTcount: A:0.34, C:0.18, G:0.26, T:0.22
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCATAAGGC
Found at i:49318339 original size:108 final size:108
Alignment explanation
Indices: 49318142--49318348 Score: 276
Period size: 108 Copynumber: 1.9 Consensus size: 108
49318132 TTAAGGATAC
* * *
49318142 CATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTCCAAGGCAAGGAATCGTGTAAGCCC
1 CATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTCCAAGGCAAGGAACCATGTAAGACC
* *
49318207 ATGTCACGACATGGCATTGATAAGTTACAATAAGGCAAAGGTCT
66 ATGTCAAGACATGGCAATGATAAGTTACAA-AAGGCAAAGGTCT
* * *
49318251 CATGTAAGACCATGCCAAGGCATGG-CATTGGTGA-G-TTCATAAGGCAAGGATACCATGTAAGA
1 CATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTC-CAAGGCAAGGA-ACCATGTAAGA
* *
49318313 CCATGTCAAGACATGGCAATGTTAAGTTTCAAAAGG
64 CCATGTCAAGACATGGCAATGATAAGTTACAAAAGG
49318349 ATACCACGTA
Statistics
Matches: 86, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
106 3 0.03
107 15 0.17
108 43 0.50
109 25 0.29
ACGTcount: A:0.34, C:0.18, G:0.26, T:0.22
Consensus pattern (108 bp):
CATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTCCAAGGCAAGGAACCATGTAAGACC
ATGTCAAGACATGGCAATGATAAGTTACAAAAGGCAAAGGTCT
Found at i:49320062 original size:13 final size:13
Alignment explanation
Indices: 49320039--49320071 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
49320029 AGACCTGCAC
49320039 CCCCTCATGTAGCT
1 CCCC-CATGTAGCT
49320053 CCCCCATGTAGCT
1 CCCCCATGTAGCT
49320066 CCCCCA
1 CCCCCA
49320072 ATCATAGGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 15 0.79
14 4 0.21
ACGTcount: A:0.15, C:0.52, G:0.12, T:0.21
Consensus pattern (13 bp):
CCCCCATGTAGCT
Found at i:49325639 original size:42 final size:42
Alignment explanation
Indices: 49325582--49325664 Score: 148
Period size: 42 Copynumber: 2.0 Consensus size: 42
49325572 GTTAATTTTG
**
49325582 TTAATTTCCTTCATGTGTATATTTATTTTATGAAATTATTCT
1 TTAATTTCCAGCATGTGTATATTTATTTTATGAAATTATTCT
49325624 TTAATTTCCAGCATGTGTATATTTATTTTATGAAATTATTC
1 TTAATTTCCAGCATGTGTATATTTATTTTATGAAATTATTC
49325665 AAAGAAGACT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.28, C:0.10, G:0.08, T:0.54
Consensus pattern (42 bp):
TTAATTTCCAGCATGTGTATATTTATTTTATGAAATTATTCT
Found at i:49325872 original size:55 final size:55
Alignment explanation
Indices: 49325772--49325875 Score: 140
Period size: 55 Copynumber: 1.9 Consensus size: 55
49325762 TTAAGGATAC
* * *
49325772 CATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAAT
1 CATGTAAGACCATGCCAAGACATGGCAATTGATAAGGTTTATAAGGCAAGGAAAT
*
49325827 CATGTAAGACCATGTCAAGACATGGC-ATTGATAA-GTTACTATAAGGCAA
1 CATGTAAGACCATGCCAAGACATGGCAATTGATAAGGTT--TATAAGGCAA
49325876 AGGTCAGGGG
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
53 3 0.07
54 7 0.16
55 33 0.77
ACGTcount: A:0.37, C:0.16, G:0.24, T:0.23
Consensus pattern (55 bp):
CATGTAAGACCATGCCAAGACATGGCAATTGATAAGGTTTATAAGGCAAGGAAAT
Found at i:49330058 original size:46 final size:45
Alignment explanation
Indices: 49329989--49330161 Score: 192
Period size: 46 Copynumber: 3.8 Consensus size: 45
49329979 GTAACCCGCC
*
49329989 CCTAAGTGAACTCGGACTCAACTCAACGAGCTCGAGCATTCGAAT
1 CCTAAGTGAACTCGGACTCAACTCAACGAGTTCGAGCATTCGAAT
*
49330034 CCGTAAGTGAACTCAGACTCAACTCAACGAGTTCGGATGCCTAGTT--ACAT
1 CC-TAAGTGAACTCGGACTCAACTCAACGAGTTC-GA-G-C-A-TTCGA-AT
* * *
49330084 -CTCA-TGAACTCGGACTCAACTCAACGAGTTCGAACATTCGCAT
1 CCTAAGTGAACTCGGACTCAACTCAACGAGTTCGAGCATTCGAAT
*
49330127 CTATAAGTGAACTCGGACTCAACTCAACGAGTTCG
1 C-CTAAGTGAACTCGGACTCAACTCAACGAGTTCG
49330162 GATGCTCAAC
Statistics
Matches: 108, Mismatches: 8, Indels: 23
0.78 0.06 0.17
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 1 0.01
45 4 0.04
46 59 0.55
47 28 0.26
48 3 0.03
49 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.31, C:0.28, G:0.19, T:0.23
Consensus pattern (45 bp):
CCTAAGTGAACTCGGACTCAACTCAACGAGTTCGAGCATTCGAAT
Found at i:49330154 original size:93 final size:93
Alignment explanation
Indices: 49329995--49330166 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
49329985 CGCCCCTAAG
* *
49329995 TGAACTCGGACTCAACTCAACGAGCTCGAGCATTCGAATCCGTAAGTGAACTCAGACTCAACTCA
1 TGAACTCGGACTCAACTCAACGAGCTCGAACATTCGAATCCATAAGTGAACTCAGACTCAACTCA
49330060 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
* * * *
49330088 TGAACTCGGACTCAACTCAACGAGTTCGAACATTCGCATCTATAAGTGAACTCGGACTCAACTCA
1 TGAACTCGGACTCAACTCAACGAGCTCGAACATTCGAATCCATAAGTGAACTCAGACTCAACTCA
49330153 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
49330167 TCAACCATCC
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (93 bp):
TGAACTCGGACTCAACTCAACGAGCTCGAACATTCGAATCCATAAGTGAACTCAGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:49335552 original size:40 final size:40
Alignment explanation
Indices: 49335507--49335731 Score: 263
Period size: 40 Copynumber: 5.6 Consensus size: 40
49335497 CTTGCACAAG
* * ** *
49335507 GCCTTCGGGTCTTAGCCCGGATGTGGTCATTAGCATAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCGCTAGCACAAAT
*
49335547 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCGCTAGCACAAAT
* *
49335587 GCCTTCGGGTTTTAGCCCGGATATAATCGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCGCTAGCACAAAT
* * *
49335627 GCCTTCGGGTCTTAGCCCGGATATAG-CAACTCGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTC-GCTAGCACAAAT
** * * * *
49335667 GCCTTCGAATCTTAGTCCGGTTATAGTCACCTAGCACAAAA
1 GCCTTCGGGTCTTAGCCCGGATATAGTC-GCTAGCACAAAT
*
49335708 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
49335732 CATTCGAATA
Statistics
Matches: 156, Mismatches: 27, Indels: 3
0.84 0.15 0.02
Matches are distributed among these distances:
39 1 0.01
40 126 0.81
41 29 0.19
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:49335602 original size:80 final size:80
Alignment explanation
Indices: 49335471--49335731 Score: 285
Period size: 80 Copynumber: 3.3 Consensus size: 80
49335461 CTCAAGAAAT
* * * * * * * *
49335471 CTTCGGCATTTAG-CCGGATATAACTACTTGCAC-AAGGCCTTCGGGTCTTAGCCCGGATGTGGT
1 CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
* *
49335534 CATTAGCATAAATGC
66 CACTAGCACAAATGC
* * *
49335549 CTTCGGGACTTAGCCCGGATATAGTC-GCTAGCACAAATGCCTTCGGGTTTTAGCCCGGATATAA
1 CTTCGGGACTTAGCCCGGATATAG-CAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAG
*
49335613 TCGCTAGCACAAATGC
65 TCACTAGCACAAATGC
* * * ** * *
49335629 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACGAATGCCTTCGAATCTTAGTCCGGTTATAGT
1 CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
*
49335694 CACCTAGCACAAAAGC
66 CA-CTAGCACAAATGC
49335710 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
49335732 CATTCGAATA
Statistics
Matches: 152, Mismatches: 26, Indels: 7
0.82 0.14 0.04
Matches are distributed among these distances:
78 11 0.07
79 16 0.11
80 92 0.61
81 33 0.22
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.26
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
CACTAGCACAAATGC
Found at i:49335642 original size:120 final size:121
Alignment explanation
Indices: 49335507--49335731 Score: 294
Period size: 120 Copynumber: 1.9 Consensus size: 121
49335497 CTTGCACAAG
* * * * *
49335507 GCCTTCGGGTCTTAGCCCGGATGTGGTC-ATTAGCATAAATGCCTTCGGGA-CTTAGCCCGGATA
1 GCCTTCGGGTCTTAGCCCGGATATAG-CAACTAGCACAAATGCCTTC-GAATCTTAGCCCGGATA
* * **
49335570 TAGTC-GCTAGCACAAATGCCTTCGGGTTTTAGCCCGGATATAATCGCTAGCACAAAT
64 TAGTCACCTAGCACAAAAGCCTTCGGGACTTAGCCCGGATATAATCGCTAGCACAAAT
* * * *
49335627 GCCTTCGGGTCTTAGCCCGGATATAGCAACTCGCACGAATGCCTTCGAATCTTAGTCCGGTTATA
1 GCCTTCGGGTCTTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGAATCTTAGCCCGGATATA
49335692 GTCACCTAGCACAAAAGCCTTCGGGACTTAGCCCGGATAT
66 GTCACCTAGCACAAAAGCCTTCGGGACTTAGCCCGGATAT
49335732 CATTCGAATA
Statistics
Matches: 89, Mismatches: 13, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
119 3 0.03
120 54 0.61
121 32 0.36
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.26
Consensus pattern (121 bp):
GCCTTCGGGTCTTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGAATCTTAGCCCGGATATA
GTCACCTAGCACAAAAGCCTTCGGGACTTAGCCCGGATATAATCGCTAGCACAAAT
Found at i:49343276 original size:51 final size:51
Alignment explanation
Indices: 49343204--49343337 Score: 169
Period size: 51 Copynumber: 2.6 Consensus size: 51
49343194 CCATCAAATC
* *
49343204 TCTAAGAATATAATATCATATCTTCTAAGATTCCATATCTTAGATAAGATA
1 TCTAAGATTATAATATCATATCTTCTAAGATTCCATATCATAGATAAGATA
* ** * * * ** *
49343255 TGTAATCTTATAAAATAATATCTTATAAGATTCCATATCATATCTAAGATC
1 TCTAAGATTATAATATCATATCTTCTAAGATTCCATATCATAGATAAGATA
49343306 TCTAAGATTATAATATCATATCTTCTAAGATT
1 TCTAAGATTATAATATCATATCTTCTAAGATT
49343338 NCACTGGCTT
Statistics
Matches: 66, Mismatches: 17, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
51 66 1.00
ACGTcount: A:0.40, C:0.13, G:0.07, T:0.40
Consensus pattern (51 bp):
TCTAAGATTATAATATCATATCTTCTAAGATTCCATATCATAGATAAGATA
Found at i:49348760 original size:180 final size:180
Alignment explanation
Indices: 49348457--49348807 Score: 639
Period size: 180 Copynumber: 1.9 Consensus size: 180
49348447 TGTAAAACAC
* *
49348457 TTTGGTGAGGTAAAAATAATTGAGCTTTAAAAGATGGTCGAAAACTATTTAAGAACTAAGTAATT
1 TTTGGTGAGGTAAAAATAATTGAGCTTTAAAAGATGGTCAAAAACTATTTAAGAACTAAGTAAAT
*
49348522 GATTAAAAATAAAACAATGAGTTCTAATGCACGATTTCAAATAAGATTTAACCAAGGTAACATAC
66 GATTAAAAATAAAACAAGGAGTTCTAATGCACGATTTCAAATAAGATTTAACCAAGGTAACATAC
49348587 TTGTGTTGGATTAATCATATTCCTTTAACTTAGAATTATTATATTCATGT
131 TTGTGTTGGATTAATCATATTCCTTTAACTTAGAATTATTATATTCATGT
* *
49348637 TTTGGTGAGGTAAAAATAATTTAGCTTTAAAAGATGGTCAAAAATTATTTAAGAACTAAGTAAAT
1 TTTGGTGAGGTAAAAATAATTGAGCTTTAAAAGATGGTCAAAAACTATTTAAGAACTAAGTAAAT
* *
49348702 GATTAAAAATAAAACAAGGAGTTCTAATGCACGATTTCAAATTAGATTTAATCAAGGTAACATAC
66 GATTAAAAATAAAACAAGGAGTTCTAATGCACGATTTCAAATAAGATTTAACCAAGGTAACATAC
49348767 TTGTGTTGGATTAATCATATTCCTTTAACTTAGAATTATTA
131 TTGTGTTGGATTAATCATATTCCTTTAACTTAGAATTATTA
49348808 AGTTAATGTT
Statistics
Matches: 164, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
180 164 1.00
ACGTcount: A:0.41, C:0.09, G:0.15, T:0.35
Consensus pattern (180 bp):
TTTGGTGAGGTAAAAATAATTGAGCTTTAAAAGATGGTCAAAAACTATTTAAGAACTAAGTAAAT
GATTAAAAATAAAACAAGGAGTTCTAATGCACGATTTCAAATAAGATTTAACCAAGGTAACATAC
TTGTGTTGGATTAATCATATTCCTTTAACTTAGAATTATTATATTCATGT
Found at i:49350583 original size:28 final size:28
Alignment explanation
Indices: 49350539--49350592 Score: 99
Period size: 28 Copynumber: 1.9 Consensus size: 28
49350529 AAGGAAGAAA
*
49350539 GTTTTATGCATGGTTGCATGGGCGTAAG
1 GTTTTATGCATGATTGCATGGGCGTAAG
49350567 GTTTTATGCATGATTGCATGGGCGTA
1 GTTTTATGCATGATTGCATGGGCGTA
49350593 GTGTATGCGC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.19, C:0.11, G:0.33, T:0.37
Consensus pattern (28 bp):
GTTTTATGCATGATTGCATGGGCGTAAG
Found at i:49352965 original size:9 final size:9
Alignment explanation
Indices: 49352938--49352973 Score: 54
Period size: 9 Copynumber: 3.9 Consensus size: 9
49352928 TAAGTCTAAT
49352938 ATGTGTTTAA
1 ATGTGTTT-A
*
49352948 ATGTTTTTA
1 ATGTGTTTA
49352957 ATGTGTTTA
1 ATGTGTTTA
49352966 ATGTGTTT
1 ATGTGTTT
49352974 TTAATGGGTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
9 17 0.71
10 7 0.29
ACGTcount: A:0.22, C:0.00, G:0.19, T:0.58
Consensus pattern (9 bp):
ATGTGTTTA
Found at i:49352974 original size:20 final size:19
Alignment explanation
Indices: 49352938--49352984 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
49352928 TAAGTCTAAT
49352938 ATGTGTTTAAATGTTTTTA
1 ATGTGTTTAAATGTTTTTA
*
49352957 ATGTGTTTAATGTGTTTTTA
1 ATGTGTTTAA-ATGTTTTTA
*
49352977 ATGGGTTT
1 ATGTGTTT
49352985 GTTTGTAGGT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 10 0.40
20 15 0.60
ACGTcount: A:0.21, C:0.00, G:0.21, T:0.57
Consensus pattern (19 bp):
ATGTGTTTAAATGTTTTTA
Found at i:49353909 original size:20 final size:20
Alignment explanation
Indices: 49353884--49353922 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
49353874 TTTTGCAACC
49353884 TTATTTTAAGCCTATTTATA
1 TTATTTTAAGCCTATTTATA
49353904 TTATTTTAAGCCTATTTAT
1 TTATTTTAAGCCTATTTAT
49353923 TTCTTCTCAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.28, C:0.10, G:0.05, T:0.56
Consensus pattern (20 bp):
TTATTTTAAGCCTATTTATA
Found at i:49354737 original size:24 final size:24
Alignment explanation
Indices: 49354709--49354759 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
49354699 GGGCTAGTCT
*
49354709 TTCATAATTTGACACAAAGACTTA
1 TTCATAATTTGACAAAAAGACTTA
* * *
49354733 TTCATAGTTTGCCAAAAAGGCTTA
1 TTCATAATTTGACAAAAAGACTTA
49354757 TTC
1 TTC
49354760 TTACATAGAT
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:0.35, C:0.18, G:0.12, T:0.35
Consensus pattern (24 bp):
TTCATAATTTGACAAAAAGACTTA
Found at i:49354779 original size:28 final size:28
Alignment explanation
Indices: 49354735--49354789 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 28
49354725 AAGACTTATT
49354735 CATAGTTTGCCAAAAAGGCTTATTCTTA
1 CATAGTTTGCCAAAAAGGCTTATTCTTA
*
49354763 CATAGATTT-CCACAAAGGCTTATTCTT
1 CATAG-TTTGCCAAAAAGGCTTATTCTT
49354790 TCATGGTTCG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
28 22 0.88
29 3 0.12
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.36
Consensus pattern (28 bp):
CATAGTTTGCCAAAAAGGCTTATTCTTA
Found at i:49360229 original size:145 final size:145
Alignment explanation
Indices: 49359966--49360254 Score: 569
Period size: 145 Copynumber: 2.0 Consensus size: 145
49359956 TTTTCCCTGA
49359966 ATCTAGACTCATATATCTATTTACTAATTTTTTTTAGAATTTTTTTATTGGGCCAATTAGTACAG
1 ATCTAGACTCATATATCTATTTACTAATTTTTTTTAGAATTTTTTTATTGGGCCAATTAGTACAG
49360031 TTTATTAATTAAAATATCCCCTATTTTAGGGTTCAACTGCTCTGACCTCTGTGTATTACGAATCA
66 TTTATTAATTAAAATATCCCCTATTTTAGGGTTCAACTGCTCTGACCTCTGTGTATTACGAATCA
49360096 GATATATCTCTATAC
131 GATATATCTCTATAC
49360111 ATCTAGACTCATATATCTATTTACTAATTTTTTTTAGAATTTTTTTATTGGGCCAATTAGTACAG
1 ATCTAGACTCATATATCTATTTACTAATTTTTTTTAGAATTTTTTTATTGGGCCAATTAGTACAG
49360176 TTTATTAATTAAAATATCCCCTATTTTAGGGTTCAACTGCTCTGACCTCTGTGTATTACGAATCA
66 TTTATTAATTAAAATATCCCCTATTTTAGGGTTCAACTGCTCTGACCTCTGTGTATTACGAATCA
*
49360241 GATATATCTTTATA
131 GATATATCTCTATA
49360255 AAAAATTTCA
Statistics
Matches: 143, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
145 143 1.00
ACGTcount: A:0.29, C:0.16, G:0.11, T:0.44
Consensus pattern (145 bp):
ATCTAGACTCATATATCTATTTACTAATTTTTTTTAGAATTTTTTTATTGGGCCAATTAGTACAG
TTTATTAATTAAAATATCCCCTATTTTAGGGTTCAACTGCTCTGACCTCTGTGTATTACGAATCA
GATATATCTCTATAC
Found at i:49360583 original size:152 final size:153
Alignment explanation
Indices: 49360307--49360610 Score: 560
Period size: 152 Copynumber: 2.0 Consensus size: 153
49360297 ACTCAATAAG
49360307 GAATCTGTACATATAAATAACAACTTCTAATTATTTTAATAAAATTTATTATGAATTTTTAAAGT
1 GAATCTGTACATATAAATAACAACTTCTAATTATTTTAATAAAATTTATTATGAATTTTTAAAGT
49360372 CAGAACAGGGGATCCAGAAATCACTCTGGCCCTGTTTCAGAAAAGTTAAAATATCTCATAAAATA
66 CAGAACAGGGGATCCAGAAATCACTCTGGCCCTGTTTCAGAAAAGTTAAAATATCTCATAAAATA
49360437 T-ATTTATATTCCTGTTTTGTTT
131 TAATTTATATTCCTGTTTTGTTT
*
49360459 GAATCTGTACATATAAATAACAACTTCTAATTATTTTAGTAAAATTTATTATGAATTTTTAAAGT
1 GAATCTGTACATATAAATAACAACTTCTAATTATTTTAATAAAATTTATTATGAATTTTTAAAGT
49360524 CAGAACAGGGGATCCAGAAATCACTCTGGCCCTGTTTC-GTAAAAGTGT-AAATATCTCATAAAA
66 CAGAACAGGGGATCCAGAAATCACTCTGGCCCTGTTTCAG-AAAAGT-TAAAATATCTCATAAAA
49360587 TATAATTTATATTCCTGTTTTGTT
129 TATAATTTATATTCCTGTTTTGTT
49360611 CAATCCATAT
Statistics
Matches: 148, Mismatches: 1, Indels: 5
0.96 0.01 0.03
Matches are distributed among these distances:
151 1 0.01
152 126 0.85
153 21 0.14
ACGTcount: A:0.37, C:0.13, G:0.12, T:0.38
Consensus pattern (153 bp):
GAATCTGTACATATAAATAACAACTTCTAATTATTTTAATAAAATTTATTATGAATTTTTAAAGT
CAGAACAGGGGATCCAGAAATCACTCTGGCCCTGTTTCAGAAAAGTTAAAATATCTCATAAAATA
TAATTTATATTCCTGTTTTGTTT
Found at i:49363085 original size:51 final size:51
Alignment explanation
Indices: 49363017--49363119 Score: 188
Period size: 51 Copynumber: 2.0 Consensus size: 51
49363007 AAACTCATTC
*
49363017 TTCCGGTCATTTATAAGTAATCCATGTACATTTGAAAATGAATCTCATTTT
1 TTCCGATCATTTATAAGTAATCCATGTACATTTGAAAATGAATCTCATTTT
*
49363068 TTCCGATCATTTCTAAGTAATCCATGTACATTTGAAAATGAATCTCATTTT
1 TTCCGATCATTTATAAGTAATCCATGTACATTTGAAAATGAATCTCATTTT
49363119 T
1 T
49363120 ATCATTTTCA
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 50 1.00
ACGTcount: A:0.31, C:0.17, G:0.11, T:0.42
Consensus pattern (51 bp):
TTCCGATCATTTATAAGTAATCCATGTACATTTGAAAATGAATCTCATTTT
Found at i:49365514 original size:47 final size:48
Alignment explanation
Indices: 49365457--49365722 Score: 185
Period size: 47 Copynumber: 5.6 Consensus size: 48
49365447 AGTACCAATA
**
49365457 TAAGACCATGTCTAAGACATGGCATCGGCATAGAGACGAGTGCTAGTG
1 TAAGACCATGTCTGGGACATGGCATCGGCATAGAGACGAGTGCTAGTG
* * * * *
49365505 TAAGA-CATGTCTGGGACAT-ACATCGGCCTCGACGATG-GTAGCCAGTG
1 TAAGACCATGTCTGGGACATGGCATCGGCATAGA-GACGAGT-GCTAGTG
* * *
49365552 TAAGA-CGTGTCTGGGACA-CGCATCGGC-TA-AGA-GTTGTGCTAGTG
1 TAAGACCATGTCTGGGACATGGCATCGGCATAGAGACG-AGTGCTAGTG
* * * * * *
49365596 TAAGA-CATGTGTGGGACAT-GCATCAGCACATATATACGAGAGCTAGTA
1 TAAGACCATGTCTGGGACATGGCATC-G-GCATAGAGACGAGTGCTAGTG
* ** * * * *
49365644 TAAGACCATGTCTAGGATGTGGCATCGGCCTCGATGATGA-TAGCCAGTG
1 TAAGACCATGTCTGGGACATGGCATCGGCATAGA-GACGAGT-GCTAGTG
49365693 TAAGACCATGTCTGGGACATGGCATCGGCA
1 TAAGACCATGTCTGGGACATGGCATCGGCA
49365723 ACTTATCCCA
Statistics
Matches: 168, Mismatches: 35, Indels: 29
0.72 0.15 0.12
Matches are distributed among these distances:
43 1 0.01
44 29 0.17
45 4 0.02
46 14 0.08
47 47 0.28
48 22 0.13
49 46 0.27
50 5 0.03
ACGTcount: A:0.28, C:0.20, G:0.30, T:0.23
Consensus pattern (48 bp):
TAAGACCATGTCTGGGACATGGCATCGGCATAGAGACGAGTGCTAGTG
Found at i:49365611 original size:44 final size:46
Alignment explanation
Indices: 49365402--49365721 Score: 168
Period size: 47 Copynumber: 6.8 Consensus size: 46
49365392 AATTTCTTGT
* * * * **
49365402 GTGCCAGTGTAATACATGTCTGGGACATGCATTGGCC-ACATTATG
1 GTGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTAGACGATG
* * * * ** * *
49365447 AGTACCAATATAAGACCATGTCTAAGACATGGCATCGGCATAGA-GACG
1 -GTGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTAGACGATG
* *
49365495 AGTGCTAGTGTAAGACATGTCTGGGACATACATCGGCCTCGACGATG
1 -GTGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTAGACGATG
* * * *
49365542 GTAGCCAGTGTAAGACGTGTCTGGGACACGCATCGG-CTA-A-GAGTT
1 GT-GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTAGACGA-TG
* * *
49365587 GTGCTAGTGTAAGACATGTGTGGGACATGCATCAGCACATATATACGA--
1 GTGCTAGTGTAAGACATGTCTGGGACATGCATCGGC-C---TAGACGATG
* * * ** * *
49365635 GAGCTAGTATAAGACCATGTCTAGGATGTGGCATCGGCCTCGATGATG
1 GTGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTAGACGATG
* *
49365683 ATAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC
1 GT-GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC
49365722 AACTTATCCC
Statistics
Matches: 207, Mismatches: 49, Indels: 33
0.72 0.17 0.11
Matches are distributed among these distances:
44 30 0.14
45 4 0.02
46 29 0.14
47 56 0.27
48 32 0.15
49 46 0.22
50 8 0.04
51 2 0.01
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (46 bp):
GTGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTAGACGATG
Found at i:49376987 original size:24 final size:24
Alignment explanation
Indices: 49376951--49376998 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
49376941 GAGATTGAGT
*
49376951 CAGATTTTTGTATTAGTACCGATG
1 CAGATTTTCGTATTAGTACCGATG
49376975 CAGATTTTCGTATTAGTACCGATG
1 CAGATTTTCGTATTAGTACCGATG
49376999 GTTGTATAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.25, C:0.15, G:0.21, T:0.40
Consensus pattern (24 bp):
CAGATTTTCGTATTAGTACCGATG
Found at i:49379619 original size:47 final size:46
Alignment explanation
Indices: 49379545--49379762 Score: 221
Period size: 47 Copynumber: 4.7 Consensus size: 46
49379535 GATTTCTTGT
**
49379545 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGA
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACAAGATGA
* **
49379591 GTGCCAGTATAAGACCATGTCTGGGACATGGCATCGG-CACAGAGACAA
1 GTGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCACA-AGATGA
* * *
49379639 GTGCCAGTGTAAGACATGTTTGGGACATGCATCGGCCTCGACGATGA
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCAC-AAGATGA
* * * *
49379686 -TAGCCAGTGTAAGACGTGTCTGGGACACGCATCGG-C-TAAGA-GTT
1 GT-GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACAAGATG-A
* *
49379730 GTGCTAGTGTAAGACATGTTTGGGACATGCATC
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATC
49379763 AGCATGTATA
Statistics
Matches: 143, Mismatches: 21, Indels: 18
0.79 0.12 0.10
Matches are distributed among these distances:
43 1 0.01
44 30 0.21
45 1 0.01
46 22 0.15
47 66 0.46
48 23 0.16
ACGTcount: A:0.26, C:0.21, G:0.30, T:0.23
Consensus pattern (46 bp):
GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACAAGATGA
Found at i:49379706 original size:94 final size:91
Alignment explanation
Indices: 49379545--49379762 Score: 271
Period size: 94 Copynumber: 2.4 Consensus size: 91
49379535 GATTTCTTGT
* **
49379545 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGTGCCAGTATAAGACCATG
1 GTGCCAGTGTAAGACATGTTTGGGACATGCATCGGCCACACGATGAGTGCCAGTATAAGACCATG
*
49379610 TCTGGGACATGGCATCGGC-ACAGAGACAA
66 TCTGGGACA-CGCATCGGCTA-AGAG--AA
* * *
49379639 GTGCCAGTGTAAGACATGTTTGGGACATGCATCGGCCTCGACGATGA-TAGCCAGTGTAAGA-CG
1 GTGCCAGTGTAAGACATGTTTGGGACATGCATCGGCCAC-ACGATGAGT-GCCAGTATAAGACCA
**
49379702 TGTCTGGGACACGCATCGGCTAAGAGTT
64 TGTCTGGGACACGCATCGGCTAAGAGAA
*
49379730 GTGCTAGTGTAAGACATGTTTGGGACATGCATC
1 GTGCCAGTGTAAGACATGTTTGGGACATGCATC
49379763 AGCATGTATA
Statistics
Matches: 111, Mismatches: 10, Indels: 9
0.85 0.08 0.07
Matches are distributed among these distances:
91 32 0.29
93 12 0.11
94 51 0.46
95 16 0.14
ACGTcount: A:0.26, C:0.21, G:0.30, T:0.23
Consensus pattern (91 bp):
GTGCCAGTGTAAGACATGTTTGGGACATGCATCGGCCACACGATGAGTGCCAGTATAAGACCATG
TCTGGGACACGCATCGGCTAAGAGAA
Found at i:49383439 original size:31 final size:32
Alignment explanation
Indices: 49383343--49383443 Score: 91
Period size: 32 Copynumber: 3.2 Consensus size: 32
49383333 TTTTGATTAA
** *
49383343 TTCAAGTACCAACTAGGT-TCTTTTTGGACAAG
1 TTCAAGTACCAACTAAATACCTTTTT-GACAAG
* * *
49383375 TTTAAGTACCAACTAAGTACCTTTTAT-ATAAG
1 TTCAAGTACCAACTAAATACCTTTT-TGACAAG
* *
49383407 TTCAGGTACCAATTAAATA-CTTTTTGACAAG
1 TTCAAGTACCAACTAAATACCTTTTTGACAAG
49383438 TTCAAG
1 TTCAAG
49383444 AGGTAAGCTA
Statistics
Matches: 56, Mismatches: 10, Indels: 7
0.77 0.14 0.10
Matches are distributed among these distances:
30 1 0.02
31 14 0.25
32 35 0.62
33 5 0.09
34 1 0.02
ACGTcount: A:0.34, C:0.17, G:0.14, T:0.36
Consensus pattern (32 bp):
TTCAAGTACCAACTAAATACCTTTTTGACAAG
Found at i:49383652 original size:15 final size:15
Alignment explanation
Indices: 49383632--49383663 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
49383622 TTAACAGTGT
49383632 TAATAATTAAACTTG
1 TAATAATTAAACTTG
49383647 TAATAATTAAACTTG
1 TAATAATTAAACTTG
49383662 TA
1 TA
49383664 TTTTAAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.47, C:0.06, G:0.06, T:0.41
Consensus pattern (15 bp):
TAATAATTAAACTTG
Found at i:49390265 original size:12 final size:12
Alignment explanation
Indices: 49390248--49390273 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
49390238 TTTGTGATTT
49390248 ATTTCTCTCATA
1 ATTTCTCTCATA
49390260 ATTTCTCTCATA
1 ATTTCTCTCATA
49390272 AT
1 AT
49390274 AATCATCAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.27, C:0.23, G:0.00, T:0.50
Consensus pattern (12 bp):
ATTTCTCTCATA
Found at i:49392129 original size:78 final size:77
Alignment explanation
Indices: 49392009--49392156 Score: 278
Period size: 78 Copynumber: 1.9 Consensus size: 77
49391999 TTATTCCTAC
49392009 TTTTTTTTTCTTTTTGAATCCTCGTCTCAATTGTTATATTGTTTGGTATGGACTTGGCAGTTTGT
1 TTTTTTTTTCTTTTTGAATCCTCGTCTCAATTGTTATATTGTTTGGTATGGACTTGGCAGTTTGT
49392074 TCAATCCTACTT
66 TCAATCCTACTT
*
49392086 TTTTTTTTTCCTTTTTGAATCCTTGTCTCAATTGTTATATTGTTTGGTATGGACTTGGCAGTTTG
1 TTTTTTTTT-CTTTTTGAATCCTCGTCTCAATTGTTATATTGTTTGGTATGGACTTGGCAGTTTG
49392151 TTCAAT
65 TTCAAT
49392157 GCAACTCTCT
Statistics
Matches: 69, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
77 9 0.13
78 60 0.87
ACGTcount: A:0.16, C:0.14, G:0.16, T:0.54
Consensus pattern (77 bp):
TTTTTTTTTCTTTTTGAATCCTCGTCTCAATTGTTATATTGTTTGGTATGGACTTGGCAGTTTGT
TCAATCCTACTT
Found at i:49394159 original size:12 final size:12
Alignment explanation
Indices: 49394142--49394171 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
49394132 ACAATATCAT
*
49394142 AATAATCCTAAC
1 AATAATCCTAAA
49394154 AATAATCCTAAA
1 AATAATCCTAAA
49394166 AATAAT
1 AATAAT
49394172 ATTCAAATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.57, C:0.17, G:0.00, T:0.27
Consensus pattern (12 bp):
AATAATCCTAAA
Found at i:49394769 original size:18 final size:17
Alignment explanation
Indices: 49394746--49394784 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 17
49394736 TTTTCCTTCG
49394746 TTTTA-TTTATTTATTTAT
1 TTTTATTTTA-TTA-TTAT
49394764 TTTTATTTTATTATTAT
1 TTTTATTTTATTATTAT
49394781 TTTT
1 TTTT
49394785 TAATGCTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 8 0.40
18 8 0.40
19 4 0.20
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (17 bp):
TTTTATTTTATTATTAT
Found at i:49394786 original size:18 final size:18
Alignment explanation
Indices: 49394746--49394784 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
49394736 TTTTCCTTCG
49394746 TTTTATTTATTTATTTAT
1 TTTTATTTATTTATTTAT
49394764 TTTTATTT-TATTA-TTAT
1 TTTTATTTAT-TTATTTAT
49394781 TTTT
1 TTTT
49394785 TAATGCTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 9 0.45
18 11 0.55
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (18 bp):
TTTTATTTATTTATTTAT
Found at i:49395134 original size:16 final size:16
Alignment explanation
Indices: 49395113--49395145 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
49395103 TAAGCTTGTG
49395113 CTCATAACCACAGAAT
1 CTCATAACCACAGAAT
49395129 CTCATAACCACAGAAT
1 CTCATAACCACAGAAT
49395145 C
1 C
49395146 ATGATATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.42, C:0.33, G:0.06, T:0.18
Consensus pattern (16 bp):
CTCATAACCACAGAAT
Found at i:49395813 original size:14 final size:14
Alignment explanation
Indices: 49395791--49395822 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
49395781 AACATTGAAG
*
49395791 AAAATAAAGAAAAT
1 AAAAAAAAGAAAAT
49395805 AAAAAAAAGAAAAT
1 AAAAAAAAGAAAAT
49395819 AAAA
1 AAAA
49395823 TTGGATTACA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.84, C:0.00, G:0.06, T:0.09
Consensus pattern (14 bp):
AAAAAAAAGAAAAT
Found at i:49397790 original size:40 final size:40
Alignment explanation
Indices: 49397709--49398009 Score: 439
Period size: 40 Copynumber: 7.6 Consensus size: 40
49397699 AAACCAAGTA
** * *
49397709 CCTTCGGGGTTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGTTATAG-TAACTCGCACAAATG
*
49397748 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
49397788 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
*
49397828 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
*
49397868 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
*
49397908 CCTTCGGGACTTAGCCCGGTTATAGTAACTTGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
* * * *
49397948 CCTTCGGG-CTTAGCCTGG-AATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCACAAATG
*
49397987 CCTTCGGAACTTAGCCCGGTTAT
1 CCTTCGGGACTTAGCCCGGTTAT
49398010 CATCCGAATA
Statistics
Matches: 241, Mismatches: 16, Indels: 9
0.91 0.06 0.03
Matches are distributed among these distances:
38 1 0.00
39 45 0.19
40 194 0.80
41 1 0.00
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
Found at i:49402821 original size:31 final size:31
Alignment explanation
Indices: 49402785--49402958 Score: 215
Period size: 31 Copynumber: 5.5 Consensus size: 31
49402775 TGTGTACAAT
* *
49402785 GTGAAAAGTGGTAGCTTCGACTACCCGATCA
1 GTGAAAAGTGGTAGCTTCGGCTACCTGATCA
*
49402816 GTGAAAAGTGGTAGCTTCGGCTACCTGATGA
1 GTGAAAAGTGGTAGCTTCGGCTACCTGATCA
* *
49402847 GTGAAAAGTAGTAGCTTCGGCTACCTGATTA
1 GTGAAAAGTGGTAGCTTCGGCTACCTGATCA
* *
49402878 GTGAAAAGTGGTAGCTCCAGCTACCTGATCA
1 GTGAAAAGTGGTAGCTTCGGCTACCTGATCA
* * *
49402909 CTGAATAGTGGTAGCTTCGGCTACAAGTGA-CAA
1 GTGAAAAGTGGTAGCTTCGGCTAC--CTGATC-A
*
49402942 GTGATAAGTGGTAGCTT
1 GTGAAAAGTGGTAGCTT
49402959 TAGCTACACT
Statistics
Matches: 123, Mismatches: 17, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
31 104 0.85
32 1 0.01
33 18 0.15
ACGTcount: A:0.28, C:0.18, G:0.28, T:0.26
Consensus pattern (31 bp):
GTGAAAAGTGGTAGCTTCGGCTACCTGATCA
Found at i:49403052 original size:27 final size:27
Alignment explanation
Indices: 49403022--49403086 Score: 85
Period size: 27 Copynumber: 2.4 Consensus size: 27
49403012 TAGTTGAACT
* *
49403022 ATGGCAAAGTTATAAAGTGTGCCAATC
1 ATGGCAAAGTGATAAAGTGTGCCAAAC
* *
49403049 ATGGCAAAGTGATATAGTGTGCTAAAC
1 ATGGCAAAGTGATAAAGTGTGCCAAAC
*
49403076 ATAGCAAAGTG
1 ATGGCAAAGTG
49403087 TTCAGTGATC
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.38, C:0.12, G:0.25, T:0.25
Consensus pattern (27 bp):
ATGGCAAAGTGATAAAGTGTGCCAAAC
Found at i:49403167 original size:34 final size:34
Alignment explanation
Indices: 49403136--49403203 Score: 93
Period size: 34 Copynumber: 2.0 Consensus size: 34
49403126 TGATCCATGG
*
49403136 CAAAG-TGTGAAACGTAGGTATGGTATTTCCATA
1 CAAAGCTGTGAAACGTAGGAATGGTATTTCCATA
* * *
49403169 CCAAGCTGTGAAATGTAGGAATGGTGTTTCCATA
1 CAAAGCTGTGAAACGTAGGAATGGTATTTCCATA
49403203 C
1 C
49403204 TGAGTTGTGA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
33 4 0.13
34 26 0.87
ACGTcount: A:0.31, C:0.15, G:0.25, T:0.29
Consensus pattern (34 bp):
CAAAGCTGTGAAACGTAGGAATGGTATTTCCATA
Found at i:49407610 original size:29 final size:31
Alignment explanation
Indices: 49407561--49407619 Score: 70
Period size: 29 Copynumber: 2.0 Consensus size: 31
49407551 AATGTGTATC
* *
49407561 TATTTATTTGATGGATGAAAT-T-GAGATAG
1 TATTTATTTAATAGATGAAATGTAGAGATAG
49407590 TATTTATTATAATAGAT-AAATGTAGAGATA
1 TATTTATT-TAATAGATGAAATGTAGAGATA
49407620 TTAAATTTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
29 12 0.48
30 7 0.28
31 6 0.24
ACGTcount: A:0.41, C:0.00, G:0.19, T:0.41
Consensus pattern (31 bp):
TATTTATTTAATAGATGAAATGTAGAGATAG
Found at i:49417519 original size:79 final size:81
Alignment explanation
Indices: 49417382--49417566 Score: 218
Period size: 79 Copynumber: 2.3 Consensus size: 81
49417372 TTGAATGATG
* *
49417382 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
49417446 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * * **
49417461 TTCCGAGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
49417523 ATTGTGCGAGTTACTATA
64 ATTGTGCGAGATACTATA
* *
49417541 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
49417567 AACGAGTAGC
Statistics
Matches: 89, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
78 1 0.01
79 56 0.63
80 32 0.36
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
TGTGCGAGATACTATA
Found at i:49417573 original size:40 final size:40
Alignment explanation
Indices: 49417382--49417566 Score: 216
Period size: 40 Copynumber: 4.7 Consensus size: 40
49417372 TTGAATGATG
* * * *
49417382 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
49417422 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
49417462 TCCGAGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
49417501 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
49417542 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
49417567 AACGAGTAGC
Statistics
Matches: 123, Mismatches: 17, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
39 34 0.28
40 79 0.64
41 10 0.08
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:49417588 original size:79 final size:79
Alignment explanation
Indices: 49417435--49417599 Score: 192
Period size: 79 Copynumber: 2.1 Consensus size: 79
49417425 GGACTAAGAT
* * **
49417435 CCGAAGGCATTTGTGCGAGATACTAATTCCGAGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCAATTGTGCGAGATACTAATACCGAGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
49417500 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* * *
49417514 CCGAAGGCAATTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCAATTGTGCGAGATACTAAT-ACCGAGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
49417577 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
49417593 CCGAAGG
1 CCGAAGG
49417600 TACGTGATTT
Statistics
Matches: 73, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
78 2 0.03
79 46 0.63
80 25 0.34
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCAATTGTGCGAGATACTAATACCGAGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:49419303 original size:54 final size:54
Alignment explanation
Indices: 49419211--49419325 Score: 178
Period size: 54 Copynumber: 2.1 Consensus size: 54
49419201 CAAAATGGTA
*
49419211 ATTT-TACCCTACAAGGGTATCTCAGTAATTTTACCCTACAGGGGTATTTCGGT
1 ATTTCTACCCTACAAGGGTATCTCAGTAATTCTACCCTACAGGGGTATTTCGGT
* * *
49419264 ATTTCTACCGTACAAGGGTATCTCGGTAATTCTATCCTACAGGGGTATTTCGGT
1 ATTTCTACCCTACAAGGGTATCTCAGTAATTCTACCCTACAGGGGTATTTCGGT
*
49419318 AATTCTAC
1 ATTTCTAC
49419326 AACTTATCCA
Statistics
Matches: 56, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
53 4 0.07
54 52 0.93
ACGTcount: A:0.24, C:0.21, G:0.19, T:0.36
Consensus pattern (54 bp):
ATTTCTACCCTACAAGGGTATCTCAGTAATTCTACCCTACAGGGGTATTTCGGT
Found at i:49419322 original size:27 final size:27
Alignment explanation
Indices: 49419207--49419325 Score: 148
Period size: 27 Copynumber: 4.4 Consensus size: 27
49419197 AAGGCAAAAT
*
49419207 GGTAATTTTACCCTACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATCTC
* * * *
49419234 AGTAATTTTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATCTC
* *
49419261 GGTATTTCTACCGTACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATCTC
* * *
49419288 GGTAATTCTATCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATCTC
49419315 GGTAATTCTAC
1 GGTAATTCTAC
49419326 AACTTATCCA
Statistics
Matches: 77, Mismatches: 15, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 77 1.00
ACGTcount: A:0.24, C:0.20, G:0.20, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATCTC
Found at i:49424081 original size:48 final size:48
Alignment explanation
Indices: 49424010--49424234 Score: 254
Period size: 48 Copynumber: 4.7 Consensus size: 48
49424000 GAGTTTTGAA
* * * * *
49424010 ATCCCATATAATACCATATCTGGGATATGGCATCGGCATCAATATGAG
1 ATCCCATGTAAGACCATATCTGGGATATGGCATTGGCATCGACATGAG
* * * * *
49424058 ATCCCTTGTGAGCCCATATCTGGGATATGGCATTGGCATTGACATAAG
1 ATCCCATGTAAGACCATATCTGGGATATGGCATTGGCATCGACATGAG
49424106 ATCCCATGTAAGACCATAGT-TGGGATATGGCATTGGCATCGACATGAG
1 ATCCCATGTAAGACCATA-TCTGGGATATGGCATTGGCATCGACATGAG
* * * * *
49424154 ATCCGATGTAAAACCATATTTGGGATATAGCATTGGCATCGATATGAG
1 ATCCCATGTAAGACCATATCTGGGATATGGCATTGGCATCGACATGAG
* * * * *
49424202 GTCCCATATAAGACCATGTTTGGGACATGGCAT
1 ATCCCATGTAAGACCATATCTGGGATATGGCAT
49424235 CGACACTGTT
Statistics
Matches: 149, Mismatches: 26, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
47 1 0.01
48 147 0.99
49 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.28
Consensus pattern (48 bp):
ATCCCATGTAAGACCATATCTGGGATATGGCATTGGCATCGACATGAG
Found at i:49426951 original size:160 final size:160
Alignment explanation
Indices: 49426682--49427006 Score: 517
Period size: 160 Copynumber: 2.0 Consensus size: 160
49426672 TCCCGACGCG
* * *
49426682 GATGAGATCTATCTCGCTTAGATGAAGGTACTTTCTAACCGAGCTACATCTGACCATGTTGATAT
1 GATGAGATCTATCTCGCTTAGATGAAGATACTCTCCAACCGAGCTACATCTGACCATGTTGATAT
* *
49426747 TGATACTAACGTATTTGAGTAAAGTACACTTATGATGGATTGAGGCTTATAAAGGTATGAATAAA
66 TGATACTAAAGTATCTGAGTAAAGTACACTTATGATGGATTGAGGCTTATAAAGGTATGAATAAA
* *
49426812 GGTTTATGATGTGTATGTGATGATGTACGA
131 GGTTTATGAGGTGTATGCGATGATGTACGA
* * * *
49426842 GATGGGATCTATCTTGCTTAGAT-AGAGATACTCTCCAACCGAGCTACGTTTGACCATGTTGATA
1 GATGAGATCTATCTCGCTTAGATGA-AGATACTCTCCAACCGAGCTACATCTGACCATGTTGATA
* *
49426906 TTGATACTAAAGTATCTGAGTAAAGTACACTTATGATGGATTGAGGCTTATAGAGGTATGAATGA
65 TTGATACTAAAGTATCTGAGTAAAGTACACTTATGATGGATTGAGGCTTATAAAGGTATGAATAA
49426971 AGGTTTATGAGGTGTATGCGATGATGTACGA
130 AGGTTTATGAGGTGTATGCGATGATGTACGA
49427002 GATGA
1 GATGA
49427007 AAGTTTATGT
Statistics
Matches: 150, Mismatches: 14, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
159 1 0.01
160 149 0.99
ACGTcount: A:0.31, C:0.12, G:0.25, T:0.33
Consensus pattern (160 bp):
GATGAGATCTATCTCGCTTAGATGAAGATACTCTCCAACCGAGCTACATCTGACCATGTTGATAT
TGATACTAAAGTATCTGAGTAAAGTACACTTATGATGGATTGAGGCTTATAAAGGTATGAATAAA
GGTTTATGAGGTGTATGCGATGATGTACGA
Found at i:49431144 original size:48 final size:48
Alignment explanation
Indices: 49431102--49431196 Score: 129
Period size: 48 Copynumber: 2.0 Consensus size: 48
49431092 TGAGACACTT
*
49431102 TGTAAGACCGTATCAGGGATA-TGAAATTGGCATCGAAATGAGATCCCA
1 TGTAAGACCATATCAGGGATATTG-AATTGGCATCGAAATGAGATCCCA
* * * *
49431150 TGTAAGACCATATCTGGGATATTGCATTGGCATCGATATGAGGTCCC
1 TGTAAGACCATATCAGGGATATTGAATTGGCATCGAAATGAGATCCC
49431197 GTACAAGATG
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
48 39 0.95
49 2 0.05
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.26
Consensus pattern (48 bp):
TGTAAGACCATATCAGGGATATTGAATTGGCATCGAAATGAGATCCCA
Found at i:49437730 original size:16 final size:15
Alignment explanation
Indices: 49437703--49437736 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
49437693 AGAACTAGAA
*
49437703 TATAATTATATTTAT
1 TATAATTATATTAAT
49437718 TATAATATATATTAAT
1 TATAAT-TATATTAAT
49437734 TAT
1 TAT
49437737 TATCAACTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
TATAATTATATTAAT
Found at i:49440785 original size:15 final size:14
Alignment explanation
Indices: 49440762--49440802 Score: 57
Period size: 14 Copynumber: 2.9 Consensus size: 14
49440752 AAATGCTTAT
49440762 GAAAAAAAAAGAAA
1 GAAAAAAAAAGAAA
49440776 GAAAAGAAAAAGAAA
1 GAAAA-AAAAAGAAA
*
49440791 -AAAAAAAGAGAA
1 GAAAAAAAAAGAA
49440803 GAGCATATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
13 7 0.28
14 9 0.36
15 9 0.36
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (14 bp):
GAAAAAAAAAGAAA
Found at i:49461726 original size:28 final size:28
Alignment explanation
Indices: 49461683--49461748 Score: 87
Period size: 28 Copynumber: 2.4 Consensus size: 28
49461673 TGGGAAGTAG
* * * *
49461683 TTGGGCCTGATGGGCCATATGAATGTGA
1 TTGGGCCTAATAGGCCATATGAACGAGA
*
49461711 TTGGGCCTAATAGGCCATGTGAACGAGA
1 TTGGGCCTAATAGGCCATATGAACGAGA
49461739 TTGGGCCTAA
1 TTGGGCCTAA
49461749 AGGGGCCAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.24, C:0.17, G:0.33, T:0.26
Consensus pattern (28 bp):
TTGGGCCTAATAGGCCATATGAACGAGA
Found at i:49462121 original size:26 final size:27
Alignment explanation
Indices: 49462063--49462143 Score: 119
Period size: 27 Copynumber: 3.0 Consensus size: 27
49462053 TAATAAAGAA
* *
49462063 AAATTACTGAAATACCCTCGATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTG
*
49462090 AAATTACCAAAATACCCTCGA-TTGTG
1 AAATTACCGAAATACCCTCGATTTGTG
*
49462116 AAATTATCGAAATACCCTCGATTTGTG
1 AAATTACCGAAATACCCTCGATTTGTG
49462143 A
1 A
49462144 TAAACCGTAA
Statistics
Matches: 48, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
26 23 0.48
27 25 0.52
ACGTcount: A:0.37, C:0.20, G:0.12, T:0.31
Consensus pattern (27 bp):
AAATTACCGAAATACCCTCGATTTGTG
Found at i:49462155 original size:27 final size:26
Alignment explanation
Indices: 49462071--49462143 Score: 94
Period size: 26 Copynumber: 2.8 Consensus size: 26
49462061 AAAAATTACT
*
49462071 GAAATACCCTCGATTTGTAAAATTACC
1 GAAATACCCTCGATTTGTGAAA-TACC
* *
49462098 AAAATACCCTCGA-TTGTGAAATTATC
1 GAAATACCCTCGATTTGTGAAA-TACC
49462124 GAAATACCCTCGATTTGTGA
1 GAAATACCCTCGATTTGTGA
49462144 TAAACCGTAA
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
26 23 0.56
27 18 0.44
ACGTcount: A:0.36, C:0.21, G:0.14, T:0.30
Consensus pattern (26 bp):
GAAATACCCTCGATTTGTGAAATACC
Found at i:49471676 original size:27 final size:27
Alignment explanation
Indices: 49471644--49471803 Score: 232
Period size: 27 Copynumber: 5.9 Consensus size: 27
49471634 CACGCGATCA
*
49471644 ATTTGTAAAATTA-CTGAAATACCCCCG
1 ATTTGTAAAATTATC-GAAATACCCTCG
*
49471671 ATTTGTAAAATTATCGAAACACCCTCG
1 ATTTGTAAAATTATCGAAATACCCTCG
* *
49471698 ATTTGTAAAATTACCGAAACACCCTCG
1 ATTTGTAAAATTATCGAAATACCCTCG
*
49471725 ATTTGTAAAATTATCGAAATACCCTCA
1 ATTTGTAAAATTATCGAAATACCCTCG
* * *
49471752 ATTTGTAAAATTACCAAAATACCCTCA
1 ATTTGTAAAATTATCGAAATACCCTCG
49471779 ATTTGTAAAATTATCGAAATACCCT
1 ATTTGTAAAATTATCGAAATACCCT
49471804 TATAGTGTAA
Statistics
Matches: 122, Mismatches: 10, Indels: 2
0.91 0.07 0.01
Matches are distributed among these distances:
27 121 0.99
28 1 0.01
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.31
Consensus pattern (27 bp):
ATTTGTAAAATTATCGAAATACCCTCG
Found at i:49471703 original size:54 final size:54
Alignment explanation
Indices: 49471641--49471829 Score: 263
Period size: 54 Copynumber: 3.5 Consensus size: 54
49471631 AATCACGCGA
* * *
49471641 TCAATTTGTAAAATTACTGAAATACCCCCGATTTGTAAAATTATCGAAACACCC
1 TCAATTTGTAAAATTACCGAAATACCCTCGATTTGTAAAATTATCGAAATACCC
* *
49471695 TCGATTTGTAAAATTACCGAAACACCCTCGATTTGTAAAATTATCGAAATACCC
1 TCAATTTGTAAAATTACCGAAATACCCTCGATTTGTAAAATTATCGAAATACCC
* *
49471749 TCAATTTGTAAAATTACCAAAATACCCTCAATTTGTAAAATTATCGAAATACCC
1 TCAATTTGTAAAATTACCGAAATACCCTCGATTTGTAAAATTATCGAAATACCC
* * * *
49471803 T-TATAGTGTAAAATGACCGACATACCC
1 TCAAT-TTGTAAAATTACCGAAATACCC
49471830 CTGTAGGGTA
Statistics
Matches: 120, Mismatches: 14, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
53 2 0.02
54 118 0.98
ACGTcount: A:0.39, C:0.22, G:0.10, T:0.30
Consensus pattern (54 bp):
TCAATTTGTAAAATTACCGAAATACCCTCGATTTGTAAAATTATCGAAATACCC
Found at i:49471812 original size:27 final size:27
Alignment explanation
Indices: 49471646--49471829 Score: 180
Period size: 27 Copynumber: 6.8 Consensus size: 27
49471636 CGCGATCAAT
* *
49471646 TTGTAAAATTACTGAAATACCCCCGAT-
1 TTGTAAAATTACCGAAATACCCTC-ATA
* *
49471673 TTGTAAAATTATCGAAACACCCTCGAT-
1 TTGTAAAATTACCGAAATACCCTC-ATA
*
49471700 TTGTAAAATTACCGAAACACCCTCGAT-
1 TTGTAAAATTACCGAAATACCCTC-ATA
*
49471727 TTGTAAAATTATCGAAATACCCTCA-A
1 TTGTAAAATTACCGAAATACCCTCATA
*
49471753 TTTGTAAAATTACCAAAATACCCTCA-A
1 -TTGTAAAATTACCGAAATACCCTCATA
* *
49471780 TTTGTAAAATTATCGAAATACCCTTATA
1 -TTGTAAAATTACCGAAATACCCTCATA
* * *
49471808 GTGTAAAATGACCGACATACCC
1 TTGTAAAATTACCGAAATACCC
49471830 CTGTAGGGTA
Statistics
Matches: 138, Mismatches: 16, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
26 1 0.01
27 136 0.99
28 1 0.01
ACGTcount: A:0.39, C:0.22, G:0.10, T:0.29
Consensus pattern (27 bp):
TTGTAAAATTACCGAAATACCCTCATA
Found at i:49471813 original size:81 final size:81
Alignment explanation
Indices: 49471647--49471830 Score: 219
Period size: 81 Copynumber: 2.3 Consensus size: 81
49471637 GCGATCAATT
* * * *
49471647 TGTAAAATTACTGAAATACCCCCGATTTGTAAAATTATCGAAACACCCTCGATTTGTAAAATTAC
1 TGTAAAATTACTGAAATACCCCCAATTTGTAAAATTACCAAAACACCCTCAATTTGTAAAATTAC
*
49471712 CGAAACACCCTCGATT
66 CGAAACACCCTCGATG
* *
49471728 TGTAAAATTA-TCGAAATACCCTCAATTTGTAAAATTACCAAAATACCCTCAATTTGTAAAATTA
1 TGTAAAATTACT-GAAATACCCCCAATTTGTAAAATTACCAAAACACCCTCAATTTGTAAAATTA
* * *
49471792 TCGAAATACCCT-TATAG
65 CCGAAACACCCTCGAT-G
* * *
49471809 TGTAAAATGACCGACATACCCC
1 TGTAAAATTACTGAAATACCCC
49471831 TGTAGGGTAA
Statistics
Matches: 86, Mismatches: 14, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
80 3 0.03
81 83 0.97
ACGTcount: A:0.39, C:0.22, G:0.10, T:0.29
Consensus pattern (81 bp):
TGTAAAATTACTGAAATACCCCCAATTTGTAAAATTACCAAAACACCCTCAATTTGTAAAATTAC
CGAAACACCCTCGATG
Found at i:49471840 original size:27 final size:27
Alignment explanation
Indices: 49471783--49471845 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 27
49471773 CCCTCAATTT
* * * *
49471783 GTAAAATTATCGAAATACCCTTATAGT
1 GTAAAATGACCGAAATACCCCTATAGG
* *
49471810 GTAAAATGACCGACATACCCCTGTAGG
1 GTAAAATGACCGAAATACCCCTATAGG
49471837 GTAAAATGA
1 GTAAAATGA
49471846 TTATTTTGCC
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.40, C:0.17, G:0.17, T:0.25
Consensus pattern (27 bp):
GTAAAATGACCGAAATACCCCTATAGG
Found at i:49473648 original size:13 final size:13
Alignment explanation
Indices: 49473627--49473669 Score: 50
Period size: 13 Copynumber: 3.1 Consensus size: 13
49473617 TCAAGATAGA
49473627 AATTCTATAATTC
1 AATTCTATAATTC
*
49473640 AATTTTATAATTC
1 AATTCTATAATTC
49473653 TATAATTCTATAATTC
1 ---AATTCTATAATTC
49473669 A
1 A
49473670 TAATTCATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
13 13 0.52
16 12 0.48
ACGTcount: A:0.40, C:0.12, G:0.00, T:0.49
Consensus pattern (13 bp):
AATTCTATAATTC
Found at i:49473651 original size:8 final size:8
Alignment explanation
Indices: 49473627--49473681 Score: 64
Period size: 8 Copynumber: 7.2 Consensus size: 8
49473617 TCAAGATAGA
49473627 AATTCTAT
1 AATTCTAT
49473635 AATTC---
1 AATTCTAT
*
49473640 AATTTTAT
1 AATTCTAT
49473648 AATTCTAT
1 AATTCTAT
49473656 AATTCTAT
1 AATTCTAT
49473664 AATTC-AT
1 AATTCTAT
49473671 AATTCATAT
1 AATTC-TAT
49473680 AA
1 AA
49473682 CCACTAGGCA
Statistics
Matches: 40, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
5 4 0.10
7 7 0.17
8 25 0.62
9 4 0.10
ACGTcount: A:0.42, C:0.11, G:0.00, T:0.47
Consensus pattern (8 bp):
AATTCTAT
Found at i:49481947 original size:27 final size:27
Alignment explanation
Indices: 49481917--49482094 Score: 178
Period size: 27 Copynumber: 6.6 Consensus size: 27
49481907 ATATTGAGTC
* *
49481917 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
49481944 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
49481971 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
49481999 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
49482026 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * *
49482053 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
49482080 TGCACACTTAGTGCT
1 CGCACACTTAGTGCT
49482095 GTACAATTTA
Statistics
Matches: 128, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
27 104 0.81
28 24 0.19
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:49482056 original size:82 final size:81
Alignment explanation
Indices: 49481938--49482093 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
49481928 TGCTATATAA
* *
49481938 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
49482003 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * ** *
49482020 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATTGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
49482084 CACTTAGTGC
65 CACTTAGTGC
49482094 TGTACAATTT
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 15 0.23
82 51 0.77
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.28
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:49484540 original size:23 final size:23
Alignment explanation
Indices: 49484411--49484540 Score: 99
Period size: 23 Copynumber: 5.7 Consensus size: 23
49484401 CTGAGCTGAT
*
49484411 AAACAGTAAGCTCAATT-GAGCTG
1 AAACGGTAAGCTC-ATTAGAGCTG
**
49484434 -AACGGTAAGCTCCGTAGAGCTG
1 AAACGGTAAGCTCATTAGAGCTG
* * * * *
49484456 AAACAGTAAGCCCCTAAG-GACTA
1 AAACGGTAAGCTCATTAGAG-CTG
*
49484479 AAACGGTAAGCTCCAAT-GAGCTG
1 AAACGGTAAGCT-CATTAGAGCTG
49484502 -AACGGTAAAAGCTCATTAGAGCTG
1 AAACGGT--AAGCTCATTAGAGCTG
49484526 AAACGGTAAGCTCAT
1 AAACGGTAAGCTCAT
49484541 ACAAGCTTTG
Statistics
Matches: 83, Mismatches: 15, Indels: 18
0.72 0.13 0.16
Matches are distributed among these distances:
21 1 0.01
22 24 0.29
23 39 0.47
24 13 0.16
25 6 0.07
ACGTcount: A:0.37, C:0.21, G:0.24, T:0.18
Consensus pattern (23 bp):
AAACGGTAAGCTCATTAGAGCTG
Found at i:49487016 original size:15 final size:17
Alignment explanation
Indices: 49486998--49487029 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
49486988 TAGCCTAATT
49486998 TACCAAA-TCA-ATTCA
1 TACCAAACTCACATTCA
49487013 TACCAAACTCACATTCA
1 TACCAAACTCACATTCA
49487030 CAAGTATCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 3 0.20
17 5 0.33
ACGTcount: A:0.44, C:0.31, G:0.00, T:0.25
Consensus pattern (17 bp):
TACCAAACTCACATTCA
Found at i:49502502 original size:40 final size:43
Alignment explanation
Indices: 49502446--49502544 Score: 134
Period size: 40 Copynumber: 2.3 Consensus size: 43
49502436 CAATAGTATT
*
49502446 TGGCACTAAGTGTGCGAT-TTAAGATAGCTTCGGTT-A-TATGA
1 TGGCACTAAGTGTGCGATACTAAGATAGCTTCGGTTAATTA-GA
*
49502487 -GGCACTAAGTGTGCGATACTGAGATAGCTTCGGTTAATTGAGA
1 TGGCACTAAGTGTGCGATACTAAGATAGCTTCGGTTAATT-AGA
49502530 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
49502545 TTATTATAGC
Statistics
Matches: 51, Mismatches: 2, Indels: 7
0.85 0.03 0.12
Matches are distributed among these distances:
40 17 0.33
41 15 0.29
42 1 0.02
43 3 0.06
44 15 0.29
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.30
Consensus pattern (43 bp):
TGGCACTAAGTGTGCGATACTAAGATAGCTTCGGTTAATTAGA
Found at i:49508027 original size:75 final size:75
Alignment explanation
Indices: 49507933--49508095 Score: 290
Period size: 75 Copynumber: 2.2 Consensus size: 75
49507923 ACAGCCTAGT
* *
49507933 ACACAGGTGTGTGACTTAGCCGTGTGACTTCAATTTGTTCAGGCCTTGCGAAACAGAGAGCTACA
1 ACACAGGCGTGTGACTTAGCCGTCTGACTTCAATTTGTTCAGGCCTTGCGAAACAGAGAGCTACA
49507998 TAAGTTAGGG
66 TAAGTTAGGG
* *
49508008 ACACGGGCGTGTGACTTAGCCGTCTGACTTCAATTTGTTCAGGCCTTGCGAAACAGAGAGTTACA
1 ACACAGGCGTGTGACTTAGCCGTCTGACTTCAATTTGTTCAGGCCTTGCGAAACAGAGAGCTACA
49508073 TAAGTTAGGG
66 TAAGTTAGGG
49508083 ACACAGGCGTGTG
1 ACACAGGCGTGTG
49508096 TAACCACACG
Statistics
Matches: 83, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
75 83 1.00
ACGTcount: A:0.26, C:0.20, G:0.29, T:0.26
Consensus pattern (75 bp):
ACACAGGCGTGTGACTTAGCCGTCTGACTTCAATTTGTTCAGGCCTTGCGAAACAGAGAGCTACA
TAAGTTAGGG
Found at i:49509700 original size:26 final size:25
Alignment explanation
Indices: 49509671--49509727 Score: 69
Period size: 27 Copynumber: 2.2 Consensus size: 25
49509661 AAAAATGTTG
*
49509671 TACCATACATCATTTCTTGACCTTTT
1 TACCA-ACATCATTTATTGACCTTTT
*
49509697 TACCCCAATATCATTTATTGACCTTTT
1 TA--CCAACATCATTTATTGACCTTTT
49509724 TACC
1 TACC
49509728 CCAATAATCC
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
25 2 0.07
26 2 0.07
27 20 0.74
28 3 0.11
ACGTcount: A:0.25, C:0.28, G:0.04, T:0.44
Consensus pattern (25 bp):
TACCAACATCATTTATTGACCTTTT
Found at i:49509709 original size:27 final size:27
Alignment explanation
Indices: 49509679--49509733 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
49509669 TGTACCATAC
*
49509679 ATCATTTCTTGACCTTTTTACCCCAAT
1 ATCATTTATTGACCTTTTTACCCCAAT
49509706 ATCATTTATTGACCTTTTTACCCCAAT
1 ATCATTTATTGACCTTTTTACCCCAAT
49509733 A
1 A
49509734 ATCCAAAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.25, C:0.27, G:0.04, T:0.44
Consensus pattern (27 bp):
ATCATTTATTGACCTTTTTACCCCAAT
Found at i:49515300 original size:21 final size:21
Alignment explanation
Indices: 49515263--49515302 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
49515253 TGAGAAATAC
*
49515263 TTTTATTAAAATTATTTAAAA
1 TTTTATTAAAATAATTTAAAA
49515284 TTTTAATTAAAA-AATTTAA
1 TTTT-ATTAAAATAATTTAA
49515303 CACCCACAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
TTTTATTAAAATAATTTAAAA
Found at i:49515425 original size:13 final size:15
Alignment explanation
Indices: 49515414--49515443 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
49515404 TGTATTTTTT
49515414 TAATGTAATTTTTATA
1 TAATGTAA-TTTTATA
49515430 TAATGTAATTTTAT
1 TAATGTAATTTTAT
49515444 TTGATTTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.37, C:0.00, G:0.07, T:0.57
Consensus pattern (15 bp):
TAATGTAATTTTATA
Found at i:49515604 original size:27 final size:27
Alignment explanation
Indices: 49515551--49515604 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
49515541 TAGACACAAT
* *
49515551 TAGTCGCGCCTCTGAGAAAGGTTCAAC
1 TAGTCGCGACTCTGAGAAAGGTGCAAC
*
49515578 TAGTCGTGACTCTGAGATAA-GTGCAAC
1 TAGTCGCGACTCTGAGA-AAGGTGCAAC
49515605 CTGTATTTGT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
27 21 0.91
28 2 0.09
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (27 bp):
TAGTCGCGACTCTGAGAAAGGTGCAAC
Found at i:49515669 original size:19 final size:21
Alignment explanation
Indices: 49515644--49515690 Score: 64
Period size: 18 Copynumber: 2.4 Consensus size: 21
49515634 CAATTCAAAA
49515644 ATAAAAAATA-ATATTTT-AT
1 ATAAAAAATATATATTTTAAT
*
49515663 -TTAAAAATATATATTTTAAT
1 ATAAAAAATATATATTTTAAT
49515683 ATAAAAAA
1 ATAAAAAA
49515691 AAATCCCACC
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
18 8 0.35
19 7 0.30
20 2 0.09
21 6 0.26
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (21 bp):
ATAAAAAATATATATTTTAAT
Found at i:49515687 original size:20 final size:19
Alignment explanation
Indices: 49515643--49515689 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 19
49515633 CCAATTCAAA
49515643 AATA-AAAAATAATATTTT
1 AATATAAAAATAATATTTT
*
49515661 -ATTTAAAAATATATATTTT
1 AATATAAAAATA-ATATTTT
49515680 AATATAAAAA
1 AATATAAAAA
49515690 AAAATCCCAC
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
17 2 0.08
18 7 0.29
19 7 0.29
20 8 0.33
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (19 bp):
AATATAAAAATAATATTTT
Found at i:49516465 original size:3 final size:3
Alignment explanation
Indices: 49516457--49516486 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
49516447 CTTCTCAGCA
49516457 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
49516487 CATCATCTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:49517389 original size:232 final size:232
Alignment explanation
Indices: 49516980--49517450 Score: 865
Period size: 232 Copynumber: 2.0 Consensus size: 232
49516970 AATACTCGGA
49516980 ACAATTTATAAGGATCTTTAATCTTTTATGTTGCAAAATATATTGTACTTTCGACCCTTTTCTAA
1 ACAATTTATAAGGATCTTTAATCTTTTATGTTGCAAAATATATTGTACTTTCGACCCTTTTCTAA
*
49517045 AAGGTAGTTTAGATGTTTCACATCATTGCCCTAAACTTTGTCGTTGATGAGATTGCAAATTCTTA
66 AAGGTAGTTTAGATGTTTCACATCATTGCCCTAAACTTTGTCATTGATGAGATTGCAAATTCTTA
* *
49517110 TAATCTTCTAAGACTAAGAAACGCCAATGAATTTGTTTGTCTTTGATT-CTACAGATGATTAGTT
131 TAATCTTCTAAAACTAAGAAACGCCAATGAATTTGTTTGTATTTGATTCCT-CAGATGATTAGTT
*
49517174 GTGAATATATGTATCTGGAATTGCCTTCCATTGAATGG
195 GTGAATATAAGTATCTGGAATTGCCTTCCATTGAATGG
49517212 ACAATTTATAAGGATCTTTAATCTTTTATGTTGCAAAATATATTGTACTTTCGACCCTTTTCTAA
1 ACAATTTATAAGGATCTTTAATCTTTTATGTTGCAAAATATATTGTACTTTCGACCCTTTTCTAA
* *
49517277 AAGGTAGTTTAGATGTTTTACATCATTTCCCTAAACTTTGTCATTGATGAGATTGCAAATTCTTA
66 AAGGTAGTTTAGATGTTTCACATCATTGCCCTAAACTTTGTCATTGATGAGATTGCAAATTCTTA
49517342 TAATCTTCTAAAACTAAGAAACGCCAATGAATTTGTTTGTATTTGATTCCTCAGATGATTAGTTG
131 TAATCTTCTAAAACTAAGAAACGCCAATGAATTTGTTTGTATTTGATTCCTCAGATGATTAGTTG
49517407 TGAATATAAGTATCTGGAATTGCCTTCCATTGAATGG
196 TGAATATAAGTATCTGGAATTGCCTTCCATTGAATGG
49517444 AC-ATTTA
1 ACAATTTA
49517451 GCATGGATGG
Statistics
Matches: 232, Mismatches: 6, Indels: 3
0.96 0.02 0.01
Matches are distributed among these distances:
231 5 0.02
232 225 0.97
233 2 0.01
ACGTcount: A:0.30, C:0.14, G:0.15, T:0.40
Consensus pattern (232 bp):
ACAATTTATAAGGATCTTTAATCTTTTATGTTGCAAAATATATTGTACTTTCGACCCTTTTCTAA
AAGGTAGTTTAGATGTTTCACATCATTGCCCTAAACTTTGTCATTGATGAGATTGCAAATTCTTA
TAATCTTCTAAAACTAAGAAACGCCAATGAATTTGTTTGTATTTGATTCCTCAGATGATTAGTTG
TGAATATAAGTATCTGGAATTGCCTTCCATTGAATGG
Found at i:49518909 original size:68 final size:68
Alignment explanation
Indices: 49518834--49518969 Score: 227
Period size: 68 Copynumber: 2.0 Consensus size: 68
49518824 ACCAAGAGAC
* * * *
49518834 ATAGGATAAAATCCTAAATGTTTATTATGCTTTTTGTCTTTATATGTTTTGAATATTCCATTTTA
1 ATAGGATAAAATCCTAAATGTTTATTAGGCTTATTGTCTCTATATGTCTTGAATATTCCATTTTA
49518899 ACT
66 ACT
*
49518902 ATAGGATAAAATCCTAAATGTTTCTTAGGCTTATTGTCTCTATATGTCTTGAATATTCCATTTTA
1 ATAGGATAAAATCCTAAATGTTTATTAGGCTTATTGTCTCTATATGTCTTGAATATTCCATTTTA
49518967 ACT
66 ACT
49518970 TTATCTTCTC
Statistics
Matches: 63, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
68 63 1.00
ACGTcount: A:0.29, C:0.12, G:0.11, T:0.47
Consensus pattern (68 bp):
ATAGGATAAAATCCTAAATGTTTATTAGGCTTATTGTCTCTATATGTCTTGAATATTCCATTTTA
ACT
Found at i:49519495 original size:19 final size:19
Alignment explanation
Indices: 49519448--49519495 Score: 53
Period size: 19 Copynumber: 2.6 Consensus size: 19
49519438 GTATATATTT
**
49519448 TAAA-TTTATTTAGTTAGA
1 TAAATTTTATTTAGAAAGA
*
49519466 TAAATTGTATTTAGAAAGA
1 TAAATTTTATTTAGAAAGA
*
49519485 TAAGTTTTATT
1 TAAATTTTATT
49519496 CATATTCTAA
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
18 4 0.17
19 20 0.83
ACGTcount: A:0.40, C:0.00, G:0.12, T:0.48
Consensus pattern (19 bp):
TAAATTTTATTTAGAAAGA
Found at i:49523379 original size:19 final size:19
Alignment explanation
Indices: 49523332--49523380 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 19
49523322 GTATATATTT
**
49523332 TAAATTTTATTTAGTTAGA
1 TAAATTTTATTTAGAAAGA
*
49523351 TAAATCTTATTTAGAAAGA
1 TAAATTTTATTTAGAAAGA
*
49523370 TAAGTTTTATT
1 TAAATTTTATT
49523381 CATAGTCTAG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.39, C:0.02, G:0.10, T:0.49
Consensus pattern (19 bp):
TAAATTTTATTTAGAAAGA
Found at i:49536101 original size:29 final size:28
Alignment explanation
Indices: 49536044--49536129 Score: 118
Period size: 28 Copynumber: 3.0 Consensus size: 28
49536034 TACCTGTATC
* *
49536044 TGGCCCATTAAGCCCAATCATATTCATA
1 TGGCCCATTAGGCCCAATCACATTCATA
*
49536072 TGGCCCATTAGGCCCAAATCACATTTATA
1 TGGCCCATTAGGCCC-AATCACATTCATA
* *
49536101 TGGCCCGTTAGGCCCAGTCACATTCATA
1 TGGCCCATTAGGCCCAATCACATTCATA
49536129 T
1 T
49536130 TCATGCTCAC
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
28 26 0.51
29 25 0.49
ACGTcount: A:0.28, C:0.29, G:0.15, T:0.28
Consensus pattern (28 bp):
TGGCCCATTAGGCCCAATCACATTCATA
Found at i:49552203 original size:42 final size:42
Alignment explanation
Indices: 49552144--49552245 Score: 150
Period size: 42 Copynumber: 2.4 Consensus size: 42
49552134 TGTGGATTCT
* * **
49552144 CCACATCTCATGTGAGCAGCATCGTGTAGTTTACATTTTGAC
1 CCACAACTCGTGTGAGCAGCATCGTGTAGTTTACATTCCGAC
*
49552186 CCACAACTTGTGTGAGCAGCATCGTGTAGTTTACATTCCGAC
1 CCACAACTCGTGTGAGCAGCATCGTGTAGTTTACATTCCGAC
*
49552228 CCACAACTCGTGTAAGCA
1 CCACAACTCGTGTGAGCA
49552246 AGCCCATTTC
Statistics
Matches: 53, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 53 1.00
ACGTcount: A:0.25, C:0.26, G:0.20, T:0.28
Consensus pattern (42 bp):
CCACAACTCGTGTGAGCAGCATCGTGTAGTTTACATTCCGAC
Found at i:49553588 original size:25 final size:24
Alignment explanation
Indices: 49553562--49553648 Score: 102
Period size: 25 Copynumber: 3.5 Consensus size: 24
49553552 CAGCTCTTAT
* * *
49553562 GAGCTTCCCGATATTTAGCTTGCAT
1 GAGCTTCCCGTTATTCAGCTTG-AG
*
49553587 GAGCTTCCCGTTATTCAGCTCGAAG
1 GAGCTTCCCGTTATTCAGCTTG-AG
*
49553612 GAGCTTCCTGTTATTCAGCTTAGAG
1 GAGCTTCCCGTTATTCAGCTT-GAG
49553637 GAGCTTCCCGTT
1 GAGCTTCCCGTT
49553649 TGCAGCTCGT
Statistics
Matches: 53, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
25 52 0.98
26 1 0.02
ACGTcount: A:0.18, C:0.25, G:0.23, T:0.33
Consensus pattern (24 bp):
GAGCTTCCCGTTATTCAGCTTGAG
Found at i:49553632 original size:50 final size:49
Alignment explanation
Indices: 49553562--49553657 Score: 122
Period size: 50 Copynumber: 1.9 Consensus size: 49
49553552 CAGCTCTTAT
* * *
49553562 GAGCTTCCCGATATTTAGCTT-GCATGAGCTTCCCGTTATTCAGCTCGAAG
1 GAGCTTCCCGATATTCAGCTTAG-AGGAGCTTCCCGTT-TGCAGCTCGAAG
* *
49553612 GAGCTTCCTGTTATTCAGCTTAGAGGAGCTTCCCGTTTGCAGCTCG
1 GAGCTTCCCGATATTCAGCTTAGAGGAGCTTCCCGTTTGCAGCTCG
49553658 TATGAGCATA
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
49 8 0.20
50 31 0.77
51 1 0.03
ACGTcount: A:0.18, C:0.26, G:0.24, T:0.32
Consensus pattern (49 bp):
GAGCTTCCCGATATTCAGCTTAGAGGAGCTTCCCGTTTGCAGCTCGAAG
Found at i:49558500 original size:27 final size:27
Alignment explanation
Indices: 49558469--49558646 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
49558459 TAAATTGTAC
49558469 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
49558496 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
49558522 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
49558550 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
49558578 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
49558605 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
49558632 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
49558647 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:49558583 original size:82 final size:81
Alignment explanation
Indices: 49558470--49558625 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
49558460 AAATTGTACA
* *
49558470 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
49558534 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
49558551 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
49558616 TGCGAGTTGA
65 TGCGAATTGA
49558626 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:49558637 original size:82 final size:81
Alignment explanation
Indices: 49558466--49558646 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
49558456 GATTAAATTG
* *
49558466 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
49558531 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
49558547 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
49558611 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
49558629 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
49558647 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:49563960 original size:25 final size:25
Alignment explanation
Indices: 49563899--49563960 Score: 81
Period size: 25 Copynumber: 2.5 Consensus size: 25
49563889 CACAACTCTT
* * *
49563899 ATGAGCTTCCCAATATTTAGCTCAT
1 ATGAGCTTCCCGATACTTAGCTCAC
49563924 ATGAGCTTCCCGATACTTAGCT-AGC
1 ATGAGCTTCCCGATACTTAGCTCA-C
49563949 ATGAGCTTCCCG
1 ATGAGCTTCCCG
49563961 TTATTCAGCT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
24 1 0.03
25 32 0.97
ACGTcount: A:0.24, C:0.27, G:0.18, T:0.31
Consensus pattern (25 bp):
ATGAGCTTCCCGATACTTAGCTCAC
Found at i:49563979 original size:25 final size:25
Alignment explanation
Indices: 49563926--49563982 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 25
49563916 TAGCTCATAT
*
49563926 GAGCTTCCCGATACTTAGCTAGCAT
1 GAGCTTCCCGATACTTAGCTAGCAG
*
49563951 GAGCTTCCCGTTA-TTCAGCTTAG-AG
1 GAGCTTCCCGATACTT-AGC-TAGCAG
49563976 GAGCTTC
1 GAGCTTC
49563983 TAGTTTACAG
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
24 2 0.07
25 23 0.82
26 3 0.11
ACGTcount: A:0.21, C:0.26, G:0.23, T:0.30
Consensus pattern (25 bp):
GAGCTTCCCGATACTTAGCTAGCAG
Found at i:49566077 original size:22 final size:23
Alignment explanation
Indices: 49566042--49566088 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 23
49566032 GGCTTCAATA
*
49566042 TTCAAATTGGTACTTGAGT-TTT
1 TTCAAATTGATACTTGAGTATTT
*
49566064 TTCAATTTGATACTTGAGTATTT
1 TTCAAATTGATACTTGAGTATTT
49566087 TT
1 TT
49566089 TGTTCCAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 17 0.77
23 5 0.23
ACGTcount: A:0.23, C:0.09, G:0.15, T:0.53
Consensus pattern (23 bp):
TTCAAATTGATACTTGAGTATTT
Found at i:49567153 original size:3 final size:3
Alignment explanation
Indices: 49567147--49567202 Score: 69
Period size: 3 Copynumber: 18.7 Consensus size: 3
49567137 CACTCTTGCC
* *
49567147 TCT TCT TCT TCT TCT TCT TCT TCT TCT AT-A TCT TCT TCT TGT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT -TCT TCT TCT TCT TCT TCT
*
49567192 TCA TCT TCT TC
1 TCT TCT TCT TC
49567203 CTGTTCTTCC
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
2 1 0.02
3 43 0.96
4 1 0.02
ACGTcount: A:0.05, C:0.30, G:0.02, T:0.62
Consensus pattern (3 bp):
TCT
Found at i:49567207 original size:18 final size:18
Alignment explanation
Indices: 49567147--49567211 Score: 78
Period size: 18 Copynumber: 3.6 Consensus size: 18
49567137 CACTCTTGCC
* *
49567147 TCTTCTTCTTCTTCTTCT
1 TCTTGTTCTTCATCTTCT
*
49567165 TCTTCTTCTAT-ATCTTCT
1 TCTTGTTCT-TCATCTTCT
49567183 TCTTGTTCTTCATCTTCT
1 TCTTGTTCTTCATCTTCT
*
49567201 TCCTGTTCTTC
1 TCTTGTTCTTC
49567212 CTCTCCCTTT
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
17 1 0.02
18 40 0.95
19 1 0.02
ACGTcount: A:0.05, C:0.31, G:0.03, T:0.62
Consensus pattern (18 bp):
TCTTGTTCTTCATCTTCT
Found at i:49567702 original size:84 final size:85
Alignment explanation
Indices: 49567563--49567725 Score: 240
Period size: 84 Copynumber: 1.9 Consensus size: 85
49567553 ATCTGCTTCT
* * * *
49567563 GTTTTACTGTCTTAGAATAATTTTGTTTGGTCCGCCAAAATAAGACCTGTCCATTAATGTTATAG
1 GTTTTACTGTCTGAGAATAATTTTGTTTGATCCGCCAAAATAAAACCTGTACATTAATGTTATAG
49567628 AACTAAG-TCAAATGCTTTA
66 AACTAAGCTCAAATGCTTTA
* * *
49567647 GTTTTACTGTCTGAGAATAATTTTGTTTGATCCGCTC-AAGTAAAACCTTTACATTAATGTTTTA
1 GTTTTACTGTCTGAGAATAATTTTGTTTGATCCGC-CAAAATAAAACCTGTACATTAATGTTATA
49567711 GAACTAAGCTCAAAT
65 GAACTAAGCTCAAAT
49567726 ACTTGGAGAG
Statistics
Matches: 70, Mismatches: 7, Indels: 3
0.88 0.09 0.04
Matches are distributed among these distances:
84 63 0.90
85 7 0.10
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.39
Consensus pattern (85 bp):
GTTTTACTGTCTGAGAATAATTTTGTTTGATCCGCCAAAATAAAACCTGTACATTAATGTTATAG
AACTAAGCTCAAATGCTTTA
Found at i:49575915 original size:24 final size:21
Alignment explanation
Indices: 49575851--49575911 Score: 61
Period size: 24 Copynumber: 2.7 Consensus size: 21
49575841 ATATAAATAT
49575851 AAAATAA-TTAATAATTTAAA
1 AAAATAATTTAATAATTTAAA
*
49575871 AAACATAATAATTAATTATTTAAA
1 AAA-ATAAT--TTAATAATTTAAA
49575895 ATTAAATAATTTAATAA
1 A--AAATAATTTAATAA
49575912 ATTTTCTTAC
Statistics
Matches: 33, Mismatches: 2, Indels: 9
0.75 0.05 0.20
Matches are distributed among these distances:
20 3 0.09
21 4 0.12
23 6 0.18
24 13 0.39
25 5 0.15
26 2 0.06
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.38
Consensus pattern (21 bp):
AAAATAATTTAATAATTTAAA
Found at i:49576058 original size:7 final size:7
Alignment explanation
Indices: 49576046--49576090 Score: 54
Period size: 7 Copynumber: 6.4 Consensus size: 7
49576036 ATTAAAAAAT
*
49576046 AATTGAG
1 AATTGAA
*
49576053 AATTGAG
1 AATTGAA
*
49576060 GATTGAA
1 AATTGAA
49576067 AATTGAA
1 AATTGAA
49576074 AATTGAA
1 AATTGAA
*
49576081 GATTGAA
1 AATTGAA
49576088 AAT
1 AAT
49576091 ATAGGATGGA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
7 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.22, T:0.29
Consensus pattern (7 bp):
AATTGAA
Found at i:49576072 original size:21 final size:21
Alignment explanation
Indices: 49576046--49576090 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
49576036 ATTAAAAAAT
* *
49576046 AATTGAGAATTGAGGATTGAA
1 AATTGAAAATTGAAGATTGAA
49576067 AATTGAAAATTGAAGATTGAA
1 AATTGAAAATTGAAGATTGAA
49576088 AAT
1 AAT
49576091 ATAGGATGGA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.49, C:0.00, G:0.22, T:0.29
Consensus pattern (21 bp):
AATTGAAAATTGAAGATTGAA
Found at i:49577781 original size:19 final size:19
Alignment explanation
Indices: 49577757--49577799 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
49577747 ATATTTTTCC
49577757 ATAAAAATGATTAAATATT
1 ATAAAAATGATTAAATATT
*
49577776 ATAAAAATTATTAAATATT
1 ATAAAAATGATTAAATATT
49577795 A-AAAA
1 ATAAAA
49577800 TACTTTAAAG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 4 0.17
19 19 0.83
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (19 bp):
ATAAAAATGATTAAATATT
Found at i:49583366 original size:16 final size:16
Alignment explanation
Indices: 49583347--49583377 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
49583337 CTTCTTCACT
49583347 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
49583363 TACTTACTTACTTAA
1 TACTCACTTACTTAA
49583378 TCAAATTTAT
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:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:49583383 original size:20 final size:20
Alignment explanation
Indices: 49583344--49583383 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
49583334 AAACTTCTTC
* *
49583344 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
49583364 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
49583384 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Done.