Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A10
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: 111961792
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4980000 characters in sequence are not A, C, G, or T
File 30 of 344
Found at i:10440605 original size:125 final size:127
Alignment explanation
Indices: 10440415--10440676 Score: 316
Period size: 125 Copynumber: 2.1 Consensus size: 127
10440405 GAGTATGAGC
* * *
10440415 TTGCCTTCTATTTCATTTAAAACTCATGTAATTAAATTTTAAAAAGTATATTCGGATATTTAGAT
1 TTGCCTT-TATTTCATTTAAAACTCATGTAATTAAATTTTAAAAAGGATAATCGGATACTTAGAT
* * * * *
10440480 CAAACAGAAAATC-GAAA-CCAAGTACATTAGGACACGACTACTCGAATTTCTAATTACCGAATA
65 C-AACAGAAAAACTGAAACCCAA-TACATTAGGACACAACTACTCGAATTTCCAAGTACCAAATA
* * * *
10440543 TTGCCTTTATTTTATTTAAAACTCATGTATTTTAA-TTT-AAAAGGATAATCGGTTACTTAGATC
1 TTGCCTTTATTTCATTTAAAACTCATGTAATTAAATTTTAAAAAGGATAATCGGATACTTAGATC
* * * *
10440606 AACTGAAAAACTGAAACCCAATACGTTAGGACACAATTTCTCGAATTTCCAAGTACCAAATA
66 AACAGAAAAACTGAAACCCAATACATTAGGACACAACTACTCGAATTTCCAAGTACCAAATA
*
10440668 TTTCCTTTA
1 TTGCCTTTA
10440677 CTTGAAAAAT
Statistics
Matches: 115, Mismatches: 17, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
124 9 0.08
125 67 0.58
126 7 0.06
127 25 0.22
128 7 0.06
ACGTcount: A:0.38, C:0.17, G:0.11, T:0.35
Consensus pattern (127 bp):
TTGCCTTTATTTCATTTAAAACTCATGTAATTAAATTTTAAAAAGGATAATCGGATACTTAGATC
AACAGAAAAACTGAAACCCAATACATTAGGACACAACTACTCGAATTTCCAAGTACCAAATA
Found at i:10440859 original size:3 final size:3
Alignment explanation
Indices: 10440845--10441261 Score: 104
Period size: 3 Copynumber: 139.3 Consensus size: 3
10440835 GGATAATATA
* * ** * * *
10440845 AAT AAT AGT AAT AAT AAT AA- AAA AAT GGT AAT AAT ATT AAA AAA AAGT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T
* * * **
10440893 AA- ATAT AAT GAT GAT AAT AGT GTT AAT AAT AAT AAT AAT AAT AA-
1 AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * *
10440937 ACA- AAT GACAT ATT AAT GAT AATT GAA- AAT AAT GAT AAT AAT AAT
1 A-AT AAT -A-AT AAT AAT AAT AA-T -AAT AAT AAT AAT AAT AAT AAT
* *
10440982 GGAAGT AAT GAA- AAT AAT AAT AAT AGA- AAC AAT AGT AAT AA- AAGT
1 --AA-T AAT -AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AA-T
* *
10441027 AAT AAT AA- AAT AA- AA- AAT AAC AAT GAT ACATT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-A-T AAT AAT AAT AAT
* ** * * *
10441071 -AT ATGT GCT AAT AAT AAT AAC AAT -AT AA- AAA AAG AA- AAT AAT
1 AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * * *
10441113 ACT -AT ATT AAT AAA AAT AAT AGT AAGTT AAT AAT AAT AGT AAT AAA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA--T AAT AAT AAT AAT AAT AAT
* * * * * * *
10441159 AAG GA- AAT AAT AAT AAT AA- AAT AAT AAA AAT ACT ATT ACGTT ACT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A--AT AAT
* * * * *
10441204 ACT AAT AAT AA- AA- AAG AA- AAT AGT AAT AGT -AT ATAG AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT
10441246 AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT A
10441262 CTCTCCCCCT
Statistics
Matches: 309, Mismatches: 65, Indels: 80
0.68 0.14 0.18
Matches are distributed among these distances:
2 37 0.12
3 239 0.77
4 18 0.06
5 14 0.05
6 1 0.00
ACGTcount: A:0.61, C:0.03, G:0.08, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:10440877 original size:20 final size:20
Alignment explanation
Indices: 10440837--10440894 Score: 73
Period size: 20 Copynumber: 2.9 Consensus size: 20
10440827 AATAGGACGG
*
10440837 ATAATATAAATAATAGTAATA
1 ATAATA-AAAAAATAGTAATA
*
10440858 ATAATAAAAAAATGGTAATA
1 ATAATAAAAAAATAGTAATA
*
10440878 ATATTAAAAAAA-AGTAA
1 ATAATAAAAAAATAGTAA
10440895 ATATAATGAT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
19 4 0.12
20 23 0.70
21 6 0.18
ACGTcount: A:0.66, C:0.00, G:0.07, T:0.28
Consensus pattern (20 bp):
ATAATAAAAAAATAGTAATA
Found at i:10441005 original size:15 final size:14
Alignment explanation
Indices: 10440964--10441190 Score: 67
Period size: 14 Copynumber: 15.7 Consensus size: 14
10440954 GATAATTGAA
*
10440964 AATAATGATAATAAT
1 AATAATAATAA-AAT
10440979 AATGGAAGTAATGAAAAT
1 AAT--AA-TAAT-AAAAT
*
10440997 AATAATAATAGAAAC
1 AATAATAATA-AAAT
*
10441012 AATAGTAAT-AAA-
1 AATAATAATAAAAT
*
10441024 AGTAATAATAAAAT
1 AATAATAATAAAAT
10441038 AA-AA-AATAACAAT
1 AATAATAATAA-AAT
*
10441051 GATACAT--TAATAAT
1 AATA-ATAATAA-AAT
****
10441065 AATAATATATGTGCT
1 AATAATA-ATAAAAT
10441080 AATAATAATAACAAT
1 AATAATAATAA-AAT
*
10441095 -ATAA-AA-AAAGAA
1 AATAATAATAAA-AT
* * *
10441107 AATAATACTATATT
1 AATAATAATAAAAT
* *
10441121 AATAAAAATAATAGT
1 AATAATAATAA-AAT
*
10441136 AAGTTAATAATAATAGT
1 AA--TAATAATAA-AAT
* **
10441153 AATAAAAAGGAAAT
1 AATAATAATAAAAT
10441167 AATAATAATAAAAT
1 AATAATAATAAAAT
*
10441181 AATAAAAATA
1 AATAATAATA
10441191 CTATTACGTT
Statistics
Matches: 155, Mismatches: 35, Indels: 45
0.66 0.15 0.19
Matches are distributed among these distances:
11 1 0.01
12 15 0.10
13 20 0.13
14 49 0.32
15 40 0.26
16 3 0.02
17 16 0.10
18 9 0.06
19 2 0.01
ACGTcount: A:0.63, C:0.03, G:0.07, T:0.27
Consensus pattern (14 bp):
AATAATAATAAAAT
Found at i:10441190 original size:20 final size:20
Alignment explanation
Indices: 10441017--10441190 Score: 73
Period size: 20 Copynumber: 8.6 Consensus size: 20
10441007 GAAACAATAG
*
10441017 TAATAAAAGTAATAATAAAA
1 TAATAAAAATAATAATAAAA
* * * * *
10441037 TAAAAAATAACAATGATACAT
1 TAATAAA-AATAATAATAAAA
* ****
10441058 TAATAATAATAATATATGTGC
1 TAATAAAAATAATA-ATAAAA
* *
10441079 TAATAATAATAACAATATAAA
1 TAATAAAAATAATAATA-AAA
* * * *
10441100 -AAAAGAAAATAATACTATAT
1 TAATA-AAAATAATAATAAAA
* **
10441120 TAATAAAAATAATAGTAAGT
1 TAATAAAAATAATAATAAAA
* *
10441140 TAATAATAATAGTAATAAAA
1 TAATAAAAATAATAATAAAA
**
10441160 -AGGAAATAATAATAATAAAA
1 TAATAAA-AATAATAATAAAA
10441180 TAATAAAAATA
1 TAATAAAAATA
10441191 CTATTACGTT
Statistics
Matches: 107, Mismatches: 40, Indels: 14
0.66 0.25 0.09
Matches are distributed among these distances:
19 3 0.03
20 60 0.56
21 44 0.41
ACGTcount: A:0.64, C:0.03, G:0.06, T:0.28
Consensus pattern (20 bp):
TAATAAAAATAATAATAAAA
Found at i:10441705 original size:12 final size:12
Alignment explanation
Indices: 10441688--10441732 Score: 67
Period size: 12 Copynumber: 3.9 Consensus size: 12
10441678 GTTAGTGGGG
10441688 TGGTTTAGTGGT
1 TGGTTTAGTGGT
10441700 TGGTTTAGTGG-
1 TGGTTTAGTGGT
*
10441711 -GGTGTAGTGGT
1 TGGTTTAGTGGT
10441722 TGGTTTAGTGG
1 TGGTTTAGTGG
10441733 GGTGTTAATT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
10 9 0.31
12 20 0.69
ACGTcount: A:0.09, C:0.00, G:0.47, T:0.44
Consensus pattern (12 bp):
TGGTTTAGTGGT
Found at i:10441721 original size:22 final size:22
Alignment explanation
Indices: 10441679--10441737 Score: 91
Period size: 22 Copynumber: 2.5 Consensus size: 22
10441669 GGTGATAAAG
10441679 TTAGTGGGGTGGTTTAGTGGTTGGT
1 TTAGTGGGGT-G--TAGTGGTTGGT
10441704 TTAGTGGGGTGTAGTGGTTGGT
1 TTAGTGGGGTGTAGTGGTTGGT
10441726 TTAGTGGGGTGT
1 TTAGTGGGGTGT
10441738 TAATTGGACT
Statistics
Matches: 34, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
22 23 0.68
24 1 0.03
25 10 0.29
ACGTcount: A:0.08, C:0.00, G:0.49, T:0.42
Consensus pattern (22 bp):
TTAGTGGGGTGTAGTGGTTGGT
Found at i:10442358 original size:134 final size:133
Alignment explanation
Indices: 10442220--10442507 Score: 328
Period size: 134 Copynumber: 2.2 Consensus size: 133
10442210 CTCCACTACG
* * * *
10442220 ACTTCAGGGAGACAAGGTTTG-TGGTCTTCAGTCCACTCCACTGCAACTCCAAGGAGATAAGACT
1 ACTTCAGGGAGACAAGATCTGCT-ATCTTCAATCCACTCCACTGCAACTCCAAGGAGATAAGACT
* * * *
10442284 TGCT-ACTTCAACCTACTCTATTGCAACTTCAGAAAGATAAGATTTACTATCTTTGATCTGCTCC
65 TG-TAACTTCAACCTACTCT-CTGCAACTTCAGAAAGATAAGATTTACTATCCTCGATCTACTCC
10442348 GCTATA
128 GCTATA
* * ** * * *
10442354 ACTTCAAGGAGATAAGATCTGCTATCTTCAATCTGCTCCACTGCAACTTCAGGGAGATGAGACTT
1 ACTTCAGGGAGACAAGATCTGCTATCTTCAATCCACTCCACTGCAACTCCAAGGAGATAAGACTT
* * * * * *
10442419 GTAACTTCAACTTGCTCTCTGCAACTTCAGAGAGATAAGGTTTGCTATCCTCGATCTATTCCGCT
66 GTAACTTCAACCTACTCTCTGCAACTTCAGAAAGATAAGATTTACTATCCTCGATCTACTCCGCT
10442484 ATA
131 ATA
* *
10442487 ACTTCAGGGAAATAAGATCTG
1 ACTTCAGGGAGACAAGATCTG
10442508 GTGGCTTAAA
Statistics
Matches: 129, Mismatches: 23, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
133 62 0.48
134 66 0.51
135 1 0.01
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.30
Consensus pattern (133 bp):
ACTTCAGGGAGACAAGATCTGCTATCTTCAATCCACTCCACTGCAACTCCAAGGAGATAAGACTT
GTAACTTCAACCTACTCTCTGCAACTTCAGAAAGATAAGATTTACTATCCTCGATCTACTCCGCT
ATA
Found at i:10442502 original size:133 final size:134
Alignment explanation
Indices: 10442255--10442507 Score: 348
Period size: 133 Copynumber: 1.9 Consensus size: 134
10442245 CTTCAGTCCA
*
10442255 CTCCACTGCAACTCCAAGGAGATAAGACTTGCTACTTCAACCTACTCTATTGCAACTTCAGAAAG
1 CTCCACTGCAACTCCAAGGAGATAAGACTTGCTACTTCAACCTACTCTACTGCAACTTCAGAAAG
* * * *
10442320 ATAAGATTTACTATCTTTGATCTGCTCCGCTATAACTTCAAGGAGATAAGATCTGCTATCTTCAA
66 ATAAGATTTACTATCCTCGATCTACTCCGCTATAACTTCAAGGAAATAAGATCTGCTATCTTCAA
10442385 TCTG
131 TCTG
* * * * * *
10442389 CTCCACTGCAACTTCAGGGAGATGAGACTTG-TAACTTCAACTTGCTCT-CTGCAACTTCAGAGA
1 CTCCACTGCAACTCCAAGGAGATAAGACTTGCT-ACTTCAACCTACTCTACTGCAACTTCAGAAA
* * * *
10442452 GATAAGGTTTGCTATCCTCGATCTATTCCGCTATAACTTCAGGGAAATAAGATCTG
65 GATAAGATTTACTATCCTCGATCTACTCCGCTATAACTTCAAGGAAATAAGATCTG
10442508 GTGGCTTAAA
Statistics
Matches: 103, Mismatches: 15, Indels: 3
0.85 0.12 0.02
Matches are distributed among these distances:
133 62 0.60
134 41 0.40
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.30
Consensus pattern (134 bp):
CTCCACTGCAACTCCAAGGAGATAAGACTTGCTACTTCAACCTACTCTACTGCAACTTCAGAAAG
ATAAGATTTACTATCCTCGATCTACTCCGCTATAACTTCAAGGAAATAAGATCTGCTATCTTCAA
TCTG
Found at i:10442543 original size:133 final size:134
Alignment explanation
Indices: 10442255--10442548 Score: 340
Period size: 133 Copynumber: 2.2 Consensus size: 134
10442245 CTTCAGTCCA
* * *
10442255 CTCCACTGCAACTCCAAGGAGATAAGACTTGCTACTTCAACCTACTCTATTGCAACTTCAGAAAG
1 CTCCACTGCAACTACAGGGAGATAAGACTTGCTACTTCAACCTACTCTACTGCAACTTCAGAAAG
* * * * * *
10442320 ATAAGATTTACTATCTTTGATCTGCTCCGCTATAACTTCAAGGAGATAAGATCTGCTATCTTCAA
66 ATAAGATTTACTATCCTCGATCTACTCCGCTATAACTTCAAGGAAATAAGATCTGCTAGCTTAAA
10442385 TCTG
131 TCTG
* * * * *
10442389 CTCCACTGCAACTTCAGGGAGATGAGACTTG-TAACTTCAACTTGCTCT-CTGCAACTTCAGAGA
1 CTCCACTGCAACTACAGGGAGATAAGACTTGCT-ACTTCAACCTACTCTACTGCAACTTCAGAAA
* * * * * *
10442452 GATAAGGTTTGCTATCCTCGATCTATTCCGCTATAACTTCAGGGAAATAAGATCTGGTGGCTTAA
65 GATAAGATTTACTATCCTCGATCTACTCCGCTATAACTTCAAGGAAATAAGATCTGCTAGCTTAA
10442517 ATCTG
130 ATCTG
* * ** *
10442522 CTTCATTGCCGCTACATGGAGATAAGA
1 CTCCACTGCAACTACAGGGAGATAAGA
10442549 TTCGCAGTCT
Statistics
Matches: 133, Mismatches: 26, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
133 92 0.69
134 41 0.31
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.30
Consensus pattern (134 bp):
CTCCACTGCAACTACAGGGAGATAAGACTTGCTACTTCAACCTACTCTACTGCAACTTCAGAAAG
ATAAGATTTACTATCCTCGATCTACTCCGCTATAACTTCAAGGAAATAAGATCTGCTAGCTTAAA
TCTG
Found at i:10442646 original size:44 final size:45
Alignment explanation
Indices: 10442201--10442680 Score: 230
Period size: 45 Copynumber: 10.8 Consensus size: 45
10442191 AATTGATAAT
* * * * * * *
10442201 TTCAACCTGCTCCACTACGACTTCAGGGAGACAAGGTTTG-TGGTC
1 TTCAACCTACTCCACTGCAACTTCAGGGAGATAAGATTCGCT-ATC
* * *
10442246 TTCAGTCC-ACTCCACTGCAACTCCAAGGAGATAAGACTT-GCTA-C
1 TTCA-ACCTACTCCACTGCAACTTCAGGGAGATAAGA-TTCGCTATC
* * ** **
10442290 TTCAACCTACTCTATTGCAACTTCAGAAAGATAAGATTTACTATC
1 TTCAACCTACTCCACTGCAACTTCAGGGAGATAAGATTCGCTATC
** * * * ** *
10442335 TTTGATCTGCTCCGCTATAACTTCAAGGAGATAAGA-TCTGCTATC
1 TTCAACCTACTCCACTGCAACTTCAGGGAGATAAGATTC-GCTATC
* * * *
10442380 TTCAATCTGCTCCACTGCAACTTCAGGGAGATGAGACTT-G-TAAC
1 TTCAACCTACTCCACTGCAACTTCAGGGAGATAAGA-TTCGCTATC
* * * * * *
10442424 TTCAACTTGCT-CTCTGCAACTTCAGAGAGATAAGGTTTGCTATC
1 TTCAACCTACTCCACTGCAACTTCAGGGAGATAAGATTCGCTATC
* * * * * ** * * **
10442468 CTCGATCTATTCCGCTATAACTTCAGGGAAATAAGA-TCTGGTGGC
1 TTCAACCTACTCCACTGCAACTTCAGGGAGATAAGATTC-GCTATC
* * * * * ** * *
10442513 TTAAATCTGCTTCATTGCCGCTACATGGAGATAAGATTCGC-AGTC
1 TTCAACCTACTCCACTGCAACTTCAGGGAGATAAGATTCGCTA-TC
* * * **
10442558 TTCAATCTGCTCCACTACTGCTT-AGGGAGATAAGATTCGCTATC
1 TTCAACCTACTCCACTGCAACTTCAGGGAGATAAGATTCGCTATC
** *
10442602 TTCAGTCTACTCCACTGCAACTTCAGGGTGATAAGACTT-G-TATC
1 TTCAACCTACTCCACTGCAACTTCAGGGAGATAAGA-TTCGCTATC
*
10442646 TTGAACCTACTCCACTGCAACTTCAGGGAGATAAG
1 TTCAACCTACTCCACTGCAACTTCAGGGAGATAAG
10442681 GCTGGTGGCT
Statistics
Matches: 320, Mismatches: 97, Indels: 37
0.70 0.21 0.08
Matches are distributed among these distances:
42 2 0.01
43 25 0.08
44 123 0.38
45 160 0.50
46 9 0.03
47 1 0.00
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.30
Consensus pattern (45 bp):
TTCAACCTACTCCACTGCAACTTCAGGGAGATAAGATTCGCTATC
Found at i:10442700 original size:44 final size:44
Alignment explanation
Indices: 10442254--10442701 Score: 157
Period size: 44 Copynumber: 10.1 Consensus size: 44
10442244 TCTTCAGTCC
* * * * *
10442254 ACTCCACTGCAACTCCAAGGAGATAAGACTTGCTA-CTTCAACCT
1 ACTCCACTGCAACTTCAGGGAGATAAGAC-TGGTAGCTTAAATCT
* * ** * ** * **
10442298 ACTCTATTGCAACTTCAGAAAGATAAGATTTACTATCTTTGATCT
1 ACTCCACTGCAACTTCAGGGAGATAAGA-CTGGTAGCTTAAATCT
* * ** * * * *
10442343 GCTCCGCTATAACTTCAAGGAGATAAGATCTGCTATCTTCAATCT
1 ACTCCACTGCAACTTCAGGGAGATAAGA-CTGGTAGCTTAAATCT
* * * * *
10442388 GCTCCACTGCAACTTCAGGGAGATGAGACTTGTAACTTCAA-CTT
1 ACTCCACTGCAACTTCAGGGAGATAAGACTGGTAGCTTAAATC-T
* * * ** * * * **
10442432 GCT-CTCTGCAACTTCAGAGAGATAAGGTTTGCTATCCTCGATCT
1 ACTCCACTGCAACTTCAGGGAGATAA-GACTGGTAGCTTAAATCT
* * ** * *
10442476 ATTCCGCTATAACTTCAGGGAAATAAGATCTGGTGGCTTAAATCT
1 ACTCCACTGCAACTTCAGGGAGATAAGA-CTGGTAGCTTAAATCT
* * * ** * * * * * *
10442521 GCTTCATTGCCGCTACATGGAGATAAGATTCGCAGTCTTCAATCT
1 ACTCCACTGCAACTTCAGGGAGATAAGACTGGTAG-CTTAAATCT
* * ** * * * * *
10442566 GCTCCACTACTGCTT-AGGGAGATAAGATTCGCTATCTTCAGTCT
1 ACTCCACTGCAACTTCAGGGAGATAAGACT-GGTAGCTTAAATCT
* * * * *
10442610 ACTCCACTGCAACTTCAGGGTGATAAGACTTGTATCTTGAACCT
1 ACTCCACTGCAACTTCAGGGAGATAAGACTGGTAGCTTAAATCT
* *
10442654 ACTCCACTGCAACTTCAGGGAGATAAGGCTGGTGGCTTAAATCT
1 ACTCCACTGCAACTTCAGGGAGATAAGACTGGTAGCTTAAATCT
10442698 ACTC
1 ACTC
10442702 TATTGCCGCT
Statistics
Matches: 291, Mismatches: 103, Indels: 20
0.70 0.25 0.05
Matches are distributed among these distances:
43 20 0.07
44 136 0.47
45 135 0.46
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.30
Consensus pattern (44 bp):
ACTCCACTGCAACTTCAGGGAGATAAGACTGGTAGCTTAAATCT
Found at i:10442718 original size:177 final size:178
Alignment explanation
Indices: 10442486--10442813 Score: 479
Period size: 177 Copynumber: 1.8 Consensus size: 178
10442476 ATTCCGCTAT
* *
10442486 AACTTCAGGGAAATAAGATCTGGTGGCTTAAATCTGCTTCATTGCCGCTACATGGAGATAAGATT
1 AACTTCAGGGAAATAAGAGCTGGTGGCTTAAATCTACTTCATTGCCGCTACATGGAGATAAGATT
10442551 CG-CAGTCT-TCAATCTGCTCCACTACTGCTTAGGGAGATAAGAT-TCGCT-ATCTTCAGTCTAC
66 CGCCA-T-TATCAATCTGCTCCACTACTGCTTAGGGAGATAAGATCT-G-TAATCTTCAGTCTAC
*
10442612 TCCACTGCAACTTCAGGGTGATAAGACTTGTATCTTGAACCTACTCCACTGC
127 TCCACTGCAACTTCAGGGAGATAAGACTTGTATCTTGAACCTACTCCACTGC
*
10442664 AACTTCAGGGAGATAAG-GCTGGTGGCTTAAATCTAC-TCTATTGCCGCTACATGGAGATAAGAT
1 AACTTCAGGGAAATAAGAGCTGGTGGCTTAAATCTACTTC-ATTGCCGCTACATGGAGATAAGAT
* * * * *
10442727 TCGCCATTATCGATTTGCTCCACTACTGCTTAGGGAGCTAAGATCTGTAATTTTCAGTCTGCTCC
65 TCGCCATTATCAATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAGTCTACTCC
*
10442792 ACTGCAATTTCAGGGAGATAAG
130 ACTGCAACTTCAGGGAGATAAG
10442814 GCTGGTGGCT
Statistics
Matches: 135, Mismatches: 10, Indels: 11
0.87 0.06 0.07
Matches are distributed among these distances:
176 4 0.03
177 112 0.83
178 19 0.14
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.30
Consensus pattern (178 bp):
AACTTCAGGGAAATAAGAGCTGGTGGCTTAAATCTACTTCATTGCCGCTACATGGAGATAAGATT
CGCCATTATCAATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAGTCTACTCCA
CTGCAACTTCAGGGAGATAAGACTTGTATCTTGAACCTACTCCACTGC
Found at i:10442796 original size:133 final size:132
Alignment explanation
Indices: 10442655--10443079 Score: 636
Period size: 133 Copynumber: 3.2 Consensus size: 132
10442645 CTTGAACCTA
10442655 CTCCACTGCAACTTCAGGGAGATAAGGCTGGTGGCTTAAATCTACTCTATTGCCGCTACATGGAG
1 CTCCACTGCAACTTCAGGGAGATAAGGCTGGTGGCTTAAATCTACTCTATTGCCGCTACATGGAG
* * * *
10442720 ATAAGATTCGCCATTATCGATTTGCTCCACTACTGCTTAGGGAGCTAAGATCTGTAATTTTCAGT
66 ATAAGATTTGCC-TTATCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATTTTCAGT
10442785 CTG
130 CTG
*
10442788 CTCCACTGCAATTTCAGGGAGATAAGGCTGGTGGCTTAAATCTACTCTATTGCCGCTACATGGAG
1 CTCCACTGCAACTTCAGGGAGATAAGGCTGGTGGCTTAAATCTACTCTATTGCCGCTACATGGAG
* *
10442853 ATAAGATTTGCCGTCT-TCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAAATTTCAG
66 ATAAGATTTGCC-T-TATCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATTTTCAG
10442917 TCTG
129 TCTG
** * * *
10442921 CTCCACTGCAACTTCAGGGAGATAAGTTTAGTGGCTTAAATCTGCTTTATTGCCGCTACATGGAG
1 CTCCACTGCAACTTCAGGGAGATAAGGCTGGTGGCTTAAATCTACTCTATTGCCGCTACATGGAG
* * * * * *
10442986 ATAAGATTTGCCGTATTCGATCTGCTCCATTACTGTTTAAGGAGATAAGGTCTGCAATTTTTAGT
66 ATAAGATTTGCCTTA-TCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATTTTCAGT
10443051 CTG
130 CTG
*
10443054 CTCCACTGTAACTTCAGGGAGATAAG
1 CTCCACTGCAACTTCAGGGAGATAAG
10443080 ACTTATATCT
Statistics
Matches: 266, Mismatches: 23, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
131 1 0.00
133 264 0.99
134 1 0.00
ACGTcount: A:0.25, C:0.21, G:0.22, T:0.31
Consensus pattern (132 bp):
CTCCACTGCAACTTCAGGGAGATAAGGCTGGTGGCTTAAATCTACTCTATTGCCGCTACATGGAG
ATAAGATTTGCCTTATCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATTTTCAGTC
TG
Found at i:10442855 original size:177 final size:177
Alignment explanation
Indices: 10442486--10442857 Score: 448
Period size: 177 Copynumber: 2.1 Consensus size: 177
10442476 ATTCCGCTAT
* * * *
10442486 AACTTCAGGGAAATAAGATCTGGTGGCTTAAATCTGCTTCATTGCCGCTACATGGAGATAAGATT
1 AACTACAGGGAGATAAG-GCTGGTGGCTTAAATCTACTTCATTGCCGCTACATGGAGATAAGATT
10442551 CGCAGTCTTCAATCTGCTCCACTACTGCTTAGGGAGATAAGATTCGCTATCTTCAGTCTACTCCA
65 CGCAGTCTTCAATCTGCTCCACTACTGCTTAGGGAGATAAGATTCGCTATCTTCAGTCTACTCCA
* * * *
10442616 CTGCAACTTCAGGGTGATAAGACTTGTATCTTGAACCTACTCCACTGC
130 CTGCAACTTCAGGGAGATAAGACTGGTAGCTTAAACCTACTCCACTGC
*
10442664 AACTTCAGGGAGATAAGGCTGGTGGCTTAAATCTAC-TCTATTGCCGCTACATGGAGATAAGATT
1 AACTACAGGGAGATAAGGCTGGTGGCTTAAATCTACTTC-ATTGCCGCTACATGGAGATAAGATT
* * * * *
10442728 CGCCA-T-TATCGATTTGCTCCACTACTGCTTAGGGAGCTAAGA-TCTG-TAATTTTCAGTCTGC
65 CG-CAGTCT-TCAATCTGCTCCACTACTGCTTAGGGAGATAAGATTC-GCT-ATCTTCAGTCTAC
* * * * * *
10442789 TCCACTGCAATTTCAGGGAGATAAGGCTGGTGGCTTAAATCTACTCTATTGC
126 TCCACTGCAACTTCAGGGAGATAAGACTGGTAGCTTAAACCTACTCCACTGC
** *
10442841 CGCTACATGGAGATAAG
1 AACTACAGGGAGATAAG
10442858 ATTTGCCGTC
Statistics
Matches: 167, Mismatches: 22, Indels: 11
0.83 0.11 0.05
Matches are distributed among these distances:
176 6 0.04
177 143 0.86
178 18 0.11
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.30
Consensus pattern (177 bp):
AACTACAGGGAGATAAGGCTGGTGGCTTAAATCTACTTCATTGCCGCTACATGGAGATAAGATTC
GCAGTCTTCAATCTGCTCCACTACTGCTTAGGGAGATAAGATTCGCTATCTTCAGTCTACTCCAC
TGCAACTTCAGGGAGATAAGACTGGTAGCTTAAACCTACTCCACTGC
Found at i:10442855 original size:266 final size:266
Alignment explanation
Indices: 10442583--10443079 Score: 642
Period size: 266 Copynumber: 1.9 Consensus size: 266
10442573 TACTGCTTAG
* * * ***
10442583 GGAGATAAGATTCGCTATCTTC-AGTCTACTCCACTGCAACTTCAGGGTGATAAGA-CT-TGTAT
1 GGAGATAAGATTCGCCATCTTCGA-TCTACTCCACTACAACTT-AGGGAGATAAGATCTACAAAT
* *
10442645 CTTGAACCTACTCCACTGCAACTTCAGGGAGATAAGGCTGGTGGCTTAAATCTACTCTATTGCCG
64 -TTCAACCTACTCCACTGCAACTTCAGGGAGATAAGGCTAGTGGCTTAAATCTACTCTATTGCCG
* * * *
10442710 CTACATGGAGATAAGATTCGCCAT-TATCGATTTGCTCCACTACTGCTTAGGGAGCTAAGATCTG
128 CTACATGGAGATAAGATTCGCCGTAT-TCGATCTGCTCCACTACTGCTTAAGGAGATAAGATCTG
* *
10442774 TAATTTTCAGTCTGCTCCACTGCAATTTCAGGGAGATAAGGCTGGTGGCTTAAATCTACTCTATT
192 CAATTTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGGCTGGTGGCTTAAATCTACTCTATT
10442839 GCCGCTACAT
257 GCCGCTACAT
* * * **
10442849 GGAGATAAGATTTGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAAATTT
1 GGAGATAAGATTCGCCATCTTCGATCTACTCCACTACAACTTAGGGAGATAAGATCTACAAATTT
** * ** * *
10442914 CAGTCTGCTCCACTGCAACTTCAGGGAGATAAGTTTAGTGGCTTAAATCTGCTTTATTGCCGCTA
66 CAACCTACTCCACTGCAACTTCAGGGAGATAAGGCTAGTGGCTTAAATCTACTCTATTGCCGCTA
* * * *
10442979 CATGGAGATAAGATTTGCCGTATTCGATCTGCTCCATTACTGTTTAAGGAGATAAGGTCTGCAAT
131 CATGGAGATAAGATTCGCCGTATTCGATCTGCTCCACTACTGCTTAAGGAGATAAGATCTGCAAT
* *
10443044 TTTTAGTCTGCTCCACTGTAACTTCAGGGAGATAAG
196 TTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAG
10443080 ACTTATATCT
Statistics
Matches: 195, Mismatches: 32, Indels: 8
0.83 0.14 0.03
Matches are distributed among these distances:
265 11 0.06
266 180 0.92
267 4 0.02
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.31
Consensus pattern (266 bp):
GGAGATAAGATTCGCCATCTTCGATCTACTCCACTACAACTTAGGGAGATAAGATCTACAAATTT
CAACCTACTCCACTGCAACTTCAGGGAGATAAGGCTAGTGGCTTAAATCTACTCTATTGCCGCTA
CATGGAGATAAGATTCGCCGTATTCGATCTGCTCCACTACTGCTTAAGGAGATAAGATCTGCAAT
TTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGGCTGGTGGCTTAAATCTACTCTATTGCCG
CTACAT
Found at i:10443060 original size:177 final size:177
Alignment explanation
Indices: 10442873--10443224 Score: 442
Period size: 177 Copynumber: 2.0 Consensus size: 177
10442863 CCGTCTTCGA
* *
10442873 TCTGCTCCACTACT-GCTT-AGGGAGATAAGATCTACAAAT-TTC-AGTCTGCTCCACTGCAACT
1 TCTGCTCCACT-CTAACTTCAGGGAGATAAGA-CT-CAAATCTTCAACT-TGCTCCACTGCAACT
* ** **
10442934 TCAGGGAGATAAGTTTAGTGGCTTAAATCTGCTTTATTGCCGCTACATGGAGATAAGATTTGCCG
62 TCAGGAAGATAAGGCTAGTGGCTTAAATCTGCTCCATTGCCGCTACATGGAGATAAGATTTGCCG
* * * *
10442999 TATTCGATCTGCTCCATTACTGTTTAAGGAGATAAGGTCTGCAATTTTTAG
127 TATTCGATCTGCTCCACTACTGCTTAAGGAGATAAGATCTACAATTTTTAG
* * * * * *
10443050 TCTGCTCCACTGTAACTTCAGGGAGATAAGACTTATATCTTGAACTTGCTCCACTGTAACTTCAT
1 TCTGCTCCACTCTAACTTCAGGGAGATAAGACTCAAATCTTCAACTTGCTCCACTGCAACTTCAG
* * *
10443115 GAAGATAAGGCTGGTGGCTTAAATCTGCTCCATTGCCGCTACATGGAGATAAGATTTGTCGTCTT
66 GAAGATAAGGCTAGTGGCTTAAATCTGCTCCATTGCCGCTACATGGAGATAAGATTTGCCGTATT
* *
10443180 CGATCTGTTCCACTACTGCTTAGGGAGATAAGATCTACAATTTTT
131 CGATCTGCTCCACTACTGCTTAAGGAGATAAGATCTACAATTTTT
10443225 CGGTGTTGCT
Statistics
Matches: 149, Mismatches: 22, Indels: 8
0.83 0.12 0.04
Matches are distributed among these distances:
176 4 0.03
177 131 0.88
178 14 0.09
ACGTcount: A:0.26, C:0.20, G:0.20, T:0.33
Consensus pattern (177 bp):
TCTGCTCCACTCTAACTTCAGGGAGATAAGACTCAAATCTTCAACTTGCTCCACTGCAACTTCAG
GAAGATAAGGCTAGTGGCTTAAATCTGCTCCATTGCCGCTACATGGAGATAAGATTTGCCGTATT
CGATCTGCTCCACTACTGCTTAAGGAGATAAGATCTACAATTTTTAG
Found at i:10443144 original size:44 final size:44
Alignment explanation
Indices: 10443050--10443146 Score: 106
Period size: 44 Copynumber: 2.2 Consensus size: 44
10443040 CAATTTTTAG
* * * *
10443050 TCTGCTCCACTGTAACTTCAGGGAGATAAGACTTATATCTTGAA
1 TCTGCTCCACTGTAACTTCAGGAAGATAAGACTGATAGCTTAAA
* * * *
10443094 -CTTGCTCCACTGTAACTTCATGAAGATAAGGCTGGTGGCTTAAA
1 TC-TGCTCCACTGTAACTTCAGGAAGATAAGACTGATAGCTTAAA
10443138 TCTGCTCCA
1 TCTGCTCCA
10443147 TTGCCGCTAC
Statistics
Matches: 43, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
43 1 0.02
44 41 0.95
45 1 0.02
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.31
Consensus pattern (44 bp):
TCTGCTCCACTGTAACTTCAGGAAGATAAGACTGATAGCTTAAA
Found at i:10443165 original size:266 final size:266
Alignment explanation
Indices: 10442655--10443169 Score: 595
Period size: 266 Copynumber: 1.9 Consensus size: 266
10442645 CTTGAACCTA
*
10442655 CTCCACTGCAACTTCAGGGAGATAAGGCTGGTGGCTTAAATCTACTCTATTGCCGCTACATGGAG
1 CTCCACTGCAACTTCAGGGAGATAAGGCTAGTGGCTTAAATCTACTCTATTGCCGCTACATGGAG
* * * *
10442720 ATAAGATTCGCCATTATCGATTTGCTCCACTACTGCTTAGGGAGCTAAGATCTGTAATTTTCAGT
66 ATAAGATTCGCCATTATCGATCTGCTCCACTACTGCTTAAGGAGATAAGATCTGCAATTTTCAGT
* * * * * * **
10442785 CTGCTCCACTGCAATTTCAGGGAGATAAGGCTGGTGGCTTAAATCTACTCTATTGCCGCTACATG
131 CTGCTCCACTGCAACTTCAGGGAGATAAGACTGATAGCTTAAATCTACTCCACTGCAACTACATG
* ** * ** * *
10442850 GAGATAAGATTTGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAAATTTC
196 AAGATAAGAGCTGCCGGCTTAAATCTGCTCCACTACCGCTCAGGGAGATAAGATCTACAAATTTC
10442915 AGTCTG
261 AGTCTG
** * *
10442921 CTCCACTGCAACTTCAGGGAGATAAGTTTAGTGGCTTAAATCTGCTTTATTGCCGCTACATGGAG
1 CTCCACTGCAACTTCAGGGAGATAAGGCTAGTGGCTTAAATCTACTCTATTGCCGCTACATGGAG
* * * * * *
10442986 ATAAGATTTGCC-GTATTCGATCTGCTCCATTACTGTTTAAGGAGATAAGGTCTGCAATTTTTAG
66 ATAAGATTCGCCATTA-TCGATCTGCTCCACTACTGCTTAAGGAGATAAGATCTGCAATTTTCAG
* * * * * * *
10443050 TCTGCTCCACTGTAACTTCAGGGAGATAAGACTTATATCTTGAA-CTTGCTCCACTGTAACTTCA
130 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTGATAGCTTAAATC-TACTCCACTGCAACTACA
** * * *
10443114 TGAAGATAAG-GCTGGTGGCTTAAATCTGCTCCATTGCCGCTACATGGAGATAAGAT
194 TGAAGATAAGAGCTGCCGGCTTAAATCTGCTCCACTACCGCT-CAGGGAGATAAGAT
10443170 TTGTCGTCTT
Statistics
Matches: 203, Mismatches: 43, Indels: 6
0.81 0.17 0.02
Matches are distributed among these distances:
265 24 0.12
266 179 0.88
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.31
Consensus pattern (266 bp):
CTCCACTGCAACTTCAGGGAGATAAGGCTAGTGGCTTAAATCTACTCTATTGCCGCTACATGGAG
ATAAGATTCGCCATTATCGATCTGCTCCACTACTGCTTAAGGAGATAAGATCTGCAATTTTCAGT
CTGCTCCACTGCAACTTCAGGGAGATAAGACTGATAGCTTAAATCTACTCCACTGCAACTACATG
AAGATAAGAGCTGCCGGCTTAAATCTGCTCCACTACCGCTCAGGGAGATAAGATCTACAAATTTC
AGTCTG
Found at i:10444475 original size:7 final size:7
Alignment explanation
Indices: 10444463--10444495 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
10444453 TGGTCTCTCC
10444463 TTTTTCT
1 TTTTTCT
10444470 TTTTTCT
1 TTTTTCT
10444477 TTTTTCT
1 TTTTTCT
10444484 TTTTTCT
1 TTTTTCT
10444491 TTTTT
1 TTTTT
10444496 TTTCTGTGTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTTCT
Found at i:10444507 original size:21 final size:21
Alignment explanation
Indices: 10444463--10444509 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
10444453 TGGTCTCTCC
*
10444463 TTTTTCTTTTTTCTTTTTTCT
1 TTTTTCTTTTTTCTTTTGTCT
*
10444484 TTTTTCTTTTTT-TTTCTGTGT
1 TTTTTCTTTTTTCTTT-TGTCT
10444505 TTTTT
1 TTTTT
10444510 TTGAAACTAC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 3 0.13
21 20 0.87
ACGTcount: A:0.00, C:0.11, G:0.04, T:0.85
Consensus pattern (21 bp):
TTTTTCTTTTTTCTTTTGTCT
Found at i:10449636 original size:125 final size:127
Alignment explanation
Indices: 10449438--10449691 Score: 318
Period size: 125 Copynumber: 2.0 Consensus size: 127
10449428 GCTTGCCTTC
* * *
10449438 TATTTCATTTAAAACTCATATATTTAAATTTTAAAAAGTATATTCGGATATTTAGATCAAACAGA
1 TATTTCATTTAAAACTCATATATTTAAATTTTAAAAAGGATAATCGGATACTTAGATCAAACAGA
* * * * *
10449503 AAATCGAAACCCAGTACGTTAGGGCACGACTACTCGAATTTCTAATTA-CAGAATATTGCATT
66 AAACCGAAACCCAATACGTTAGGACACGACTACTCGAATTTCCAAGTACCA-AATATTGCATT
* * * *
10449565 TATTTTATTTAAAACTCATGTATTTTAA-TTT-AAAAGGATAATCGGTTACTTAGATCAAAC-GA
1 TATTTCATTTAAAACTCATATATTTAAATTTTAAAAAGGATAATCGGATACTTAGATCAAACAG-
* * * *
10449627 AAAACCGAAACCCAATACGTTAGGACACGATTTCTCTAATTTCCAAGTACCAAATATTGCCTT
65 AAAACCGAAACCCAATACGTTAGGACACGACTACTCGAATTTCCAAGTACCAAATATTGCATT
10449690 TA
1 TA
10449692 CTTGAAAAAT
Statistics
Matches: 109, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
124 1 0.01
125 78 0.72
126 5 0.05
127 25 0.23
ACGTcount: A:0.39, C:0.16, G:0.11, T:0.34
Consensus pattern (127 bp):
TATTTCATTTAAAACTCATATATTTAAATTTTAAAAAGGATAATCGGATACTTAGATCAAACAGA
AAACCGAAACCCAATACGTTAGGACACGACTACTCGAATTTCCAAGTACCAAATATTGCATT
Found at i:10449890 original size:20 final size:20
Alignment explanation
Indices: 10449865--10449902 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
10449855 ATAAATAATA
10449865 GTAATAATCA-TAAAAAAATG
1 GTAATAAT-ATTAAAAAAATG
10449885 GTAATAATATTAAAAAAA
1 GTAATAATATTAAAAAAA
10449903 GTAAATATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 1 0.06
20 16 0.94
ACGTcount: A:0.63, C:0.03, G:0.08, T:0.26
Consensus pattern (20 bp):
GTAATAATATTAAAAAAATG
Found at i:10449988 original size:3 final size:3
Alignment explanation
Indices: 10449973--10450190 Score: 73
Period size: 3 Copynumber: 72.7 Consensus size: 3
10449963 GATAATTGAA
* *
10449973 AAT AAT GAT AAT AAT AAT GGAAGT AAT GAA- AAT AAT AAT GAT AGA-
1 AAT AAT AAT AAT AAT AAT --AA-T AAT -AAT AAT AAT AAT AAT A-AT
* * * *
10450018 AAC AAT AGT AAT AA- AAGT AAT AAT AA- AAT AAA AAT AGA- AAT GAT
1 AAT AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT A-AT AAT AAT
* * **
10450062 -AC AAT AAT AAT AAT -AT ACGT GCT AAT AAT AAT AAT AAT -AT AA-
1 AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * * * *
10450104 AAA AAG AA- AAT AAT ACT -AT ATT AAT AAA AAT AAT AAT AGT AGGTT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A--AT
* *
10450149 AAT AAT AAT AGT AAT AAA AAGGT AAT AAT AAT AA- AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AA--T AAT AAT AAT AAT AAT AAT AA
10450191 AACACTATTA
Statistics
Matches: 160, Mismatches: 31, Indels: 48
0.67 0.13 0.20
Matches are distributed among these distances:
2 20 0.12
3 124 0.77
4 9 0.06
5 6 0.04
6 1 0.01
ACGTcount: A:0.61, C:0.02, G:0.09, T:0.27
Consensus pattern (3 bp):
AAT
Found at i:10450138 original size:23 final size:22
Alignment explanation
Indices: 10450085--10450190 Score: 70
Period size: 23 Copynumber: 4.6 Consensus size: 22
10450075 TATACGTGCT
*
10450085 AATAATAATAATAATATAAAAAA
1 AATAATAATAATAAT-TAATAAA
* *
10450108 AGAAAATAATACTATATTAATAAA
1 A-ATAATAATAATA-ATTAATAAA
* * *
10450132 AATAATAATAGTAGGTTAATAAT
1 AATAATAATAATA-ATTAATAAA
* * * *
10450155 AATAGTAATAAAAAGGTAATAAT
1 AATAATAATAATAA-TTAATAAA
10450178 AATAA-AATAATAA
1 AATAATAATAATAA
10450191 AACACTATTA
Statistics
Matches: 65, Mismatches: 15, Indels: 7
0.75 0.17 0.08
Matches are distributed among these distances:
22 7 0.11
23 39 0.60
24 17 0.26
25 2 0.03
ACGTcount: A:0.64, C:0.01, G:0.07, T:0.28
Consensus pattern (22 bp):
AATAATAATAATAATTAATAAA
Found at i:10450731 original size:10 final size:10
Alignment explanation
Indices: 10450716--10450749 Score: 50
Period size: 10 Copynumber: 3.2 Consensus size: 10
10450706 TTTAGTGATT
10450716 GGTTTAGTGG
1 GGTTTAGTGG
10450726 GGTTTAGTGG
1 GGTTTAGTGG
10450736 TTGGTTTAGTGG
1 --GGTTTAGTGG
10450748 GG
1 GG
10450750 CGTTAATTGG
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
10 12 0.55
12 10 0.45
ACGTcount: A:0.09, C:0.00, G:0.50, T:0.41
Consensus pattern (10 bp):
GGTTTAGTGG
Found at i:10450732 original size:22 final size:22
Alignment explanation
Indices: 10450704--10450749 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
10450694 TTAGTGGGGT
10450704 GGTTTAGTGATTGGTTTAGTGG
1 GGTTTAGTGATTGGTTTAGTGG
*
10450726 GGTTTAGTGGTTGGTTTAGTGG
1 GGTTTAGTGATTGGTTTAGTGG
10450748 GG
1 GG
10450750 CGTTAATTGG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.11, C:0.00, G:0.46, T:0.43
Consensus pattern (22 bp):
GGTTTAGTGATTGGTTTAGTGG
Found at i:10450747 original size:12 final size:12
Alignment explanation
Indices: 10450703--10450747 Score: 67
Period size: 12 Copynumber: 3.9 Consensus size: 12
10450693 GTTAGTGGGG
*
10450703 TGGTTTAGTGAT
1 TGGTTTAGTGGT
10450715 TGGTTTAGTGG-
1 TGGTTTAGTGGT
10450726 -GGTTTAGTGGT
1 TGGTTTAGTGGT
10450737 TGGTTTAGTGG
1 TGGTTTAGTGG
10450748 GGCGTTAATT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
10 10 0.33
12 20 0.67
ACGTcount: A:0.11, C:0.00, G:0.42, T:0.47
Consensus pattern (12 bp):
TGGTTTAGTGGT
Found at i:10464257 original size:18 final size:19
Alignment explanation
Indices: 10464234--10464272 Score: 62
Period size: 20 Copynumber: 2.1 Consensus size: 19
10464224 AAAAAAGAAA
10464234 AAAAATATG-CATATATAT
1 AAAAATATGACATATATAT
10464252 AAAAATATGTACATATATAT
1 AAAAATATG-ACATATATAT
10464272 A
1 A
10464273 TAGGTGTATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 9 0.47
20 10 0.53
ACGTcount: A:0.56, C:0.05, G:0.05, T:0.33
Consensus pattern (19 bp):
AAAAATATGACATATATAT
Found at i:10464715 original size:3 final size:3
Alignment explanation
Indices: 10464704--10464770 Score: 73
Period size: 3 Copynumber: 22.3 Consensus size: 3
10464694 CAATAATACC
* * * *
10464704 AAT ACT AAT AAT AGT AA- AGAT GAT AAT AAT GAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT
*
10464749 AAT AAT AAT AAT GAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT A
10464771 GCAAAGTACT
Statistics
Matches: 52, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
2 1 0.02
3 51 0.98
ACGTcount: A:0.60, C:0.01, G:0.07, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:10466251 original size:87 final size:87
Alignment explanation
Indices: 10466159--10466490 Score: 468
Period size: 87 Copynumber: 3.8 Consensus size: 87
10466149 TCAACTTGGG
* *
10466159 CCACTGCAACTTCAGGGGGATAAGATAGTGTCTTCGATCTGCTCCGCTGTAATCTCAGGGAGATA
1 CCACTGTAACTTCAGGGAGATAAGATAGTGTCTTCGATCTGCTCCGCTGTAATCTCAGGGAGATA
10466224 AGATCTCTTATTTTAATCCGCT
66 AGATCTCTTATTTTAATCCGCT
* *
10466246 CCACTGTAACTTCAGGGAGATAGGATAGTGTCTTCGATCTGCTCCGCTGTAATCTCAGGGAGATG
1 CCACTGTAACTTCAGGGAGATAAGATAGTGTCTTCGATCTGCTCCGCTGTAATCTCAGGGAGATA
10466311 AGATCTCTTATTTTAATCCGCT
66 AGATCTCTTATTTTAATCCGCT
* *
10466333 CCACTGTAACTTCAGGGAGATAGGATAGTGTCTTCGATCTGCTCCGCTGTAATCTCAGGGAGATG
1 CCACTGTAACTTCAGGGAGATAAGATAGTGTCTTCGATCTGCTCCGCTGTAATCTCAGGGAGATA
*** * *
10466398 AGATCTCTGGCTTCAATCTGCT
66 AGATCTCTTATTTTAATCCGCT
* * * * * *
10466420 CCACTGTAACCTCAGGGAGATAAGAT-CTGAAATTCTTTGGTCTGTTCCACTGTAATCTCAGGGA
1 CCACTGTAACTTCAGGGAGATAAGATAGTG----TCTTCGATCTGCTCCGCTGTAATCTCAGGGA
10466484 GATAAGA
62 GATAAGA
10466491 CCTGATGTGA
Statistics
Matches: 224, Mismatches: 17, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
86 2 0.01
87 189 0.84
90 33 0.15
ACGTcount: A:0.24, C:0.22, G:0.23, T:0.30
Consensus pattern (87 bp):
CCACTGTAACTTCAGGGAGATAAGATAGTGTCTTCGATCTGCTCCGCTGTAATCTCAGGGAGATA
AGATCTCTTATTTTAATCCGCT
Found at i:10466261 original size:44 final size:43
Alignment explanation
Indices: 10466189--10466660 Score: 286
Period size: 44 Copynumber: 10.9 Consensus size: 43
10466179 TAAGATAGTG
* *
10466189 TCTTCGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTCT
1 TCTTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTCT
* * * * * *
10466232 TATTTTAATCCGCTCCACTGTAA-CTTCAGGGAGATAGGATAGT-G
1 T-CTTCAATCTGCTCCACTGTAATC-TCAGGGAGATAAGAT-CTCT
* * *
10466276 TCTTCGATCTGCTCCGCTGTAATCTCAGGGAGATGAGATCTCT
1 TCTTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTCT
* * * * * *
10466319 TATTTTAATCCGCTCCACTGTAA-CTTCAGGGAGATAGGATAGT-G
1 T-CTTCAATCTGCTCCACTGTAATC-TCAGGGAGATAAGAT-CTCT
* * *
10466363 TCTTCGATCTGCTCCGCTGTAATCTCAGGGAGATGAGATCTCT
1 TCTTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTCT
* * *
10466406 GGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAAT
1 -TCTTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGATCT---CT
*** *
10466453 TCTTTGGTCTGTTCCACTGTAATCTCAGGGAGATAAGA-C-CT
1 TCTTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTCT
** * * * * *
10466494 GATGT-GATCTTCTCTACTGTAA-CTTCAGAGAGATACGATC-C-
1 TCT-TCAATCTGCTCCACTGTAATC-TCAGGGAGATAAGATCTCT
* * * *
10466535 T-TT-AATCCGCTCCATTGTAATCTCAAGGAGATAGGAT-TACT
1 TCTTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGATCT-CT
** * *
10466576 ATCTTTGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAAT
1 -TCTTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGATCT---CT
*** *
10466623 TCTTTGGTCTGTTCCACTGTAATCTCAGGGAGATAAGA
1 TCTTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGA
10466661 CCTGTATTAT
Statistics
Matches: 327, Mismatches: 75, Indels: 51
0.72 0.17 0.11
Matches are distributed among these distances:
39 25 0.08
40 4 0.01
41 27 0.08
42 6 0.02
43 64 0.20
44 127 0.39
45 4 0.01
46 67 0.20
47 3 0.01
ACGTcount: A:0.25, C:0.22, G:0.22, T:0.32
Consensus pattern (43 bp):
TCTTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTCT
Found at i:10466515 original size:174 final size:174
Alignment explanation
Indices: 10466159--10466664 Score: 555
Period size: 174 Copynumber: 2.9 Consensus size: 174
10466149 TCAACTTGGG
* *
10466159 CCACTGCAACTTCAGGGGGATAAGATAGTGTCTTCGATCTGCTCCGCTGTAATCTCAGGGAGATA
1 CCACTGTAACTTCAGGGAGATAAGATAGTGTCTTCGATCTGCTCCGCTGTAATCTCAGGGAGAT-
* * * * * * * *
10466224 AGATCTCTTATTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGA--T--AGTGTCTTCGATC
65 AGATCTCTAACTTTAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAAT-TCTTTGGTC
* * * * *
10466285 TGCTCCGCTGTAATCTCAGGGAGATGAGATCTCTTATTTTAATCCGCT
129 TGTTCCACTGTAATCTCAGGGAGATAAGA-C-CTGATTGTAATCCGCT
*
10466333 CCACTGTAACTTCAGGGAGATAGGATAGTGTCTTCGATCTGCTCCGCTGTAATCTCAGGGAGATG
1 CCACTGTAACTTCAGGGAGATAAGATAGTGTCTTCGATCTGCTCCGCTGTAATCTCAGGGAGAT-
** *
10466398 AGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTTGGTCT
65 AGATCTCTAACTTTAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTTGGTCT
* **
10466463 GTTCCACTGTAATCTCAGGGAGATAAGACCTGA-TGTGATCTTCT
130 GTTCCACTGTAATCTCAGGGAGATAAGACCTGATTGTAATCCGCT
* * * * ** * ** *
10466507 CTACTGTAACTTCAGAGAGATACG--A-T-CCTTTAATCCGCTCCATTGTAATCTCAAGGAGATA
1 CCACTGTAACTTCAGGGAGATAAGATAGTGTCTTCGATCTGCTCCGCTGTAATCTCAGGGAGATA
* * * *
10466568 GGAT-TACTATCTTTGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATTCTTTGGTC
66 -GATCT-CTAACTTTAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTTGGTC
10466632 TGTTCCACTGTAATCTCAGGGAGATAAGACCTG
129 TGTTCCACTGTAATCTCAGGGAGATAAGACCTG
10466665 TATTATGAAC
Statistics
Matches: 288, Mismatches: 38, Indels: 16
0.84 0.11 0.05
Matches are distributed among these distances:
169 2 0.01
170 115 0.40
171 1 0.00
172 1 0.00
174 129 0.45
175 3 0.01
176 2 0.01
177 33 0.11
178 2 0.01
ACGTcount: A:0.25, C:0.22, G:0.22, T:0.31
Consensus pattern (174 bp):
CCACTGTAACTTCAGGGAGATAAGATAGTGTCTTCGATCTGCTCCGCTGTAATCTCAGGGAGATA
GATCTCTAACTTTAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTTGGTCTG
TTCCACTGTAATCTCAGGGAGATAAGACCTGATTGTAATCCGCT
Found at i:10478905 original size:18 final size:19
Alignment explanation
Indices: 10478884--10478922 Score: 62
Period size: 20 Copynumber: 2.1 Consensus size: 19
10478874 TTTAAAAAAA
10478884 AAAAATATG-CATATATAT
1 AAAAATATGACATATATAT
10478902 AAAAATATGTACATATATAT
1 AAAAATATG-ACATATATAT
10478922 A
1 A
10478923 TAGGTGTATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 9 0.47
20 10 0.53
ACGTcount: A:0.56, C:0.05, G:0.05, T:0.33
Consensus pattern (19 bp):
AAAAATATGACATATATAT
Found at i:10479365 original size:3 final size:3
Alignment explanation
Indices: 10479354--10479419 Score: 82
Period size: 3 Copynumber: 22.3 Consensus size: 3
10479344 CAATAATACC
* * *
10479354 AAT ACT AAT AAT AGT AA- AGAT GAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT
10479399 AAT AAT AAT AAT -AT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT A
10479420 GCAAAGTACT
Statistics
Matches: 54, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
2 3 0.06
3 51 0.94
ACGTcount: A:0.62, C:0.02, G:0.05, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:10484884 original size:11 final size:11
Alignment explanation
Indices: 10484868--10484892 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
10484858 TTTCGTTTAG
10484868 TAAGCTAGTAT
1 TAAGCTAGTAT
10484879 TAAGCTAGTAT
1 TAAGCTAGTAT
10484890 TAA
1 TAA
10484893 AGTTTCGTCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.40, C:0.08, G:0.16, T:0.36
Consensus pattern (11 bp):
TAAGCTAGTAT
Found at i:10486109 original size:53 final size:51
Alignment explanation
Indices: 10486000--10486135 Score: 159
Period size: 53 Copynumber: 2.6 Consensus size: 51
10485990 CCATAGCAAC
* * *
10486000 AAGTGATAAGTGATATCCGTATAAGACCATAGCTGGGCTATGGCTTCAGATTA
1 AAGTGATAAGTGATCT-CGTATAAGACCATAGCTGGGCTATGGATTAAGA-TA
10486053 AAGTGATACAAGTGATCT-GTATAAGACCATAGCTGGGCTATGGAATTAAAGA-A
1 AAGTGAT--AAGTGATCTCGTATAAGACCATAGCTGGGCTATGG-ATT-AAGATA
* *
10486106 AAGTGATAAGTGCTCTCGTGTAAGACCATA
1 AAGTGATAAGTGATCTCGTATAAGACCATA
10486136 TCCGGGATAT
Statistics
Matches: 73, Mismatches: 5, Indels: 11
0.82 0.06 0.12
Matches are distributed among these distances:
51 8 0.11
52 12 0.16
53 40 0.55
54 2 0.03
55 11 0.15
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.26
Consensus pattern (51 bp):
AAGTGATAAGTGATCTCGTATAAGACCATAGCTGGGCTATGGATTAAGATA
Found at i:10489172 original size:30 final size:31
Alignment explanation
Indices: 10489109--10489172 Score: 94
Period size: 31 Copynumber: 2.1 Consensus size: 31
10489099 ACTTAACAAG
*
10489109 CAAATGCCTCTAAAATAATAAAAAAAATTAA
1 CAAATGCCTCTAAAATAATAAAAAAAATGAA
* *
10489140 CAAATGCCTTTAAAATAAT-AACAAAATGAA
1 CAAATGCCTCTAAAATAATAAAAAAAATGAA
10489170 CAA
1 CAA
10489173 TAAAATAAGT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
30 12 0.40
31 18 0.60
ACGTcount: A:0.59, C:0.14, G:0.05, T:0.22
Consensus pattern (31 bp):
CAAATGCCTCTAAAATAATAAAAAAAATGAA
Found at i:10489976 original size:13 final size:13
Alignment explanation
Indices: 10489960--10489984 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10489950 AATATAATAT
10489960 ATATACACACAAC
1 ATATACACACAAC
10489973 ATATACACACAA
1 ATATACACACAA
10489985 TTATATAATA
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:0.56, C:0.28, G:0.00, T:0.16
Consensus pattern (13 bp):
ATATACACACAAC
Found at i:10499882 original size:11 final size:12
Alignment explanation
Indices: 10499865--10499898 Score: 52
Period size: 11 Copynumber: 2.8 Consensus size: 12
10499855 TTTCAAAAAT
10499865 TATTATTTTATA
1 TATTATTTTATA
10499877 -ATTATTTTATA
1 TATTATTTTATA
10499888 TATATATTTTA
1 TAT-TATTTTA
10499899 ATTTTTATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
11 11 0.55
12 2 0.10
13 7 0.35
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (12 bp):
TATTATTTTATA
Found at i:10499938 original size:26 final size:25
Alignment explanation
Indices: 10499898--10499957 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 25
10499888 TATATATTTT
*
10499898 AATTTTTATAATTTTTTAAAAATATG
1 AATTTTT-TAATTTTATAAAAATATG
* * *
10499924 AATTTTTTAATTTTTATAAATATTTT
1 AATTTTTTAA-TTTTATAAAAATATG
10499950 AATTTTTT
1 AATTTTTT
10499958 TTTGTAATAG
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
25 3 0.10
26 26 0.90
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.62
Consensus pattern (25 bp):
AATTTTTTAATTTTATAAAAATATG
Found at i:10499949 original size:18 final size:18
Alignment explanation
Indices: 10499880--10499956 Score: 68
Period size: 18 Copynumber: 4.3 Consensus size: 18
10499870 TTTTATAATT
*
10499880 ATTTTATATATATATTTTA
1 ATTTT-TATAAATATTTTA
*
10499899 ATTTTTAT-AATTTTTTA
1 ATTTTTATAAATATTTTA
*** * *
10499916 A-AAATATGAATTTTTTA
1 ATTTTTATAAATATTTTA
10499933 ATTTTTATAAATATTTTA
1 ATTTTTATAAATATTTTA
10499951 ATTTTT
1 ATTTTT
10499957 TTTTGTAATA
Statistics
Matches: 46, Mismatches: 10, Indels: 5
0.75 0.16 0.08
Matches are distributed among these distances:
16 3 0.07
17 18 0.39
18 20 0.43
19 5 0.11
ACGTcount: A:0.36, C:0.00, G:0.01, T:0.62
Consensus pattern (18 bp):
ATTTTTATAAATATTTTA
Found at i:10501586 original size:27 final size:26
Alignment explanation
Indices: 10501548--10501616 Score: 72
Period size: 27 Copynumber: 2.7 Consensus size: 26
10501538 AGAGCATAAA
* * *
10501548 AAATTAAAATATATATATTCCATTTTT
1 AAATAAAAATATA-AAATTACATTTTT
10501575 AAATAAAAATATAAAATTACATTTTT
1 AAATAAAAATATAAAATTACATTTTT
*
10501601 -TA-AAAAATA-AAAATTA
1 AAATAAAAATATAAAATTA
10501617 TGAAAAAAAC
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
23 7 0.18
24 7 0.18
25 1 0.03
26 11 0.29
27 12 0.32
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (26 bp):
AAATAAAAATATAAAATTACATTTTT
Found at i:10502643 original size:27 final size:26
Alignment explanation
Indices: 10502595--10502659 Score: 71
Period size: 28 Copynumber: 2.5 Consensus size: 26
10502585 TTTCATAATC
*
10502595 TTTTTATTTTAAAATTATAA-TTATAA
1 TTTTTA-TTTAAAATTAAAATTTATAA
*
10502621 TTTTTATTTAAAATATGAAAATTTTTAA
1 TTTTTATTTAAAAT-T-AAAATTTATAA
10502649 TTTTT-TTTAAA
1 TTTTTATTTAAA
10502660 TTATACTTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
25 8 0.24
26 7 0.21
27 9 0.26
28 10 0.29
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (26 bp):
TTTTTATTTAAAATTAAAATTTATAA
Found at i:10502936 original size:26 final size:26
Alignment explanation
Indices: 10502897--10502946 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
10502887 CAGTCATTGG
* *
10502897 ATTTTTTTATGGTTAGGATTTTTTTA
1 ATTTTGTTAGGGTTAGGATTTTTTTA
*
10502923 ATTTTGTTAGGGTTAGGGTTTTTT
1 ATTTTGTTAGGGTTAGGATTTTTT
10502947 AAGAATTAGA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.16, C:0.00, G:0.22, T:0.62
Consensus pattern (26 bp):
ATTTTGTTAGGGTTAGGATTTTTTTA
Found at i:10507095 original size:21 final size:21
Alignment explanation
Indices: 10507071--10507140 Score: 59
Period size: 21 Copynumber: 3.3 Consensus size: 21
10507061 ATAGGTATCT
*
10507071 GTTCAGCTCTTATGAGCTTCC
1 GTTCAGCACTTATGAGCTTCC
* * * * *
10507092 GTTCAACCCTTATGGGTTTTC
1 GTTCAGCACTTATGAGCTTCC
* * *
10507113 GTTAAGCAATTATGTGCTTCC
1 GTTCAGCACTTATGAGCTTCC
10507134 GTTCAGC
1 GTTCAGC
10507141 CTTTGGGCTT
Statistics
Matches: 36, Mismatches: 13, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.17, C:0.24, G:0.20, T:0.39
Consensus pattern (21 bp):
GTTCAGCACTTATGAGCTTCC
Found at i:10533909 original size:14 final size:14
Alignment explanation
Indices: 10533890--10533916 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
10533880 GAAAGAAAAA
10533890 TTTGGGAAAATTCT
1 TTTGGGAAAATTCT
10533904 TTTGGGAAAATTC
1 TTTGGGAAAATTC
10533917 GATTGATTGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.07, G:0.22, T:0.41
Consensus pattern (14 bp):
TTTGGGAAAATTCT
Found at i:10535476 original size:25 final size:25
Alignment explanation
Indices: 10535401--10535476 Score: 73
Period size: 25 Copynumber: 3.0 Consensus size: 25
10535391 CTCATGCAGA
**
10535401 CATGTAAACGGGAAGCTTTTTCGAGC
1 CATGT-AACGGGAAGCTCATTCGAGC
** * *
10535427 CATAAAACGGGAAGGTCACGT-GAGC
1 CATGTAACGGGAAGCTCA-TTCGAGC
10535452 CATGTAACGGGAAGCTCATTCGAGC
1 CATGTAACGGGAAGCTCATTCGAGC
10535477 TGTATAACGA
Statistics
Matches: 38, Mismatches: 10, Indels: 5
0.72 0.19 0.09
Matches are distributed among these distances:
24 1 0.03
25 33 0.87
26 4 0.11
ACGTcount: A:0.30, C:0.21, G:0.29, T:0.20
Consensus pattern (25 bp):
CATGTAACGGGAAGCTCATTCGAGC
Found at i:10537234 original size:96 final size:98
Alignment explanation
Indices: 10537066--10537348 Score: 381
Period size: 96 Copynumber: 2.9 Consensus size: 98
10537056 GGTTATGTGT
* *
10537066 GAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGACATTGTTATGAGAGCTAGTGTATGACCA
1 GAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGACATTGTTATGAGAGCCAGTGTAAGACCA
* * ** *
10537131 TGACTGGGACATGGCATCGGCTTC-A-ATATGC
66 TGTCTGGGACATGACATCGGCACCGATATATGA
* * *
10537162 GAGCCAGTGTAAGACGATGTTTGAAACATGGCATCGACATTGTTATGTGAGCCAGTGTAAGACCA
1 GAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGACATTGTTATGAGAGCCAGTGTAAGACCA
* *
10537227 TGTCTGGGATATGACATCGGCACCGATGTATGA
66 TGTCTGGGACATGACATCGGCACCGATATATGA
* * * *
10537260 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACTGATATATGAGAGCCAGTGTAAGAC
1 GAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGACATTG-T-TATGAGAGCCAGTGTAAGAC
*
10537325 CATGTCCGGGACATGACATCGGCA
64 CATGTCTGGGACATGACATCGGCA
10537349 TTTTACCCTT
Statistics
Matches: 162, Mismatches: 21, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
96 79 0.49
97 1 0.01
98 40 0.25
99 1 0.01
100 41 0.25
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (98 bp):
GAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGACATTGTTATGAGAGCCAGTGTAAGACCA
TGTCTGGGACATGACATCGGCACCGATATATGA
Found at i:10537272 original size:50 final size:49
Alignment explanation
Indices: 10537066--10537350 Score: 333
Period size: 48 Copynumber: 5.8 Consensus size: 49
10537056 GGTTATGTGT
* * *
10537066 GAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGACATTG-TTATGA
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGATTATGA
* * * * * *
10537114 GAGCTAGTGTATGACCATGACTGGGACATGGCATCGGC-TTCAATATGC
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGATTATGA
* * ** * *
10537162 GAGCCAGTGTAAGACGATGTTTGAAACATGGCATCGACATTG-TTATGT
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGATTATGA
* * **
10537210 GAGCCAGTGTAAGACCATGTCTGGGATATGACATCGGCACCGATGTATGA
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAT-TATGA
*
10537260 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACTGATATATGA
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAT-TATGA
* *
10537310 GAGCCAGTGTAAGACCATGTCCGGGACATGACATCGGCATT
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATT
10537351 TTACCCTTTT
Statistics
Matches: 196, Mismatches: 37, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
47 2 0.01
48 103 0.53
49 3 0.02
50 88 0.45
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (49 bp):
GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGATTATGA
Found at i:10539322 original size:18 final size:18
Alignment explanation
Indices: 10539291--10539337 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
10539281 GTCAAGTAAT
* * *
10539291 GCCTCGTACCCTGTCTTG
1 GCCTCGGACTCTGTCCTG
*
10539309 GTCTCGGACTCTGTCCTG
1 GCCTCGGACTCTGTCCTG
10539327 GCCTCGGACTC
1 GCCTCGGACTC
10539338 GGGCAAGGGG
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.06, C:0.38, G:0.26, T:0.30
Consensus pattern (18 bp):
GCCTCGGACTCTGTCCTG
Found at i:10539486 original size:24 final size:23
Alignment explanation
Indices: 10539453--10539536 Score: 62
Period size: 24 Copynumber: 3.5 Consensus size: 23
10539443 CACAACCAAT
*
10539453 CGGGATGCTCTGAAGAGCTATCAA
1 CGGGAAGCTCTGAAGAGCTAT-AA
** *
10539477 CGGGAAGCTCACAAGAACCATATAA
1 CGGGAAGCTCTGAAG-AGC-TATAA
10539502 CGGGAAGCTCCTG-AGAGCTAATAA
1 CGGGAAGCT-CTGAAGAGCT-ATAA
* *
10539526 TGGGACGCTCT
1 CGGGAAGCTCT
10539537 TTTGAGCTGT
Statistics
Matches: 47, Mismatches: 9, Indels: 9
0.72 0.14 0.14
Matches are distributed among these distances:
23 3 0.06
24 25 0.53
25 15 0.32
26 4 0.09
ACGTcount: A:0.32, C:0.23, G:0.27, T:0.18
Consensus pattern (23 bp):
CGGGAAGCTCTGAAGAGCTATAA
Found at i:10543928 original size:15 final size:15
Alignment explanation
Indices: 10543908--10543937 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
10543898 AAGTAATACC
10543908 GAACCTAACCCAAGG
1 GAACCTAACCCAAGG
*
10543923 GAACCTAATCCAAGG
1 GAACCTAACCCAAGG
10543938 TAACTGCAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.40, C:0.30, G:0.20, T:0.10
Consensus pattern (15 bp):
GAACCTAACCCAAGG
Found at i:10549549 original size:17 final size:18
Alignment explanation
Indices: 10549529--10549564 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
10549519 TTTATTTTTC
*
10549529 TTTAAGATT-AATTTGTT
1 TTTAAGATTCAATTGGTT
10549546 TTTAAGATTCAATTGGTT
1 TTTAAGATTCAATTGGTT
10549564 T
1 T
10549565 CCTTTTAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 9 0.53
18 8 0.47
ACGTcount: A:0.28, C:0.03, G:0.14, T:0.56
Consensus pattern (18 bp):
TTTAAGATTCAATTGGTT
Found at i:10575439 original size:7 final size:7
Alignment explanation
Indices: 10575427--10575476 Score: 52
Period size: 7 Copynumber: 7.3 Consensus size: 7
10575417 ATAAGAATAT
10575427 TATTATA
1 TATTATA
10575434 TATTAT-
1 TATTATA
10575440 TA-TATA
1 TATTATA
10575446 TTATTATA
1 -TATTATA
10575454 TATTATA
1 TATTATA
10575461 T-TATATA
1 TAT-TATA
*
10575468 TATCATA
1 TATTATA
10575475 TA
1 TA
10575477 AATAGATAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
5 3 0.08
6 3 0.08
7 26 0.70
8 5 0.14
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (7 bp):
TATTATA
Found at i:10575466 original size:10 final size:10
Alignment explanation
Indices: 10575423--10575459 Score: 74
Period size: 10 Copynumber: 3.7 Consensus size: 10
10575413 ATAAATAAGA
10575423 ATATTATTAT
1 ATATTATTAT
10575433 ATATTATTAT
1 ATATTATTAT
10575443 ATATTATTAT
1 ATATTATTAT
10575453 ATATTAT
1 ATATTAT
10575460 ATTATATATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 27 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (10 bp):
ATATTATTAT
Found at i:10576025 original size:22 final size:22
Alignment explanation
Indices: 10575999--10576054 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 22
10575989 TTAGCATGTT
10575999 AGTGCTCTCTG-ATTAGCACATC
1 AGTGCTCTCTGTA-TAGCACATC
* * *
10576021 TGTGCTCTTTGTATAGCACTTC
1 AGTGCTCTCTGTATAGCACATC
10576043 AGTGCTCTCTGT
1 AGTGCTCTCTGT
10576055 TCATTAGTGC
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
22 27 0.96
23 1 0.04
ACGTcount: A:0.16, C:0.25, G:0.20, T:0.39
Consensus pattern (22 bp):
AGTGCTCTCTGTATAGCACATC
Found at i:10578743 original size:13 final size:13
Alignment explanation
Indices: 10578725--10578751 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
10578715 CTATCTCCTT
10578725 TAGGTATTCTATA
1 TAGGTATTCTATA
10578738 TAGGTATTCTATA
1 TAGGTATTCTATA
10578751 T
1 T
10578752 GTTCTTTTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.07, G:0.15, T:0.48
Consensus pattern (13 bp):
TAGGTATTCTATA
Found at i:10582470 original size:40 final size:40
Alignment explanation
Indices: 10582415--10582638 Score: 297
Period size: 40 Copynumber: 5.5 Consensus size: 40
10582405 TATTCGGATG
10582415 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
*
10582455 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC-A--AGTTACT
* * * *
10582498 ATACCCGGGCTAAGCCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
** * *
10582538 ATATCCGGGCTAAGTCCCGAAGGCATTCATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* * *
10582578 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
*
10582618 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
10582639 ATACTTGGGT
Statistics
Matches: 163, Mismatches: 18, Indels: 7
0.87 0.10 0.04
Matches are distributed among these distances:
39 13 0.08
40 113 0.69
41 1 0.01
43 36 0.22
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
Found at i:10582558 original size:83 final size:80
Alignment explanation
Indices: 10582419--10582638 Score: 293
Period size: 83 Copynumber: 2.7 Consensus size: 80
10582409 CGGATGATAT
* * **
10582419 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCA
10582484 TGCGAGTAGTTG-CTATAC
66 TGC---TAG-TGACTATAC
* *
10582502 CCGGGCTAAGCCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCA
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCA
*
10582567 TGCTAGTGACTATAT
66 TGCTAGTGACTATAC
* *
10582582 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTATATCC-GGCTAAATCCCGAAG
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAG-TGACTATATCCGGGCTAAGTCCCGAAG
10582639 ATACTTGGGT
Statistics
Matches: 126, Mismatches: 9, Indels: 8
0.88 0.06 0.06
Matches are distributed among these distances:
79 16 0.13
80 45 0.36
81 2 0.02
83 63 0.50
ACGTcount: A:0.24, C:0.25, G:0.27, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCA
TGCTAGTGACTATAC
Found at i:10584235 original size:5 final size:5
Alignment explanation
Indices: 10584216--10584258 Score: 54
Period size: 5 Copynumber: 8.8 Consensus size: 5
10584206 ATAAATAAGA
*
10584216 ATATT AT-TAT ATATT ATATT ATACT ATATT ATA-T ATATT ATAT
1 ATATT ATAT-T ATATT ATATT ATATT ATATT ATATT ATATT ATAT
10584259 AAATAGGTAA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
4 5 0.15
5 27 0.82
6 1 0.03
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (5 bp):
ATATT
Found at i:10584625 original size:2 final size:2
Alignment explanation
Indices: 10584620--10584656 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
10584610 TATATATATA
10584620 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
10584657 AAAAAGGGAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.00, C:0.00, G:0.49, T:0.51
Consensus pattern (2 bp):
TG
Found at i:10585652 original size:7 final size:7
Alignment explanation
Indices: 10585640--10585669 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
10585630 ATAAGAATAT
10585640 TATTATA
1 TATTATA
10585647 TATTATA
1 TATTATA
10585654 TATTATA
1 TATTATA
10585661 TATTATA
1 TATTATA
10585668 TA
1 TA
10585670 AATAGGTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (7 bp):
TATTATA
Found at i:10586213 original size:27 final size:25
Alignment explanation
Indices: 10586170--10586235 Score: 107
Period size: 24 Copynumber: 2.7 Consensus size: 25
10586160 TTAAGGAACC
* *
10586170 TTAGCGCTCTCTGATTATTAGCA-T
1 TTAGTGCTCTCTGATTATTAGCACG
10586194 TTAGTGCTCTCTGATTATTAGCACG
1 TTAGTGCTCTCTGATTATTAGCACG
10586219 TTAGTGCTCTCTGATTA
1 TTAGTGCTCTCTGATTA
10586236 GCACATCTGT
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
24 22 0.56
25 17 0.44
ACGTcount: A:0.20, C:0.20, G:0.18, T:0.42
Consensus pattern (25 bp):
TTAGTGCTCTCTGATTATTAGCACG
Found at i:10586238 original size:22 final size:23
Alignment explanation
Indices: 10586170--10586260 Score: 73
Period size: 22 Copynumber: 3.9 Consensus size: 23
10586160 TTAAGGAACC
* *
10586170 TTAGCGCTCTCTGATTATTAGCA-T
1 TTAGTGCTCTCTG--TATTAGCACG
10586194 TTAGTGCTCTCTGATTATTAGCACG
1 TTAGTGCTCTCTG--TATTAGCACG
*
10586219 TTAGTGCTCTCTG-ATTAGCACA
1 TTAGTGCTCTCTGTATTAGCACG
*
10586241 TCT-GTGCTCTATGTA-TAGCA
1 T-TAGTGCTCTCTGTATTAGCA
10586261 TTTCAGTGTT
Statistics
Matches: 60, Mismatches: 4, Indels: 8
0.83 0.06 0.11
Matches are distributed among these distances:
22 23 0.38
23 2 0.03
24 22 0.37
25 13 0.22
ACGTcount: A:0.21, C:0.21, G:0.19, T:0.40
Consensus pattern (23 bp):
TTAGTGCTCTCTGTATTAGCACG
Found at i:10590992 original size:31 final size:31
Alignment explanation
Indices: 10590954--10591014 Score: 113
Period size: 31 Copynumber: 2.0 Consensus size: 31
10590944 AGTAAGACAA
10590954 ATTGCAATGTTGAATATCTAGTTTTTAGGCG
1 ATTGCAATGTTGAATATCTAGTTTTTAGGCG
*
10590985 ATTGCAATGTTGAATATCTCGTTTTTAGGC
1 ATTGCAATGTTGAATATCTAGTTTTTAGGC
10591015 CTTGGAGTGC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.25, C:0.11, G:0.21, T:0.43
Consensus pattern (31 bp):
ATTGCAATGTTGAATATCTAGTTTTTAGGCG
Found at i:10613190 original size:16 final size:17
Alignment explanation
Indices: 10613155--10613189 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
10613145 GAGGCAGGGG
10613155 TTATAACAGCCTGTTTT
1 TTATAACAGCCTGTTTT
10613172 TTATAACAGCCTGTTTT
1 TTATAACAGCCTGTTTT
10613189 T
1 T
10613190 AATAGTCTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.23, C:0.17, G:0.11, T:0.49
Consensus pattern (17 bp):
TTATAACAGCCTGTTTT
Found at i:10620532 original size:20 final size:20
Alignment explanation
Indices: 10620504--10620561 Score: 79
Period size: 20 Copynumber: 3.1 Consensus size: 20
10620494 AAAAAAAAGA
*
10620504 AAAAGAGTAAATTATGTGTT
1 AAAATAGTAAATTATGTGTT
10620524 AAAATAGTAAATTA----TT
1 AAAATAGTAAATTATGTGTT
10620540 AAAATAGTAAATTATGTGTT
1 AAAATAGTAAATTATGTGTT
10620560 AA
1 AA
10620562 TATGATATTA
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
16 16 0.48
20 17 0.52
ACGTcount: A:0.50, C:0.00, G:0.14, T:0.36
Consensus pattern (20 bp):
AAAATAGTAAATTATGTGTT
Found at i:10620543 original size:16 final size:16
Alignment explanation
Indices: 10620522--10620554 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
10620512 AAATTATGTG
10620522 TTAAAATAGTAAATTA
1 TTAAAATAGTAAATTA
10620538 TTAAAATAGTAAATTA
1 TTAAAATAGTAAATTA
10620554 T
1 T
10620555 GTGTTAATAT
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:0.55, C:0.00, G:0.06, T:0.39
Consensus pattern (16 bp):
TTAAAATAGTAAATTA
Found at i:10620549 original size:138 final size:137
Alignment explanation
Indices: 10620400--10620648 Score: 426
Period size: 138 Copynumber: 1.8 Consensus size: 137
10620390 ATTAAAAGGG
10620400 TTAAAATAGTAAATTATGTGTTAATATGATATTAAATAAAATAAAACATAAAAACATGGTTACGT
1 TTAAAATAGTAAATTATGTGTTAATATGATATTAAATAAAATAAAACATAAAAACATGGTTACGT
* ** *
10620465 TCATGTTTGTTACTGAAAATTGAAAGAAAAAAAAAAAGAAAAAGAGTAAATTATGTGTTAAAATA
66 CCATGTTTGTTACCAAAAATTGAAAG-AAAAAAAAAACAAAAAGAGTAAATTATGTGTTAAAATA
10620530 GTAAATTA
130 GTAAATTA
* *
10620538 TTAAAATAGTAAATTATGTGTTAATATGATATTAAATAAAATAAAACATGAAAACATGGTTATGT
1 TTAAAATAGTAAATTATGTGTTAATATGATATTAAATAAAATAAAACATAAAAACATGGTTACGT
*
10620603 CCATGTTTGTTACCAAAAATTGAAAGAAAAAGAAAACAAAAAGAGT
66 CCATGTTTGTTACCAAAAATTGAAAGAAAAAAAAAACAAAAAGAGT
10620649 TCCTAGGGTT
Statistics
Matches: 104, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
137 18 0.17
138 86 0.83
ACGTcount: A:0.52, C:0.05, G:0.13, T:0.30
Consensus pattern (137 bp):
TTAAAATAGTAAATTATGTGTTAATATGATATTAAATAAAATAAAACATAAAAACATGGTTACGT
CCATGTTTGTTACCAAAAATTGAAAGAAAAAAAAAACAAAAAGAGTAAATTATGTGTTAAAATAG
TAAATTA
Found at i:10621588 original size:43 final size:43
Alignment explanation
Indices: 10621441--10621588 Score: 115
Period size: 43 Copynumber: 3.4 Consensus size: 43
10621431 GGAGTGATAT
* *
10621441 CATGTAAGACCACGTCTGGGAC-GTTGGCATCGACT-TGTGATTGA
1 CATGTAAGACCACGTCTGGGACAG-TGGCATC-AATATATGATT-A
* * * * * ** *
10621485 CGTGTAAAACCATGTCTAGGACATTGGCAT-TGTATATGATTT
1 CATGTAAGACCACGTCTGGGACAGTGGCATCAATATATGATTA
* *
10621527 CGTGTAAGACC-CTGTCTGGGACAGTGGCATCAATATTTGATTA
1 CATGTAAGACCAC-GTCTGGGACAGTGGCATCAATATATGATTA
*
10621570 CATGTAAGACCACATCTGG
1 CATGTAAGACCACGTCTGG
10621589 AACGTTGGCA
Statistics
Matches: 80, Mismatches: 19, Indels: 11
0.73 0.17 0.10
Matches are distributed among these distances:
42 26 0.32
43 29 0.36
44 25 0.31
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.30
Consensus pattern (43 bp):
CATGTAAGACCACGTCTGGGACAGTGGCATCAATATATGATTA
Found at i:10632481 original size:17 final size:17
Alignment explanation
Indices: 10632459--10632491 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
10632449 TTTAGGATAA
10632459 ATTTTGATTGATTTATG
1 ATTTTGATTGATTTATG
10632476 ATTTTGATTGATTTAT
1 ATTTTGATTGATTTAT
10632492 CTTGAATTAA
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:0.24, C:0.00, G:0.15, T:0.61
Consensus pattern (17 bp):
ATTTTGATTGATTTATG
Found at i:10652923 original size:67 final size:67
Alignment explanation
Indices: 10652815--10652945 Score: 235
Period size: 67 Copynumber: 2.0 Consensus size: 67
10652805 GACTCATCCT
* *
10652815 TCCATTGTCGTGAGCTTATGAGCTCAATCCTACTAATAATGCAACAAGTACTATAGAATCAGTTC
1 TCCATTGTCCTGAGCTTATGAGCTCAACCCTACTAATAATGCAACAAGTACTATAGAATCAGTTC
10652880 CC
66 CC
*
10652882 TCCATTGTCCTGAGCTTATGAGCTCAACCCTATTAATAATGCAACAAGTACTATAGAATCAGTT
1 TCCATTGTCCTGAGCTTATGAGCTCAACCCTACTAATAATGCAACAAGTACTATAGAATCAGTT
10652946 GAAAATTTCT
Statistics
Matches: 61, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
67 61 1.00
ACGTcount: A:0.32, C:0.23, G:0.15, T:0.31
Consensus pattern (67 bp):
TCCATTGTCCTGAGCTTATGAGCTCAACCCTACTAATAATGCAACAAGTACTATAGAATCAGTTC
CC
Found at i:10660366 original size:28 final size:28
Alignment explanation
Indices: 10660335--10660390 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
10660325 TCAAAATATC
10660335 ATTATTGTATCAATTAAGTCCTTTAATG
1 ATTATTGTATCAATTAAGTCCTTTAATG
*
10660363 ATTATTGTATCAATTAAGTTCTTTAATG
1 ATTATTGTATCAATTAAGTCCTTTAATG
10660391 CTTAGCAGTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.32, C:0.09, G:0.11, T:0.48
Consensus pattern (28 bp):
ATTATTGTATCAATTAAGTCCTTTAATG
Found at i:10664032 original size:33 final size:33
Alignment explanation
Indices: 10663974--10664039 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 33
10663964 ATGGAGGACC
* *
10663974 TAGTCATGTGAAATGCAAAAGCTAGCTAACCAG
1 TAGTCATGCGAAATGCAAAAGCTAGCCAACCAG
* * *
10664007 TAGTGATGCGAAATGTAAAATCTAGCCAACCAG
1 TAGTCATGCGAAATGCAAAAGCTAGCCAACCAG
10664040 CCAGTCAGAT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.39, C:0.18, G:0.21, T:0.21
Consensus pattern (33 bp):
TAGTCATGCGAAATGCAAAAGCTAGCCAACCAG
Found at i:10668551 original size:12 final size:12
Alignment explanation
Indices: 10668534--10668563 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
10668524 ATTAGATATT
*
10668534 TATTAATAGTAA
1 TATTAATAATAA
10668546 TATTAATAATAA
1 TATTAATAATAA
10668558 TATTAA
1 TATTAA
10668564 ATTGATATTA
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:0.53, C:0.00, G:0.03, T:0.43
Consensus pattern (12 bp):
TATTAATAATAA
Found at i:10668721 original size:18 final size:19
Alignment explanation
Indices: 10668698--10668743 Score: 60
Period size: 18 Copynumber: 2.5 Consensus size: 19
10668688 ATAGATTTTT
*
10668698 ATTATATTAAAAT-ATTAA
1 ATTATATTAAAATAAATAA
10668716 ATTATA-TAAAATAAATAA
1 ATTATATTAAAATAAATAA
*
10668734 ATTAAATTAA
1 ATTATATTAA
10668744 GTCAAGACAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 6 0.25
18 15 0.62
19 3 0.12
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (19 bp):
ATTATATTAAAATAAATAA
Found at i:10669678 original size:15 final size:16
Alignment explanation
Indices: 10669658--10669690 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
10669648 AGAAAGTGGA
*
10669658 AATTGT-ATTAACTTG
1 AATTGTGATTAAATTG
10669673 AATTGTGATTAAATTG
1 AATTGTGATTAAATTG
10669689 AA
1 AA
10669691 AGGTGTGTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.39, C:0.03, G:0.15, T:0.42
Consensus pattern (16 bp):
AATTGTGATTAAATTG
Found at i:10669938 original size:27 final size:28
Alignment explanation
Indices: 10669875--10669944 Score: 124
Period size: 28 Copynumber: 2.5 Consensus size: 28
10669865 TTTAATGTCT
10669875 TTCTGGTGTGTTTGGGAGGATTATTTTA
1 TTCTGGTGTGTTTGGGAGGATTATTTTA
*
10669903 TTCTAGTGTGTTTGGGAGGATTA-TTTA
1 TTCTGGTGTGTTTGGGAGGATTATTTTA
10669930 TTCTGGTGTGTTTGG
1 TTCTGGTGTGTTTGG
10669945 TTGAAATCCG
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 18 0.45
28 22 0.55
ACGTcount: A:0.13, C:0.04, G:0.33, T:0.50
Consensus pattern (28 bp):
TTCTGGTGTGTTTGGGAGGATTATTTTA
Found at i:10671749 original size:24 final size:23
Alignment explanation
Indices: 10671670--10671749 Score: 58
Period size: 24 Copynumber: 3.3 Consensus size: 23
10671660 TATTTTTAAA
10671670 ATACATA-C-TTATATACTTTAT
1 ATACATACCTTTATATACTTTAT
* *
10671691 AT-CTTACTTATTTATATACCCTTGTAT
1 ATACATAC--CTTTATATA--CTT-TAT
*
10671718 ATATATACCTTTATATACTTTAT
1 ATACATACCTTTATATACTTTAT
10671741 AATACATAC
1 -ATACATAC
10671750 ATGCACATAA
Statistics
Matches: 44, Mismatches: 6, Indels: 15
0.68 0.09 0.23
Matches are distributed among these distances:
20 3 0.07
21 2 0.05
23 3 0.07
24 17 0.39
26 11 0.25
27 5 0.11
28 3 0.07
ACGTcount: A:0.35, C:0.16, G:0.01, T:0.47
Consensus pattern (23 bp):
ATACATACCTTTATATACTTTAT
Found at i:10675247 original size:14 final size:15
Alignment explanation
Indices: 10675221--10675254 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
10675211 TAAAGTTTTC
*
10675221 TAATTATTAATTAAT
1 TAATTATTAATTAAA
10675236 TAATTA-TAATTAAA
1 TAATTATTAATTAAA
10675250 TAATT
1 TAATT
10675255 GAAGTTTGGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 12 0.67
15 6 0.33
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
TAATTATTAATTAAA
Found at i:10682692 original size:24 final size:24
Alignment explanation
Indices: 10682665--10682719 Score: 101
Period size: 24 Copynumber: 2.3 Consensus size: 24
10682655 AGTGCTTAGG
10682665 TGGCTCTAAAGATGCAAAGGACAA
1 TGGCTCTAAAGATGCAAAGGACAA
10682689 TGGCTCTAAAGATGCAAAGGACAA
1 TGGCTCTAAAGATGCAAAGGACAA
*
10682713 TGACTCT
1 TGGCTCT
10682720 TACAGTTTCT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.38, C:0.18, G:0.24, T:0.20
Consensus pattern (24 bp):
TGGCTCTAAAGATGCAAAGGACAA
Found at i:10692920 original size:20 final size:20
Alignment explanation
Indices: 10692887--10692924 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
10692877 TTCTTATAAC
* *
10692887 TAAAATTTATAAAAAATTCT
1 TAAAACTTAAAAAAAATTCT
10692907 TAAAACTTAAAAAAAATT
1 TAAAACTTAAAAAAAATT
10692925 AAATATATAA
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:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (20 bp):
TAAAACTTAAAAAAAATTCT
Found at i:10693919 original size:13 final size:13
Alignment explanation
Indices: 10693901--10693927 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
10693891 TGCCTCATAT
10693901 TTTATATAAAAAA
1 TTTATATAAAAAA
10693914 TTTATATAAAAAA
1 TTTATATAAAAAA
10693927 T
1 T
10693928 AGACCTTAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (13 bp):
TTTATATAAAAAA
Found at i:10700364 original size:103 final size:104
Alignment explanation
Indices: 10700185--10700449 Score: 415
Period size: 103 Copynumber: 2.6 Consensus size: 104
10700175 AACCGTTATT
* * * * *
10700185 GGTGGATCTCGCACTTAGCACCACCACTTAATCTGGGAATCAGCACTTAGCAACCCCTTGGGGGA
1 GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
** *
10700250 ATCAGCACATAGCAACCCCCTTT-TTATTTCAGAGATAC
66 ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
*
10700288 GGTGGATATCGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
1 GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
10700353 ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
66 ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
* **
10700392 GGTGGATATCGCACATAGCACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCT
1 GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCT
10700450 TTATGTACAA
Statistics
Matches: 148, Mismatches: 13, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
103 82 0.55
104 66 0.45
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (104 bp):
GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
Found at i:10700811 original size:30 final size:29
Alignment explanation
Indices: 10700777--10700841 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
10700767 TAATCCACCA
10700777 CCCAACTTTTTGAAAAATTACAATTTTGCC
1 CCCAAC-TTTTGAAAAATTACAATTTTGCC
* * * *
10700807 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGAAAAATTACAATTTTGCC
10700837 CCCAA
1 CCCAA
10700842 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
29 2 0.07
30 25 0.83
31 3 0.10
ACGTcount: A:0.31, C:0.28, G:0.06, T:0.35
Consensus pattern (29 bp):
CCCAACTTTTGAAAAATTACAATTTTGCC
Found at i:10700815 original size:31 final size:30
Alignment explanation
Indices: 10700784--10700841 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
10700774 CCACCCAACT
10700784 TTTTGAAAAATTACAATTTTGCCCCCAAAC
1 TTTTGAAAAATTACAATTTTGCCCCCAAAC
* * * *
10700814 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGAAAAATTACAATTTTGCCCCCAA
10700842 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.31, C:0.24, G:0.07, T:0.38
Consensus pattern (30 bp):
TTTTGAAAAATTACAATTTTGCCCCCAAAC
Found at i:10701851 original size:21 final size:21
Alignment explanation
Indices: 10701825--10701865 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
10701815 ATCTGCTCAA
* *
10701825 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
10701846 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
10701866 TTGCTCATCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:10707861 original size:10 final size:10
Alignment explanation
Indices: 10707833--10707867 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
10707823 AAAAAAAAAC
*
10707833 ATAAAAATAT
1 ATAAAAATTT
*
10707843 AGAAAAATTT
1 ATAAAAATTT
10707853 ATAAAAATTT
1 ATAAAAATTT
10707863 ATAAA
1 ATAAA
10707868 GTCGTAAGAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (10 bp):
ATAAAAATTT
Found at i:10707920 original size:29 final size:29
Alignment explanation
Indices: 10707845--10707920 Score: 73
Period size: 29 Copynumber: 2.6 Consensus size: 29
10707835 AAAAATATAG
* * *
10707845 AAAAATTTATAAAAATTTATAAAGTCGTA
1 AAAAAATTATAAAAATATATAAAGTCATA
* *
10707874 AGAAAATTATAAAGAA-ATATAAAATTCATA
1 AAAAAATTATAAA-AATATAT-AAAGTCATA
10707904 AAAAGAATTATAAAAAT
1 AAAA-AATTATAAAAAT
10707921 TATCGTATCA
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
29 14 0.38
30 14 0.38
31 9 0.24
ACGTcount: A:0.62, C:0.03, G:0.07, T:0.29
Consensus pattern (29 bp):
AAAAAATTATAAAAATATATAAAGTCATA
Found at i:10711456 original size:6 final size:6
Alignment explanation
Indices: 10711446--10711638 Score: 82
Period size: 6 Copynumber: 32.2 Consensus size: 6
10711436 CTTCAACTCC
* * * * * *
10711446 CTCCTT TTCCTT CTCC-- -TCCTT TTCCTC CTCTTT CTTCTC CTCCTT
1 CTCCTT CTCCTT CTCCTT CTCCTT CTCCTT CTCCTT CTCCTT CTCCTT
* * * * *
10711491 -TCC-T -TCCTC CTCCTT CTCCTT CCCCTC CTCCTC CTCTTT CTCCTCCT
1 CTCCTT CTCCTT CTCCTT CTCCTT CTCCTT CTCCTT CTCCTT CTCCT--T
* * * *
10711538 CCTCCTT CTCCTC CTCCTC CT-CTT -T-CTT CTTCTT CTCCTT CTCCTC
1 -CTCCTT CTCCTT CTCCTT CTCCTT CTCCTT CTCCTT CTCCTT CTCCTT
*
10711584 CTCC-T CTTCCTT CTTCTTCTT CTCCTT CTCTATCTT CTCCTC CTCCTT
1 CTCCTT C-TCCTT C-TC--CTT CTCCTT CTC---CTT CTCCTT CTCCTT
10711632 CTCCTT C
1 CTCCTT C
10711639 AACATGGTGG
Statistics
Matches: 144, Mismatches: 26, Indels: 34
0.71 0.13 0.17
Matches are distributed among these distances:
3 3 0.02
4 8 0.06
5 7 0.05
6 102 0.71
7 6 0.04
8 3 0.02
9 15 0.10
ACGTcount: A:0.01, C:0.51, G:0.00, T:0.49
Consensus pattern (6 bp):
CTCCTT
Found at i:10711473 original size:24 final size:26
Alignment explanation
Indices: 10711445--10711638 Score: 131
Period size: 24 Copynumber: 7.6 Consensus size: 26
10711435 TCTTCAACTC
*
10711445 CCTCCT-TT-TCCTTCTCCTCCTTTT
1 CCTCCTCTTCTCCTTCTCCTCCTTCT
10711469 CCTCCTCTT-T-CTTCTCCTCCTTTCCTT
1 CCTCCTCTTCTCCTTCTCCTCC-TT-C-T
* *
10711496 CCTCCTCCTTCTCCTTCCCCTCCTCCT
1 CCTCCT-CTTCTCCTTCTCCTCCTTCT
*
10711523 CCT-CT-TTCTCCTCCTCCTCCTTCT
1 CCTCCTCTTCTCCTTCTCCTCCTTCT
* * * *
10711547 CCTCCTCCTCCTCTTTCTTCTTCTTCT
1 CCTCCT-CTTCTCCTTCTCCTCCTTCT
* * *
10711574 CCT--TCTCCTCCTCCTCTTCCTTCT
1 CCTCCTCTTCTCCTTCTCCTCCTTCT
* *
10711598 --TCTTCTTCTCCTTCT-CTATCTTCT
1 CCTCCTCTTCTCCTTCTCCT-CCTTCT
10711622 CCTCCTCCTTCTCCTTC
1 CCTCCT-CTTCTCCTTC
10711639 AACATGGTGG
Statistics
Matches: 133, Mismatches: 21, Indels: 29
0.73 0.11 0.16
Matches are distributed among these distances:
22 1 0.01
23 1 0.01
24 65 0.49
25 8 0.06
26 5 0.04
27 38 0.29
28 4 0.03
29 2 0.02
30 9 0.07
ACGTcount: A:0.01, C:0.51, G:0.00, T:0.48
Consensus pattern (26 bp):
CCTCCTCTTCTCCTTCTCCTCCTTCT
Found at i:10711474 original size:3 final size:3
Alignment explanation
Indices: 10711453--10711594 Score: 90
Period size: 3 Copynumber: 47.3 Consensus size: 3
10711443 TCCCTCCTTT
* ** * * * *
10711453 TCC TTC TCC TCC TTT TCC TCC TCT TTC TTC TCC TCC T-T TCC TTCC
1 TCC TCC TCC TCC TCC TCC TCC TCC TCC TCC TCC TCC TCC TCC -TCC
* * *
10711498 TCC TCC TTC TCC TTCC -CC TCC TCC TCC TCT TTC TCC TCC TCC TCC
1 TCC TCC TCC TCC -TCC TCC TCC TCC TCC TCC TCC TCC TCC TCC TCC
* * * * * * * *
10711543 TTC TCC TCC TCC TCC TCT TTC TTC TTC TTC TCC TTC TCC TCC TCC TCT
1 TCC TCC TCC TCC TCC TCC TCC TCC TCC TCC TCC TCC TCC TCC TCC TCC
10711591 TCC T
1 TCC T
10711595 TCTTCTTCTT
Statistics
Matches: 107, Mismatches: 28, Indels: 8
0.75 0.20 0.06
Matches are distributed among these distances:
2 3 0.03
3 98 0.92
4 6 0.06
ACGTcount: A:0.00, C:0.53, G:0.00, T:0.47
Consensus pattern (3 bp):
TCC
Found at i:10711519 original size:33 final size:33
Alignment explanation
Indices: 10711500--10711638 Score: 68
Period size: 33 Copynumber: 4.2 Consensus size: 33
10711490 TTCCTTCCTC
* * *
10711500 CTCCTTCTCCT--TCC-CCTCCTCCTCCTCTTT
1 CTCCTTCTCCTCCTCCTCCTCTTTCTCCTCCTT
* * * * *
10711530 CTCCTCCTCCTCCTTCTCCTCCTCCTCCTCTTT
1 CTCCTTCTCCTCCTCCTCCTCTTTCTCCTCCTT
* * * * * *
10711563 CTTCTTCTTCTCCTTCTCCTCCTCCTCTTCCTT
1 CTCCTTCTCCTCCTCCTCCTCTTTCTCCTCCTT
* * * *
10711596 CTTCTTCTTCTCCTTCTCTATCTTCTCCTCCTCCTT
1 CTCCTTCTCCTCCTCCTC-CTCTT-T-CTCCTCCTT
10711632 CTCCTTC
1 CTCCTTC
10711639 AACATGGTGG
Statistics
Matches: 91, Mismatches: 12, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
30 10 0.11
32 2 0.02
33 62 0.68
34 3 0.03
36 14 0.15
ACGTcount: A:0.01, C:0.52, G:0.00, T:0.47
Consensus pattern (33 bp):
CTCCTTCTCCTCCTCCTCCTCTTTCTCCTCCTT
Found at i:10711553 original size:15 final size:15
Alignment explanation
Indices: 10711445--10711636 Score: 133
Period size: 15 Copynumber: 12.8 Consensus size: 15
10711435 TCTTCAACTC
* *
10711445 CCTCCTTTTCCTTCT
1 CCTCCTTCTCCTCCT
*
10711460 CCTCCTTTTCCTCCT
1 CCTCCTTCTCCTCCT
* *
10711475 CTTTCTTCTCCTCCT
1 CCTCCTTCTCCTCCT
*
10711490 -TTCCTTCCTCCTCCT
1 CCTCCTT-CTCCTCCT
*
10711505 TCTCCTTCCCCTCCTCCT
1 CCTCCTT---CTCCTCCT
*
10711523 CCTCTTTCTCCTCCT
1 CCTCCTTCTCCTCCT
10711538 CCTCCTTCTCCTCCT
1 CCTCCTTCTCCTCCT
*
10711553 CCTCC-TCT--TTCT
1 CCTCCTTCTCCTCCT
* * *
10711565 TCTTCTTCTCCTTCT
1 CCTCCTTCTCCTCCT
* *
10711580 CCTCCTCCTCTTCCT
1 CCTCCTTCTCCTCCT
* * *
10711595 TCTTCTTCTTCTCCT
1 CCTCCTTCTCCTCCT
* *
10711610 TCT-CTATCTTCTCCT
1 CCTCCT-TCTCCTCCT
10711625 CCTCCTTCTCCT
1 CCTCCTTCTCCT
10711637 TCAACATGGT
Statistics
Matches: 144, Mismatches: 24, Indels: 18
0.77 0.13 0.10
Matches are distributed among these distances:
12 6 0.04
13 3 0.02
14 10 0.07
15 104 0.72
16 7 0.05
18 14 0.10
ACGTcount: A:0.01, C:0.51, G:0.00, T:0.48
Consensus pattern (15 bp):
CCTCCTTCTCCTCCT
Found at i:10714621 original size:12 final size:12
Alignment explanation
Indices: 10714610--10714652 Score: 61
Period size: 12 Copynumber: 3.6 Consensus size: 12
10714600 GAAAAAAATA
10714610 AATAATAA-AAT
1 AATAATAACAAT
10714621 AAATAATAACAAT
1 -AATAATAACAAT
*
10714634 GATAATAACAAT
1 AATAATAACAAT
10714646 AATAATA
1 AATAATA
10714653 GTGACAAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
12 25 0.89
13 3 0.11
ACGTcount: A:0.67, C:0.05, G:0.02, T:0.26
Consensus pattern (12 bp):
AATAATAACAAT
Found at i:10714640 original size:15 final size:12
Alignment explanation
Indices: 10714604--10714652 Score: 57
Period size: 12 Copynumber: 4.1 Consensus size: 12
10714594 ATCAAAGAAA
10714604 AAAATAAATAAT
1 AAAATAAATAAT
10714616 AAAATAAATAAT
1 AAAATAAATAAT
*
10714628 AACAAT-GATAAT
1 AA-AATAAATAAT
10714640 AACAAT-AATAAT
1 AA-AATAAATAAT
10714652 A
1 A
10714653 GTGACAAAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
12 31 0.91
13 3 0.09
ACGTcount: A:0.69, C:0.04, G:0.02, T:0.24
Consensus pattern (12 bp):
AAAATAAATAAT
Found at i:10714824 original size:12 final size:11
Alignment explanation
Indices: 10714809--10714858 Score: 52
Period size: 12 Copynumber: 4.5 Consensus size: 11
10714799 GGTGCAATTT
10714809 ATAATAAAATA
1 ATAATAAAATA
10714820 CATAA-ATAAATA
1 -ATAATA-AAATA
10714832 ATAA-AAAATA
1 ATAATAAAATA
10714842 A-AATAATAATA
1 ATAATAA-AATA
10714853 ATAATA
1 ATAATA
10714859 GTGAGAAAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
9 2 0.06
10 8 0.24
11 11 0.32
12 13 0.38
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.26
Consensus pattern (11 bp):
ATAATAAAATA
Found at i:10719083 original size:23 final size:23
Alignment explanation
Indices: 10719040--10719083 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
10719030 AGTATTAAAT
**
10719040 AATTTTCTAGAATCTTTTTATTA
1 AATTTTCTAGAATCTAATTATTA
10719063 AATTTTCTTAGAAT-TAATTAT
1 AATTTTC-TAGAATCTAATTAT
10719084 AGTCAACTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
23 12 0.67
24 6 0.33
ACGTcount: A:0.34, C:0.07, G:0.05, T:0.55
Consensus pattern (23 bp):
AATTTTCTAGAATCTAATTATTA
Found at i:10719229 original size:31 final size:31
Alignment explanation
Indices: 10719191--10719269 Score: 104
Period size: 31 Copynumber: 2.5 Consensus size: 31
10719181 TTAATATAAC
* *
10719191 ATTTGGTATTTGAACTTAACACTTTTTATTA
1 ATTTGGTACTTAAACTTAACACTTTTTATTA
** *
10719222 ATTTGGTACTTAAACTTGTCACTTTTTCTTA
1 ATTTGGTACTTAAACTTAACACTTTTTATTA
*
10719253 AGTTGGTACTTAAACTT
1 ATTTGGTACTTAAACTT
10719270 TTTGAGGTCC
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 42 1.00
ACGTcount: A:0.27, C:0.13, G:0.11, T:0.49
Consensus pattern (31 bp):
ATTTGGTACTTAAACTTAACACTTTTTATTA
Found at i:10721904 original size:43 final size:43
Alignment explanation
Indices: 10721856--10722018 Score: 170
Period size: 43 Copynumber: 3.8 Consensus size: 43
10721846 ACCGAGATGT
*
10721856 GATTACATGTAAGACCATGTCTGGGACATTGGCATTGTATTGA
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATCGTATTGA
* * * *
10721899 GATTACGTGTAAGACCATGTCTAGGACATTGGCATCGTTAAT-C
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATCG-TATTGA
* * * * *
10721942 GATTTCATGTAAGACCCTGTTTGGGACAGTGGCATCG-ATATGT
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT-TGA
* * *
10721985 GATAACATGTAAGACCATATCTGGGATA-TGGCAT
1 GATTACATGTAAGACCATGTCTGGGACATTGGCAT
10722019 TGTACGAGCT
Statistics
Matches: 98, Mismatches: 19, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
41 1 0.01
42 7 0.07
43 87 0.89
44 3 0.03
ACGTcount: A:0.28, C:0.16, G:0.25, T:0.31
Consensus pattern (43 bp):
GATTACATGTAAGACCATGTCTGGGACATTGGCATCGTATTGA
Found at i:10732240 original size:14 final size:14
Alignment explanation
Indices: 10732217--10732250 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
10732207 TACGATATCC
*
10732217 AAATAATAACAATA
1 AAATAGTAACAATA
10732231 AAATAGTAACAATA
1 AAATAGTAACAATA
*
10732245 TAATAG
1 AAATAG
10732251 CGAAAAGGTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.65, C:0.06, G:0.06, T:0.24
Consensus pattern (14 bp):
AAATAGTAACAATA
Found at i:10740546 original size:21 final size:21
Alignment explanation
Indices: 10740508--10740555 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
10740498 ATACTATTAT
*
10740508 TATTTA-TCTATTTATATTTC
1 TATTTATTATATTTATATTTC
*
10740528 TATTTATTATATTTTTATTTC
1 TATTTATTATATTTATATTTC
10740549 TATTTAT
1 TATTTAT
10740556 ATACTAATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
20 6 0.24
21 19 0.76
ACGTcount: A:0.25, C:0.06, G:0.00, T:0.69
Consensus pattern (21 bp):
TATTTATTATATTTATATTTC
Found at i:10740581 original size:35 final size:33
Alignment explanation
Indices: 10740502--10740582 Score: 83
Period size: 35 Copynumber: 2.3 Consensus size: 33
10740492 ATTCTAATAC
*
10740502 TATTATTATTTATCTATTTATATTTCTATTTATTA
1 TATTATTA-TT-TCTATTTATATTACTATTTATTA
* *
10740537 TATTTTTATTTCTATTTATA-TACTAATATTATTT
1 TATTATTATTTCTATTTATATTACT-AT-TTATTA
10740571 TCATTATTATTT
1 T-ATTATTATTT
10740583 TTCTTATATA
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
32 3 0.08
33 12 0.31
34 8 0.21
35 16 0.41
ACGTcount: A:0.28, C:0.06, G:0.00, T:0.65
Consensus pattern (33 bp):
TATTATTATTTCTATTTATATTACTATTTATTA
Found at i:10740586 original size:58 final size:53
Alignment explanation
Indices: 10740458--10740586 Score: 127
Period size: 58 Copynumber: 2.3 Consensus size: 53
10740448 ATTATTGCTA
* *
10740458 TTATTATTATGTTTCTATTTATATTTATTTTGTTATTCTAATACTATTATTAT
1 TTATTATTATATTTCTATTTATATTTATTTTGTTATTCTAATACTAATATTAT
*
10740511 TTATCTATTTATATTTCTATTTATTATATT-TTTATTTCTATT-TATATACTAATATTATT
1 TTAT-TA-TTATATTTCTATTTA-TAT-TTATTT-TGT-TATTCTA-ATACTAATATTA-T
*
10740570 TTCATTATTATTTTTCT
1 TT-ATTATTATATTTCT
10740587 TATATATGGT
Statistics
Matches: 63, Mismatches: 4, Indels: 13
0.79 0.05 0.16
Matches are distributed among these distances:
53 4 0.06
54 2 0.03
55 14 0.22
56 6 0.10
57 6 0.10
58 24 0.38
59 5 0.08
60 2 0.03
ACGTcount: A:0.26, C:0.07, G:0.02, T:0.65
Consensus pattern (53 bp):
TTATTATTATATTTCTATTTATATTTATTTTGTTATTCTAATACTAATATTAT
Found at i:10740742 original size:25 final size:24
Alignment explanation
Indices: 10740683--10740778 Score: 77
Period size: 25 Copynumber: 3.8 Consensus size: 24
10740673 TAGCGCTCAA
*
10740683 TTCAAATTTTTATACATTATTTACT
1 TTCAAATTTTTATACATTATATA-T
* *
10740708 TT-AATATTTTTATATATTATGTAT
1 TTCAA-ATTTTTATACATTATATAT
*
10740732 TTCAAACTTTTTTACACATTATATAT
1 TTCAAA--TTTTTATACATTATATAT
** *
10740758 TTTGAATTGTTTATATATTAT
1 TTCAAATT-TTTATACATTAT
10740779 TTTTAAAGAG
Statistics
Matches: 57, Mismatches: 9, Indels: 10
0.75 0.12 0.13
Matches are distributed among these distances:
24 8 0.14
25 30 0.53
26 19 0.33
ACGTcount: A:0.32, C:0.07, G:0.03, T:0.57
Consensus pattern (24 bp):
TTCAAATTTTTATACATTATATAT
Found at i:10741973 original size:16 final size:17
Alignment explanation
Indices: 10741949--10741981 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
10741939 TTAAATTAGT
10741949 TTTTATTTAAAAATATA
1 TTTTATTTAAAAATATA
10741966 TTTT-TTTAAAAATATA
1 TTTTATTTAAAAATATA
10741982 ATATATTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
TTTTATTTAAAAATATA
Found at i:10742113 original size:39 final size:41
Alignment explanation
Indices: 10742039--10742131 Score: 113
Period size: 39 Copynumber: 2.3 Consensus size: 41
10742029 CATTAAAAAA
*
10742039 TATTTATATTAAAAAACACTAACATAAGTATAATAAATGTT
1 TATTTATATTAAAAAACACTAACATAAATATAATAAATGTT
* *
10742080 TATTGTAT-TTAAAAAATAC-AA-ATAAATATAATAAATATT
1 TATT-TATATTAAAAAACACTAACATAAATATAATAAATGTT
10742119 T-TATTATATTAAA
1 TAT-TTATATTAAA
10742132 TATAATTTTT
Statistics
Matches: 46, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
38 4 0.09
39 23 0.50
40 2 0.04
41 14 0.30
42 3 0.07
ACGTcount: A:0.53, C:0.04, G:0.03, T:0.40
Consensus pattern (41 bp):
TATTTATATTAAAAAACACTAACATAAATATAATAAATGTT
Found at i:10743248 original size:14 final size:15
Alignment explanation
Indices: 10743229--10743259 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
10743219 ATATAAGATA
10743229 CAAAAGAAAGAA-AG
1 CAAAAGAAAGAATAG
10743243 CAAAAGAAAGAATAG
1 CAAAAGAAAGAATAG
10743258 CA
1 CA
10743260 GAAGCCATTC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 12 0.75
15 4 0.25
ACGTcount: A:0.68, C:0.10, G:0.19, T:0.03
Consensus pattern (15 bp):
CAAAAGAAAGAATAG
Found at i:10743689 original size:17 final size:18
Alignment explanation
Indices: 10743667--10743700 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
10743657 TAAATGAGTT
10743667 AATTAGGAT-TAAATTGG
1 AATTAGGATATAAATTGG
*
10743684 AATTAGGGTATAAATTG
1 AATTAGGATATAAATTG
10743701 AATACAAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.41, C:0.00, G:0.24, T:0.35
Consensus pattern (18 bp):
AATTAGGATATAAATTGG
Found at i:10744470 original size:26 final size:25
Alignment explanation
Indices: 10744413--10744471 Score: 64
Period size: 26 Copynumber: 2.3 Consensus size: 25
10744403 AAGTATGAGA
* * **
10744413 AAGTGAAATTATGAATTGAAATGTG
1 AAGTGAAATTAAGAATCGAAATAAG
*
10744438 AATTGAAATTAAGATATCGAAATAAG
1 AAGTGAAATTAAGA-ATCGAAATAAG
10744464 AAGTGAAA
1 AAGTGAAA
10744472 ATAGAATGAA
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
25 12 0.44
26 15 0.56
ACGTcount: A:0.51, C:0.02, G:0.20, T:0.27
Consensus pattern (25 bp):
AAGTGAAATTAAGAATCGAAATAAG
Found at i:10745259 original size:15 final size:16
Alignment explanation
Indices: 10745241--10745274 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
10745231 AGTTAAGTTA
10745241 TTTAGGATTAGGAT-T
1 TTTAGGATTAGGATAT
*
10745256 TTTAGGGTTAGGATAT
1 TTTAGGATTAGGATAT
10745272 TTT
1 TTT
10745275 TAGGTTTTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 13 0.76
16 4 0.24
ACGTcount: A:0.24, C:0.00, G:0.26, T:0.50
Consensus pattern (16 bp):
TTTAGGATTAGGATAT
Found at i:10745311 original size:50 final size:48
Alignment explanation
Indices: 10745253--10745348 Score: 115
Period size: 50 Copynumber: 1.9 Consensus size: 48
10745243 TAGGATTAGG
*
10745253 ATTTTTAGGG-TTAGGATATTTTTAGGTTTTGAGA-TTTTATGTTTTTTTT
1 ATTTTTAGGGTTTAGG-TA-TTTAAGGTTTTGA-ATTTTTATGTTTTTTTT
*
10745302 ATTTGTTAGGGTTTTTGGTATTTAAGGTTTTGAATTTTTATGTTTTT
1 ATTT-TTAGGG-TTTAGGTATTTAAGGTTTTGAATTTTTATGTTTTT
10745349 ATGTTTTAAG
Statistics
Matches: 41, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
49 5 0.12
50 30 0.73
51 2 0.05
52 4 0.10
ACGTcount: A:0.18, C:0.00, G:0.21, T:0.61
Consensus pattern (48 bp):
ATTTTTAGGGTTTAGGTATTTAAGGTTTTGAATTTTTATGTTTTTTTT
Found at i:10746187 original size:21 final size:22
Alignment explanation
Indices: 10746148--10746189 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
10746138 ACAACAAATT
*
10746148 ATAAAAAAATTATATATAAAAA
1 ATAAAAAAAATATATATAAAAA
10746170 ATAAAAAAAAT-TATATAAAA
1 ATAAAAAAAATATATATAAAA
10746190 CAAACCTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 9 0.47
22 10 0.53
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (22 bp):
ATAAAAAAAATATATATAAAAA
Found at i:10746200 original size:23 final size:23
Alignment explanation
Indices: 10746150--10746194 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
10746140 AACAAATTAT
*
10746150 AAAAAAATTATATATAAAAAATA
1 AAAAAAATTATATATAAAAAACA
10746173 AAAAAAATTATATA-AAACAAAC
1 AAAAAAATTATATATAAA-AAAC
10746195 CTAAAATCCC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 3 0.15
23 17 0.85
ACGTcount: A:0.73, C:0.04, G:0.00, T:0.22
Consensus pattern (23 bp):
AAAAAAATTATATATAAAAAACA
Found at i:10746787 original size:9 final size:10
Alignment explanation
Indices: 10746763--10746821 Score: 52
Period size: 9 Copynumber: 6.0 Consensus size: 10
10746753 ACACCGGAAG
10746763 AGAGAAAGAAA
1 AGAG-AAGAAA
10746774 AGAG-AGAAA
1 AGAGAAGAAA
*
10746783 GGAGAAGAAA
1 AGAGAAGAAA
*
10746793 A-AGAAGAAG
1 AGAGAAGAAA
*
10746802 A-AGAAGAGA
1 AGAGAAGAAA
10746811 AGCAGAAGAAA
1 AG-AGAAGAAA
10746822 GAAAAAAAAA
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
9 23 0.59
10 5 0.13
11 11 0.28
ACGTcount: A:0.66, C:0.02, G:0.32, T:0.00
Consensus pattern (10 bp):
AGAGAAGAAA
Found at i:10746817 original size:11 final size:11
Alignment explanation
Indices: 10746759--10746824 Score: 52
Period size: 11 Copynumber: 6.3 Consensus size: 11
10746749 CCACACACCG
10746759 GAAG-AGAGAAA
1 GAAGAAGAG-AA
10746770 GAA-AAGAG-A
1 GAAGAAGAGAA
*
10746779 GAA-AGGAGAA
1 GAAGAAGAGAA
*
10746789 GAAAAAGAAGAA
1 GAAGAAG-AGAA
10746801 GAAGAAGAGAA
1 GAAGAAGAGAA
*
10746812 GCAGAAGA-AA
1 GAAGAAGAGAA
10746822 GAA
1 GAA
10746825 AAAAAAAGGT
Statistics
Matches: 46, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
9 8 0.17
10 8 0.17
11 20 0.43
12 10 0.22
ACGTcount: A:0.65, C:0.02, G:0.33, T:0.00
Consensus pattern (11 bp):
GAAGAAGAGAA
Found at i:10746817 original size:14 final size:13
Alignment explanation
Indices: 10746759--10746824 Score: 73
Period size: 13 Copynumber: 5.0 Consensus size: 13
10746749 CCACACACCG
10746759 GAAGAGAGAAAGAA
1 GAAGA-AGAAAGAA
*
10746773 -AAGAGAGAAAGGA
1 GAAGA-AGAAAGAA
10746786 GAAGAA-AAAGAA
1 GAAGAAGAAAGAA
10746798 GAAGAAGAAGAGAA
1 GAAGAAGAA-AGAA
*
10746812 GCAGAAGAAAGAA
1 GAAGAAGAAAGAA
10746825 AAAAAAAGGT
Statistics
Matches: 46, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
12 11 0.24
13 19 0.41
14 16 0.35
ACGTcount: A:0.65, C:0.02, G:0.33, T:0.00
Consensus pattern (13 bp):
GAAGAAGAAAGAA
Found at i:10747037 original size:33 final size:32
Alignment explanation
Indices: 10746994--10747101 Score: 95
Period size: 33 Copynumber: 3.4 Consensus size: 32
10746984 GTTTTTTATA
*
10746994 ATTATTTTAAAATTAATTTGTTAGTAATTTAGG
1 ATTATGTTAAAATTAATTT-TTAGTAATTTAGG
10747027 ATTATGTTAAAA-T--TTTTTATGT--TTGTA--
1 ATTATGTTAAAATTAATTTTTA-GTAATT-TAGG
*
10747054 ATTATTTTAAAATTAATTTATTAGTAATTTAGG
1 ATTATGTTAAAATTAATTT-TTAGTAATTTAGG
*
10747087 ATTAAGTTATAAATT
1 ATTATGTTA-AAATT
10747102 GTTGTGTTTA
Statistics
Matches: 60, Mismatches: 4, Indels: 21
0.71 0.05 0.25
Matches are distributed among these distances:
27 11 0.18
28 3 0.05
29 5 0.08
30 10 0.17
31 5 0.08
32 3 0.05
33 18 0.30
34 5 0.08
ACGTcount: A:0.37, C:0.00, G:0.10, T:0.53
Consensus pattern (32 bp):
ATTATGTTAAAATTAATTTTTAGTAATTTAGG
Found at i:10747110 original size:60 final size:60
Alignment explanation
Indices: 10746992--10747110 Score: 186
Period size: 60 Copynumber: 2.0 Consensus size: 60
10746982 TTGTTTTTTA
* * *
10746992 TAATTATTTTAAAATTAATTTGTTAGTAATTTAGGATTATGTTAAAATTTTTTATGTTTG
1 TAATTATTTTAAAATTAATTTATTAGTAATTTAGGATTAAGTTAAAATTTGTTATGTTTG
*
10747052 TAATTATTTTAAAATTAATTTATTAGTAATTTAGGATTAAGTTATAAA-TTGTTGTGTTT
1 TAATTATTTTAAAATTAATTTATTAGTAATTTAGGATTAAGTTA-AAATTTGTTATGTTT
10747111 AGTTTAGTAT
Statistics
Matches: 54, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
60 51 0.94
61 3 0.06
ACGTcount: A:0.34, C:0.00, G:0.12, T:0.54
Consensus pattern (60 bp):
TAATTATTTTAAAATTAATTTATTAGTAATTTAGGATTAAGTTAAAATTTGTTATGTTTG
Done.