Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold89
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: 5168001
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 33045 characters in sequence are not A, C, G, or T
File 1 of 27
Found at i:1272 original size:21 final size:22
Alignment explanation
Indices: 1243--1288 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
1233 TGTTCAGACA
** *
1243 AGTAGTACTCCGCAGCAGGTGG
1 AGTAGTACTCCAAAACAGGTGG
1265 AGTA-TACTCCAAAACAGGTGG
1 AGTAGTACTCCAAAACAGGTGG
1286 AGT
1 AGT
1289 TTCAACAGAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 17 0.81
22 4 0.19
ACGTcount: A:0.30, C:0.20, G:0.30, T:0.20
Consensus pattern (22 bp):
AGTAGTACTCCAAAACAGGTGG
Found at i:3205 original size:27 final size:27
Alignment explanation
Indices: 3174--3241 Score: 84
Period size: 26 Copynumber: 2.6 Consensus size: 27
3164 AGCCACCATT
*
3174 TGTTTGTCAAAAATGGTGGTTACTTTA
1 TGTTTGTTAAAAATGGTGGTTACTTTA
* * *
3201 TGTTT-TTAAAAATTGTGGTTTCTTTT
1 TGTTTGTTAAAAATGGTGGTTACTTTA
*
3227 TATTTGTTAAAAATG
1 TGTTTGTTAAAAATG
3242 ATGGCATATT
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
26 21 0.62
27 13 0.38
ACGTcount: A:0.26, C:0.04, G:0.18, T:0.51
Consensus pattern (27 bp):
TGTTTGTTAAAAATGGTGGTTACTTTA
Found at i:3353 original size:13 final size:13
Alignment explanation
Indices: 3335--3359 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3325 TCTCTCTTCT
3335 CTCTCAAGTATCC
1 CTCTCAAGTATCC
3348 CTCTCAAGTATC
1 CTCTCAAGTATC
3360 TTTTTCATGT
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:0.24, C:0.36, G:0.08, T:0.32
Consensus pattern (13 bp):
CTCTCAAGTATCC
Found at i:4129 original size:19 final size:21
Alignment explanation
Indices: 4084--4127 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
4074 TTATATTTTT
*
4084 AAAATATTTATTAAAATAATA
1 AAAATATATATTAAAATAATA
4105 AAAATATATATTAAAATAA-A
1 AAAATATATATTAAAATAATA
4125 AAA
1 AAA
4128 TAATAGACTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 4 0.18
21 18 0.82
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (21 bp):
AAAATATATATTAAAATAATA
Found at i:4802 original size:20 final size:20
Alignment explanation
Indices: 4777--4818 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
4767 CCTTTTGCTA
4777 ATTAGTTGCTTAAGGTTATC
1 ATTAGTTGCTTAAGGTTATC
4797 ATTAGTTGCTTAAGGTTATC
1 ATTAGTTGCTTAAGGTTATC
4817 AT
1 AT
4819 GTTAAGAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.26, C:0.10, G:0.19, T:0.45
Consensus pattern (20 bp):
ATTAGTTGCTTAAGGTTATC
Found at i:6467 original size:34 final size:33
Alignment explanation
Indices: 6417--6602 Score: 223
Period size: 34 Copynumber: 5.5 Consensus size: 33
6407 TGGTAAAAAC
* *
6417 CACCATTTAATTAACAATGGCAACCTACCAAAT
1 CACCATTTAATCAACAATGGTAACCTACCAAAT
* *
6450 CTCCTATTTAGTCAACAATGGTAAGCC-ACCAAAT
1 CACC-ATTTAATCAACAATGGTAA-CCTACCAAAT
*
6484 CACCCATTTAATCAACAATGGTAAGCTACCAAAT
1 CA-CCATTTAATCAACAATGGTAACCTACCAAAT
* * *
6518 CTCCATTTAGTCAACAATGGCAAACC-ACCAAAT
1 CACCATTTAATCAACAATGG-TAACCTACCAAAT
* *
6551 CACCCATTTAATCAACAATGGTAAACTACTAAAT
1 CA-CCATTTAATCAACAATGGTAACCTACCAAAT
6585 CACCATTTAATCAACAAT
1 CACCATTTAATCAACAAT
6603 TCTCCCACTT
Statistics
Matches: 130, Mismatches: 16, Indels: 14
0.81 0.10 0.09
Matches are distributed among these distances:
33 48 0.37
34 78 0.60
35 4 0.03
ACGTcount: A:0.41, C:0.27, G:0.08, T:0.25
Consensus pattern (33 bp):
CACCATTTAATCAACAATGGTAACCTACCAAAT
Found at i:6555 original size:67 final size:67
Alignment explanation
Indices: 6419--6602 Score: 278
Period size: 67 Copynumber: 2.7 Consensus size: 67
6409 GTAAAAACCA
* * * * *
6419 CCATTTAATTAACAATGGCAACCTACCAAATCTCCTATTTAGTCAACAATGGTAAGCCACCAAAT
1 CCATTTAATCAACAATGGTAAACTACCAAATCTCC-ATTTAGTCAACAATGGCAAACCACCAAAT
6484 CAC
65 CAC
*
6487 CCATTTAATCAACAATGGTAAGCTACCAAATCTCCATTTAGTCAACAATGGCAAACCACCAAATC
1 CCATTTAATCAACAATGGTAAACTACCAAATCTCCATTTAGTCAACAATGGCAAACCACCAAATC
6552 AC
66 AC
* * *
6554 CCATTTAATCAACAATGGTAAACTACTAAATCACCATTTAATCAACAAT
1 CCATTTAATCAACAATGGTAAACTACCAAATCTCCATTTAGTCAACAAT
6603 TCTCCCACTT
Statistics
Matches: 107, Mismatches: 9, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
67 75 0.70
68 32 0.30
ACGTcount: A:0.41, C:0.27, G:0.08, T:0.25
Consensus pattern (67 bp):
CCATTTAATCAACAATGGTAAACTACCAAATCTCCATTTAGTCAACAATGGCAAACCACCAAATC
AC
Found at i:6566 original size:101 final size:100
Alignment explanation
Indices: 6419--6602 Score: 271
Period size: 101 Copynumber: 1.8 Consensus size: 100
6409 GTAAAAACCA
* * * * *
6419 CCATTTAATTAACAATGGCAACCTACCAAATCTCCTATTTAGTCAACAATGGTAAGCCACCAAAT
1 CCATTTAATCAACAATGGCAACCTACCAAATCACCCATTTAATCAACAATGGTAAACCACCAAAT
6484 CACCCATTTAATCAACAATGGTAAGCTACCAAATCT
66 CA-CCATTTAATCAACAATGGTAAGCTACCAAATCT
* * *
6520 CCATTTAGTCAACAATGGCAAACC-ACCAAATCACCCATTTAATCAACAATGGTAAACTACTAAA
1 CCATTTAATCAACAATGGC-AACCTACCAAATCACCCATTTAATCAACAATGGTAAACCACCAAA
6584 TCACCATTTAATCAACAAT
65 TCACCATTTAATCAACAAT
6603 TCTCCCACTT
Statistics
Matches: 74, Mismatches: 8, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
100 16 0.22
101 54 0.73
102 4 0.05
ACGTcount: A:0.41, C:0.27, G:0.08, T:0.25
Consensus pattern (100 bp):
CCATTTAATCAACAATGGCAACCTACCAAATCACCCATTTAATCAACAATGGTAAACCACCAAAT
CACCATTTAATCAACAATGGTAAGCTACCAAATCT
Found at i:11038 original size:34 final size:34
Alignment explanation
Indices: 10992--11207 Score: 269
Period size: 34 Copynumber: 6.4 Consensus size: 34
10982 GTAAAAACCA
* *
10992 CCATTTAATCAACAATGGCAACCTACCAAATCTC
1 CCATTTAATCAACAATGGTAACCTACCAAATCAC
* *
11026 CTATTTAGTCAACAATGGTAAGCC-ACCAAATCAC
1 CCATTTAATCAACAATGGTAA-CCTACCAAATCAC
* **
11060 CCATTTAATCAACAATGGTAAGCTACCAAATTTC
1 CCATTTAATCAACAATGGTAACCTACCAAATCAC
* *
11094 CCATTTAATCAACAATGGTAAGCTACCAAATC-T
1 CCATTTAATCAACAATGGTAACCTACCAAATCAC
* *
11127 CCATTTAGTCAACAATGGCAAACC-ACCAAATCAC
1 CCATTTAATCAACAATGG-TAACCTACCAAATCAC
* *
11161 CCATTTAATCAACAATGGTAAACTACTAAATCA-
1 CCATTTAATCAACAATGGTAACCTACCAAATCAC
11194 CCATTTAATCAACA
1 CCATTTAATCAACA
11208 GAAAATATAT
Statistics
Matches: 158, Mismatches: 19, Indels: 11
0.84 0.10 0.06
Matches are distributed among these distances:
33 43 0.27
34 113 0.72
35 2 0.01
ACGTcount: A:0.40, C:0.27, G:0.08, T:0.25
Consensus pattern (34 bp):
CCATTTAATCAACAATGGTAACCTACCAAATCAC
Found at i:11106 original size:68 final size:67
Alignment explanation
Indices: 10990--11207 Score: 310
Period size: 67 Copynumber: 3.2 Consensus size: 67
10980 TGGTAAAAAC
* * * *
10990 CACCATTTAATCAACAATGGCAACCTACCAAATCTCCTATTTAGTCAACAATGGTAAGCCACCAA
1 CACCATTTAATCAACAATGGCAAACTACCAAATCTCCCATTTAATCAACAATGGTAAGCTACCAA
11055 AT
66 AT
* * *
11057 CACCCATTTAATCAACAATGGTAAGCTACCAAATTTCCCATTTAATCAACAATGGTAAGCTACCA
1 CA-CCATTTAATCAACAATGGCAAACTACCAAATCTCCCATTTAATCAACAATGGTAAGCTACCA
11122 AAT
65 AAT
* * * * * *
11125 CTCCATTTAGTCAACAATGGCAAACCACCAAATCACCCATTTAATCAACAATGGTAAACTACTAA
1 CACCATTTAATCAACAATGGCAAACTACCAAATCTCCCATTTAATCAACAATGGTAAGCTACCAA
11190 AT
66 AT
11192 CACCATTTAATCAACA
1 CACCATTTAATCAACA
11208 GAAAATATAT
Statistics
Matches: 133, Mismatches: 17, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
67 73 0.55
68 60 0.45
ACGTcount: A:0.40, C:0.27, G:0.08, T:0.25
Consensus pattern (67 bp):
CACCATTTAATCAACAATGGCAAACTACCAAATCTCCCATTTAATCAACAATGGTAAGCTACCAA
AT
Found at i:11331 original size:15 final size:16
Alignment explanation
Indices: 11311--11344 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
11301 TCTTATTTGA
11311 TAAATATTT-TAAAAT
1 TAAATATTTATAAAAT
*
11326 TAAATATTTATTAAAT
1 TAAATATTTATAAAAT
11342 TAA
1 TAA
11345 TAAAAAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 9 0.53
16 8 0.47
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
TAAATATTTATAAAAT
Found at i:28843 original size:40 final size:40
Alignment explanation
Indices: 28799--28877 Score: 149
Period size: 40 Copynumber: 2.0 Consensus size: 40
28789 TACGCATTGA
28799 AATAATCAAGCCTTTCTTTTTACTTGTAACCTTTTATTAT
1 AATAATCAAGCCTTTCTTTTTACTTGTAACCTTTTATTAT
*
28839 AATAATCAAGCCTTTCTTTTTGCTTGTAACCTTTTATTA
1 AATAATCAAGCCTTTCTTTTTACTTGTAACCTTTTATTA
28878 CAAGTTGGGC
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.27, C:0.18, G:0.06, T:0.49
Consensus pattern (40 bp):
AATAATCAAGCCTTTCTTTTTACTTGTAACCTTTTATTAT
Found at i:32126 original size:20 final size:21
Alignment explanation
Indices: 32078--32131 Score: 74
Period size: 20 Copynumber: 2.6 Consensus size: 21
32068 TTTCTTGATT
*
32078 TATATCGATACAAATAGTAAA
1 TATATCGATACATATAGTAAA
* *
32099 TGTATCGATACATA-AGTGAA
1 TATATCGATACATATAGTAAA
32119 TATATCGATACAT
1 TATATCGATACAT
32132 GCTTGAAACG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 17 0.59
21 12 0.41
ACGTcount: A:0.44, C:0.11, G:0.13, T:0.31
Consensus pattern (21 bp):
TATATCGATACATATAGTAAA
Found at i:32138 original size:20 final size:20
Alignment explanation
Indices: 32101--32151 Score: 50
Period size: 20 Copynumber: 2.5 Consensus size: 20
32091 ATAGTAAATG
32101 TATCGATACATAAGTGAATA-
1 TATCGATACATAAGTGAA-AC
***
32121 TATCGATACATGCTTGAAAC
1 TATCGATACATAAGTGAAAC
32141 GTATCGATACA
1 -TATCGATACA
32152 AAATCACCCT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
19 1 0.04
20 15 0.58
21 10 0.38
ACGTcount: A:0.39, C:0.16, G:0.16, T:0.29
Consensus pattern (20 bp):
TATCGATACATAAGTGAAAC
Found at i:36047 original size:79 final size:79
Alignment explanation
Indices: 35951--36103 Score: 216
Period size: 79 Copynumber: 1.9 Consensus size: 79
35941 AATACCCCTG
* * ***
35951 ATTATGGAAAATCGGTGTTCTGGAAATAAAATCAGGGTTGGAGTATCCCCTTGGAAATAACAGGA
1 ATTATAGAAAATCGGTGTTCTGAAAATAAAATCAGGGTTGGAGTATCCCCTCAAAAATAACAGGA
36016 TTGGAGTATCCTTA
66 TTGGAGTATCCTTA
* * * * *
36030 ATTATAGAAAATTGGTGTTTTGAAAATAAAATCGGGGTTGGAGTATCCCCTCAAAAATAACGGGG
1 ATTATAGAAAATCGGTGTTCTGAAAATAAAATCAGGGTTGGAGTATCCCCTCAAAAATAACAGGA
36095 TTGGAGTAT
66 TTGGAGTAT
36104 TCCCGCGAAA
Statistics
Matches: 64, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
79 64 1.00
ACGTcount: A:0.34, C:0.11, G:0.25, T:0.29
Consensus pattern (79 bp):
ATTATAGAAAATCGGTGTTCTGAAAATAAAATCAGGGTTGGAGTATCCCCTCAAAAATAACAGGA
TTGGAGTATCCTTA
Found at i:36096 original size:28 final size:28
Alignment explanation
Indices: 36062--36136 Score: 114
Period size: 28 Copynumber: 2.7 Consensus size: 28
36052 AAAATAAAAT
*
36062 CGGGGTTGGAGTATCCCCTCAAAAATAA
1 CGGGGTTGGAGTATCCCCGCAAAAATAA
* *
36090 CGGGGTTGGAGTATTCCCGCGAAAATAA
1 CGGGGTTGGAGTATCCCCGCAAAAATAA
*
36118 CGGGGTTGGAGTATTCCCG
1 CGGGGTTGGAGTATCCCCG
36137 ATTGTGAGAA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 44 1.00
ACGTcount: A:0.25, C:0.20, G:0.32, T:0.23
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGCAAAAATAA
Found at i:36276 original size:52 final size:52
Alignment explanation
Indices: 36198--36375 Score: 293
Period size: 52 Copynumber: 3.4 Consensus size: 52
36188 CGGAGGTAAT
* *
36198 GGGGTTGGAGTATCCCCGATTAAAGGAAAATTAGTGTATTGAAAATAAAACC
1 GGGGTTGGAGTATCCACGATTAAAGGAAAATTAGTGTTTTGAAAATAAAACC
* *
36250 GGGGTTGGAGTATCCAAGATTAAAGGAAAATTAGTGTTTTGAAAATAAAATC
1 GGGGTTGGAGTATCCACGATTAAAGGAAAATTAGTGTTTTGAAAATAAAACC
* *
36302 GGGGTTGGAGTATCCTCGATTAAAGGAAAATTGGTGTTTTGAAAATAAAACC
1 GGGGTTGGAGTATCCACGATTAAAGGAAAATTAGTGTTTTGAAAATAAAACC
*
36354 GGGGTTGGAGTATCCCCGATTA
1 GGGGTTGGAGTATCCACGATTA
36376 TGAACAATTG
Statistics
Matches: 117, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
52 117 1.00
ACGTcount: A:0.35, C:0.10, G:0.27, T:0.28
Consensus pattern (52 bp):
GGGGTTGGAGTATCCACGATTAAAGGAAAATTAGTGTTTTGAAAATAAAACC
Found at i:37876 original size:87 final size:88
Alignment explanation
Indices: 37769--37953 Score: 300
Period size: 87 Copynumber: 2.1 Consensus size: 88
37759 TCCTCTTGCT
37769 TTGCAGGCTTTTTCTTTTTCTCTTGCATGCTTGTTGCATGTTTTGTCTCCCATCACA-TTTTTTA
1 TTGCAGG-TTTTTCTTTTTCTCTTGCATGCTTGTTGCATGTTTTGTCTCCCATCACATTTTTTTA
* **
37833 TTTTCTTTCCCATGCTGCCGGTTG
65 TTTCCTTTCCCATGCTGCCAATTG
* *
37857 TTGCAGGTTTTTCTTTTTCTTTTGCATGCTTGTTGCATGTTTTGTCTCCCATTACATTTTTTTAT
1 TTGCAGGTTTTTCTTTTTCTCTTGCATGCTTGTTGCATGTTTTGTCTCCCATCACATTTTTTTAT
37922 TTCCTTTCCCATGCTGCCAATTG
66 TTCCTTTCCCATGCTGCCAATTG
*
37945 TTGTAGGTT
1 TTGCAGGTT
37954 ATTGCGCATG
Statistics
Matches: 90, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
87 47 0.52
88 43 0.48
ACGTcount: A:0.10, C:0.22, G:0.16, T:0.52
Consensus pattern (88 bp):
TTGCAGGTTTTTCTTTTTCTCTTGCATGCTTGTTGCATGTTTTGTCTCCCATCACATTTTTTTAT
TTCCTTTCCCATGCTGCCAATTG
Found at i:38044 original size:20 final size:20
Alignment explanation
Indices: 38019--38079 Score: 95
Period size: 20 Copynumber: 3.0 Consensus size: 20
38009 CCCATCATTT
38019 CATGTTTTCTACAAGCTTCA
1 CATGTTTTCTACAAGCTTCA
*
38039 CATGTTTTCTACATGCTTCA
1 CATGTTTTCTACAAGCTTCA
* *
38059 CATGTTTTGTCCAAGCTTCA
1 CATGTTTTCTACAAGCTTCA
38079 C
1 C
38080 GTGATGGCAA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.21, C:0.26, G:0.11, T:0.41
Consensus pattern (20 bp):
CATGTTTTCTACAAGCTTCA
Found at i:39635 original size:12 final size:12
Alignment explanation
Indices: 39611--39660 Score: 55
Period size: 12 Copynumber: 4.1 Consensus size: 12
39601 ATAAAGATAC
39611 ATAAATAAAATAT
1 ATAAAT-AAATAT
39624 ATAAATAAATAT
1 ATAAATAAATAT
* *
39636 ATATATATATAT
1 ATAAATAAATAT
* *
39648 ATATATATATAT
1 ATAAATAAATAT
39660 A
1 A
39661 CACCCGCTAA
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
12 29 0.83
13 6 0.17
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (12 bp):
ATAAATAAATAT
Found at i:39637 original size:2 final size:2
Alignment explanation
Indices: 39620--39705 Score: 84
Period size: 2 Copynumber: 43.0 Consensus size: 2
39610 CATAAATAAA
* * *
39620 AT AT AT AA AT AA AT AT AT AT AT AT AT AT AT AT AT AT AT AT AC
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* ** * *
39662 ACC CG CT A- AA AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
39704 AT
1 AT
39706 GCAGGCACTA
Statistics
Matches: 72, Mismatches: 10, Indels: 4
0.84 0.12 0.05
Matches are distributed among these distances:
1 1 0.01
2 70 0.97
3 1 0.01
ACGTcount: A:0.51, C:0.06, G:0.01, T:0.42
Consensus pattern (2 bp):
AT
Found at i:39637 original size:14 final size:14
Alignment explanation
Indices: 39601--39654 Score: 65
Period size: 14 Copynumber: 3.9 Consensus size: 14
39591 ACGGTCAACT
* *
39601 ATAAAGATACATAA
1 ATAAATATATATAA
39615 ATAAA-ATATATAA
1 ATAAATATATATAA
*
39628 ATAAATATATATAT
1 ATAAATATATATAA
*
39642 ATATATATATATA
1 ATAAATATATATA
39655 TATATACACC
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
13 12 0.33
14 24 0.67
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.35
Consensus pattern (14 bp):
ATAAATATATATAA
Found at i:42207 original size:17 final size:17
Alignment explanation
Indices: 42168--42207 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
42158 AATCTTATAA
* *
42168 AAAAATTTTAAACATAT
1 AAAAATTTTAAAAAAAT
42185 AAAAATTTTAAAAAAAT
1 AAAAATTTTAAAAAAAT
*
42202 ATAAAT
1 AAAAAT
42208 ATATTTATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.33
Consensus pattern (17 bp):
AAAAATTTTAAAAAAAT
Found at i:43035 original size:41 final size:40
Alignment explanation
Indices: 42989--43084 Score: 110
Period size: 41 Copynumber: 2.4 Consensus size: 40
42979 CAGACACTCA
42989 TTAATA-ATTATTTAATTACT-AATTTTAATAAAAA-AATTTAT
1 TTAATATATTATTT--TTACTAAATTTTAA-AAAAATAATTT-T
*
43030 TTAATATATTATTTTTATTAAATTTTAAAAAAATAATTTT
1 TTAATATATTATTTTTACTAAATTTTAAAAAAATAATTTT
43070 TTAATTATATT-TTTT
1 TTAA-TATATTATTTT
43085 AATAAATATT
Statistics
Matches: 50, Mismatches: 1, Indels: 9
0.83 0.02 0.15
Matches are distributed among these distances:
40 18 0.36
41 25 0.50
42 7 0.14
ACGTcount: A:0.44, C:0.01, G:0.00, T:0.55
Consensus pattern (40 bp):
TTAATATATTATTTTTACTAAATTTTAAAAAAATAATTTT
Found at i:43425 original size:31 final size:30
Alignment explanation
Indices: 43375--43440 Score: 98
Period size: 31 Copynumber: 2.2 Consensus size: 30
43365 ATAAAGCTAA
43375 AATATTTTAATAATTATCAAATTTATAAAT
1 AATATTTTAATAATTATCAAATTTATAAAT
*
43405 AATATATTTAAT-ATTCATCAAATTTATAATT
1 AATAT-TTTAATAATT-ATCAAATTTATAAAT
43436 AATAT
1 AATAT
43441 CAGTCTAATT
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
30 8 0.24
31 25 0.76
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.47
Consensus pattern (30 bp):
AATATTTTAATAATTATCAAATTTATAAAT
Found at i:43658 original size:17 final size:16
Alignment explanation
Indices: 43636--43669 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
43626 AAAATTTTAT
*
43636 TAATAATAAATTTAAAA
1 TAATAA-AAAATTAAAA
43653 TAATAAAAAATTAAAA
1 TAATAAAAAATTAAAA
43669 T
1 T
43670 TAAAAATTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (16 bp):
TAATAAAAAATTAAAA
Found at i:45983 original size:16 final size:17
Alignment explanation
Indices: 45941--45983 Score: 63
Period size: 15 Copynumber: 2.6 Consensus size: 17
45931 TTTAATATTT
*
45941 ATAAAATTTTTAATTAA
1 ATAAAATTTATAATTAA
45958 ATAAAA-TTATAA-TAA
1 ATAAAATTTATAATTAA
45973 ATAAAATTTAT
1 ATAAAATTTAT
45984 TTAAAAATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
15 9 0.38
16 9 0.38
17 6 0.25
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (17 bp):
ATAAAATTTATAATTAA
Found at i:45988 original size:15 final size:15
Alignment explanation
Indices: 45941--46009 Score: 56
Period size: 15 Copynumber: 4.7 Consensus size: 15
45931 TTTAATATTT
*
45941 ATAAAATTTTTAATTAA
1 ATAAAATTTAT-A-TAA
45958 ATAAAA-TTATAATAA
1 ATAAAATTTAT-ATAA
*
45973 ATAAAATTTATTTAA
1 ATAAAATTTATATAA
*
45988 A-AATATTT-TATAA
1 ATAAAATTTATATAA
46001 AT-AAATTTA
1 ATAAAATTTA
46010 AAGTTAAATT
Statistics
Matches: 44, Mismatches: 5, Indels: 9
0.76 0.09 0.16
Matches are distributed among these distances:
13 10 0.23
14 6 0.14
15 13 0.30
16 9 0.20
17 6 0.14
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (15 bp):
ATAAAATTTATATAA
Found at i:46149 original size:20 final size:20
Alignment explanation
Indices: 46123--46174 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
46113 TATGATAGAA
46123 ATATATAAATATGTAAATATT
1 ATATATAAATATG-AAATATT
*
46144 -TATATAAA-ATGAATTATT
1 ATATATAAATATGAAATATT
46162 AATATATAAATAT
1 -ATATATAAATAT
46175 TTATATAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
18 6 0.22
19 3 0.11
20 16 0.59
21 2 0.07
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.42
Consensus pattern (20 bp):
ATATATAAATATGAAATATT
Found at i:46939 original size:32 final size:32
Alignment explanation
Indices: 46900--46990 Score: 102
Period size: 32 Copynumber: 2.8 Consensus size: 32
46890 GAATATACGT
46900 ATATATAAAAATATACATAAA-ATAAATTATT-C
1 ATATATAAAAATATA-ATAAATATAAATT-TTAC
46932 ATATATAAAAAATATAA-AAATATAATATTTTAC
1 ATATAT-AAAAATATAATAAATATAA-ATTTTAC
46965 ATATA-AAAAATA-ATATAAATATAAAT
1 ATATATAAAAATATA-ATAAATATAAAT
46991 ATAAATATTT
Statistics
Matches: 53, Mismatches: 0, Indels: 13
0.80 0.00 0.20
Matches are distributed among these distances:
30 1 0.02
31 13 0.25
32 21 0.40
33 18 0.34
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (32 bp):
ATATATAAAAATATAATAAATATAAATTTTAC
Found at i:46992 original size:24 final size:22
Alignment explanation
Indices: 46941--46995 Score: 58
Period size: 22 Copynumber: 2.4 Consensus size: 22
46931 CATATATAAA
*
46941 AAATATAAAAATATAATATTTT
1 AAATATAAAAATATAATATTAT
*
46963 ACATATAAAAA-ATAATATAAATAT
1 AAATATAAAAATATAATAT---TAT
46987 AAATATAAA
1 AAATATAAA
46996 TATTTTTCTT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
21 7 0.26
22 10 0.37
24 10 0.37
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (22 bp):
AAATATAAAAATATAATATTAT
Found at i:49257 original size:13 final size:12
Alignment explanation
Indices: 49239--49279 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 12
49229 GCCATTGGTT
49239 TTTATAATCAATA
1 TTTATAAT-AATA
49252 TTTATAATAATTA
1 TTTATAATAA-TA
*
49265 ATTATAATAATA
1 TTTATAATAATA
49277 TTT
1 TTT
49280 GTTATAACAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
12 6 0.24
13 19 0.76
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.51
Consensus pattern (12 bp):
TTTATAATAATA
Found at i:54487 original size:13 final size:13
Alignment explanation
Indices: 54469--54510 Score: 54
Period size: 13 Copynumber: 3.4 Consensus size: 13
54459 TATAAAGTTA
54469 TATTTATTTTATT
1 TATTTATTTTATT
54482 TATTTA-TTTA-T
1 TATTTATTTTATT
54493 TA-TTATTATTATT
1 TATTTATT-TTATT
54506 TATTT
1 TATTT
54511 TTTAAATATA
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
10 3 0.12
11 4 0.16
12 7 0.28
13 9 0.36
14 2 0.08
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (13 bp):
TATTTATTTTATT
Found at i:56425 original size:27 final size:26
Alignment explanation
Indices: 56393--56476 Score: 82
Period size: 27 Copynumber: 3.1 Consensus size: 26
56383 TAAAAATACC
56393 GTGCTAAAGTGCTTGTGTCAAGTACAT
1 GTGCTAAAGTGCTTGTGT-AAGTACAT
* *
56420 GTGCTAAAGTGTCTATAT-TAAGTACTT
1 GTGCTAAAGTG-CT-TGTGTAAGTACAT
*
56447 GTGCTAAAGTACTTGTG-ATAGTTACAT
1 GTGCTAAAGTGCTTGTGTA-AG-TACAT
56474 GTG
1 GTG
56477 TCAGATACCT
Statistics
Matches: 47, Mismatches: 5, Indels: 10
0.76 0.08 0.16
Matches are distributed among these distances:
25 3 0.06
26 4 0.09
27 35 0.74
28 3 0.06
29 2 0.04
ACGTcount: A:0.27, C:0.12, G:0.24, T:0.37
Consensus pattern (26 bp):
GTGCTAAAGTGCTTGTGTAAGTACAT
Found at i:56458 original size:14 final size:14
Alignment explanation
Indices: 56393--56463 Score: 51
Period size: 14 Copynumber: 5.2 Consensus size: 14
56383 TAAAAATACC
*
56393 GTGCTAAAGTGCTT
1 GTGCTAAAGTACTT
* *
56407 GTG-TCAAGTACAT
1 GTGCTAAAGTACTT
*
56420 GTGCTAAAGTGTCTAT
1 GTGCTAAAGT-ACT-T
*
56436 AT--T-AAGTACTT
1 GTGCTAAAGTACTT
56447 GTGCTAAAGTACTT
1 GTGCTAAAGTACTT
56461 GTG
1 GTG
56464 ATAGTTACAT
Statistics
Matches: 42, Mismatches: 9, Indels: 12
0.67 0.14 0.19
Matches are distributed among these distances:
11 2 0.05
12 2 0.05
13 15 0.36
14 20 0.48
15 1 0.02
16 2 0.05
ACGTcount: A:0.27, C:0.13, G:0.24, T:0.37
Consensus pattern (14 bp):
GTGCTAAAGTACTT
Found at i:57830 original size:94 final size:92
Alignment explanation
Indices: 57725--57911 Score: 270
Period size: 92 Copynumber: 2.0 Consensus size: 92
57715 ATACAAACTT
* * *
57725 TTTTAAGACAAAGATAATATATTTTTTAAAAAAAAGAAGTATCAA-TTTA-ATATATATATATAT
1 TTTTAAAACAAAGATAATATATTTTCT----AAAAGAAATATCAATTTTATATATATATATATAT
57788 GCTAATTCTTAATTTATTAAGAATATATATA
62 GCTAATTCTTAATTTATTAAGAATATATATA
*
57819 TTTTAAAACAAAGATAATGTATTTTCTAAAAGAAATATCAATTTTATATATATATATATATGCTA
1 TTTTAAAACAAAGATAATATATTTTCTAAAAGAAATATCAATTTTATATATATATATATATGCTA
* *
57884 ATTTTTAATTTATTAAGAGTATATATA
66 ATTCTTAATTTATTAAGAATATATATA
57911 T
1 T
57912 ATATATATAT
Statistics
Matches: 85, Mismatches: 6, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
90 13 0.15
91 4 0.05
92 44 0.52
94 24 0.28
ACGTcount: A:0.46, C:0.04, G:0.06, T:0.43
Consensus pattern (92 bp):
TTTTAAAACAAAGATAATATATTTTCTAAAAGAAATATCAATTTTATATATATATATATATGCTA
ATTCTTAATTTATTAAGAATATATATA
Found at i:57910 original size:2 final size:2
Alignment explanation
Indices: 57903--57939 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
57893 TTATTAAGAG
57903 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
57940 TATGTGTTGC
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:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:60759 original size:24 final size:24
Alignment explanation
Indices: 60731--60818 Score: 86
Period size: 24 Copynumber: 3.7 Consensus size: 24
60721 CAACGTTTTA
*
60731 CATGACTCTTGGAACATCTTTTGG
1 CATGACTCTTGGAACATCCTTTGG
* * * *
60755 TATGACTCCTAGAACAACCTTTGG
1 CATGACTCTTGGAACATCCTTTGG
* *
60779 CATGAATCTCGGAACATCCTTTGG
1 CATGACTCTTGGAACATCCTTTGG
* **
60803 GACAACTCTTGGAACA
1 CATGACTCTTGGAACA
60819 CAGTTTGGAT
Statistics
Matches: 48, Mismatches: 16, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
24 48 1.00
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.30
Consensus pattern (24 bp):
CATGACTCTTGGAACATCCTTTGG
Found at i:61893 original size:118 final size:117
Alignment explanation
Indices: 61672--62028 Score: 464
Period size: 118 Copynumber: 3.0 Consensus size: 117
61662 AAAAATATGC
* *** * * * *
61672 CCAAAGGGGAACTATCCACTTTGATTAGGGAGATCAAATCTCAACCTAAAACAAAGTAAATTATT
1 CCAAA-GGGAACTATCCACTTCG-TTAGGGAGATTGTATCTCAACCTTAAATAAAGCAAGTTATT
* * ** * *
61737 CAACCATTTTTTAAATAAGTGACTTAGGCCAACGTATGAGTGATTATAGCTGTGG
64 CAA-CATTTTTTGAATAAATGACTTAGGCCAATATATGAGCGATTATAGCTGCGG
61792 CCAAAGGGAACTATCCACTTCGTTAGGGAGATTGTATCTCAACCTTAAATAAAGCAAGTTATTCA
1 CCAAAGGGAACTATCCACTTCGTTAGGGAGATTGTATCTCAACCTTAAATAAAGCAAGTTATTCA
* *
61857 ACTTTTTTTTGAATAAATGACTTAGGCCAATATATGAGCGATCATAGCTGCGG
66 AC-ATTTTTTGAATAAATGACTTAGGCCAATATATGAGCGATTATAGCTGCGG
* * *
61910 CGAAAGGGAACTATCCACTTCATTAGGGAGATTGTATCTCAACCTTAAATGAAGC-AGATTATTC
1 CCAAAGGGAACTATCCACTTCGTTAGGGAGATTGTATCTCAACCTTAAATAAAGCAAG-TTATTC
* * *
61974 AACCTTTTTCGAATAAATGACTTAGGCCAATATACGAGCGATTATAGCTGCGG
65 AACATTTTTTGAATAAATGACTTAGGCCAATATATGAGCGATTATAGCTGCGG
62027 CC
1 CC
62029 TGTACAATCA
Statistics
Matches: 211, Mismatches: 24, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
117 50 0.24
118 140 0.66
119 16 0.08
120 5 0.02
ACGTcount: A:0.34, C:0.18, G:0.19, T:0.29
Consensus pattern (117 bp):
CCAAAGGGAACTATCCACTTCGTTAGGGAGATTGTATCTCAACCTTAAATAAAGCAAGTTATTCA
ACATTTTTTGAATAAATGACTTAGGCCAATATATGAGCGATTATAGCTGCGG
Found at i:69388 original size:15 final size:15
Alignment explanation
Indices: 69350--69434 Score: 61
Period size: 15 Copynumber: 5.9 Consensus size: 15
69340 ACTATGCTAA
*
69350 GTACCTGTGCCAAA-
1 GTACTTGTGCCAAAG
* *
69364 ATACTCGTGCCAAAG
1 GTACTTGTGCCAAAG
*
69379 GTACTTGTGCTAAAG
1 GTACTTGTGCCAAAG
* * *
69394 ATACCTGTGCCGAAG
1 GTACTTGTGCCAAAG
* *
69409 GT-TTTGTG-CTAA-
1 GTACTTGTGCCAAAG
69421 GTACTTGTGCCAAA
1 GTACTTGTGCCAAA
69435 ATGCCTATGC
Statistics
Matches: 52, Mismatches: 16, Indels: 6
0.70 0.22 0.08
Matches are distributed among these distances:
12 2 0.04
13 8 0.15
14 18 0.35
15 24 0.46
ACGTcount: A:0.27, C:0.21, G:0.24, T:0.28
Consensus pattern (15 bp):
GTACTTGTGCCAAAG
Found at i:69469 original size:14 final size:14
Alignment explanation
Indices: 69450--69476 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
69440 TATGCCAGGT
69450 ACCTGTGCCAAAGC
1 ACCTGTGCCAAAGC
69464 ACCTGTGCCAAAG
1 ACCTGTGCCAAAG
69477 AATATTATTG
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:0.33, G:0.22, T:0.15
Consensus pattern (14 bp):
ACCTGTGCCAAAGC
Found at i:70671 original size:29 final size:29
Alignment explanation
Indices: 70608--70672 Score: 85
Period size: 29 Copynumber: 2.2 Consensus size: 29
70598 AGTACCGTTG
* *
70608 ATTTTTAAACAAATTATTAAAATAATGTT
1 ATTTTGAAACAAATTATTAAAATAATATT
* * *
70637 AATTTGAAACAAATTATTAGAATATTATT
1 ATTTTGAAACAAATTATTAAAATAATATT
70666 ATTTTGA
1 ATTTTGA
70673 CTCGCAAAAA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.46, C:0.03, G:0.06, T:0.45
Consensus pattern (29 bp):
ATTTTGAAACAAATTATTAAAATAATATT
Found at i:70934 original size:19 final size:19
Alignment explanation
Indices: 70899--70935 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
70889 TTTTTTTTAA
*
70899 TTAATAAAAGATCATATTG
1 TTAATAAAAGATAATATTG
*
70918 TTAATAAAAGTTAATATT
1 TTAATAAAAGATAATATT
70936 ATTATAAATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.49, C:0.03, G:0.08, T:0.41
Consensus pattern (19 bp):
TTAATAAAAGATAATATTG
Found at i:70951 original size:27 final size:26
Alignment explanation
Indices: 70919--70975 Score: 69
Period size: 27 Copynumber: 2.2 Consensus size: 26
70909 ATCATATTGT
*
70919 TAATAAAAGTTAATATTATTATAAATA
1 TAATAAAAGTTAATATTATTA-AAAAA
* **
70946 TAATAATAGTTTTTATTATTAAAAAA
1 TAATAAAAGTTAATATTATTAAAAAA
70972 TAAT
1 TAAT
70976 TTCATTGATA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
26 8 0.31
27 18 0.69
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.44
Consensus pattern (26 bp):
TAATAAAAGTTAATATTATTAAAAAA
Found at i:71046 original size:14 final size:14
Alignment explanation
Indices: 71029--71056 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
71019 AATCATATAA
71029 TTAATTTAAATTAT
1 TTAATTTAAATTAT
71043 TTAATTTAAATTAT
1 TTAATTTAAATTAT
71057 AATCGTCTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (14 bp):
TTAATTTAAATTAT
Found at i:71232 original size:18 final size:17
Alignment explanation
Indices: 71189--71236 Score: 69
Period size: 17 Copynumber: 2.8 Consensus size: 17
71179 AGTTTAGCAA
*
71189 TTTAGAATAATTAAAAT
1 TTTAAAATAATTAAAAT
*
71206 TTTAAAATAATTATAAT
1 TTTAAAATAATTAAAAT
71223 TTTAAAAATAATTA
1 TTT-AAAATAATTA
71237 GATGATTATA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
17 18 0.64
18 10 0.36
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (17 bp):
TTTAAAATAATTAAAAT
Found at i:71284 original size:31 final size:31
Alignment explanation
Indices: 71227--71286 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
71217 TATAATTTTA
*
71227 AAAATAATTAGATGATTATAACCCTTAGTTT
1 AAAATAATTAGATGATTACAACCCTTAGTTT
* * *
71258 AAAATAATTAGATGGTTGCAATCCTTAGT
1 AAAATAATTAGATGATTACAACCCTTAGT
71287 AATTAGGCTG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.40, C:0.10, G:0.13, T:0.37
Consensus pattern (31 bp):
AAAATAATTAGATGATTACAACCCTTAGTTT
Found at i:71353 original size:37 final size:38
Alignment explanation
Indices: 71305--71477 Score: 170
Period size: 38 Copynumber: 4.6 Consensus size: 38
71295 TGTTACAATG
71305 TAAATTTTAAAATAAATAAATAATTATAACTCTTAATT
1 TAAATTTTAAAATAAATAAATAATTATAACTCTTAATT
* * * ** * *
71343 TAAATTTAAAAAATAATTAGACGATTACAACT-TAAATT
1 TAAATTT-TAAAATAAATAAATAATTATAACTCTTAATT
*
71381 AAAATTTTAAAATAAATAAATAATTATAACTCTTAATT
1 TAAATTTTAAAATAAATAAATAATTATAACTCTTAATT
* * * ** * *
71419 TAAATTTAAAAAATAATTAGACGATTACAACT-TAAATT
1 TAAATTT-TAAAATAAATAAATAATTATAACTCTTAATT
*
71457 AAAATTTTAAAATAAATAAAT
1 TAAATTTTAAAATAAATAAAT
71478 TAAATTAAAT
Statistics
Matches: 104, Mismatches: 28, Indels: 7
0.75 0.20 0.05
Matches are distributed among these distances:
37 28 0.27
38 40 0.38
39 36 0.35
ACGTcount: A:0.55, C:0.06, G:0.02, T:0.37
Consensus pattern (38 bp):
TAAATTTTAAAATAAATAAATAATTATAACTCTTAATT
Found at i:71395 original size:76 final size:76
Alignment explanation
Indices: 71306--71477 Score: 344
Period size: 76 Copynumber: 2.3 Consensus size: 76
71296 GTTACAATGT
71306 AAATTTTAAAATAAATAAATAATTATAACTCTTAATTTAAATTTAAAAAATAATTAGACGATTAC
1 AAATTTTAAAATAAATAAATAATTATAACTCTTAATTTAAATTTAAAAAATAATTAGACGATTAC
71371 AACTTAAATTA
66 AACTTAAATTA
71382 AAATTTTAAAATAAATAAATAATTATAACTCTTAATTTAAATTTAAAAAATAATTAGACGATTAC
1 AAATTTTAAAATAAATAAATAATTATAACTCTTAATTTAAATTTAAAAAATAATTAGACGATTAC
71447 AACTTAAATTA
66 AACTTAAATTA
71458 AAATTTTAAAATAAATAAAT
1 AAATTTTAAAATAAATAAAT
71478 TAAATTAAAT
Statistics
Matches: 96, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
76 96 1.00
ACGTcount: A:0.55, C:0.06, G:0.02, T:0.37
Consensus pattern (76 bp):
AAATTTTAAAATAAATAAATAATTATAACTCTTAATTTAAATTTAAAAAATAATTAGACGATTAC
AACTTAAATTA
Found at i:71614 original size:22 final size:20
Alignment explanation
Indices: 71586--71632 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
71576 TATTATTATA
* *
71586 TTTA-TAATAATATTA-TCT
1 TTTATTAATAATATAATTTT
71604 TTTATTAATAATATAATTTT
1 TTTATTAATAATATAATTTT
71624 TTTATTAAT
1 TTTATTAAT
71633 TTAAAAAACA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 4 0.16
19 10 0.40
20 11 0.44
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (20 bp):
TTTATTAATAATATAATTTT
Found at i:72794 original size:2 final size:2
Alignment explanation
Indices: 72787--72815 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
72777 AAGGGAAAGA
72787 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
72816 AAAAAAAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:73409 original size:12 final size:13
Alignment explanation
Indices: 73383--73408 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
73373 AAATATTAGG
73383 TATTTATATTTTT
1 TATTTATATTTTT
73396 TATTTATATTTTT
1 TATTTATATTTTT
73409 AATTATTTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (13 bp):
TATTTATATTTTT
Found at i:73443 original size:37 final size:37
Alignment explanation
Indices: 73389--73483 Score: 95
Period size: 37 Copynumber: 2.6 Consensus size: 37
73379 TAGGTATTTA
* * *
73389 TATT-TTTTAT-TTATATTTTTAATTATTTAAAATAT
1 TATTATTTTATATAATATTTATAAATATTTAAAATAT
***
73424 TATTATTTTATATAATATTTATAAATATTTTGTATAT
1 TATTATTTTATATAATATTTATAAATATTTAAAATAT
* *
73461 TTTTATATTTATATCATATTTAT
1 TATTAT-TTTATATAATATTTAT
73484 TTTTATATTA
Statistics
Matches: 49, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
35 4 0.08
36 6 0.12
37 24 0.49
38 15 0.31
ACGTcount: A:0.35, C:0.01, G:0.01, T:0.63
Consensus pattern (37 bp):
TATTATTTTATATAATATTTATAAATATTTAAAATAT
Found at i:73446 original size:11 final size:10
Alignment explanation
Indices: 73383--73483 Score: 58
Period size: 9 Copynumber: 10.7 Consensus size: 10
73373 AAATATTAGG
73383 TATTTATAT-
1 TATTTATATA
* *
73392 TTTTTATTTA
1 TATTTATATA
*
73402 TATTTTTA-A
1 TATTTATATA
*
73411 TTATTTA-AAA
1 -TATTTATATA
73421 TA-TTAT-TA
1 TATTTATATA
73429 T-TTTATATAA
1 TATTTATAT-A
*
73439 TATTTATAAA
1 TATTTATATA
*
73449 TATTT-TGTA
1 TATTTATATA
73458 TATTT-T-TA
1 TATTTATATA
73466 TATTTATATCA
1 TATTTATAT-A
73477 TATTTAT
1 TATTTAT
73484 TTTTATATTA
Statistics
Matches: 71, Mismatches: 10, Indels: 20
0.70 0.10 0.20
Matches are distributed among these distances:
8 16 0.23
9 21 0.30
10 20 0.28
11 14 0.20
ACGTcount: A:0.35, C:0.01, G:0.01, T:0.63
Consensus pattern (10 bp):
TATTTATATA
Found at i:73468 original size:27 final size:27
Alignment explanation
Indices: 73399--73473 Score: 84
Period size: 27 Copynumber: 2.7 Consensus size: 27
73389 TATTTTTTAT
73399 TTATATTTTTAATTATTTA-AAATATTA
1 TTATATTTTTAA-TATTTATAAATATTA
*
73426 TTAT-TTTATATAATATTTATAAATATTT
1 TTATATTT-T-TAATATTTATAAATATTA
73454 TGTATATTTTT-ATATTTATA
1 T-TATATTTTTAATATTTATA
73474 TCATATTTAT
Statistics
Matches: 42, Mismatches: 1, Indels: 10
0.79 0.02 0.19
Matches are distributed among these distances:
26 3 0.07
27 20 0.48
28 12 0.29
29 4 0.10
30 3 0.07
ACGTcount: A:0.37, C:0.00, G:0.01, T:0.61
Consensus pattern (27 bp):
TTATATTTTTAATATTTATAAATATTA
Found at i:73482 original size:17 final size:17
Alignment explanation
Indices: 73462--73498 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
73452 TTTGTATATT
73462 TTTATATTTATATCATA
1 TTTATATTTATATCATA
* *
73479 TTTATTTTTATATTATA
1 TTTATATTTATATCATA
73496 TTT
1 TTT
73499 TAATTAATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.68
Consensus pattern (17 bp):
TTTATATTTATATCATA
Found at i:73508 original size:23 final size:23
Alignment explanation
Indices: 73392--73511 Score: 65
Period size: 23 Copynumber: 5.3 Consensus size: 23
73382 GTATTTATAT
73392 TTTTTAT-TTATATTTTTAATT-A
1 TTTTTATATTATA-TTTTAATTAA
**
73414 TTTAAAATATTATTATTTT-ATATAA
1 TTT-TTATATTA-TATTTTAAT-TAA
* * *
73439 TATTTATA-AATATTTT--GTATA
1 TTTTTATATTATATTTTAATTA-A
* * *
73460 TTTTTATATT-TATATCATATTTA
1 TTTTTATATTATATTTTA-ATTAA
73483 TTTTTATATTATATTTTAATTAA
1 TTTTTATATTATATTTTAATTAA
73506 TTTTTA
1 TTTTTA
73512 ATATCGTATT
Statistics
Matches: 71, Mismatches: 16, Indels: 21
0.66 0.15 0.19
Matches are distributed among these distances:
20 2 0.03
21 12 0.17
22 9 0.13
23 26 0.37
24 17 0.24
25 5 0.07
ACGTcount: A:0.34, C:0.01, G:0.01, T:0.64
Consensus pattern (23 bp):
TTTTTATATTATATTTTAATTAA
Found at i:73605 original size:13 final size:13
Alignment explanation
Indices: 73583--73614 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
73573 AAAATTTAGG
73583 TATTTATATTTTT
1 TATTTATATTTTT
*
73596 TATTTGTATTTTT
1 TATTTATATTTTT
73609 TATTTA
1 TATTTA
73615 AAATATTATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.22, C:0.00, G:0.03, T:0.75
Consensus pattern (13 bp):
TATTTATATTTTT
Found at i:73630 original size:20 final size:19
Alignment explanation
Indices: 73607--73646 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
73597 ATTTGTATTT
*
73607 TTTATTTAAAATATTATAAA
1 TTTATATAAAAT-TTATAAA
*
73627 TTTATATAATATTTATAAA
1 TTTATATAAAATTTATAAA
73646 T
1 T
73647 ATTTTTTATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (19 bp):
TTTATATAAAATTTATAAA
Found at i:73834 original size:22 final size:22
Alignment explanation
Indices: 73786--73834 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
73776 TAATATTCAT
*
73786 ATTATTTTTGTATTATGTTTTA
1 ATTATTTTTGTATTATGTTGTA
73808 ATTATTTTT-TATTTATGTTGTA
1 ATTATTTTTGTA-TTATGTTGTA
*
73830 TTTAT
1 ATTAT
73835 ATCGTGTCTC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 2 0.08
22 22 0.92
ACGTcount: A:0.22, C:0.00, G:0.08, T:0.69
Consensus pattern (22 bp):
ATTATTTTTGTATTATGTTGTA
Found at i:74002 original size:26 final size:26
Alignment explanation
Indices: 73966--74017 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
73956 CACTGAATCA
73966 ACTTAGTGAAAATTTTGTGTGTTAAT
1 ACTTAGTGAAAATTTTGTGTGTTAAT
73992 ACTTAGTGAAAATTTTGTGTGTTAAT
1 ACTTAGTGAAAATTTTGTGTGTTAAT
74018 GACATGTTTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.31, C:0.04, G:0.19, T:0.46
Consensus pattern (26 bp):
ACTTAGTGAAAATTTTGTGTGTTAAT
Found at i:74849 original size:18 final size:17
Alignment explanation
Indices: 74825--74873 Score: 57
Period size: 18 Copynumber: 2.9 Consensus size: 17
74815 AGTCATTCAA
74825 TATTTTATATTAAAATT
1 TATTTTATATTAAAATT
* *
74842 TAATTTTAAATTTAAATT
1 T-ATTTTATATTAAAATT
74860 TA-TTTAT-TTAAAAT
1 TATTTTATATTAAAAT
74874 ATAAAATATA
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
15 6 0.22
16 4 0.15
17 2 0.07
18 15 0.56
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (17 bp):
TATTTTATATTAAAATT
Found at i:74958 original size:32 final size:33
Alignment explanation
Indices: 74890--74959 Score: 90
Period size: 32 Copynumber: 2.2 Consensus size: 33
74880 TATAAAAAAT
*
74890 ATTTAAATAAATATAATTATTTAATATAATTTA
1 ATTTAAATAAATATAATTATTTAATATAATTAA
* *
74923 ATTTAAAT-TATATAATT-TTTAATTTAATTAAA
1 ATTTAAATAAATATAATTATTTAATATAATT-AA
74955 ATTTA
1 ATTTA
74960 GGGAAAGAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
31 11 0.33
32 14 0.42
33 8 0.24
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (33 bp):
ATTTAAATAAATATAATTATTTAATATAATTAA
Found at i:77031 original size:21 final size:21
Alignment explanation
Indices: 76993--77033 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
76983 GGATTAAGAA
*
76993 AAATAAAAAAATATTAAAACT
1 AAATAAAAAAAGATTAAAACT
*
77014 AAATAAAAATAAGATAAAAA
1 AAATAAAAA-AAGATTAAAA
77034 AAATACACAG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 9 0.53
22 8 0.47
ACGTcount: A:0.76, C:0.02, G:0.02, T:0.20
Consensus pattern (21 bp):
AAATAAAAAAAGATTAAAACT
Found at i:77723 original size:15 final size:16
Alignment explanation
Indices: 77695--77725 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
77685 ATAATGACTT
77695 ATTAATAGATAATTAA
1 ATTAATAGATAATTAA
77711 ATTAATA-ATAATTAA
1 ATTAATAGATAATTAA
77726 TCAAATAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.53
16 7 0.47
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (16 bp):
ATTAATAGATAATTAA
Found at i:77835 original size:32 final size:30
Alignment explanation
Indices: 77791--77857 Score: 82
Period size: 32 Copynumber: 2.2 Consensus size: 30
77781 TATTTAATTC
*
77791 ATATTAATTATATAATCATGAAA-TTTACAT
1 ATATTAATTATATAATAAT-AAATTTTACAT
*
77821 ATATTATATTTATATATTAATAAATTTTACAT
1 ATATTA-A-TTATATAATAATAAATTTTACAT
77853 ATATT
1 ATATT
77858 TATAATTTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
30 6 0.19
31 4 0.12
32 22 0.69
ACGTcount: A:0.45, C:0.04, G:0.01, T:0.49
Consensus pattern (30 bp):
ATATTAATTATATAATAATAAATTTTACAT
Found at i:79492 original size:2 final size:2
Alignment explanation
Indices: 79485--79540 Score: 103
Period size: 2 Copynumber: 28.0 Consensus size: 2
79475 GATTCACCAT
*
79485 CA CA CA CA CA CA CA CA CA CA TA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
79527 CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA
79541 TATATATATA
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.50, C:0.48, G:0.00, T:0.02
Consensus pattern (2 bp):
CA
Found at i:79545 original size:2 final size:2
Alignment explanation
Indices: 79540--79564 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
79530 ACACACACAC
79540 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
79565 AGCAGTTTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:80637 original size:13 final size:13
Alignment explanation
Indices: 80619--80644 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
80609 AAATTAAAAG
80619 TTATTATATATTT
1 TTATTATATATTT
80632 TTATTATATATTT
1 TTATTATATATTT
80645 AAAAAATTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (13 bp):
TTATTATATATTT
Found at i:81948 original size:2 final size:2
Alignment explanation
Indices: 81898--81931 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
81888 AAAATGAACA
81898 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
81932 TGAGTGAGGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:82030 original size:15 final size:17
Alignment explanation
Indices: 81997--82029 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
81987 GGAGAATTTT
81997 TTTTTTAAAATATTATA
1 TTTTTTAAAATATTATA
*
82014 TTTTTTAATATATTAT
1 TTTTTTAAAATATTAT
82030 TGAATATAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (17 bp):
TTTTTTAAAATATTATA
Found at i:82226 original size:39 final size:39
Alignment explanation
Indices: 82183--82280 Score: 124
Period size: 39 Copynumber: 2.5 Consensus size: 39
82173 ACTATTAAAT
* *
82183 ATATAATATATAATTATTACATTGTTATTTTTAAATATA
1 ATATAATAAATAATTATTACATTGTTATTTTGAAATATA
* * *
82222 ATATATTAAATAATTATTGCATTGTTATTTTGAAATATT
1 ATATAATAAATAATTATTACATTGTTATTTTGAAATATA
* *
82261 TTATAAATAAAAAATTATTA
1 ATAT-AATAAATAATTATTA
82281 TTTAGTTTAA
Statistics
Matches: 49, Mismatches: 9, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
39 37 0.76
40 12 0.24
ACGTcount: A:0.45, C:0.02, G:0.04, T:0.49
Consensus pattern (39 bp):
ATATAATAAATAATTATTACATTGTTATTTTGAAATATA
Found at i:86060 original size:12 final size:12
Alignment explanation
Indices: 86043--86080 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
86033 TTGTGTTATA
86043 TTTATATTATTT
1 TTTATATTATTT
* *
86055 TTTATATCATAT
1 TTTATATTATTT
86067 TTTA-ATTATTT
1 TTTATATTATTT
86078 TTT
1 TTT
86081 TCATGTTATA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
11 8 0.36
12 14 0.64
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (12 bp):
TTTATATTATTT
Found at i:86091 original size:25 final size:24
Alignment explanation
Indices: 86036--86093 Score: 66
Period size: 24 Copynumber: 2.4 Consensus size: 24
86026 TGTGCATTTG
86036 TGTTATA-TTTATATTATTTTTTA
1 TGTTATATTTTATATTATTTTTTA
* *
86059 TATCATATTTTA-ATTATTTTTTTCA
1 TGTTATATTTTATATTA-TTTTTT-A
86084 TGTTATATTT
1 TGTTATATTT
86094 GTGTTGTGTC
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
23 9 0.32
24 10 0.36
25 9 0.32
ACGTcount: A:0.26, C:0.03, G:0.03, T:0.67
Consensus pattern (24 bp):
TGTTATATTTTATATTATTTTTTA
Found at i:86400 original size:22 final size:24
Alignment explanation
Indices: 86375--86420 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 24
86365 TTATATAAAT
86375 ATATTTAT-ATAA-ATTTAATATA
1 ATATTTATAATAACATTTAATATA
*
86397 ATATTTTTAATAATCATTTAATAT
1 ATATTTATAATAA-CATTTAATAT
86421 CCCTTAAACG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 7 0.35
23 4 0.20
25 9 0.45
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (24 bp):
ATATTTATAATAACATTTAATATA
Found at i:87190 original size:40 final size:40
Alignment explanation
Indices: 87146--87268 Score: 159
Period size: 40 Copynumber: 3.2 Consensus size: 40
87136 GTTTTTCAAA
87146 ATTTATTTGTAATTTTTGTGATTTTCGCTATCGAATCTCG
1 ATTTATTTGTAATTTTTGTGATTTTCGCTATCGAATCTCG
* * **
87186 ATTTATTTTGCAA--TATAAGA---T-GCTATCGAATCTCG
1 ATTTA-TTTGTAATTTTTGTGATTTTCGCTATCGAATCTCG
87221 ATTTATTTGTAATTTTTGTGATTTTCGCTATCGAATCTCG
1 ATTTATTTGTAATTTTTGTGATTTTCGCTATCGAATCTCG
87261 ATTTATTT
1 ATTTATTT
87269 TCTTGATATA
Statistics
Matches: 68, Mismatches: 8, Indels: 14
0.76 0.09 0.16
Matches are distributed among these distances:
34 6 0.09
35 19 0.28
36 5 0.07
39 5 0.07
40 27 0.40
41 6 0.09
ACGTcount: A:0.24, C:0.12, G:0.14, T:0.50
Consensus pattern (40 bp):
ATTTATTTGTAATTTTTGTGATTTTCGCTATCGAATCTCG
Found at i:88782 original size:23 final size:23
Alignment explanation
Indices: 88751--88794 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
88741 TATAAATTAT
*
88751 TAAATTAT-ATTTATATTAAATAA
1 TAAAATATAATTT-TATTAAATAA
88774 TAAAATATAATTTTATTAAAT
1 TAAAATATAATTTTATTAAAT
88795 TATATTAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 15 0.79
24 4 0.21
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (23 bp):
TAAAATATAATTTTATTAAATAA
Found at i:88819 original size:39 final size:39
Alignment explanation
Indices: 88747--88824 Score: 97
Period size: 39 Copynumber: 2.0 Consensus size: 39
88737 TAATTATAAA
* * *
88747 TTATTAAATTATATTTATATTAAATAATAAAATATAATT
1 TTATTAAATTATATTAATATAAAATAATAAAATAAAATT
88786 TTATTAAATTATATTAA-ATAATAA-AATATAAATAAAATT
1 TTATTAAATTATATTAATATAA-AATAATA-AAATAAAATT
88825 ATATCTATAT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
38 7 0.21
39 27 0.79
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (39 bp):
TTATTAAATTATATTAATATAAAATAATAAAATAAAATT
Found at i:88822 original size:140 final size:135
Alignment explanation
Indices: 88660--88918 Score: 296
Period size: 140 Copynumber: 1.9 Consensus size: 135
88650 ATATATGAGA
* * *
88660 TAAATAATTAAAAATTATTAAAAATATATTTATATT-A-AAT-AATAAAACATAAATAAAATTAT
1 TAAATAATTAAAAATAAATAAAAATATATCTATATTGATAATAAATAAAA-ATAAAT-AAATTAT
* *
88722 ATTTTTGTTTA-ATAATAATTATAAATTATTAAATT-ATATTTATATTAAATAATAAAATATAAT
64 ATTTAT-ATTACA-AAT-A--AT---TTATTAAATTCATATTTATATTAAATAATAAAATATAAT
88785 TTTATTAAATTATAT
121 TTTATTAAATTATAT
* *
88800 TAAATAA-TAAAATATAAATAAAATTATATCTATATTGGATAATAAATAAAAATTAATAAATTAT
1 TAAATAATTAAAA-ATAAATAAAAATATATCTATATT-GATAATAAATAAAAATAAATAAATTAT
*
88864 ATTTATATTACAAATAATTTATTAAATTCATTTTTATATTAAATAATAAAATATA
64 ATTTATATTACAAATAATTTATTAAATTCATATTTATATTAAATAATAAAATATA
88919 TATTAAAAAT
Statistics
Matches: 104, Mismatches: 8, Indels: 18
0.80 0.06 0.14
Matches are distributed among these distances:
135 10 0.10
136 25 0.24
138 2 0.02
139 5 0.05
140 27 0.26
141 6 0.06
142 14 0.13
143 8 0.08
144 7 0.07
ACGTcount: A:0.54, C:0.02, G:0.01, T:0.43
Consensus pattern (135 bp):
TAAATAATTAAAAATAAATAAAAATATATCTATATTGATAATAAATAAAAATAAATAAATTATAT
TTATATTACAAATAATTTATTAAATTCATATTTATATTAAATAATAAAATATAATTTTATTAAAT
TATAT
Found at i:88911 original size:68 final size:68
Alignment explanation
Indices: 88660--88930 Score: 214
Period size: 68 Copynumber: 4.0 Consensus size: 68
88650 ATATATGAGA
* * *
88660 TAAATAATTAAA-AA-TTATTAAAAATATATTTATATTAAATAATAAAACATAAATA-AAATTAT
1 TAAATAATAAAATAATTTATT-AAATTATATTTATATTAAATAAT-AAA-ATAAATATTAA-TA-
* * *
88722 ATTTTTGT
61 AATTATAT
* * * * *
88730 TTAATAATAATTATAAATTATTAAATTATATTTATATTAAATAATAAAATATAATTTTATTAAAT
1 TAAATAATAA-AATAATTTATTAAATTATATTTATATTAAATAATAAAATA-AATATTAATAAAT
88795 TATAT
64 TATAT
** * * ** *
88800 TAAATAATAAAAT-ATAAATAAAATTATATCTATATTGGATAAT-AAATAAAAATTAATAAATTA
1 TAAATAATAAAATAATTTATTAAATTATATTTATATTAAATAATAAAATAAATATTAATAAATTA
88863 TAT
66 TAT
* * * *
88866 T-TATATTACAAATAATTTATTAAATTCATTTTTATATTAAATAATAAAATATATATTAA-AAAT
1 TAAATAATA-AAATAATTTATTAAATT-ATATTTATATTAAATAATAAAATAAATATTAATAAAT
88929 TA
64 TA
88931 AAAATTATAT
Statistics
Matches: 159, Mismatches: 33, Indels: 20
0.75 0.16 0.09
Matches are distributed among these distances:
65 5 0.03
66 20 0.13
67 14 0.09
68 43 0.27
69 13 0.08
70 25 0.16
71 9 0.06
72 25 0.16
73 5 0.03
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.43
Consensus pattern (68 bp):
TAAATAATAAAATAATTTATTAAATTATATTTATATTAAATAATAAAATAAATATTAATAAATTA
TAT
Found at i:88930 original size:105 final size:104
Alignment explanation
Indices: 88686--88918 Score: 299
Period size: 105 Copynumber: 2.2 Consensus size: 104
88676 ATTAAAAATA
* * * * * * * *
88686 TATTTATATTAAATAATAAAACATAAATAAAATTATATTTTTGTTTAATAATAATTATAAATTAT
1 TATTTATATTAAATAATAAAATATAAATAAAATTATATCTATATTGAATAATAAATAAAAATTAA
* *
88751 TAAATTATATTTATATTAAATAATAAAATATAATTTTAT
66 TAAATTATATTTATATTAAATAATAAAATATAAATTCAT
* *
88790 TAAATTATATTAAATAATAAAATATAAATAAAATTATATCTATATTGGATAATAAATAAAAATTA
1 T-ATTTATATTAAATAATAAAATATAAATAAAATTATATCTATATTGAATAATAAATAAAAATTA
* **
88855 ATAAATTATATTTATATTACA-AATAATTTATTAAATTCAT
65 ATAAATTATATTTATATTAAATAATAAAATA-TAAATTCAT
88895 T-TTTATATTAAATAATAAAATATA
1 TATTTATATTAAATAATAAAATATA
88919 TATTAAAAAT
Statistics
Matches: 111, Mismatches: 16, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
103 22 0.20
104 8 0.07
105 81 0.73
ACGTcount: A:0.53, C:0.02, G:0.01, T:0.44
Consensus pattern (104 bp):
TATTTATATTAAATAATAAAATATAAATAAAATTATATCTATATTGAATAATAAATAAAAATTAA
TAAATTATATTTATATTAAATAATAAAATATAAATTCAT
Found at i:88939 original size:19 final size:18
Alignment explanation
Indices: 88897--88941 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 18
88887 AAATTCATTT
88897 TTATATTAAATAATAAAA
1 TTATATTAAATAATAAAA
88915 TATATATTAAA-AATTAAAAA
1 T-TATATTAAATAA-T-AAAA
88935 TTATATT
1 TTATATT
88942 CATATATAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
18 3 0.12
19 16 0.67
20 5 0.21
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
TTATATTAAATAATAAAA
Found at i:90819 original size:27 final size:28
Alignment explanation
Indices: 90789--90874 Score: 93
Period size: 30 Copynumber: 3.0 Consensus size: 28
90779 TAATTTATGT
90789 TAAGGGCTTA-TTGATACAAATTAAAGG
1 TAAGGGCTTATTTGATACAAATTAAAGG
* * * *
90816 TAAGGGCTTATTTGGGTAAAAATAAAAGT
1 TAAGGGCTTATTT-GATACAAATTAAAGG
*
90845 TGAAGGGCCTATTTGCATACAAATTAAAGG
1 T-AAGGGCTTATTTG-ATACAAATTAAAGG
90875 CCAATAGCTT
Statistics
Matches: 46, Mismatches: 9, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
27 10 0.22
28 2 0.04
29 13 0.28
30 21 0.46
ACGTcount: A:0.40, C:0.08, G:0.23, T:0.29
Consensus pattern (28 bp):
TAAGGGCTTATTTGATACAAATTAAAGG
Found at i:92177 original size:58 final size:58
Alignment explanation
Indices: 92085--92201 Score: 216
Period size: 58 Copynumber: 2.0 Consensus size: 58
92075 TTAGGAGCCT
* *
92085 TGTGTTGAACTAGAGAGAGCCTCTCATACGTTACACCATACTTTACTGATACTAACAA
1 TGTGTTGAACTAGAGAGAGCCTCTCATACATTACACCATACTTGACTGATACTAACAA
92143 TGTGTTGAACTAGAGAGAGCCTCTCATACATTACACCATACTTGACTGATACTAACAA
1 TGTGTTGAACTAGAGAGAGCCTCTCATACATTACACCATACTTGACTGATACTAACAA
92201 T
1 T
92202 CTTTCAAATT
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
58 57 1.00
ACGTcount: A:0.33, C:0.22, G:0.15, T:0.29
Consensus pattern (58 bp):
TGTGTTGAACTAGAGAGAGCCTCTCATACATTACACCATACTTGACTGATACTAACAA
Found at i:92676 original size:18 final size:18
Alignment explanation
Indices: 92649--92688 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
92639 TAATTTCCCT
*
92649 TTTATCTTGCTACTATCA
1 TTTATCTTGCTAATATCA
*
92667 TTTATGTTGCTAATATCA
1 TTTATCTTGCTAATATCA
92685 TTTA
1 TTTA
92689 CACGGATGGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.25, C:0.15, G:0.07, T:0.53
Consensus pattern (18 bp):
TTTATCTTGCTAATATCA
Found at i:96558 original size:40 final size:41
Alignment explanation
Indices: 96512--96631 Score: 104
Period size: 40 Copynumber: 2.9 Consensus size: 41
96502 TTATTATATT
* *
96512 TTAATAAA-AATAATATTTAATTAACTTTAAAAAATTTATA
1 TTAATAAATAATAATATTTAATTAAATTTAAAAAATTTAAA
** *
96552 TTAATAAATTAA-AATA-TTAATTATTTTTTAAAATAAAAATTAAA
1 TTAATAAA-TAATAATATTTAATTA-AATTT--AA-AAAATTTAAA
* *
96596 TTAA-AAAGAATAATATTTAATTAAATTAAAAAAATT
1 TTAATAAATAATAATATTTAATTAAATTTAAAAAATT
96632 ACATTAACAA
Statistics
Matches: 63, Mismatches: 9, Indels: 16
0.72 0.10 0.18
Matches are distributed among these distances:
40 20 0.32
41 9 0.14
42 4 0.06
43 11 0.17
44 19 0.30
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.41
Consensus pattern (41 bp):
TTAATAAATAATAATATTTAATTAAATTTAAAAAATTTAAA
Found at i:96613 original size:36 final size:37
Alignment explanation
Indices: 96556--96627 Score: 85
Period size: 37 Copynumber: 2.0 Consensus size: 37
96546 TTTATATTAA
* * *
96556 TAAATTAAAATATTAATTATTT-TTTAAAATAAAAAT
1 TAAATTAAAAGAATAATTATTTAATTAAAATAAAAAT
*
96592 TAAATTAAAAAGAATAA-TATTTAATTAAATTAAAAA
1 TAAATT-AAAAGAATAATTATTTAATTAAAATAAAAA
96628 AATTACATTA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
36 11 0.37
37 19 0.63
ACGTcount: A:0.60, C:0.00, G:0.01, T:0.39
Consensus pattern (37 bp):
TAAATTAAAAGAATAATTATTTAATTAAAATAAAAAT
Found at i:96650 original size:21 final size:21
Alignment explanation
Indices: 96618--96657 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
96608 ATATTTAATT
96618 AAATTAAAAAAATTACATTAAC
1 AAATTAAAAAAATTA-ATTAAC
96640 AAATT-AAAAAATTAATTA
1 AAATTAAAAAAATTAATTA
96658 TATGTTTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 4 0.22
21 9 0.50
22 5 0.28
ACGTcount: A:0.65, C:0.05, G:0.00, T:0.30
Consensus pattern (21 bp):
AAATTAAAAAAATTAATTAAC
Found at i:96764 original size:23 final size:23
Alignment explanation
Indices: 96734--96809 Score: 73
Period size: 24 Copynumber: 3.2 Consensus size: 23
96724 ATTAAATTTT
96734 AAAAAAATTACATTAACAAATTA
1 AAAAAAATTACATTAACAAATTA
* **
96757 AAAAAAATAACATTTAAGTAATTA
1 AAAAAAATTACA-TTAACAAATTA
* *
96781 AAAAAATTTATCATTATTCAAA-TA
1 AAAAAAATTA-CATTA-ACAAATTA
96805 AAAAA
1 AAAAA
96810 TTCTCTATTT
Statistics
Matches: 42, Mismatches: 8, Indels: 5
0.76 0.15 0.09
Matches are distributed among these distances:
23 11 0.26
24 27 0.64
25 4 0.10
ACGTcount: A:0.63, C:0.07, G:0.01, T:0.29
Consensus pattern (23 bp):
AAAAAAATTACATTAACAAATTA
Found at i:97040 original size:21 final size:24
Alignment explanation
Indices: 97015--97057 Score: 65
Period size: 21 Copynumber: 1.9 Consensus size: 24
97005 ATATTTTCTC
97015 AAAAATA-TATT-TAA-AAAAATA
1 AAAAATATTATTATAATAAAAATA
97036 AAAAATATTATTATAATAAAAA
1 AAAAATATTATTATAATAAAAA
97058 CTTTTTTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 7 0.37
22 4 0.21
23 3 0.16
24 5 0.26
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (24 bp):
AAAAATATTATTATAATAAAAATA
Found at i:97271 original size:25 final size:26
Alignment explanation
Indices: 97243--97291 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 26
97233 TTAATTTGTT
*
97243 AATATAAATTTT-TTAAAATTAATTA
1 AATATAAATTTTATTAAAAATAATTA
* *
97268 AATATTATTTTTATTAAAAATAAT
1 AATATAAATTTTATTAAAAATAAT
97292 AATTAATACA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 10 0.50
26 10 0.50
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (26 bp):
AATATAAATTTTATTAAAAATAATTA
Found at i:97315 original size:30 final size:27
Alignment explanation
Indices: 97250--97316 Score: 73
Period size: 30 Copynumber: 2.4 Consensus size: 27
97240 GTTAATATAA
* *
97250 ATTTTTTAAAATTAATTAAATATTATT
1 ATTTTTAAAAATTAATTAAACATTATT
97277 -TTTATTAAAAATAATAATTAATACATTATT
1 ATTT-TTAAAAAT--TAATTAA-ACATTATT
97307 ATTTTTAAAA
1 ATTTTTAAAA
97317 TTTTTAAAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
26 3 0.09
27 7 0.21
29 7 0.21
30 13 0.39
31 3 0.09
ACGTcount: A:0.48, C:0.01, G:0.00, T:0.51
Consensus pattern (27 bp):
ATTTTTAAAAATTAATTAAACATTATT
Found at i:97822 original size:11 final size:11
Alignment explanation
Indices: 97806--97842 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
97796 TTATTACTTT
97806 TTATTTATAAA
1 TTATTTATAAA
* *
97817 TTATTTTTAAT
1 TTATTTATAAA
97828 TTATTTATAAA
1 TTATTTATAAA
97839 TTAT
1 TTAT
97843 ACAAATTTAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (11 bp):
TTATTTATAAA
Found at i:98314 original size:20 final size:20
Alignment explanation
Indices: 98269--98320 Score: 79
Period size: 19 Copynumber: 2.6 Consensus size: 20
98259 GTAGCCAAAC
**
98269 TTGTATCGATACACAAAGTA
1 TTGTATCGATACACAAAAAA
98289 -TGTATCGATACACAAAAAA
1 TTGTATCGATACACAAAAAA
98308 TTGTATCGATACA
1 TTGTATCGATACA
98321 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 17 0.59
20 12 0.41
ACGTcount: A:0.42, C:0.15, G:0.13, T:0.29
Consensus pattern (20 bp):
TTGTATCGATACACAAAAAA
Found at i:102378 original size:15 final size:15
Alignment explanation
Indices: 102358--102396 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
102348 TAAAAATGTC
*
102358 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
102373 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
*
102388 CCAAATGAA
1 CAAAATGAA
102397 ATTGATGAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.51, C:0.15, G:0.21, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:104487 original size:13 final size:13
Alignment explanation
Indices: 104469--104506 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
104459 CATTTTTCTT
104469 TGTATCGATACAA
1 TGTATCGATACAA
*
104482 TGTATCGATACAC
1 TGTATCGATACAA
104495 TGTATCGATACA
1 TGTATCGATACA
104507 GGGGGATTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:107076 original size:13 final size:13
Alignment explanation
Indices: 107058--107083 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
107048 TACACAAAGT
107058 ATGTATCGATACA
1 ATGTATCGATACA
107071 ATGTATCGATACA
1 ATGTATCGATACA
107084 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:107081 original size:32 final size:33
Alignment explanation
Indices: 107040--107103 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
107030 TAGCCAAACT
**
107040 TGTATCGATACACAAAGTA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
107072 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
107104 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 17 0.59
33 12 0.41
ACGTcount: A:0.42, C:0.16, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:107988 original size:17 final size:16
Alignment explanation
Indices: 107958--107990 Score: 57
Period size: 16 Copynumber: 2.0 Consensus size: 16
107948 TTAATCATTA
107958 CAAATTTTATAACTTT
1 CAAATTTTATAACTTT
107974 CAAATTTTAATAACTTT
1 CAAATTTT-ATAACTTT
107991 TTCTTAAACA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.39, C:0.12, G:0.00, T:0.48
Consensus pattern (16 bp):
CAAATTTTATAACTTT
Found at i:111515 original size:70 final size:70
Alignment explanation
Indices: 111387--111624 Score: 367
Period size: 70 Copynumber: 3.4 Consensus size: 70
111377 TCTTATGCAC
*
111387 AATTCATGCATTAGTCTAATCCGTGCAGTC--T-TTTTTTCCTATAAAAAAGAATCTGATTCTCA
1 AATTCATGCATTAGTCTAATCCTTGCAGTCTTTCTTTTTTCCTATAAAAAAGAATCTGATTCTCA
111449 TATA-
66 TATAT
*
111453 ACATTCATGCATTAGTCTAATCCTTGTAGTCTTTCTTTTTTCCTATAAAAAAGAATCTGATTCTC
1 A-ATTCATGCATTAGTCTAATCCTTGCAGTCTTTCTTTTTTCCTATAAAAAAGAATCTGATTCTC
111518 ATATAT
65 ATATAT
* * * *
111524 AATTCATGCATTAGCCTAATCTTTGCAGTTTTTCTTTTTTCCTATAAAAAAGAATCCGATTCTCA
1 AATTCATGCATTAGTCTAATCCTTGCAGTCTTTCTTTTTTCCTATAAAAAAGAATCTGATTCTCA
*
111589 GATAT
66 TATAT
*
111594 AATTCATACATTAGTCTAATCCTTGCAGTCT
1 AATTCATGCATTAGTCTAATCCTTGCAGTCT
111625 AACATTTACA
Statistics
Matches: 155, Mismatches: 12, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
66 1 0.01
67 27 0.17
69 1 0.01
70 125 0.81
71 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.10, T:0.41
Consensus pattern (70 bp):
AATTCATGCATTAGTCTAATCCTTGCAGTCTTTCTTTTTTCCTATAAAAAAGAATCTGATTCTCA
TATAT
Found at i:111814 original size:94 final size:93
Alignment explanation
Indices: 111549--112082 Score: 700
Period size: 90 Copynumber: 5.9 Consensus size: 93
111539 CTAATCTTTG
* * * *
111549 CAGTTTTTC-TTTTTTCCTATAAAAAAGAATCCGATTCTCAGATATAATTCATACATTAGTCTAA
1 CAGTCTTTCTTTTTTTTCTATAAAAAAAAATCCGATTCTCAGATATAATTCATGCATTAGTCTAA
* *
111613 TCCTTGCAGTCTAACATTTACAATCAAT
66 TCCTTACAGTCTGACATTTACAATCAAT
* * *
111641 CAGTCTTTCTTTTTTTT-TAT--AAAAAAATTCGATTCTCAAATATAATTCATGCATTAGTTTAA
1 CAGTCTTTCTTTTTTTTCTATAAAAAAAAATCCGATTCTCAGATATAATTCATGCATTAGTCTAA
* * *
111703 TTCTTATAGTCTGACATTTATAATCAAT
66 TCCTTACAGTCTGACATTTACAATCAAT
*
111731 CAGTCTTTCTTTTTTTTCTATAAAAAAAGAATCCGATTCTCAGATATAATTCATGCATTAATCTA
1 CAGTCTTTCTTTTTTTTCTATAAAAAAA-AATCCGATTCTCAGATATAATTCATGCATTAGTCTA
**
111796 ATCCTTACAGTCAAACATTTACAATCAAT
65 ATCCTTACAGTCTGACATTTACAATCAAT
* *
111825 CAGTCTTTC-TTTTTTT-TA-ATAAAAAAATCTGATTCTCAGATATAATTCATGCATTAGTCTAA
1 CAGTCTTTCTTTTTTTTCTATAAAAAAAAATCCGATTCTCAGATATAATTCATGCATTAGTCTAA
* *
111887 TTCTTATAGTCTGACATTT---A-CAAT
66 TCCTTACAGTCTGACATTTACAATCAAT
** * *
111911 CAGTC-AACTTTTTTTTCTATAAAAAAAAATCTGATTCTCAAATATAATTCATGCATTAGTCTAA
1 CAGTCTTTCTTTTTTTTCTATAAAAAAAAATCCGATTCTCAGATATAATTCATGCATTAGTCTAA
*
111975 TCCTTACAGTCTGACATTTACAATCAGT
66 TCCTTACAGTCTGACATTTACAATCAAT
* * * *
112003 CAAT-TTT-TCTTTTTTCTATAAAAAAAAATCTGATTCTCAGATATAATTCATACATTAGTCTAA
1 CAGTCTTTCTTTTTTTTCTATAAAAAAAAATCCGATTCTCAGATATAATTCATGCATTAGTCTAA
*
112066 TCCTTGCAGTCTGACAT
66 TCCTTACAGTCTGACAT
112083 ATCGATTCTC
Statistics
Matches: 387, Mismatches: 42, Indels: 27
0.85 0.09 0.06
Matches are distributed among these distances:
85 1 0.00
86 16 0.04
87 3 0.01
88 59 0.15
90 127 0.33
91 79 0.20
92 19 0.05
93 18 0.05
94 65 0.17
ACGTcount: A:0.34, C:0.17, G:0.07, T:0.41
Consensus pattern (93 bp):
CAGTCTTTCTTTTTTTTCTATAAAAAAAAATCCGATTCTCAGATATAATTCATGCATTAGTCTAA
TCCTTACAGTCTGACATTTACAATCAAT
Found at i:111870 original size:184 final size:181
Alignment explanation
Indices: 111549--112082 Score: 776
Period size: 184 Copynumber: 3.0 Consensus size: 181
111539 CTAATCTTTG
* * *
111549 CAGTTTTTC-TTTTTTCCTAT-AAAAAAGAATCCGATTCTCAGATATAATTCATACATTAGTCTA
1 CAGTCTTTCTTTTTTTTCTATAAAAAAAGAATCCGATTCTCAGATATAATTCATGCATTAGTCTA
* *
111612 ATCCTTGCAGTCTAACATTTACAATCAATCAGTCTTTCTTTTTTTTTATAAAAAAAT-TCGATTC
66 ATCCTTACAGTCTAACATTTACAATCAATCAGTCTTTCTTTTTTTTAATAAAAAAATCT-GATTC
* *
111676 TCAAATATAATTCATGCATTAGTTTAATTCTTATAGTCTGACATTTATAATCAAT
130 TCAGATATAATTCATGCATTAGTCTAATTCTTATAGTCTGACATTT-T-A-CAAT
*
111731 CAGTCTTTCTTTTTTTTCTATAAAAAAAGAATCCGATTCTCAGATATAATTCATGCATTAATCTA
1 CAGTCTTTCTTTTTTTTCTATAAAAAAAGAATCCGATTCTCAGATATAATTCATGCATTAGTCTA
*
111796 ATCCTTACAGTCAAACATTTACAATCAATCAGTCTTTCTTTTTTTTAATAAAAAAATCTGATTCT
66 ATCCTTACAGTCTAACATTTACAATCAATCAGTCTTTCTTTTTTTTAATAAAAAAATCTGATTCT
111861 CAGATATAATTCATGCATTAGTCTAATTCTTATAGTCTGACA-TTTACAAT
131 CAGATATAATTCATGCATTAGTCTAATTCTTATAGTCTGACATTTTACAAT
** * *
111911 CAGTC-AACTTTTTTTTCTATAAAAAAA-AATCTGATTCTCAAATATAATTCATGCATTAGTCTA
1 CAGTCTTTCTTTTTTTTCTATAAAAAAAGAATCCGATTCTCAGATATAATTCATGCATTAGTCTA
* * * *
111974 ATCCTTACAGTCTGACATTTACAATCAGTCAATTTTTCTTTTTTCTATAA-AAAAAAATCTGATT
66 ATCCTTACAGTCTAACATTTACAATCAATCAGTCTTTCTTTTTT-T-TAATAAAAAAATCTGATT
* * **
112038 CTCAGATATAATTCATACATTAGTCTAATCCTTGCAGTCTGACAT
129 CTCAGATATAATTCATGCATTAGTCTAATTCTTATAGTCTGACAT
112083 ATCGATTCTC
Statistics
Matches: 323, Mismatches: 23, Indels: 14
0.90 0.06 0.04
Matches are distributed among these distances:
178 72 0.22
179 75 0.23
180 12 0.04
181 1 0.00
182 9 0.03
183 12 0.04
184 141 0.44
185 1 0.00
ACGTcount: A:0.34, C:0.17, G:0.07, T:0.41
Consensus pattern (181 bp):
CAGTCTTTCTTTTTTTTCTATAAAAAAAGAATCCGATTCTCAGATATAATTCATGCATTAGTCTA
ATCCTTACAGTCTAACATTTACAATCAATCAGTCTTTCTTTTTTTTAATAAAAAAATCTGATTCT
CAGATATAATTCATGCATTAGTCTAATTCTTATAGTCTGACATTTTACAAT
Found at i:112133 original size:52 final size:52
Alignment explanation
Indices: 112034--112134 Score: 157
Period size: 52 Copynumber: 1.9 Consensus size: 52
112024 AAAAAAATCT
* *
112034 GATTCTCAGATATAATTCATACATTAGTCTAATCCTTGCAGTCTGACATATC
1 GATTCTCAGATATAATTCATACATTAATCTAATCCTTACAGTCTGACATATC
* * *
112086 GATTCTCAGATATAATTCATTCATTAATCTAATCCTTATAGTTTGACAT
1 GATTCTCAGATATAATTCATACATTAATCTAATCCTTACAGTCTGACAT
112135 TTACAATCAA
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
52 44 1.00
ACGTcount: A:0.32, C:0.19, G:0.10, T:0.40
Consensus pattern (52 bp):
GATTCTCAGATATAATTCATACATTAATCTAATCCTTACAGTCTGACATATC
Found at i:112247 original size:89 final size:91
Alignment explanation
Indices: 112085--112282 Score: 249
Period size: 89 Copynumber: 2.2 Consensus size: 91
112075 TCTGACATAT
* * * *
112085 CGATTCTCAGATATAATTCATTCATTAATCTAATCCTTATAGTTTGACATTTACAATCAATCAGC
1 CGATTCTCAGATATAATTCATGCATTAATCTAATCCTCACAGTTTGACATTTACAATCAATCAAC
*
112150 -TTTTTTTTTTCTATAAAAAAGAAT-
66 TTTTTTTTTTTCCATAAAAAAGAATC
* * * * *
112174 TGATTCTCAGATATAATTCATGCCTTAGTCTAATCCTCGCAGTTT-ACATTTATAATCAATCAAC
1 CGATTCTCAGATATAATTCATGCATTAATCTAATCCTCACAGTTTGACATTTACAATCAATCAAC
112238 TTTTCTTTTTTTTCCATAAAAAAGAATC
66 -TTT-TTTTTTTTCCATAAAAAAGAATC
* *
112266 CGATTTTAAGATATAAT
1 CGATTCTCAGATATAAT
112283 CACATTTATT
Statistics
Matches: 92, Mismatches: 13, Indels: 5
0.84 0.12 0.05
Matches are distributed among these distances:
88 17 0.18
89 38 0.41
90 2 0.02
91 21 0.23
92 14 0.15
ACGTcount: A:0.34, C:0.17, G:0.08, T:0.42
Consensus pattern (91 bp):
CGATTCTCAGATATAATTCATGCATTAATCTAATCCTCACAGTTTGACATTTACAATCAATCAAC
TTTTTTTTTTTCCATAAAAAAGAATC
Found at i:113010 original size:76 final size:74
Alignment explanation
Indices: 112929--113069 Score: 171
Period size: 74 Copynumber: 1.9 Consensus size: 74
112919 TTTAAAAATA
* * *
112929 AAAAAATTA-AATAA-AAATAAAAAGGGTTT-ATTATTATTATTTTTAATAAAATTAAAAATAAT
1 AAAAAATTACAATAACAAATAAAAA---TTTAATTATTA-TATTTTT-ATAAAAATAAAAAAAAA
112991 ATTTAATTAAGTTT
61 ATTTAATTAAGTTT
* *
113005 AAAAAATTACATTAACAAATTAAAATTTAATTATTATATTTTTATAAAAATAAAAAAAAAATTTA
1 AAAAAATTACAATAACAAATAAAAATTTAATTATTATATTTTTATAAAAATAAAAAAAAAATTTA
113070 TTATAATTTT
Statistics
Matches: 57, Mismatches: 5, Indels: 8
0.81 0.07 0.11
Matches are distributed among these distances:
74 19 0.33
75 10 0.18
76 16 0.28
77 4 0.07
78 8 0.14
ACGTcount: A:0.57, C:0.01, G:0.03, T:0.39
Consensus pattern (74 bp):
AAAAAATTACAATAACAAATAAAAATTTAATTATTATATTTTTATAAAAATAAAAAAAAAATTTA
ATTAAGTTT
Found at i:113074 original size:32 final size:34
Alignment explanation
Indices: 112959--113103 Score: 107
Period size: 33 Copynumber: 4.1 Consensus size: 34
112949 AAAGGGTTTA
* * *
112959 TTATTATTATTTTTAATAAAATTAAAAATAATAT
1 TTATTATAATTTTTAATAAAATAAAAAATAAAAT
* * * * *
112993 TTAAT-TAAGTTTAAAAAATTACATTAACAAATTAAAAT
1 TTATTATAATTTTTAATAA--A-A-TAA-AAAATAAAAT
113031 TTAATTATTATATTTTT-ATAAAAATAAAAAA-AAAAT
1 TT-ATTA-TA-ATTTTTAAT-AAAATAAAAAATAAAAT
*
113067 TTATTATAATTTTTAATAAAATAAAAAATAATAT
1 TTATTATAATTTTTAATAAAATAAAAAATAAAAT
113101 TTA
1 TTA
113104 ATTAAGTTTA
Statistics
Matches: 85, Mismatches: 14, Indels: 24
0.69 0.11 0.20
Matches are distributed among these distances:
33 26 0.31
34 15 0.18
35 5 0.06
36 8 0.09
37 5 0.06
38 13 0.15
39 3 0.04
40 1 0.01
41 3 0.04
42 6 0.07
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.43
Consensus pattern (34 bp):
TTATTATAATTTTTAATAAAATAAAAAATAAAAT
Found at i:113084 original size:108 final size:107
Alignment explanation
Indices: 112959--113168 Score: 341
Period size: 108 Copynumber: 2.0 Consensus size: 107
112949 AAAGGGTTTA
* *
112959 TTATTATTATTTTTAATAAAATTAAAAATAATATTTAATTAAGTTTAAAAAATTACATTAACAAA
1 TTATTATAATTTTTAATAAAATAAAAAATAATATTTAATTAAGTTTAAAAAATTACATTAACAAA
* *
113024 TTAAAAT-TTAATTATTATATTTTTATAAAAATAAAAAAAAAAT
66 TTAAAATATTAATCATTAT-GTTTT-TAAAAATAAAAAAAAAAT
**
113067 TTATTATAATTTTTAATAAAATAAAAAATAATATTTAATTAAGTTTAAAATTTTACATTAACAAA
1 TTATTATAATTTTTAATAAAATAAAAAATAATATTTAATTAAGTTTAAAAAATTACATTAACAAA
113132 TTAAAATATTAATCATTATGTTTTTAAAAATAAAAAA
66 TTAAAATATTAATCATTATGTTTTTAAAAATAAAAAA
113169 TTTTAAATTA
Statistics
Matches: 95, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
107 13 0.14
108 72 0.76
109 10 0.11
ACGTcount: A:0.54, C:0.02, G:0.01, T:0.42
Consensus pattern (107 bp):
TTATTATAATTTTTAATAAAATAAAAAATAATATTTAATTAAGTTTAAAAAATTACATTAACAAA
TTAAAATATTAATCATTATGTTTTTAAAAATAAAAAAAAAAT
Found at i:113406 original size:16 final size:18
Alignment explanation
Indices: 113375--113409 Score: 56
Period size: 16 Copynumber: 2.1 Consensus size: 18
113365 TATAAAATCA
113375 TCATTTCGATTGACAATT
1 TCATTTCGATTGACAATT
113393 TCATTTC-A-TGACAATT
1 TCATTTCGATTGACAATT
113409 T
1 T
113410 AAAATTTAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 9 0.53
17 1 0.06
18 7 0.41
ACGTcount: A:0.29, C:0.17, G:0.09, T:0.46
Consensus pattern (18 bp):
TCATTTCGATTGACAATT
Found at i:113528 original size:22 final size:23
Alignment explanation
Indices: 113489--113576 Score: 74
Period size: 23 Copynumber: 3.8 Consensus size: 23
113479 ATAATGATAA
**
113489 ATTTTTTAAATTCCTTAAATGTT
1 ATTTTTTAAATTTATTAAATGTT
* *
113512 ATTTTTT-AATTTGTT-AATGTAA
1 ATTTTTTAAATTTATTAAATGT-T
*
113534 ATTTTTTTAAATTTAATTAAATATT
1 A-TTTTTTAAATTT-ATTAAATGTT
*
113559 ATTTTTT-ATTTTATTAAA
1 ATTTTTTAAATTTATTAAA
113577 AAATAATAAT
Statistics
Matches: 53, Mismatches: 7, Indels: 11
0.75 0.10 0.15
Matches are distributed among these distances:
21 5 0.09
22 13 0.25
23 17 0.32
24 11 0.21
25 3 0.06
26 4 0.08
ACGTcount: A:0.34, C:0.02, G:0.03, T:0.60
Consensus pattern (23 bp):
ATTTTTTAAATTTATTAAATGTT
Found at i:113540 original size:46 final size:47
Alignment explanation
Indices: 113480--113575 Score: 124
Period size: 47 Copynumber: 2.1 Consensus size: 47
113470 TTTATTGGAA
** * *
113480 TAATGATAAATTTTTTAAA-TTCCTTAAATGTTATTTTTTAATTTGT
1 TAATGATAAATTTTTTAAATTTAATTAAATATTATTTTTTAATTTAT
*
113526 TAATG-TAAATTTTTTTAAATTTAATTAAATATTATTTTTTATTTTAT
1 TAATGATAAA-TTTTTTAAATTTAATTAAATATTATTTTTTAATTTAT
113573 TAA
1 TAA
113576 AAAATAATAA
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
45 4 0.09
46 14 0.33
47 25 0.58
ACGTcount: A:0.35, C:0.02, G:0.04, T:0.58
Consensus pattern (47 bp):
TAATGATAAATTTTTTAAATTTAATTAAATATTATTTTTTAATTTAT
Found at i:113680 original size:20 final size:19
Alignment explanation
Indices: 113633--113680 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 19
113623 AATATTGTAA
113633 TTTATTAATGTAAATTTTT
1 TTTATTAATGTAAATTTTT
*
113652 TTAAGTTAAT-TAAATATTATT
1 TTTA-TTAATGTAAAT-TT-TT
113673 TTTATTAA
1 TTTATTAA
113681 AAAATAATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
19 8 0.33
20 11 0.46
21 5 0.21
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (19 bp):
TTTATTAATGTAAATTTTT
Found at i:114417 original size:22 final size:22
Alignment explanation
Indices: 114376--114420 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
114366 TATTTTAATA
*
114376 AAAAATTTAAATATAAATATTT
1 AAAAATTTAAAAATAAATATTT
**
114398 AAAAATTTAAAAATTTATATTT
1 AAAAATTTAAAAATAAATATTT
114420 A
1 A
114421 CGTGTGTGTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (22 bp):
AAAAATTTAAAAATAAATATTT
Found at i:114662 original size:11 final size:11
Alignment explanation
Indices: 114635--114676 Score: 57
Period size: 11 Copynumber: 3.7 Consensus size: 11
114625 TGTATTATAT
114635 TTATATATTTAA
1 TTATAT-TTTAA
*
114647 TTATATTTTTA
1 TTATATTTTAA
*
114658 TTATATTATAA
1 TTATATTTTAA
114669 TTATATTT
1 TTATATTT
114677 AAAATAATTA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
11 20 0.77
12 6 0.23
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (11 bp):
TTATATTTTAA
Found at i:120747 original size:15 final size:15
Alignment explanation
Indices: 120717--120758 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 15
120707 ACATGGAAAA
120717 TAAAATTAAATATATT
1 TAAAATTAAATATA-T
*
120733 TAAAATT-ATTATAT
1 TAAAATTAAATATAT
120747 TAAAA-TAAATAT
1 TAAAATTAAATAT
120759 TATATATAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
13 1 0.04
14 10 0.43
15 5 0.22
16 7 0.30
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (15 bp):
TAAAATTAAATATAT
Found at i:120777 original size:20 final size:20
Alignment explanation
Indices: 120733--120777 Score: 58
Period size: 19 Copynumber: 2.3 Consensus size: 20
120723 TAAATATATT
*
120733 TAAA-ATTATTATATTAAAA
1 TAAATATTATTATATAAAAA
120752 TAAATATTA-TATATAAAAA
1 TAAATATTATTATATAAAAA
120771 TATAATA
1 TA-AATA
120778 ATAATTAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
19 15 0.65
20 8 0.35
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (20 bp):
TAAATATTATTATATAAAAA
Found at i:124138 original size:22 final size:22
Alignment explanation
Indices: 124110--124155 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
124100 GCAAAAAGAA
124110 TAAGTAAAAAGATATCAGAGAC
1 TAAGTAAAAAGATATCAGAGAC
124132 TAAGTAAAAAGATATCAGAGAC
1 TAAGTAAAAAGATATCAGAGAC
124154 TA
1 TA
124156 CTATCTGATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.54, C:0.09, G:0.17, T:0.20
Consensus pattern (22 bp):
TAAGTAAAAAGATATCAGAGAC
Found at i:129550 original size:20 final size:21
Alignment explanation
Indices: 129525--129573 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 21
129515 CTTGTTCTTT
**
129525 AAATAT-ATTTTTTAAAATAA
1 AAATATAATTTTAAAAAATAA
129545 AAATATTAATTTTAAAAAATAA
1 AAATA-TAATTTTAAAAAATAA
129567 AACATAT
1 AA-ATAT
129574 TTAATAATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
20 5 0.21
21 1 0.04
22 15 0.62
23 3 0.12
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (21 bp):
AAATATAATTTTAAAAAATAA
Found at i:133588 original size:2 final size:2
Alignment explanation
Indices: 133583--133612 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
133573 CACACAAACA
*
133583 AT AT AT AT AT AT AT AT AT AT GT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
133613 TAAGTGGTCC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:138723 original size:27 final size:27
Alignment explanation
Indices: 138688--138742 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
138678 TATATATGTT
* * *
138688 TTTCCATCTTTTCTCTTTTCATTTTTC
1 TTTCAATCTTTTATATTTTCATTTTTC
*
138715 TTTCAATCTTTTATATTTTTATTTTTC
1 TTTCAATCTTTTATATTTTCATTTTTC
138742 T
1 T
138743 ATTTACTTTA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.13, C:0.18, G:0.00, T:0.69
Consensus pattern (27 bp):
TTTCAATCTTTTATATTTTCATTTTTC
Found at i:141234 original size:22 final size:21
Alignment explanation
Indices: 141213--141256 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
141203 TTATAATGAT
*
141213 TTAATTTAAATTTTAAGTTGA
1 TTAACTTAAATTTTAAGTTGA
141234 TTAACTTAAATTTTAA-TTG-
1 TTAACTTAAATTTTAAGTTGA
141253 TTAA
1 TTAA
141257 AAGTTTGAGA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 4 0.18
20 3 0.14
21 15 0.68
ACGTcount: A:0.39, C:0.02, G:0.07, T:0.52
Consensus pattern (21 bp):
TTAACTTAAATTTTAAGTTGA
Done.