Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 129432109
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: 129432109
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 410 of 425
Found at i:125021870 original size:44 final size:44
Alignment explanation
Indices: 125021748--125021846 Score: 164
Period size: 45 Copynumber: 2.2 Consensus size: 44
125021738 TTTATTCATA
*
125021748 ACTTCAATCTGCTCCACTGCAACTTCAGGGAAATAAGATTTGCT
1 ACTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCT
125021792 ATCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTG-T
1 A-CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCT
125021836 GACTTCAATCT
1 -ACTTCAATCT
125021847 ACTCTGCTGA
Statistics
Matches: 52, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
44 11 0.21
45 41 0.79
ACGTcount: A:0.28, C:0.24, G:0.16, T:0.31
Consensus pattern (44 bp):
ACTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCT
Found at i:125021963 original size:68 final size:67
Alignment explanation
Indices: 125021853--125022053 Score: 249
Period size: 68 Copynumber: 3.0 Consensus size: 67
125021843 ATCTACTCTG
* * * *
125021853 CTGAAAATTCAAGGAGATTTGCTGTGGCTTTTAGCCTCTCCAATGCCATTTTAGGGAGAAGAGAT
1 CTGAAACTTCAAGGAGATTTGTTGTGGCTTTTAG-CTCTCCAACGCCATTTCAGGGAGAAGAGAT
*
125021918 CCG
65 CCA
* * * *
125021921 TTGAAACTTCAAGGAGATCTGTTGTGGCTTCTAGCTGCTCCAACACCATTTCAGGGAGAAGAGAT
1 CTGAAACTTCAAGGAGATTTGTTGTGGCTTTTAGCT-CTCCAACGCCATTTCAGGGAGAAGAGAT
*
125021986 CTA
65 CCA
* * * *
125021989 CCGAAACTTTAAGGAGATTTGTTATGGCTTTTAGCCACTCCAACGCCATTTCAGGGAGAAGAGAT
1 CTGAAACTTCAAGGAGATTTGTTGTGGCTTTTAG-CTCTCCAACGCCATTTCAGGGAGAAGAGAT
125022054 TGGTAGCTTC
Statistics
Matches: 113, Mismatches: 18, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
67 2 0.02
68 110 0.97
69 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.28
Consensus pattern (67 bp):
CTGAAACTTCAAGGAGATTTGTTGTGGCTTTTAGCTCTCCAACGCCATTTCAGGGAGAAGAGATC
CA
Found at i:125022209 original size:41 final size:41
Alignment explanation
Indices: 125022154--125022469 Score: 145
Period size: 41 Copynumber: 7.5 Consensus size: 41
125022144 ACCTTAGATA
* *
125022154 TGTTCCCCTACTACTTAGGGTGAAGATCTATAAATTCAGCC
1 TGTTACCCTACTGCTTAGGGTGAAGATCTATAAATTCAGCC
* * ** * *** * *
125022195 TGTTACCCTACTACTTAGGGGTTTAAGGCCCATTGCCTT-GGATC
1 TGTTACCCTACTGCTTA-GGG-TGAAGATCTA-TAAATTCAG-CC
* *
125022239 TGTTCCCCTACTGCTTAGGATGAAGATCTATAAATTCAGCC
1 TGTTACCCTACTGCTTAGGGTGAAGATCTATAAATTCAGCC
* * ** * *** *
125022280 AGTTACCCTACTGCTTAAGGGTTTAAGGCCCATCGCCTTCTA-TC
1 TGTTACCCTACTGCTT-AGGG-TGAAGATCTAT-AAATTC-AGCC
* *
125022324 TGTTTCCCTACTGCTTAGGGTGAAGATCTGTAAATTC-GACC
1 TGTTACCCTACTGCTTAGGGTGAAGATCTATAAATTCAG-CC
* ** * *** * *
125022365 TGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCGCCTT-TGATC
1 TGTTACCCTACTGCTTA-GGG-TGAAGATCTAT-AAATTCAG-CC
* * *
125022409 TGTTTCCCTACTGCTTAGGGTGAGGATCTATAAATTCAACC
1 TGTTACCCTACTGCTTAGGGTGAAGATCTATAAATTCAGCC
*
125022450 TGTTAACCTACTGCTTAGGG
1 TGTTACCCTACTGCTTAGGG
125022470 AGTTAAGGCT
Statistics
Matches: 191, Mismatches: 68, Indels: 32
0.66 0.23 0.11
Matches are distributed among these distances:
41 75 0.39
42 28 0.15
43 29 0.15
44 58 0.30
45 1 0.01
ACGTcount: A:0.22, C:0.25, G:0.20, T:0.33
Consensus pattern (41 bp):
TGTTACCCTACTGCTTAGGGTGAAGATCTATAAATTCAGCC
Found at i:125022243 original size:85 final size:85
Alignment explanation
Indices: 125022099--125022478 Score: 566
Period size: 85 Copynumber: 4.5 Consensus size: 85
125022089 GATAGCATGG
* *
125022099 TAAATTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCACCTTAGATATGTTCCCCTA
1 TAAATTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCGCCTTAGATCTGTTCCCCTA
*
125022164 CTACTTAGGGTGAAGATCTA
66 CTGCTTAGGGTGAAGATCTA
* * *
125022184 TAAATTCAGCCTGTTACCCTACTACTTAGGGGTTTAAGGCCCATTGCCTTGGATCTGTTCCCCTA
1 TAAATTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCGCCTTAGATCTGTTCCCCTA
*
125022249 CTGCTTAGGATGAAGATCTA
66 CTGCTTAGGGTGAAGATCTA
* * ** *
125022269 TAAATTCAGCCAGTTACCCTACTGCTTAAGGGTTTAAGGCCCATCGCCTTCTATCTGTTTCCCTA
1 TAAATTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCGCCTTAGATCTGTTCCCCTA
*
125022334 CTGCTTAGGGTGAAGATCTG
66 CTGCTTAGGGTGAAGATCTA
* *
125022354 TAAATTC-GACCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCGCCTTTGATCTGTTTCCCT
1 TAAATTCAG-CCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCGCCTTAGATCTGTTCCCCT
*
125022418 ACTGCTTAGGGTGAGGATCTA
65 ACTGCTTAGGGTGAAGATCTA
* *
125022439 TAAATTCAACCTGTTAACCTACTGCTTAGGGAG-TTAAGGC
1 TAAATTCAGCCTGTTACCCTACTGCTTAGGG-GTTTAAGGC
125022479 TTGTGAATTC
Statistics
Matches: 268, Mismatches: 24, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
84 1 0.00
85 266 0.99
86 1 0.00
ACGTcount: A:0.23, C:0.24, G:0.20, T:0.33
Consensus pattern (85 bp):
TAAATTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCGCCTTAGATCTGTTCCCCTA
CTGCTTAGGGTGAAGATCTA
Found at i:125022427 original size:44 final size:44
Alignment explanation
Indices: 125022285--125022428 Score: 143
Period size: 44 Copynumber: 3.3 Consensus size: 44
125022275 CAGCCAGTTA
*
125022285 CCCTACTGCTTAAGGGTTTAAGGCCCATCGCCTTCT-ATCTGTTT
1 CCCTACTGCTTAGGGGTTTAAGGCCCATCGCCTT-TGATCTGTTT
* ** ** *** * * *
125022329 CCCTACTGCTTA-GGG-TGAAGATCTGT-AAATTCGACCTGTTA
1 CCCTACTGCTTAGGGGTTTAAGGCCCATCGCCTTTGATCTGTTT
125022370 CCCTACTGCTTAGGGGTTTAAGGCCCATCGCCTTTGATCTGTTT
1 CCCTACTGCTTAGGGGTTTAAGGCCCATCGCCTTTGATCTGTTT
125022414 CCCTACTGCTTAGGG
1 CCCTACTGCTTAGGG
125022429 TGAGGATCTA
Statistics
Matches: 74, Mismatches: 22, Indels: 8
0.71 0.21 0.08
Matches are distributed among these distances:
41 20 0.27
42 9 0.12
43 9 0.12
44 36 0.49
ACGTcount: A:0.17, C:0.27, G:0.22, T:0.34
Consensus pattern (44 bp):
CCCTACTGCTTAGGGGTTTAAGGCCCATCGCCTTTGATCTGTTT
Found at i:125022649 original size:66 final size:66
Alignment explanation
Indices: 125022543--125022671 Score: 213
Period size: 66 Copynumber: 2.0 Consensus size: 66
125022533 ATGCTTATGC
* *
125022543 CAAATGATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAGATGTGTTATGAATGTG
1 CAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAGATGTGTTATAAATGTG
125022608 T
66 T
* * *
125022609 CAAATAATTAGGATGCTATGATCGACATGAATCAAATGCTCCTAATTATATGTGTTATAAATG
1 CAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAGATGTGTTATAAATG
125022672 ATATATGAAT
Statistics
Matches: 58, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
66 58 1.00
ACGTcount: A:0.36, C:0.12, G:0.19, T:0.33
Consensus pattern (66 bp):
CAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAGATGTGTTATAAATGTG
T
Found at i:125023792 original size:14 final size:14
Alignment explanation
Indices: 125023772--125023805 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
125023762 TGTCCTCTCA
125023772 TTTTTTC-CTTTTT
1 TTTTTTCTCTTTTT
125023785 TCTTTTTCTCTTTTT
1 T-TTTTTCTCTTTTT
125023800 TTTTTT
1 TTTTTT
125023806 TGGTCTCAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 1 0.05
14 11 0.58
15 7 0.37
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (14 bp):
TTTTTTCTCTTTTT
Found at i:125023806 original size:15 final size:14
Alignment explanation
Indices: 125023772--125023806 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 14
125023762 TGTCCTCTCA
125023772 TTTTTTCCTTTTTT
1 TTTTTTCCTTTTTT
*
125023786 CTTTTTCTCTTTTTT
1 TTTTTTC-CTTTTTT
125023801 TTTTTT
1 TTTTTT
125023807 GGTCTCAAGG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
14 6 0.33
15 12 0.67
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (14 bp):
TTTTTTCCTTTTTT
Found at i:125024387 original size:21 final size:20
Alignment explanation
Indices: 125024361--125024410 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
125024351 TTCCACGATC
* *
125024361 CTTTTTTGTTTTTTTTTTTT
1 CTTTTTTGTTGTTTTTTCTT
125024381 ACTTTTTT-TTGTTTTTTCTT
1 -CTTTTTTGTTGTTTTTTCTT
125024401 CTCTTTTTGT
1 CT-TTTTTGT
125024411 GTGTGTGTGT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
19 2 0.08
20 15 0.60
21 8 0.32
ACGTcount: A:0.02, C:0.10, G:0.06, T:0.82
Consensus pattern (20 bp):
CTTTTTTGTTGTTTTTTCTT
Found at i:125024407 original size:18 final size:17
Alignment explanation
Indices: 125024369--125024410 Score: 52
Period size: 16 Copynumber: 2.5 Consensus size: 17
125024359 TCCTTTTTTG
125024369 TTTTTT-TTTTTTACTT
1 TTTTTTGTTTTTTACTT
125024385 TTTTTTGTTTTTT-CTT
1 TTTTTTGTTTTTTACTT
125024401 CTCTTTTTGT
1 -T-TTTTTGT
125024411 GTGTGTGTGT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
16 9 0.39
17 7 0.30
18 7 0.30
ACGTcount: A:0.02, C:0.10, G:0.05, T:0.83
Consensus pattern (17 bp):
TTTTTTGTTTTTTACTT
Found at i:125028145 original size:2 final size:2
Alignment explanation
Indices: 125028140--125028174 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
125028130 AAAAAAAAAA
125028140 AT AT AT AT AT 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 AT AT AT AT AT A
125028175 AGGCTATAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:125028318 original size:14 final size:16
Alignment explanation
Indices: 125028292--125028325 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
125028282 AAATATAAAT
125028292 ATAAAATATGACAA-A
1 ATAAAATATGACAATA
125028307 ATAAAA-ATGACAATA
1 ATAAAATATGACAATA
125028322 ATAA
1 ATAA
125028326 TGAAAATAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 7 0.39
15 11 0.61
ACGTcount: A:0.68, C:0.06, G:0.06, T:0.21
Consensus pattern (16 bp):
ATAAAATATGACAATA
Found at i:125028476 original size:3 final size:3
Alignment explanation
Indices: 125028318--125028460 Score: 146
Period size: 3 Copynumber: 47.3 Consensus size: 3
125028308 TAAAAATGAC
* * * *
125028318 AAT AAT AAT GAA- AAT AGT AAT AAT AAT AAT ACT AAT AGT AGT AAT
1 AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * *
125028363 AGT AAT AGT AAA AAGT AAT AA- ATAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AA-T AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT
*** *
125028409 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT GGC AAT AAT AGT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
125028457 AAT A
1 AAT A
125028461 TGCTAAATAA
Statistics
Matches: 115, Mismatches: 20, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
2 3 0.03
3 107 0.93
4 5 0.04
ACGTcount: A:0.61, C:0.01, G:0.07, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:125029494 original size:18 final size:18
Alignment explanation
Indices: 125029460--125029601 Score: 198
Period size: 18 Copynumber: 7.8 Consensus size: 18
125029450 TCATATCTTT
*
125029460 TAAGATTGTATATCATATC
1 TAAGATTGCA-ATCATATC
125029479 TAAGATTGCAATCATATC
1 TAAGATTGCAATCATATC
*
125029497 TAAGATTG-TATCATATC
1 TAAGATTGCAATCATATC
125029514 TAAGATTGCAATCATATC
1 TAAGATTGCAATCATATC
125029532 TAAGATTGCAATCATATC
1 TAAGATTGCAATCATATC
*
125029550 TAAGATTG-TATCATATC
1 TAAGATTGCAATCATATC
*
125029567 TAAGATTGCATATCACATC
1 TAAGATTGCA-ATCATATC
*
125029586 TAATATTGCATATCAT
1 TAAGATTGCA-ATCAT
125029602 TGAAGATTAT
Statistics
Matches: 112, Mismatches: 8, Indels: 6
0.89 0.06 0.05
Matches are distributed among these distances:
17 32 0.29
18 50 0.45
19 30 0.27
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.37
Consensus pattern (18 bp):
TAAGATTGCAATCATATC
Found at i:125029515 original size:35 final size:36
Alignment explanation
Indices: 125029460--125029601 Score: 200
Period size: 35 Copynumber: 3.9 Consensus size: 36
125029450 TCATATCTTT
125029460 TAAGATTGTATATCATATCTAAGATTGCAATCATATC
1 TAAGATTG-ATATCATATCTAAGATTGCAATCATATC
125029497 TAAGATTG-TATCATATCTAAGATTGCAATCATATC
1 TAAGATTGATATCATATCTAAGATTGCAATCATATC
*
125029532 TAAGATTGCA-ATCATATCTAAGATTG-TATCATATC
1 TAAGATTG-ATATCATATCTAAGATTGCAATCATATC
* *
125029567 TAAGATTGCATATCACATCTAATATTGCATATCAT
1 TAAGATTG-ATATCATATCTAAGATTGCA-ATCAT
125029602 TGAAGATTAT
Statistics
Matches: 96, Mismatches: 4, Indels: 9
0.88 0.04 0.08
Matches are distributed among these distances:
35 53 0.55
36 30 0.31
37 8 0.08
38 5 0.05
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.37
Consensus pattern (36 bp):
TAAGATTGATATCATATCTAAGATTGCAATCATATC
Found at i:125029609 original size:53 final size:54
Alignment explanation
Indices: 125029460--125029601 Score: 241
Period size: 53 Copynumber: 2.6 Consensus size: 54
125029450 TCATATCTTT
*
125029460 TAAGATTGTATATCATATCTAAGATTGCAATCATATCTAAGATTGTATCATATC
1 TAAGATTGCATATCATATCTAAGATTGCAATCATATCTAAGATTGTATCATATC
125029514 TAAGATTGCA-ATCATATCTAAGATTGCAATCATATCTAAGATTGTATCATATC
1 TAAGATTGCATATCATATCTAAGATTGCAATCATATCTAAGATTGTATCATATC
* *
125029567 TAAGATTGCATATCACATCTAATATTGCATATCAT
1 TAAGATTGCATATCATATCTAAGATTGCA-ATCAT
125029602 TGAAGATTAT
Statistics
Matches: 83, Mismatches: 3, Indels: 3
0.93 0.03 0.03
Matches are distributed among these distances:
53 53 0.64
54 25 0.30
55 5 0.06
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.37
Consensus pattern (54 bp):
TAAGATTGCATATCATATCTAAGATTGCAATCATATCTAAGATTGTATCATATC
Found at i:125030514 original size:206 final size:207
Alignment explanation
Indices: 125029999--125030918 Score: 1484
Period size: 207 Copynumber: 4.5 Consensus size: 207
125029989 AAATCTACTT
* * * * *
125029999 CTTCAATTTATTCCCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAACAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
** * *
125030064 ACGAAAGCCAAGTCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATACCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
* * ** * * * *
125030129 GGATC-TACTTCAGTCTAATCATCTGAAGGTTAGATCTGCTCTATGTCTGTCCTTCGTCGAATAT
131 GGATCTTACTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAATAT
125030193 GGAGACGCCAAA
196 GGAGACGCCAAA
* * *
125030205 CTTTGATTTATTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAATGTAAACAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
125030270 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
* *
125030335 GGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCAAATAT
131 GGATCTTACTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAATAT
*
125030400 GGAGACGCAAAA
196 GGAGACGCCAAA
*
125030412 CTTCGATTTGTTCTCTGACAATACAGAGATGCCGAATCATCTTAGACTTGCTTCAACGTAAACAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
125030477 GTGAAAGCCAAATCAGCTATGTCTTCGATTT-TTCCTTGTAAGCACAAGGATGCCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
*
125030541 GGATCTTTCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAATAT
131 GGATCTTACTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAATAT
*
125030606 GGAAACGCCAAA
196 GGAGACGCCAAA
*
125030618 CTTCGATTTGTTCTCTAACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
125030683 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
* * * * * *
125030748 GGATCTTAATTAAGTATAAATATCTGAAGACAAGATTTGCTATGTGTCTGCCCTCCGTCGAATAT
131 GGATCTTACTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAATAT
125030813 GGAGACGCCAAA
196 GGAGACGCCAAA
* * * * *
125030825 CTTCGATTTGTTCTCTAACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCATAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
125030890 GTGAAAGCCAAATCAGCTATGTCTTCGAT
66 GTGAAAGCCAAATCAGCTATGTCTTCGAT
125030919 CTGCTCTCCG
Statistics
Matches: 669, Mismatches: 43, Indels: 3
0.94 0.06 0.00
Matches are distributed among these distances:
206 325 0.49
207 344 0.51
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.30
Consensus pattern (207 bp):
CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
GGATCTTACTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAATAT
GGAGACGCCAAA
Found at i:125030791 original size:413 final size:413
Alignment explanation
Indices: 125029999--125030918 Score: 1491
Period size: 413 Copynumber: 2.2 Consensus size: 413
125029989 AAATCTACTT
* * * *
125029999 CTTCAATTTATTCCCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAACAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAACAC
** *
125030064 ACGAAAGCCAAGTCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATACCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATACCAAACCATCTT
* * ** * * *
125030129 GGATCTACTTCAGTCTAATCATCTGAAGGTTAGATCTGCTCTATGTCTGTCCTTCGTCGAATATG
131 GGATCTACTTCAGTATAAACATCTGAAGGCCAGATCTGCTATATGTCTGCCCTCCGTCGAATATG
* * *
125030194 GAGACGCCAAACTTTGATTTATTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTC
196 GAAACGCCAAACTTCGATTTATTCTCTAACAATACAGAGATGCCAAATCATCTTAGACTTGCTTC
*
125030259 AATGTAAACACGTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGC
261 AACGTAAACACGTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGC
** * * *
125030324 CAAACCATCTTGGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCT
326 CAAACCATCTTGGATCTTAATTAAGTATAAACATCTGAAGACAAGATCTGCTATGTGTCTGCCCT
125030389 CCGTCAAATATGGAGACGCAAAA
391 CCGTCAAATATGGAGACGCAAAA
* *
125030412 CTTCGATTTGTTCTCTGACAATACAGAGATGCCGAATCATCTTAGACTTGCTTCAACGTAAACAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAACAC
*
125030477 GTGAAAGCCAAATCAGCTATGTCTTCGATTT-TTCCTTGTAAGCACAAGGATGCCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATACCAAACCATCTT
* *
125030541 GGATCTTTCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAATAT
131 GGATC-TACTTCAGTATAAACATCTGAAGGCCAGATCTGCTATATGTCTGCCCTCCGTCGAATAT
*
125030606 GGAAACGCCAAACTTCGATTTGTTCTCTAACAATACAGAGATGCCAAATCATCTTAGACTTGCTT
195 GGAAACGCCAAACTTCGATTTATTCTCTAACAATACAGAGATGCCAAATCATCTTAGACTTGCTT
125030671 CAACGTAAACACGTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATG
260 CAACGTAAACACGTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATG
* *
125030736 CCAAACCATCTTGGATCTTAATTAAGTATAAATATCTGAAGACAAGATTTGCTATGTGTCTGCCC
325 CCAAACCATCTTGGATCTTAATTAAGTATAAACATCTGAAGACAAGATCTGCTATGTGTCTGCCC
* *
125030801 TCCGTCGAATATGGAGACGCCAAA
390 TCCGTCAAATATGGAGACGCAAAA
* * * *
125030825 CTTCGATTTGTTCTCTAACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCATAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAACAC
125030890 GTGAAAGCCAAATCAGCTATGTCTTCGAT
66 GTGAAAGCCAAATCAGCTATGTCTTCGAT
125030919 CTGCTCTCCG
Statistics
Matches: 467, Mismatches: 39, Indels: 2
0.92 0.08 0.00
Matches are distributed among these distances:
412 37 0.08
413 430 0.92
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.30
Consensus pattern (413 bp):
CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAACAC
GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATACCAAACCATCTT
GGATCTACTTCAGTATAAACATCTGAAGGCCAGATCTGCTATATGTCTGCCCTCCGTCGAATATG
GAAACGCCAAACTTCGATTTATTCTCTAACAATACAGAGATGCCAAATCATCTTAGACTTGCTTC
AACGTAAACACGTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGC
CAAACCATCTTGGATCTTAATTAAGTATAAACATCTGAAGACAAGATCTGCTATGTGTCTGCCCT
CCGTCAAATATGGAGACGCAAAA
Found at i:125031143 original size:84 final size:82
Alignment explanation
Indices: 125031046--125031246 Score: 250
Period size: 84 Copynumber: 2.4 Consensus size: 82
125031036 GCTATACTTT
* *
125031046 AACCTGTTACCCTACTGCTTAGGGGGTTAAGGCGCA-TC-T-TCAATCTGCTCCACTACTGTTTA
1 AACCTGTTACCCTACTGCTTAGGGGATTAAGGCGCAGTCGTCTCAATCTGCTCCACTACTGCTTA
*
125031108 GGGAGATAAGATCCGCAATTTTG
66 GGGAGATAAGAT---C---TGTG
** *
125031131 -ACCTGTTACCCTACTGCTTAGGGGATTAAGGCG-AGTCGTCGTTGATCTGTTCCACTACTGCTT
1 AACCTGTTACCCTACTGCTTAGGGGATTAAGGCGCAGTCGTC-TCAATCTGCTCCACTACTGCTT
125031194 AGGGAGATAAGATCTGTG
65 AGGGAGATAAGATCTGTG
125031212 AACCTGTTACCCTACTGCTTAGGGGATTAAGGCGC
1 AACCTGTTACCCTACTGCTTAGGGGATTAAGGCGC
125031247 TGAATTTTGT
Statistics
Matches: 104, Mismatches: 6, Indels: 14
0.84 0.05 0.11
Matches are distributed among these distances:
81 3 0.03
82 33 0.32
83 1 0.01
84 35 0.34
85 1 0.01
87 31 0.30
ACGTcount: A:0.22, C:0.23, G:0.25, T:0.30
Consensus pattern (82 bp):
AACCTGTTACCCTACTGCTTAGGGGATTAAGGCGCAGTCGTCTCAATCTGCTCCACTACTGCTTA
GGGAGATAAGATCTGTG
Found at i:125032184 original size:1 final size:1
Alignment explanation
Indices: 125032174--125032266 Score: 87
Period size: 1 Copynumber: 93.0 Consensus size: 1
125032164 GGCCTCTCCA
* * * * * * * * *
125032174 TTTTTCTTTTTTTCTTTTTTCTTTTTTCTTTTTTCTTTTTTCTTTTTTCTTTTTTCTTTTTTCTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* *
125032239 TTTTTCTTCTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTT
125032267 GAAATAGAAG
Statistics
Matches: 70, Mismatches: 22, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
1 70 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (1 bp):
T
Found at i:125032266 original size:7 final size:7
Alignment explanation
Indices: 125032174--125032263 Score: 139
Period size: 7 Copynumber: 12.7 Consensus size: 7
125032164 GGCCTCTCCA
125032174 TTTTTCTT
1 TTTTTC-T
125032182 TTTTTCT
1 TTTTTCT
125032189 TTTTTCT
1 TTTTTCT
125032196 TTTTTCT
1 TTTTTCT
125032203 TTTTTCT
1 TTTTTCT
125032210 TTTTTCT
1 TTTTTCT
125032217 TTTTTCT
1 TTTTTCT
125032224 TTTTTCT
1 TTTTTCT
125032231 TTTTTCTT
1 TTTTTC-T
125032239 TTTTTCT
1 TTTTTCT
125032246 TCTTTT-T
1 T-TTTTCT
125032253 TTTTT-T
1 TTTTTCT
125032259 TTTTT
1 TTTTT
125032264 TTTGAAATAG
Statistics
Matches: 80, Mismatches: 0, Indels: 6
0.93 0.00 0.07
Matches are distributed among these distances:
6 10 0.12
7 53 0.66
8 17 0.21
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTTCT
Found at i:125033771 original size:13 final size:13
Alignment explanation
Indices: 125033753--125033777 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
125033743 TTATATATAA
125033753 TCTTTTTTTTTTT
1 TCTTTTTTTTTTT
125033766 TCTTTTTTTTTT
1 TCTTTTTTTTTT
125033778 GAAATGGATG
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:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (13 bp):
TCTTTTTTTTTTT
Found at i:125038032 original size:17 final size:18
Alignment explanation
Indices: 125037981--125038139 Score: 207
Period size: 17 Copynumber: 8.8 Consensus size: 18
125037971 TCATATCTTT
*
125037981 TAAGATTGTATATCATATC
1 TAAGATTG-CTATCATATC
* *
125038000 TAAAATTGCAATCATATC
1 TAAGATTGCTATCATATC
125038018 TAAGATTG-TATCATATC
1 TAAGATTGCTATCATATC
*
125038035 TAAGATTGCAATCATATC
1 TAAGATTGCTATCATATC
*
125038053 TAAGATT-ATATCATATC
1 TAAGATTGCTATCATATC
*
125038070 TAAGATTGCAATCATATC
1 TAAGATTGCTATCATATC
125038088 TAAGATTG-TATCATATC
1 TAAGATTGCTATCATATC
*
125038105 TAAGATTGCATATCACATC
1 TAAGATTGC-TATCATATC
125038124 TAAGATTGCATATCAT
1 TAAGATTGC-TATCAT
125038140 TGAAGATTAT
Statistics
Matches: 123, Mismatches: 13, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
17 47 0.38
18 46 0.37
19 30 0.24
ACGTcount: A:0.38, C:0.14, G:0.10, T:0.37
Consensus pattern (18 bp):
TAAGATTGCTATCATATC
Found at i:125038036 original size:35 final size:35
Alignment explanation
Indices: 125037981--125038131 Score: 248
Period size: 35 Copynumber: 4.2 Consensus size: 35
125037971 TCATATCTTT
*
125037981 TAAGATTGTATATCATATCTAAAATTGCAATCATATC
1 TAAGATTG--TATCATATCTAAGATTGCAATCATATC
125038018 TAAGATTGTATCATATCTAAGATTGCAATCATATC
1 TAAGATTGTATCATATCTAAGATTGCAATCATATC
*
125038053 TAAGATTATATCATATCTAAGATTGCAATCATATC
1 TAAGATTGTATCATATCTAAGATTGCAATCATATC
*
125038088 TAAGATTGTATCATATCTAAGATTGCATATCACATC
1 TAAGATTGTATCATATCTAAGATTGCA-ATCATATC
125038124 TAAGATTG
1 TAAGATTG
125038132 CATATCATTG
Statistics
Matches: 109, Mismatches: 4, Indels: 3
0.94 0.03 0.03
Matches are distributed among these distances:
35 86 0.79
36 15 0.14
37 8 0.07
ACGTcount: A:0.38, C:0.14, G:0.11, T:0.37
Consensus pattern (35 bp):
TAAGATTGTATCATATCTAAGATTGCAATCATATC
Found at i:125038547 original size:3 final size:3
Alignment explanation
Indices: 125038532--125038619 Score: 92
Period size: 3 Copynumber: 29.3 Consensus size: 3
125038522 ATAGTGGTGG
* * * *
125038532 TAA TAA -AA GTAA TAA TAC TAA TAA TAG TAGCA -AA T-A TAA TAG TGA
1 TAA TAA TAA -TAA TAA TAA TAA TAA TAA TA--A TAA TAA TAA TAA TAA
125038577 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
125038620 TTTGATGATA
Statistics
Matches: 71, Mismatches: 8, Indels: 12
0.78 0.09 0.13
Matches are distributed among these distances:
2 5 0.07
3 63 0.89
4 3 0.04
ACGTcount: A:0.60, C:0.02, G:0.06, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:125041424 original size:21 final size:21
Alignment explanation
Indices: 125041400--125041442 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 21
125041390 TTACCTTTTC
125041400 TAAAGTTAAAA-GTCAAAACTA
1 TAAAGTTAAAAGGT-AAAACTA
125041421 TAAAGTTAAAAGGTAAAACTA
1 TAAAGTTAAAAGGTAAAACTA
125041442 T
1 T
125041443 GTTGTTTTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 19 0.90
22 2 0.10
ACGTcount: A:0.56, C:0.07, G:0.12, T:0.26
Consensus pattern (21 bp):
TAAAGTTAAAAGGTAAAACTA
Found at i:125045300 original size:2 final size:2
Alignment explanation
Indices: 125045287--125045326 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
125045277 TGGCATCTAC
*
125045287 AT AT AA AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
125045327 TAATTTATAT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:125046385 original size:6 final size:6
Alignment explanation
Indices: 125046374--125046403 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
125046364 TTTGTGGTAT
125046374 AATATA AATATA AATATA AATATA TAATAT
1 AATATA AATATA AATATA AATATA -AATAT
125046404 TAGTAGAGGT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 18 0.78
7 5 0.22
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (6 bp):
AATATA
Found at i:125046391 original size:12 final size:13
Alignment explanation
Indices: 125046371--125046403 Score: 59
Period size: 12 Copynumber: 2.6 Consensus size: 13
125046361 GCTTTTGTGG
125046371 TATAATATAAATA
1 TATAATATAAATA
125046384 TA-AATATAAATA
1 TATAATATAAATA
125046396 TATAATAT
1 TATAATAT
125046404 TAGTAGAGGT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 12 0.63
13 7 0.37
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (13 bp):
TATAATATAAATA
Found at i:125047781 original size:15 final size:15
Alignment explanation
Indices: 125047739--125047785 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
125047729 TCCCATCATC
125047739 AAGCGAGGAAAAAGA
1 AAGCGAGGAAAAAGA
* **
125047754 AATACGTTG-AAAAGA
1 AA-GCGAGGAAAAAGA
125047769 AAGCGAGGAAAAAGA
1 AAGCGAGGAAAAAGA
125047784 AA
1 AA
125047786 AAGAAAGCTG
Statistics
Matches: 24, Mismatches: 6, Indels: 4
0.71 0.18 0.12
Matches are distributed among these distances:
14 3 0.12
15 18 0.75
16 3 0.12
ACGTcount: A:0.60, C:0.06, G:0.28, T:0.06
Consensus pattern (15 bp):
AAGCGAGGAAAAAGA
Found at i:125050557 original size:28 final size:27
Alignment explanation
Indices: 125050512--125050567 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 27
125050502 TTGTCAATAT
*
125050512 TTATAAACTGTTTGCTAACCAACCTATC
1 TTATAAACTGATTGCTAACCAACC-ATC
*
125050540 TTATACAACTGATT-CTAACTAACCATC
1 TTATA-AACTGATTGCTAACCAACCATC
125050567 T
1 T
125050568 AACTACTTGC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 4 0.16
28 14 0.56
29 7 0.28
ACGTcount: A:0.34, C:0.25, G:0.05, T:0.36
Consensus pattern (27 bp):
TTATAAACTGATTGCTAACCAACCATC
Found at i:125053125 original size:22 final size:22
Alignment explanation
Indices: 125053100--125053142 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
125053090 CTGTGATATT
125053100 TACGACCTTT-AGCCATTCTGTC
1 TACG-CCTTTGAGCCATTCTGTC
* *
125053122 TACGGCTTTGAGCCGTTCTGT
1 TACGCCTTTGAGCCATTCTGT
125053143 TGACTTAGTG
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.14, C:0.28, G:0.21, T:0.37
Consensus pattern (22 bp):
TACGCCTTTGAGCCATTCTGTC
Found at i:125053331 original size:26 final size:26
Alignment explanation
Indices: 125053302--125053352 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
125053292 TTCTAATACG
125053302 GGCTAGGCCCAACTATTACTGATATA
1 GGCTAGGCCCAACTATTACTGATATA
* *
125053328 GGCTAGGCCCAATTGTTACTGATAT
1 GGCTAGGCCCAACTATTACTGATAT
125053353 TGAGAATGGG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (26 bp):
GGCTAGGCCCAACTATTACTGATATA
Found at i:125058122 original size:4 final size:4
Alignment explanation
Indices: 125058115--125058143 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
125058105 TTAATTTTAT
125058115 TTAA TTAA TTAA TTAA TTAA TTAA TTAA T
1 TTAA TTAA TTAA TTAA TTAA TTAA TTAA T
125058144 CTTATTCTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (4 bp):
TTAA
Found at i:125058173 original size:17 final size:17
Alignment explanation
Indices: 125058151--125058205 Score: 60
Period size: 17 Copynumber: 3.2 Consensus size: 17
125058141 AATCTTATTC
125058151 TTATATTTTTAATTTTT
1 TTATATTTTTAATTTTT
*
125058168 TTATA-TTTTAGTTTTT
1 TTATATTTTTAATTTTT
*
125058184 TATATATTTCT-ATTATTT
1 T-TATATTTTTAATT-TTT
125058202 TTAT
1 TTAT
125058206 TTTGCTATTT
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
16 11 0.34
17 14 0.44
18 7 0.22
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.73
Consensus pattern (17 bp):
TTATATTTTTAATTTTT
Found at i:125058345 original size:39 final size:38
Alignment explanation
Indices: 125058288--125058361 Score: 105
Period size: 39 Copynumber: 1.9 Consensus size: 38
125058278 TGAGTTTATT
* *
125058288 ATTTTTTTTTATTTTTTTA-TTTTTTATCTTTCTTTTTA
1 ATTTTGTTTTATTGTTTTATTTTTTTAT-TTTCTTTTTA
125058326 ATTTTGTTTTAGTTGTTTTATTTTTTTATTTTCTTT
1 ATTTTGTTTTA-TTGTTTTATTTTTTTATTTTCTTT
125058362 AACTTATTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
38 10 0.31
39 14 0.44
40 8 0.25
ACGTcount: A:0.12, C:0.04, G:0.04, T:0.80
Consensus pattern (38 bp):
ATTTTGTTTTATTGTTTTATTTTTTTATTTTCTTTTTA
Found at i:125059339 original size:12 final size:13
Alignment explanation
Indices: 125059322--125059352 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
125059312 CATTGTTCTC
125059322 AAAAAAAA-TGAA
1 AAAAAAAAGTGAA
125059334 AAAAAAAAGTGAA
1 AAAAAAAAGTGAA
125059347 AAAAAA
1 AAAAAA
125059353 TACATTTATG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 8 0.44
13 10 0.56
ACGTcount: A:0.84, C:0.00, G:0.10, T:0.06
Consensus pattern (13 bp):
AAAAAAAAGTGAA
Found at i:125060879 original size:24 final size:24
Alignment explanation
Indices: 125060852--125060898 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
125060842 AGATTTCAAT
125060852 TAATCAACCTAGAGTCAGTTATTG
1 TAATCAACCTAGAGTCAGTTATTG
125060876 TAATCAACCTAGAGTCAGTTATT
1 TAATCAACCTAGAGTCAGTTATT
125060899 TTTACTCTCG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.34, C:0.17, G:0.15, T:0.34
Consensus pattern (24 bp):
TAATCAACCTAGAGTCAGTTATTG
Found at i:125068148 original size:33 final size:33
Alignment explanation
Indices: 125068111--125068213 Score: 137
Period size: 33 Copynumber: 3.3 Consensus size: 33
125068101 TAAAAAGTAA
*
125068111 AATTTTTAAAGAGATTTTATTTTTATTTTTTTT
1 AATTTTTAAAGAGGTTTTATTTTTATTTTTTTT
125068144 AATTTTTAAAGAGGTTTTATTTTTA-TTTTTTT
1 AATTTTTAAAGAGGTTTTATTTTTATTTTTTTT
125068176 AA-----AAAGAGGTTTTATTTTTATTTTTTTTT
1 AATTTTTAAAGAGGTTTTATTTTTA-TTTTTTTT
*
125068205 AACTTTTAA
1 AATTTTTAA
125068214 GAATCAAGAT
Statistics
Matches: 62, Mismatches: 1, Indels: 13
0.82 0.01 0.17
Matches are distributed among these distances:
27 18 0.29
29 9 0.15
32 9 0.15
33 24 0.39
34 2 0.03
ACGTcount: A:0.28, C:0.01, G:0.08, T:0.63
Consensus pattern (33 bp):
AATTTTTAAAGAGGTTTTATTTTTATTTTTTTT
Found at i:125068161 original size:27 final size:27
Alignment explanation
Indices: 125068151--125068202 Score: 104
Period size: 27 Copynumber: 1.9 Consensus size: 27
125068141 TTTAATTTTT
125068151 AAAGAGGTTTTATTTTTATTTTTTTAA
1 AAAGAGGTTTTATTTTTATTTTTTTAA
125068178 AAAGAGGTTTTATTTTTATTTTTTT
1 AAAGAGGTTTTATTTTTATTTTTTT
125068203 TTAACTTTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.27, C:0.00, G:0.12, T:0.62
Consensus pattern (27 bp):
AAAGAGGTTTTATTTTTATTTTTTTAA
Found at i:125068166 original size:25 final size:27
Alignment explanation
Indices: 125068131--125068202 Score: 78
Period size: 27 Copynumber: 2.7 Consensus size: 27
125068121 GAGATTTTAT
*
125068131 TTTTATTTTTTTTAATTTTT-AAAGAGG
1 TTTTATTTTTTAT-ATTTTTAAAAGAGG
*
125068158 TTTTA-TTTTTATTTTTTTAAAAAGAGG
1 TTTTATTTTTTATATTTTT-AAAAGAGG
*
125068185 TTTTA-TTTTTATTTTTTT
1 TTTTATTTTTTATATTTTT
125068203 TTAACTTTTA
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
25 5 0.12
26 6 0.15
27 30 0.73
ACGTcount: A:0.24, C:0.00, G:0.08, T:0.68
Consensus pattern (27 bp):
TTTTATTTTTTATATTTTTAAAAGAGG
Found at i:125073278 original size:14 final size:14
Alignment explanation
Indices: 125073259--125073309 Score: 52
Period size: 14 Copynumber: 3.5 Consensus size: 14
125073249 TTACATCAAA
125073259 ACCCAACTAAACCT
1 ACCCAACTAAACCT
125073273 ACCCAA--AAACCCACT
1 ACCCAACTAAA--C-CT
125073288 AACCCAACTAAACCT
1 -ACCCAACTAAACCT
125073303 ACCCAAC
1 ACCCAAC
125073310 AACCCACTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 12
0.72 0.00 0.28
Matches are distributed among these distances:
12 3 0.10
14 14 0.45
15 4 0.13
16 7 0.23
18 3 0.10
ACGTcount: A:0.45, C:0.45, G:0.00, T:0.10
Consensus pattern (14 bp):
ACCCAACTAAACCT
Found at i:125073278 original size:30 final size:30
Alignment explanation
Indices: 125073257--125073324 Score: 109
Period size: 30 Copynumber: 2.3 Consensus size: 30
125073247 AATTACATCA
125073257 AAACCCAACTAAACCTACCCAAAAACCCAC
1 AAACCCAACTAAACCTACCCAAAAACCCAC
* *
125073287 TAACCCAACTAAACCTACCCAACAACCCAC
1 AAACCCAACTAAACCTACCCAAAAACCCAC
*
125073317 TAACCCAA
1 AAACCCAA
125073325 AACTAATCTT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.47, C:0.44, G:0.00, T:0.09
Consensus pattern (30 bp):
AAACCCAACTAAACCTACCCAAAAACCCAC
Found at i:125074579 original size:3 final size:3
Alignment explanation
Indices: 125074571--125074660 Score: 180
Period size: 3 Copynumber: 30.0 Consensus size: 3
125074561 TGTATTTCTA
125074571 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
125074619 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
125074661 ATAGTAGTGT
Statistics
Matches: 87, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 87 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:125087812 original size:75 final size:74
Alignment explanation
Indices: 125087593--125087813 Score: 343
Period size: 75 Copynumber: 3.0 Consensus size: 74
125087583 TTATGTTTTC
* * *
125087593 AAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTC
*
125087658 TACTTTTAAA
66 T-GTTTTAAA
*
125087668 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTC
*
125087733 TGTTTGTCAA
66 TGTTT-TAAA
* * *
125087743 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGATGTTTTCAATTTG
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTC
125087808 TGTTTT
66 TGTTTT
125087814 TTTCAATTTA
Statistics
Matches: 135, Mismatches: 10, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
74 4 0.03
75 131 0.97
ACGTcount: A:0.29, C:0.16, G:0.23, T:0.32
Consensus pattern (74 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTC
TGTTTTAAA
Found at i:125087829 original size:16 final size:16
Alignment explanation
Indices: 125087797--125087830 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
125087787 CGCTGAGATG
* *
125087797 TTTTCAATTTGTGTTT
1 TTTTCAATTTATATTT
125087813 TTTTCAATTTATATTT
1 TTTTCAATTTATATTT
125087829 TT
1 TT
125087831 CAAAAATCAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.18, C:0.06, G:0.06, T:0.71
Consensus pattern (16 bp):
TTTTCAATTTATATTT
Found at i:125087906 original size:89 final size:88
Alignment explanation
Indices: 125087743--125088043 Score: 279
Period size: 89 Copynumber: 3.4 Consensus size: 88
125087733 TGTTTGTCAA
*
125087743 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA-GG--ACACG-CTGAGATGTTTTCAA
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-AGGGTCACACGAC-GAGATATTTTCAA
*
125087804 TTTGTGTTTTTTTCAATTTATATTTTTC
64 TTTCTG---TTTTCAATTTATATTTTTC
* * **
125087832 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTAGGGTCACATGACGAGGTATTTTCAAAA
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTAGGGTCACACGACGAGATATTTTCAATT
* ***
125087897 TCTGCTTTTCAAATTA-AAGCTTC
66 TCTG-TTTTCAATTTATATTTTTC
* * * * * * *
125087920 AAAAACCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGATGAGCTATTTTTAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTAGGGTCACACGACGAGATATTTTCAATT
* * * *
125087985 TCTGTTTTTAATGTCTATTTTTT
66 TCTGTTTTCAATTTATATTTTTC
* * **
125088008 AAAGAGTCAATTCATATTGCGAGAAATGAGTTGAGC
1 AAA-AATCAACTCATATTGCGAGAGGTGAGTTGAGC
125088044 TCATGATCAC
Statistics
Matches: 172, Mismatches: 34, Indels: 12
0.79 0.16 0.06
Matches are distributed among these distances:
87 7 0.04
88 70 0.41
89 76 0.44
91 18 0.10
92 1 0.01
ACGTcount: A:0.30, C:0.15, G:0.20, T:0.35
Consensus pattern (88 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTAGGGTCACACGACGAGATATTTTCAATT
TCTGTTTTCAATTTATATTTTTC
Found at i:125087994 original size:13 final size:13
Alignment explanation
Indices: 125087973--125088006 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
125087963 ACGCGATGAG
*
125087973 CTATTTTTAATTT
1 CTATTTTTAATGT
*
125087986 CTGTTTTTAATGT
1 CTATTTTTAATGT
125087999 CTATTTTT
1 CTATTTTT
125088007 TAAAGAGTCA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.18, C:0.09, G:0.06, T:0.68
Consensus pattern (13 bp):
CTATTTTTAATGT
Found at i:125089904 original size:11 final size:11
Alignment explanation
Indices: 125089878--125089938 Score: 50
Period size: 11 Copynumber: 5.3 Consensus size: 11
125089868 TTTTTAACAT
*
125089878 TATTAGTATTTA
1 TATTA-TATATA
*
125089890 TATTATGTATA
1 TATTATATATA
* *
125089901 TATTATGTAAA
1 TATTATATATA
*
125089912 TATTCTAATACTA
1 TATTAT-ATA-TA
125089925 TATTATATATA
1 TATTATATATA
125089936 TAT
1 TAT
125089939 ATCTTTCATA
Statistics
Matches: 40, Mismatches: 7, Indels: 5
0.77 0.13 0.10
Matches are distributed among these distances:
11 24 0.60
12 10 0.25
13 6 0.15
ACGTcount: A:0.39, C:0.03, G:0.05, T:0.52
Consensus pattern (11 bp):
TATTATATATA
Found at i:125090092 original size:2 final size:2
Alignment explanation
Indices: 125090085--125090129 Score: 81
Period size: 2 Copynumber: 22.5 Consensus size: 2
125090075 ACCATCATTT
*
125090085 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA CA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
125090127 TA T
1 TA T
125090130 TTATGTAGCA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:125090453 original size:30 final size:31
Alignment explanation
Indices: 125090419--125090489 Score: 81
Period size: 30 Copynumber: 2.3 Consensus size: 31
125090409 TTGCACAAGA
* ***
125090419 GTAAATATTTAAAATTTGAAGGGTTAA-AGT
1 GTAAATATTTAAAAGTTGAAGGACCAATAGT
**
125090449 GTAAATATGAAAAAGTTGAAGGACCAATAGT
1 GTAAATATTTAAAAGTTGAAGGACCAATAGT
125090480 GTAAATATTT
1 GTAAATATTT
125090490 TAAGAGTGGA
Statistics
Matches: 32, Mismatches: 8, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
30 21 0.66
31 11 0.34
ACGTcount: A:0.45, C:0.03, G:0.20, T:0.32
Consensus pattern (31 bp):
GTAAATATTTAAAAGTTGAAGGACCAATAGT
Found at i:125092461 original size:46 final size:46
Alignment explanation
Indices: 125092408--125092540 Score: 223
Period size: 46 Copynumber: 2.9 Consensus size: 46
125092398 TATCAGATTA
* * *
125092408 ATGAAATGTGTAAAACCATAGTTGAAAGATACCATGGCAACCTGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTAAT
125092454 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTAAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTAAT
125092500 AT-AAGATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 ATGAA-ATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
125092541 ACCATGGTTG
Statistics
Matches: 83, Mismatches: 3, Indels: 2
0.94 0.03 0.02
Matches are distributed among these distances:
45 2 0.02
46 81 0.98
ACGTcount: A:0.40, C:0.15, G:0.22, T:0.23
Consensus pattern (46 bp):
ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTAAT
Found at i:125092547 original size:27 final size:27
Alignment explanation
Indices: 125092514--125092567 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
125092504 GATGTGTAAG
125092514 ACCATGGTTGAAAGATACCATGGCAAC
1 ACCATGGTTGAAAGATACCATGGCAAC
125092541 ACCATGGTTGAAAGATACCATGGCAAC
1 ACCATGGTTGAAAGATACCATGGCAAC
125092568 CTGATATGAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.37, C:0.22, G:0.22, T:0.19
Consensus pattern (27 bp):
ACCATGGTTGAAAGATACCATGGCAAC
Found at i:125092555 original size:73 final size:73
Alignment explanation
Indices: 125092468--125092613 Score: 274
Period size: 73 Copynumber: 2.0 Consensus size: 73
125092458 AATGTGTAAG
125092468 ACCATGGTTGAAAGATACCATGGCAACCTAATATAAGATGTGTAAGACCATGGTTGAAAGATACC
1 ACCATGGTTGAAAGATACCATGGCAACCTAATATAAGATGTGTAAGACCATGGTTGAAAGATACC
125092533 ATGGCAAC
66 ATGGCAAC
* *
125092541 ACCATGGTTGAAAGATACCATGGCAACCTGATATGAGATGTGTAAGACCATGGTTGAAAGATACC
1 ACCATGGTTGAAAGATACCATGGCAACCTAATATAAGATGTGTAAGACCATGGTTGAAAGATACC
125092606 ATGGCAAC
66 ATGGCAAC
125092614 CTGATATGAG
Statistics
Matches: 71, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
73 71 1.00
ACGTcount: A:0.37, C:0.18, G:0.23, T:0.22
Consensus pattern (73 bp):
ACCATGGTTGAAAGATACCATGGCAACCTAATATAAGATGTGTAAGACCATGGTTGAAAGATACC
ATGGCAAC
Found at i:125092593 original size:46 final size:46
Alignment explanation
Indices: 125092541--125092703 Score: 254
Period size: 46 Copynumber: 3.5 Consensus size: 46
125092531 CCATGGCAAC
125092541 ACCATGGTTGAAAGATACCATGGCAACCTGATATGAGATGTGTAAG
1 ACCATGGTTGAAAGATACCATGGCAACCTGATATGAGATGTGTAAG
125092587 ACCATGGTTGAAAGATACCATGGCAACCTGATATGAGATGTGTAAG
1 ACCATGGTTGAAAGATACCATGGCAACCTGATATGAGATGTGTAAG
* * * * * * **
125092633 ACCATGGTTGAACGATACCATAGCAACGTGACATGAAAAGAATAAG
1 ACCATGGTTGAAAGATACCATGGCAACCTGATATGAGATGTGTAAG
125092679 ACCATGGTTGAAAGATACCATGGCA
1 ACCATGGTTGAAAGATACCATGGCA
125092704 TCACGTCAAA
Statistics
Matches: 107, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 107 1.00
ACGTcount: A:0.37, C:0.17, G:0.25, T:0.21
Consensus pattern (46 bp):
ACCATGGTTGAAAGATACCATGGCAACCTGATATGAGATGTGTAAG
Found at i:125092633 original size:119 final size:119
Alignment explanation
Indices: 125092422--125092659 Score: 422
Period size: 119 Copynumber: 2.0 Consensus size: 119
125092412 AATGTGTAAA
125092422 ACCATAGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACC
1 ACCATAGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACC
*
125092487 ATGGCAACCTAATATAAGATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
66 ATGGCAACCTAATATAAGATGTGTAAGACCATGGTTGAAAGATACCATAGCAAC
* *
125092541 ACCATGGTTGAAAGATACCATGGCAACCTGATATGAGATGTGTAAGACCATGGTTGAAAGATACC
1 ACCATAGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACC
* * *
125092606 ATGGCAACCTGATATGAGATGTGTAAGACCATGGTTGAACGATACCATAGCAAC
66 ATGGCAACCTAATATAAGATGTGTAAGACCATGGTTGAAAGATACCATAGCAAC
125092660 GTGACATGAA
Statistics
Matches: 113, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
119 113 1.00
ACGTcount: A:0.37, C:0.17, G:0.23, T:0.23
Consensus pattern (119 bp):
ACCATAGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACC
ATGGCAACCTAATATAAGATGTGTAAGACCATGGTTGAAAGATACCATAGCAAC
Found at i:125093528 original size:20 final size:20
Alignment explanation
Indices: 125093505--125093547 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
125093495 ATATATATTT
*
125093505 TATATAA-TATTATTTATATA
1 TATATAATTA-TATTTATAAA
*
125093525 TATATCATTATATTTATAAA
1 TATATAATTATATTTATAAA
125093545 TAT
1 TAT
125093548 TATTTTCACT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 18 0.90
21 2 0.10
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.53
Consensus pattern (20 bp):
TATATAATTATATTTATAAA
Found at i:125093547 original size:33 final size:31
Alignment explanation
Indices: 125093488--125093552 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 31
125093478 ATTATACGTG
125093488 TATATATATATATATTTTATATAATATTATT
1 TATATATATATATATTTTATATAATATTATT
125093519 TATATATATATCATTATATTTATA-AATATTATT
1 TATATATATAT-A-TAT-TTTATATAATATTATT
125093552 T
1 T
125093553 TCACTATTGT
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
31 11 0.35
32 1 0.03
33 13 0.42
34 6 0.19
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.57
Consensus pattern (31 bp):
TATATATATATATATTTTATATAATATTATT
Found at i:125095027 original size:23 final size:23
Alignment explanation
Indices: 125095001--125095045 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
125094991 TGAGTATGTG
*
125095001 ATGACGTTATTTT-ATAAATATGC
1 ATGAAGTTATTTTGA-AAATATGC
*
125095024 ATGAATTTATTTTGAAAATATG
1 ATGAAGTTATTTTGAAAATATG
125095046 TTGAATTGGA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.38, C:0.04, G:0.13, T:0.44
Consensus pattern (23 bp):
ATGAAGTTATTTTGAAAATATGC
Found at i:125095999 original size:23 final size:23
Alignment explanation
Indices: 125095972--125096019 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 23
125095962 ATAAGTGCTA
*
125095972 AACGGAAGCCCGGAGGCTAACTG
1 AACGGAAGCCCGAAGGCTAACTG
125095995 AACGGAAGCCCGAAGGCTAACTG
1 AACGGAAGCCCGAAGGCTAACTG
125096018 AA
1 AA
125096020 GCACATAAGT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.35, C:0.25, G:0.31, T:0.08
Consensus pattern (23 bp):
AACGGAAGCCCGAAGGCTAACTG
Found at i:125096008 original size:62 final size:62
Alignment explanation
Indices: 125095937--125096058 Score: 199
Period size: 62 Copynumber: 2.0 Consensus size: 62
125095927 ATCGTGATCT
** * *
125095937 GAAGCCCGAAATTTAGCTGAAGCACATAAGTGCTAAACGGAAGCCCGGAGGCTAACTGAACG
1 GAAGCCCGAAAGCTAACTGAAGCACATAAGTGCTAAACGGAAGCCCGAAGGCTAACTGAACG
*
125095999 GAAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACGGAAGCCCGAAGGCTAACTGAA
1 GAAGCCCGAAAGCTAACTGAAGCACATAAGTGCTAAACGGAAGCCCGAAGGCTAACTGAA
125096059 GGTCATCAGA
Statistics
Matches: 55, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
62 55 1.00
ACGTcount: A:0.37, C:0.23, G:0.27, T:0.13
Consensus pattern (62 bp):
GAAGCCCGAAAGCTAACTGAAGCACATAAGTGCTAAACGGAAGCCCGAAGGCTAACTGAACG
Found at i:125099482 original size:52 final size:52
Alignment explanation
Indices: 125099326--125099485 Score: 187
Period size: 52 Copynumber: 3.1 Consensus size: 52
125099316 CGGACCACAT
* * * *
125099326 ATCATACCGATGTCATATCCCGGATATGGTCTTATACGGAATCACATAATCAC
1 ATCATACCGATGCCATAGCCCGGCTATGGTCTTATACGGAATCACGT-ATCAC
* * * *
125099379 ATCACACCGATGCCATAGCCCAGCTATGGTCTTATACGGGGAT-ACGAATCAC
1 ATCATACCGATGCCATAGCCCGGCTATGGTCTTATAC-GGAATCACGTATCAC
** * *
125099431 ATGGTACCGATGCCATAGCCCGGCTATGGACTTATACGGAATCATGTATCAC
1 ATCATACCGATGCCATAGCCCGGCTATGGTCTTATACGGAATCACGTATCAC
125099483 ATC
1 ATC
125099486 TTTTCCGTCA
Statistics
Matches: 88, Mismatches: 17, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
51 4 0.05
52 46 0.52
53 34 0.39
54 4 0.05
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.25
Consensus pattern (52 bp):
ATCATACCGATGCCATAGCCCGGCTATGGTCTTATACGGAATCACGTATCAC
Found at i:125102167 original size:38 final size:36
Alignment explanation
Indices: 125102081--125102188 Score: 134
Period size: 33 Copynumber: 3.0 Consensus size: 36
125102071 CGAAGCTGCC
*
125102081 ACTATTCACTAATCAGGTAGTCGGAGCTACCATTTTT
1 ACTATTCACT-ATCAGGTAGCCGGAGCTACCATTTTT
125102118 --T-TT-ATCTATCAGGTAGCCGGAGCTACCACTTTTT
1 ACTATTCA-CTATCAGGTAGCCGGAGCTACCA-TTTTT
*
125102152 ACTATTCACTGATCAGGTAGCCGGAGTTACCATTTTT
1 ACTATTCACT-ATCAGGTAGCCGGAGCTACCATTTTT
125102189 CACTTGTCAT
Statistics
Matches: 62, Mismatches: 2, Indels: 14
0.79 0.03 0.18
Matches are distributed among these distances:
33 21 0.34
34 9 0.15
35 1 0.02
36 1 0.02
37 9 0.15
38 21 0.34
ACGTcount: A:0.24, C:0.22, G:0.18, T:0.36
Consensus pattern (36 bp):
ACTATTCACTATCAGGTAGCCGGAGCTACCATTTTT
Found at i:125103559 original size:39 final size:39
Alignment explanation
Indices: 125103516--125103599 Score: 159
Period size: 39 Copynumber: 2.2 Consensus size: 39
125103506 CGCAATCTAG
*
125103516 CTGAAGCACATAAGTGCTAAACGGAAGCCCGGAGGCTAA
1 CTGAAGCACATAAGTGCTAAACGGAAGCCCGAAGGCTAA
125103555 CTGAAGCACATAAGTGCTAAACGGAAGCCCGAAGGCTAA
1 CTGAAGCACATAAGTGCTAAACGGAAGCCCGAAGGCTAA
125103594 CTGAAG
1 CTGAAG
125103600 GTCATCAGAG
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 44 1.00
ACGTcount: A:0.37, C:0.23, G:0.27, T:0.13
Consensus pattern (39 bp):
CTGAAGCACATAAGTGCTAAACGGAAGCCCGAAGGCTAA
Found at i:125103582 original size:21 final size:21
Alignment explanation
Indices: 125103518--125103582 Score: 73
Period size: 21 Copynumber: 3.2 Consensus size: 21
125103508 CAATCTAGCT
125103518 GAAGCACATAAGTGCTAAACG
1 GAAGCACATAAGTGCTAAACG
*** *
125103539 GAAGC-CCGGAG-GCT-AACT
1 GAAGCACATAAGTGCTAAACG
125103557 GAAGCACATAAGTGCTAAACG
1 GAAGCACATAAGTGCTAAACG
125103578 GAAGC
1 GAAGC
125103583 CCGAAGGCTA
Statistics
Matches: 33, Mismatches: 8, Indels: 6
0.70 0.17 0.13
Matches are distributed among these distances:
18 8 0.24
19 6 0.18
20 6 0.18
21 13 0.39
ACGTcount: A:0.38, C:0.22, G:0.28, T:0.12
Consensus pattern (21 bp):
GAAGCACATAAGTGCTAAACG
Found at i:125106314 original size:20 final size:19
Alignment explanation
Indices: 125106289--125106341 Score: 88
Period size: 20 Copynumber: 2.7 Consensus size: 19
125106279 AATAAGTACA
125106289 TTCTTTATTGCTTTCATATT
1 TTCTTTATT-CTTTCATATT
125106309 TTCTTTATTCCTTTCATATT
1 TTCTTTATT-CTTTCATATT
125106329 TTCTTTATTCTTT
1 TTCTTTATTCTTT
125106342 ATTCTCACCA
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
19 4 0.12
20 28 0.88
ACGTcount: A:0.13, C:0.17, G:0.02, T:0.68
Consensus pattern (19 bp):
TTCTTTATTCTTTCATATT
Found at i:125106318 original size:27 final size:26
Alignment explanation
Indices: 125106309--125106363 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 26
125106299 CTTTCATATT
125106309 TTCTTTATTCCTTTCATATTTTCTTTA
1 TTCTTTATT-CTTTCATATTTTCTTTA
**
125106336 TTCTTTATTCTCACCATA-TTTCTTTA
1 TTCTTTATTCT-TTCATATTTTCTTTA
125106362 TT
1 TT
125106364 TTATAATAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 12 0.48
27 13 0.52
ACGTcount: A:0.16, C:0.20, G:0.00, T:0.64
Consensus pattern (26 bp):
TTCTTTATTCTTTCATATTTTCTTTA
Found at i:125107644 original size:13 final size:13
Alignment explanation
Indices: 125107626--125107691 Score: 96
Period size: 13 Copynumber: 5.1 Consensus size: 13
125107616 AGTTCTTCAT
125107626 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
*
125107639 TGCTTTTGAGAAG
1 TGCTTTTGAAAAG
* *
125107652 TGCTGTGGAAAAG
1 TGCTTTTGAAAAG
*
125107665 TGCTTTTGAGAAG
1 TGCTTTTGAAAAG
125107678 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
125107691 T
1 T
125107692 TTGGTTTAAA
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
13 45 1.00
ACGTcount: A:0.27, C:0.08, G:0.29, T:0.36
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:125108844 original size:2 final size:2
Alignment explanation
Indices: 125108837--125108885 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
125108827 CTTCAAATTC
125108837 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
125108879 TA TA TA T
1 TA TA TA T
125108886 TAAATTTGAT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:125111283 original size:6 final size:6
Alignment explanation
Indices: 125111261--125111307 Score: 60
Period size: 6 Copynumber: 7.8 Consensus size: 6
125111251 AATAAAGTTC
* *
125111261 AAAATAT AAAAA- CAAAAT AAAAAT AAAAAT AAAGAT AAAAAT AAAAA
1 AAAA-AT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAA
125111308 AATAAACACA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
5 4 0.11
6 27 0.77
7 4 0.11
ACGTcount: A:0.81, C:0.02, G:0.02, T:0.15
Consensus pattern (6 bp):
AAAAAT
Found at i:125111302 original size:37 final size:38
Alignment explanation
Indices: 125111232--125111325 Score: 109
Period size: 37 Copynumber: 2.5 Consensus size: 38
125111222 ACTTGATTAG
* * * * *
125111232 AAACAAACATAATAATTAAAATAAAGTTCAAAATATAA
1 AAACAAACATAAAAATAAAAATAAAGATAAAAATAAAA
125111270 AAACAAA-ATAAAAATAAAAATAAAGATAAAAATAAAA
1 AAACAAACATAAAAATAAAAATAAAGATAAAAATAAAA
* * *
125111307 AAATAAACACAAAGATAAA
1 AAACAAACATAAAAATAAA
125111326 TGAACTCAAT
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
37 31 0.66
38 16 0.34
ACGTcount: A:0.73, C:0.06, G:0.03, T:0.17
Consensus pattern (38 bp):
AAACAAACATAAAAATAAAAATAAAGATAAAAATAAAA
Found at i:125111324 original size:20 final size:20
Alignment explanation
Indices: 125111285--125111325 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
125111275 AAATAAAAAT
* *
125111285 AAAAATAAAGATAAAAATAA
1 AAAAATAAACACAAAAATAA
*
125111305 AAAAATAAACACAAAGATAA
1 AAAAATAAACACAAAAATAA
125111325 A
1 A
125111326 TGAACTCAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.78, C:0.05, G:0.05, T:0.12
Consensus pattern (20 bp):
AAAAATAAACACAAAAATAA
Found at i:125113240 original size:13 final size:13
Alignment explanation
Indices: 125113222--125113247 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
125113212 CTGTGCACCT
125113222 TTAGTTTAGATAA
1 TTAGTTTAGATAA
125113235 TTAGTTTAGATAA
1 TTAGTTTAGATAA
125113248 ACAAATTTCT
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:0.00, G:0.15, T:0.46
Consensus pattern (13 bp):
TTAGTTTAGATAA
Found at i:125114642 original size:38 final size:38
Alignment explanation
Indices: 125114577--125114657 Score: 119
Period size: 38 Copynumber: 2.2 Consensus size: 38
125114567 ATGAGATGTG
* *
125114577 ATTC-AAACGGAGGAGGAATATATACAAATGATCCAAC
1 ATTCAAAACGAAGGAGGAATATACACAAATGATCCAAC
* *
125114614 ATTCAAAACGAAGGATGAGTATACACAAATGATCCAAC
1 ATTCAAAACGAAGGAGGAATATACACAAATGATCCAAC
125114652 ATTCAA
1 ATTCAA
125114658 TCCTAGCACC
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
37 4 0.10
38 35 0.90
ACGTcount: A:0.47, C:0.17, G:0.16, T:0.20
Consensus pattern (38 bp):
ATTCAAAACGAAGGAGGAATATACACAAATGATCCAAC
Found at i:125120433 original size:16 final size:15
Alignment explanation
Indices: 125120407--125120436 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
125120397 AATAAAATAA
125120407 AATAAAATAATTAAT
1 AATAAAATAATTAAT
125120422 AATAATAATAATTAA
1 AATAA-AATAATTAA
125120437 AAATGAAGAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (15 bp):
AATAAAATAATTAAT
Found at i:125120517 original size:23 final size:23
Alignment explanation
Indices: 125120486--125120537 Score: 86
Period size: 23 Copynumber: 2.3 Consensus size: 23
125120476 AAAGAGGACC
*
125120486 GACGGTGGTAGTTTCTAGACGAT
1 GACGATGGTAGTTTCTAGACGAT
*
125120509 GACGATGGTAGTTTCTAGATGAT
1 GACGATGGTAGTTTCTAGACGAT
125120532 GACGAT
1 GACGAT
125120538 AATGCGAGAC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.25, C:0.12, G:0.33, T:0.31
Consensus pattern (23 bp):
GACGATGGTAGTTTCTAGACGAT
Found at i:125123368 original size:16 final size:18
Alignment explanation
Indices: 125123337--125123370 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
125123327 GAGTCAAGTG
125123337 TGAATTTAGATGAATTTT
1 TGAATTTAGATGAATTTT
125123355 TGAA-TTAG-TGAATTTT
1 TGAATTTAGATGAATTTT
125123371 GTGTTTAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.50
17 4 0.25
18 4 0.25
ACGTcount: A:0.32, C:0.00, G:0.18, T:0.50
Consensus pattern (18 bp):
TGAATTTAGATGAATTTT
Found at i:125124715 original size:52 final size:47
Alignment explanation
Indices: 125124675--125124776 Score: 143
Period size: 47 Copynumber: 2.2 Consensus size: 47
125124665 ATCGGAGAGA
*
125124675 TGTGATATATGCT-TTCGTATAAGACCATATCCGAGATATGGCATCGG
1 TGTGATATATGCTACT-GTATAAGACCATATCCGAGATATGGCATCGG
* * * *
125124722 TGTGATATGTGCTACTGTATAAGACCATATCTGGGATATGGCATCAG
1 TGTGATATATGCTACTGTATAAGACCATATCCGAGATATGGCATCGG
125124769 TGTGATAT
1 TGTGATAT
125124777 GTGATCCGTG
Statistics
Matches: 49, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
47 48 0.98
48 1 0.02
ACGTcount: A:0.27, C:0.15, G:0.25, T:0.33
Consensus pattern (47 bp):
TGTGATATATGCTACTGTATAAGACCATATCCGAGATATGGCATCGG
Found at i:125124808 original size:46 final size:47
Alignment explanation
Indices: 125124690--125124828 Score: 165
Period size: 47 Copynumber: 2.9 Consensus size: 47
125124680 TATATGCTTT
* * *
125124690 CGTATAAGACCATATCCGAGATATGGCATCGGTGTGATATGTGCTAC
1 CGTATAAGACCATATCTGGGATATGGCATCGGTGTGATATGTGATAC
* *
125124737 TGTATAAGACCATATCTGGGATATGGCATCAGTGTGATATGTGAT-C
1 CGTATAAGACCATATCTGGGATATGGCATCGGTGTGATATGTGATAC
* * *
125124783 CGTGTAAGACCATGAT-TGGGCTATGGCCTCGGTATGTGATATGTGA
1 CGTATAAGACCAT-ATCTGGGATATGGCATCGG--TGTGATATGTGA
125124829 CTATGTGCAA
Statistics
Matches: 79, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
46 25 0.32
47 42 0.53
48 12 0.15
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (47 bp):
CGTATAAGACCATATCTGGGATATGGCATCGGTGTGATATGTGATAC
Found at i:125130644 original size:23 final size:23
Alignment explanation
Indices: 125130601--125130644 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
125130591 CTAATTCAAT
*
125130601 ATATTTTCAAGATAAATTCATGC
1 ATATTTTCAAGATAAAGTCATGC
*
125130624 ATATTTAT-AAGATAACGTCAT
1 ATATTT-TCAAGATAAAGTCAT
125130645 CACATACCCA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
23 17 0.94
24 1 0.06
ACGTcount: A:0.41, C:0.11, G:0.09, T:0.39
Consensus pattern (23 bp):
ATATTTTCAAGATAAAGTCATGC
Found at i:125135312 original size:30 final size:30
Alignment explanation
Indices: 125135225--125135298 Score: 130
Period size: 30 Copynumber: 2.5 Consensus size: 30
125135215 ACGAGCAGGA
*
125135225 CACATGGGCATGTGACCAGCCAGTGTGGCT
1 CACATGGGCGTGTGACCAGCCAGTGTGGCT
*
125135255 CACACGGGCGTGTGACCAGCCAGTGTGGCT
1 CACATGGGCGTGTGACCAGCCAGTGTGGCT
125135285 CACATGGGCGTGTG
1 CACATGGGCGTGTG
125135299 CTCAGCACGT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 41 1.00
ACGTcount: A:0.18, C:0.27, G:0.36, T:0.19
Consensus pattern (30 bp):
CACATGGGCGTGTGACCAGCCAGTGTGGCT
Found at i:125137261 original size:46 final size:47
Alignment explanation
Indices: 125137208--125137330 Score: 194
Period size: 48 Copynumber: 2.6 Consensus size: 47
125137198 CGCAGTACTG
*
125137208 ATATCATGGCCCAAAGCCAAATCAGTGTAACTCGCA-CAAAGTGCTA
1 ATATCATGGCCCAAAGCCAACTCAGTGTAACTCGCACCAAAGTGCTA
*
125137254 ATATCATGGCCCAAAGCCAACTCAGTGTAACTCGCACCCCAAGTGCTA
1 ATATCATGGCCCAAAGCCAACTCAGTGTAACTCGCA-CCAAAGTGCTA
* *
125137302 ATATCATGGCCCGAAGCCAACTCAATGTA
1 ATATCATGGCCCAAAGCCAACTCAGTGTA
125137331 TCCCCTAATG
Statistics
Matches: 71, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
46 35 0.49
48 36 0.51
ACGTcount: A:0.34, C:0.29, G:0.17, T:0.20
Consensus pattern (47 bp):
ATATCATGGCCCAAAGCCAACTCAGTGTAACTCGCACCAAAGTGCTA
Found at i:125141242 original size:220 final size:224
Alignment explanation
Indices: 125140839--125141265 Score: 754
Period size: 220 Copynumber: 1.9 Consensus size: 224
125140829 CGGCAGGTTA
*
125140839 TGGTGCTTCGGGAGGCATGTAACTTCTGCCTGCAACTCATTCACGGGACTTCAATTACATCTTAC
1 TGGTGCTTCGGAAGGCATGTAACTTCTGCCTGCAACTCATTCACGGGACTTCAATTACA--TTAC
125140904 TTATAAGTATGAACCATGTTAAGAAGATCTCATATCCCAGTAAACTTAAAAGTCAAAGCCAACTA
64 TTATAAGTATGAACCATGTTAAGAAGATCTCATATCCCAGTAAACTTAAAAGTCAAAGCCAACTA
*
125140969 GTGCTGATATTCACCTATATGCAAATATGAATTGCATATTTGGTATATAAGTGTGTTTGAAAACA
129 GTGCTGATATTCACCTATATGCAAATATGAATTGCATATTTGGTAGATAAGTGTGTTTGAAAACA
125141034 A-T-ATAAAATAAGTAATAAAATATAGGCTG
194 AGTAATAAAATAAGTAATAAAATATAGGCTG
* *
125141063 TGGTGTTTCGGAAGGCGTGTAACTTCTGCCTGCAACTCATTCACGGGACTTCAATTACA-T-CTT
1 TGGTGCTTCGGAAGGCATGTAACTTCTGCCTGCAACTCATTCACGGGACTTCAATTACATTACTT
*
125141126 ATAAGTATGAACCATGTTAAGAAGATCTCATATCCCAGTAAACTTAAAAGTCAAAGCCAACTGGT
66 ATAAGTATGAACCATGTTAAGAAGATCTCATATCCCAGTAAACTTAAAAGTCAAAGCCAACTAGT
*
125141191 GCTGATATTCACCTATATGCAAATATGAATTGCATATTTGGTAGATAAGTGTGTTTGAAAATAAG
131 GCTGATATTCACCTATATGCAAATATGAATTGCATATTTGGTAGATAAGTGTGTTTGAAAACAAG
125141256 TAATAAAATA
196 TAATAAAATA
125141266 TATGATTTCA
Statistics
Matches: 195, Mismatches: 6, Indels: 6
0.94 0.03 0.03
Matches are distributed among these distances:
220 129 0.66
221 2 0.01
222 8 0.04
224 56 0.29
ACGTcount: A:0.35, C:0.16, G:0.18, T:0.31
Consensus pattern (224 bp):
TGGTGCTTCGGAAGGCATGTAACTTCTGCCTGCAACTCATTCACGGGACTTCAATTACATTACTT
ATAAGTATGAACCATGTTAAGAAGATCTCATATCCCAGTAAACTTAAAAGTCAAAGCCAACTAGT
GCTGATATTCACCTATATGCAAATATGAATTGCATATTTGGTAGATAAGTGTGTTTGAAAACAAG
TAATAAAATAAGTAATAAAATATAGGCTG
Found at i:125142730 original size:19 final size:20
Alignment explanation
Indices: 125142705--125142756 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
125142695 TTTAAAACAG
125142705 TTTTAACTTGATTG-AA-AA
1 TTTTAACTTGATTGAAATAA
**
125142723 TGTTTAACTCAATTGAAATAA
1 T-TTTAACTTGATTGAAATAA
125142744 TTTTAACTTGATT
1 TTTTAACTTGATT
125142757 TTATCATTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
18 1 0.04
19 11 0.41
20 12 0.44
21 3 0.11
ACGTcount: A:0.37, C:0.08, G:0.10, T:0.46
Consensus pattern (20 bp):
TTTTAACTTGATTGAAATAA
Found at i:125142811 original size:22 final size:25
Alignment explanation
Indices: 125142783--125142830 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 25
125142773 TTTGTTCAAC
*
125142783 TTTAACTT-TTAT-TCAAAA-ATAT
1 TTTAACTTGCTATATCAAAACATAT
125142805 TTTAACTTGCTATATCAAAACATAT
1 TTTAACTTGCTATATCAAAACATAT
125142830 T
1 T
125142831 ACCAAATAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 8 0.36
23 3 0.14
24 6 0.27
25 5 0.23
ACGTcount: A:0.40, C:0.12, G:0.02, T:0.46
Consensus pattern (25 bp):
TTTAACTTGCTATATCAAAACATAT
Found at i:125145124 original size:2 final size:2
Alignment explanation
Indices: 125145117--125145162 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
125145107 TAGGTACATA
125145117 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
125145159 AT AT
1 AT AT
125145163 GCATAACATA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:125145234 original size:9 final size:9
Alignment explanation
Indices: 125145220--125145246 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
125145210 CACACACTAA
125145220 TAATAATAG
1 TAATAATAG
125145229 TAATAATAG
1 TAATAATAG
125145238 TAATAATAG
1 TAATAATAG
125145247 AAAGATATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.56, C:0.00, G:0.11, T:0.33
Consensus pattern (9 bp):
TAATAATAG
Found at i:125145258 original size:2 final size:2
Alignment explanation
Indices: 125145251--125145285 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
125145241 TAATAGAAAG
125145251 AT AT AT AT AT 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 AT AT AT AT AT A
125145286 CCAAATAACA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:125146247 original size:17 final size:17
Alignment explanation
Indices: 125146226--125146274 Score: 52
Period size: 17 Copynumber: 3.0 Consensus size: 17
125146216 ATAATACTTC
125146226 ATAAATATATATACA-A
1 ATAAATATATATACATA
125146242 ACTAAA-A-ATATACATA
1 A-TAAATATATATACATA
125146258 AT-AATAATATATACATA
1 ATAAAT-ATATATACATA
125146275 CAAAGTACAC
Statistics
Matches: 28, Mismatches: 0, Indels: 9
0.76 0.00 0.24
Matches are distributed among these distances:
14 2 0.07
15 8 0.29
16 5 0.18
17 13 0.46
ACGTcount: A:0.61, C:0.08, G:0.00, T:0.31
Consensus pattern (17 bp):
ATAAATATATATACATA
Found at i:125146336 original size:16 final size:18
Alignment explanation
Indices: 125146307--125146342 Score: 58
Period size: 16 Copynumber: 2.1 Consensus size: 18
125146297 ATAATAACAG
125146307 TAAATATAATATTAATAT
1 TAAATATAATATTAATAT
125146325 TAAATA-AA-ATTAATAT
1 TAAATATAATATTAATAT
125146341 TA
1 TA
125146343 CAAATTTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 10 0.56
17 2 0.11
18 6 0.33
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
TAAATATAATATTAATAT
Found at i:125148131 original size:44 final size:44
Alignment explanation
Indices: 125148043--125148157 Score: 178
Period size: 44 Copynumber: 2.6 Consensus size: 44
125148033 TCCTCGATCA
125148043 GCTCCACTGCAACTTCAGGG-GACAAAACTTGCAACTTTGACCT
1 GCTCCACTGCAACTTCAGGGAGACAAAACTTGCAACTTTGACCT
* * * *
125148086 GCTCCGCTGCAACTTCAGGGAGACAAGACTTGTAACTTTGGCCT
1 GCTCCACTGCAACTTCAGGGAGACAAAACTTGCAACTTTGACCT
*
125148130 GCTCCACTGCAACTTCAGGGAAACAAAA
1 GCTCCACTGCAACTTCAGGGAGACAAAA
125148158 TCTGGTGTCT
Statistics
Matches: 64, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
43 19 0.30
44 45 0.70
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (44 bp):
GCTCCACTGCAACTTCAGGGAGACAAAACTTGCAACTTTGACCT
Found at i:125148545 original size:13 final size:13
Alignment explanation
Indices: 125148517--125148551 Score: 52
Period size: 14 Copynumber: 2.6 Consensus size: 13
125148507 TGAGTTGATT
125148517 TTTGAAAACAGAA
1 TTTGAAAACAGAA
*
125148530 TTTGCAAAACAGAT
1 TTTG-AAAACAGAA
125148544 TTTGAAAA
1 TTTGAAAA
125148552 TATCTCGGCA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
13 8 0.40
14 12 0.60
ACGTcount: A:0.49, C:0.09, G:0.14, T:0.29
Consensus pattern (13 bp):
TTTGAAAACAGAA
Found at i:125148587 original size:183 final size:185
Alignment explanation
Indices: 125148263--125148782 Score: 484
Period size: 183 Copynumber: 2.9 Consensus size: 185
125148253 CAGACATTAA
* * * *
125148263 AAACAGAAACTGAAAATAGCTCAGCGCGTGAGCTAAGGCTCAATTCACCTCTCGCAATATGAGTT
1 AAACAGAAACTGAAAATACCTCAGCGCGTGAACCAAGGCTCAACTCACCTCTCGCAATATGAGTT
* ** **
125148328 GGTCTTTTTGAAACTTAATTTGAAAAGTTGATTTTTGAAAATACCTCGACATGTGACCCGAGGCT
66 GGTATTTTTGAAACAGAATTTGAAAAGCAGATTTTTGAAAATACCTCGACATGTGACCCGAGGCT
* *
125148393 CAACCCACCTCTCGCATTATGAGTTGCTTTTTTTTAAAAAAAATGTAAATTGAAG
131 CAACCCACCTCTCGCAATATGAGTTGATTTTTTTTAAAAAAAATGTAAATTGAAG
* * * *
125148448 AAACAGGAATTGAAAATACCTCAGTGTGTGAACCAAGGCTCAACTCACCTCTCGCAATATGAGTT
1 AAACAGAAACTGAAAATACCTCAGCGCGTGAACCAAGGCTCAACTCACCTCTCGCAATATGAGTT
* *
125148513 -G-ATTTTTGAAAACAGAATTTGCAAAA-CAGA-TTTTGAAAATATCTCGGCATGTGACCCGAGG
66 GGTATTTTTG-AAACAGAATTTG-AAAAGCAGATTTTTGAAAATACCTCGACATGTGACCCGAGG
* * * **
125148574 CTCAACTCACCTCTCGCAATATGAGTTGA---TTTTTGAAGAGTA-G-AAATT----
129 CTCAACCCACCTCTCGCAATATGAGTTGATTTTTTTTAAAAAAAATGTAAATTGAAG
** * ** * * * *
125148622 AAACAGAATTTGAAAATACCTCGGCATGTGACCCGAGGTTCAACTCACCTATCGCAATATGAGTT
1 AAACAGAAACTGAAAATACCTCAGCGCGTGAACCAAGGCTCAACTCACCTCTCGCAATATGAGTT
* * * * *** * * *
125148687 GATTTTTTTGAAAC-GTAAATT-AAAGAACA-AAAATTGAACATACCTC-AGC--GTGTCCTGAG
66 GGTATTTTTGAAACAG-AATTTGAAA-AGCAGATTTTTGAAAATACCTCGA-CATGTGACCCGAG
*
125148746 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT
128 GCTCAACCCACCTCTCGCAATATGAGTTGATTTTTTT
125148783 GAAACATAAA
Statistics
Matches: 282, Mismatches: 41, Indels: 33
0.79 0.12 0.09
Matches are distributed among these distances:
173 41 0.15
174 59 0.21
175 22 0.08
176 10 0.04
178 5 0.02
179 1 0.00
180 9 0.03
183 61 0.22
184 13 0.05
185 61 0.22
ACGTcount: A:0.33, C:0.19, G:0.18, T:0.29
Consensus pattern (185 bp):
AAACAGAAACTGAAAATACCTCAGCGCGTGAACCAAGGCTCAACTCACCTCTCGCAATATGAGTT
GGTATTTTTGAAACAGAATTTGAAAAGCAGATTTTTGAAAATACCTCGACATGTGACCCGAGGCT
CAACCCACCTCTCGCAATATGAGTTGATTTTTTTTAAAAAAAATGTAAATTGAAG
Found at i:125148597 original size:88 final size:87
Alignment explanation
Indices: 125148227--125148799 Score: 455
Period size: 88 Copynumber: 6.4 Consensus size: 87
125148217 AACTTATTTA
* * * * ** * * **
125148227 TCGCAATATG-GATTGACTCTTGAAAACAGACATTAAAAACAGAAACTGAAAATAGCTCAGCGCG
1 TCGCAATATGAG-TTGATTTTTGAAAACAGAAATTGAAAACAGAATTTGAAAATACCTCGGCATG
* ** *
125148291 TGAGCTAAGGCTCAATTCACCTC
65 TGACCCGAGGCTCAACTCACCTC
* ** * ** * *
125148314 TCGCAATATGAGTTGGTCTTTTTG-AAACTTAATTTGAAAAGTTGATTTTTGAAAATACCTCGAC
1 TCGCAATATGAGTT-G-ATTTTTGAAAACAGAAATTGAAAA-CAGA-ATTTGAAAATACCTCGGC
*
125148378 ATGTGACCCGAGGCTCAACCCACCTC
62 ATGTGACCCGAGGCTCAACTCACCTC
* * * *
125148404 TCGCATTATGAGTTGCTTTTTTTTAAAAAAAATGTAAATTGAAGAAACAGGAA-TTGAAAATACC
1 TCGCAATATGAGTTG---ATTTTT-GAAAACA-G-AAATTG-A-AAACA-GAATTTGAAAATACC
* ** * *
125148468 TCAGTGTGTGAACCAAGGCTCAACTCACCTC
57 TCGGCATGTGACCCGAGGCTCAACTCACCTC
* * *
125148499 TCGCAATATGAGTTGATTTTTGAAAACAGAATTTGCAAAACAGATTTTGAAAATATCTCGGCATG
1 TCGCAATATGAGTTGATTTTTGAAAACAGAAATTG-AAAACAGAATTTGAAAATACCTCGGCATG
125148564 TGACCCGAGGCTCAACTCACCTC
65 TGACCCGAGGCTCAACTCACCTC
**
125148587 TCGCAATATGAGTTGATTTTTGAAGAGTAGAAATT--AAACAGAATTTGAAAATACCTCGGCATG
1 TCGCAATATGAGTTGATTTTTGAA-AACAGAAATTGAAAACAGAATTTGAAAATACCTCGGCATG
* *
125148650 TGACCCGAGGTTCAACTCACCTA
65 TGACCCGAGGCTCAACTCACCTC
* * * * *
125148673 TCGCAATATGAGTTGATTTTTTTG-AAAC-GTAAATTAAAGAACAAAAATTGAACATACCTCAGC
1 TCGCAATATGAGTTGA--TTTTTGAAAACAG-AAATTGAA-AACAGAATTTGAAAATACCTCGGC
* *
125148736 --GTGTCCTGAGGCTCAACTCACCTC
62 ATGTGACCCGAGGCTCAACTCACCTC
*
125148760 TCGCAATATGAGTTGATTTTTTTG-AAACATAAATTGAAAA
1 TCGCAATATGAGTTGA--TTTTTGAAAACAGAAATTGAAAA
125148800 TACCTCGGCG
Statistics
Matches: 391, Mismatches: 72, Indels: 47
0.77 0.14 0.09
Matches are distributed among these distances:
85 1 0.00
86 71 0.18
87 70 0.18
88 85 0.22
89 40 0.10
90 45 0.12
91 11 0.03
92 5 0.01
93 3 0.01
95 54 0.14
96 1 0.00
97 5 0.01
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.29
Consensus pattern (87 bp):
TCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAAACAGAATTTGAAAATACCTCGGCATGT
GACCCGAGGCTCAACTCACCTC
Found at i:125148841 original size:75 final size:71
Alignment explanation
Indices: 125148712--125149022 Score: 388
Period size: 73 Copynumber: 4.2 Consensus size: 71
125148702 TAAATTAAAG
* *
125148712 AACAAAAATTGAACATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
1 AACATAAATTGAAAATACCTCAGC--GTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
***
125148777 TTTTTTGA
64 TTTTGAAA
* * * *
125148785 AACATAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAATTCACCTCTAGCAATATGAATTG
1 AACATAAATTGAAAATACCTCAGC--GT--CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
125148850 ATTTTTGAAA
62 ATTTTTGAAA
* * *
125148860 AACATAAGTTGAAAATACCTCAGCATACCCTGAGGCTCAACTCACCTCCCGCAATATGAGTTGAT
1 AACATAAATTGAAAATACCTCAGCGT--CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
125148925 TTTTGAAA
64 TTTTGAAA
*
125148933 AACATAAATTGGAAATACCTCAGCGTGCTCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
1 AACATAAATTGAAAATACCTCAGCGT-C-CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-
125148998 TTTTTTGAAA
63 -TTTTTGAAA
*
125149008 AGCATAAATTGAAAA
1 AACATAAATTGAAAA
125149023 AAACGAAAAT
Statistics
Matches: 208, Mismatches: 25, Indels: 8
0.86 0.10 0.03
Matches are distributed among these distances:
72 1 0.00
73 124 0.60
75 83 0.40
ACGTcount: A:0.34, C:0.21, G:0.16, T:0.29
Consensus pattern (71 bp):
AACATAAATTGAAAATACCTCAGCGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
TTGAAA
Found at i:125149003 original size:148 final size:146
Alignment explanation
Indices: 125148712--125149022 Score: 426
Period size: 148 Copynumber: 2.1 Consensus size: 146
125148702 TAAATTAAAG
* * * ** *
125148712 AACAAAAATTGAACATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
1 AACATAAATTGAAAATACCTCAGCATACCCTGAGGCTCAACTCACCTCCCGCAATATGAGTTGAT
*** * *
125148777 TTTTTTGAAACATAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAATTCACCTCTAGCAAT
66 TTTTGAAAAACATAAATTGAAAATACCTCAGCGTGT-A-CTGAGGCTCAACTCACCTCTAGCAAT
125148842 ATGAATTGATTTTTGAAA
129 ATGAATTGATTTTTGAAA
*
125148860 AACATAAGTTGAAAATACCTCAGCATACCCTGAGGCTCAACTCACCTCCCGCAATATGAGTTGAT
1 AACATAAATTGAAAATACCTCAGCATACCCTGAGGCTCAACTCACCTCCCGCAATATGAGTTGAT
* *
125148925 TTTTGAAAAACATAAATTGGAAATACCTCAGCGTGCT-CTGAGGCTCAACTCACCTCTCGCAATA
66 TTTTGAAAAACATAAATTGAAAATACCTCAGCGTG-TACTGAGGCTCAACTCACCTCTAGCAATA
*
125148989 TGAGTTGATTTTTTTGAAA
130 TGAATTGA--TTTTTGAAA
*
125149008 AGCATAAATTGAAAA
1 AACATAAATTGAAAA
125149023 AAACGAAAAT
Statistics
Matches: 143, Mismatches: 17, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
146 32 0.22
148 110 0.77
149 1 0.01
ACGTcount: A:0.34, C:0.21, G:0.16, T:0.29
Consensus pattern (146 bp):
AACATAAATTGAAAATACCTCAGCATACCCTGAGGCTCAACTCACCTCCCGCAATATGAGTTGAT
TTTTGAAAAACATAAATTGAAAATACCTCAGCGTGTACTGAGGCTCAACTCACCTCTAGCAATAT
GAATTGATTTTTGAAA
Found at i:125155661 original size:46 final size:46
Alignment explanation
Indices: 125155594--125155687 Score: 179
Period size: 46 Copynumber: 2.0 Consensus size: 46
125155584 GCAGAGATGT
*
125155594 CCTTATTTTCGAAATATATTTTCTGACTTGCCATTCGTCCTCTTTC
1 CCTTATTTTCGAAACATATTTTCTGACTTGCCATTCGTCCTCTTTC
125155640 CCTTATTTTCGAAACATATTTTCTGACTTGCCATTCGTCCTCTTTC
1 CCTTATTTTCGAAACATATTTTCTGACTTGCCATTCGTCCTCTTTC
125155686 CC
1 CC
125155688 CACTGTGGTC
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.17, C:0.29, G:0.09, T:0.46
Consensus pattern (46 bp):
CCTTATTTTCGAAACATATTTTCTGACTTGCCATTCGTCCTCTTTC
Found at i:125157497 original size:12 final size:12
Alignment explanation
Indices: 125157465--125157497 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
125157455 TGGGATATGC
*
125157465 AATGAATGAATA
1 AATGAATGCATA
125157477 AATGAATGCATA
1 AATGAATGCATA
125157489 AATGAATGC
1 AATGAATGC
125157498 CAATCATGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.52, C:0.06, G:0.18, T:0.24
Consensus pattern (12 bp):
AATGAATGCATA
Found at i:125161232 original size:2 final size:2
Alignment explanation
Indices: 125161219--125161264 Score: 83
Period size: 2 Copynumber: 23.0 Consensus size: 2
125161209 TAGGTACATA
*
125161219 AT AT AC AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
125161261 AT AT
1 AT AT
125161265 GCATAACATA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:125161336 original size:9 final size:9
Alignment explanation
Indices: 125161322--125161348 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
125161312 CACACACTAA
125161322 TAATAATAG
1 TAATAATAG
125161331 TAATAATAG
1 TAATAATAG
125161340 TAATAATAG
1 TAATAATAG
125161349 AAAGATATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.56, C:0.00, G:0.11, T:0.33
Consensus pattern (9 bp):
TAATAATAG
Found at i:125161360 original size:2 final size:2
Alignment explanation
Indices: 125161353--125161395 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
125161343 TAATAGAAAG
125161353 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
125161395 A
1 A
125161396 CCAAATAACA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:125161786 original size:24 final size:24
Alignment explanation
Indices: 125161751--125161798 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
125161741 AGATATATAC
125161751 ATATATAATAAAATATATG-AATA
1 ATATATAATAAAATATATGTAATA
*
125161774 ATATGATATTAAAATATATGTAATA
1 ATAT-ATAATAAAATATATGTAATA
125161799 CGTATAATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 4 0.18
24 14 0.64
25 4 0.18
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.38
Consensus pattern (24 bp):
ATATATAATAAAATATATGTAATA
Found at i:125161811 original size:24 final size:21
Alignment explanation
Indices: 125161753--125161828 Score: 64
Period size: 24 Copynumber: 3.3 Consensus size: 21
125161743 ATATATACAT
125161753 ATATAATAAAATATATGAATA
1 ATATAATAAAATATATGAATA
125161774 ATATGATATTAAAATATATGTAATA
1 ATAT-A-A-TAAAATATATG-AATA
*
125161799 CGTATAATAAAAATAATAT-ACATA
1 -ATATAAT-AAAAT-ATATGA-ATA
125161823 ATATAA
1 ATATAA
125161829 GAATATAGGA
Statistics
Matches: 45, Mismatches: 2, Indels: 14
0.74 0.03 0.23
Matches are distributed among these distances:
21 4 0.09
22 1 0.02
23 8 0.18
24 20 0.44
25 9 0.20
26 3 0.07
ACGTcount: A:0.58, C:0.03, G:0.05, T:0.34
Consensus pattern (21 bp):
ATATAATAAAATATATGAATA
Found at i:125162094 original size:36 final size:38
Alignment explanation
Indices: 125162044--125162114 Score: 94
Period size: 36 Copynumber: 1.9 Consensus size: 38
125162034 TATGTACTAA
*
125162044 TATTAATAATAAATATAAATA-ATATATACATAGTATGG
1 TATTAATAATAAATATAAATATATA-AAACATAGTATGG
*
125162082 TATTAA-AA-AAATATAGATATATAAAACATAGTA
1 TATTAATAATAAATATAAATATATAAAACATAGTA
125162115 CTAAAATATA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
36 19 0.63
37 5 0.17
38 6 0.20
ACGTcount: A:0.56, C:0.03, G:0.07, T:0.34
Consensus pattern (38 bp):
TATTAATAATAAATATAAATATATAAAACATAGTATGG
Found at i:125162244 original size:27 final size:27
Alignment explanation
Indices: 125162186--125162244 Score: 64
Period size: 27 Copynumber: 2.2 Consensus size: 27
125162176 ATGATGCATA
* * *
125162186 TAATATGATGTTAAGAGTATACATATG
1 TAATATGATATTAAAAGTATACATACG
* **
125162213 AAATATGATATTAAAAGTATGTATACG
1 TAATATGATATTAAAAGTATACATACG
125162240 TAATA
1 TAATA
125162245 CAAAGAATGT
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.46, C:0.03, G:0.15, T:0.36
Consensus pattern (27 bp):
TAATATGATATTAAAAGTATACATACG
Found at i:125162356 original size:17 final size:17
Alignment explanation
Indices: 125162336--125162384 Score: 59
Period size: 17 Copynumber: 3.0 Consensus size: 17
125162326 TAATACTTCA
125162336 TAAATATATATACATAC
1 TAAATATATATACATAC
*
125162353 TAAA-A-ATATACATAA
1 TAAATATATATACATAC
125162368 T-AATAATATATACATAC
1 TAAAT-ATATATACATAC
125162385 AAAGTACACT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
14 2 0.07
15 10 0.37
16 2 0.07
17 13 0.48
ACGTcount: A:0.57, C:0.10, G:0.00, T:0.33
Consensus pattern (17 bp):
TAAATATATATACATAC
Found at i:125162363 original size:15 final size:17
Alignment explanation
Indices: 125162341--125162384 Score: 65
Period size: 15 Copynumber: 2.7 Consensus size: 17
125162331 CTTCATAAAT
125162341 ATATATACATACTAA-A
1 ATATATACATACTAATA
*
125162357 A-ATATACATAATAATA
1 ATATATACATACTAATA
125162373 ATATATACATAC
1 ATATATACATAC
125162385 AAAGTACACT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 12 0.50
16 3 0.12
17 9 0.38
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.32
Consensus pattern (17 bp):
ATATATACATACTAATA
Found at i:125162445 original size:16 final size:18
Alignment explanation
Indices: 125162416--125162451 Score: 58
Period size: 16 Copynumber: 2.1 Consensus size: 18
125162406 ATAATAACAG
125162416 TAAATATAATATTAATAT
1 TAAATATAATATTAATAT
125162434 TAAATA-AA-ATTAATAT
1 TAAATATAATATTAATAT
125162450 TA
1 TA
125162452 CAAATTTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 10 0.56
17 2 0.11
18 6 0.33
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
TAAATATAATATTAATAT
Found at i:125166874 original size:2 final size:2
Alignment explanation
Indices: 125166867--125166901 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
125166857 AAATTTTACT
125166867 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 T
125166902 TATTTGTTTC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:125180775 original size:6 final size:6
Alignment explanation
Indices: 125180764--125180809 Score: 85
Period size: 6 Copynumber: 7.8 Consensus size: 6
125180754 TCCATTTATG
125180764 TTATTT TTATTT TTATTT TTATTT TTA-TT TTATTT TTATTT TTATT
1 TTATTT TTATTT TTATTT TTATTT TTATTT TTATTT TTATTT TTATT
125180810 ATGTTGCTTT
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
5 5 0.13
6 34 0.87
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (6 bp):
TTATTT
Found at i:125180782 original size:11 final size:11
Alignment explanation
Indices: 125180768--125180805 Score: 67
Period size: 11 Copynumber: 3.4 Consensus size: 11
125180758 TTTATGTTAT
125180768 TTTTATTTTTA
1 TTTTATTTTTA
125180779 TTTTTATTTTTA
1 -TTTTATTTTTA
125180791 TTTTATTTTTA
1 TTTTATTTTTA
125180802 TTTT
1 TTTT
125180806 TATTATGTTG
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 15 0.58
12 11 0.42
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (11 bp):
TTTTATTTTTA
Found at i:125180788 original size:17 final size:17
Alignment explanation
Indices: 125180764--125180809 Score: 83
Period size: 17 Copynumber: 2.6 Consensus size: 17
125180754 TCCATTTATG
125180764 TTATTTTTATTTTTATTT
1 TTATTTTTA-TTTTATTT
125180782 TTATTTTTATTTTATTT
1 TTATTTTTATTTTATTT
125180799 TTATTTTTATT
1 TTATTTTTATT
125180810 ATGTTGCTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
17 19 0.68
18 9 0.32
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (17 bp):
TTATTTTTATTTTATTT
Found at i:125192092 original size:16 final size:15
Alignment explanation
Indices: 125192066--125192100 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
125192056 TGATGTGAAT
125192066 AATATAAAATATTAA
1 AATATAAAATATTAA
*
125192081 AATATCAAAATATTAG
1 AATAT-AAAATATTAA
125192097 AATA
1 AATA
125192101 ATAATAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.31
Consensus pattern (15 bp):
AATATAAAATATTAA
Found at i:125192283 original size:22 final size:22
Alignment explanation
Indices: 125192214--125192296 Score: 66
Period size: 22 Copynumber: 3.9 Consensus size: 22
125192204 AATATTACAT
*
125192214 AAATATGTACAT-ATATAA--A
1 AAATATATACATAATATAATTA
* * *
125192233 AAATAAATACGTGATA-ATATTAA
1 AAATATATACATAATATA-ATT-A
*
125192256 AAATATGTACATAATATAATTA
1 AAATATATACATAATATAATTA
*
125192278 AAATATATACATAAGATAA
1 AAATATATACATAATATAA
125192297 CATGTAAATA
Statistics
Matches: 49, Mismatches: 9, Indels: 9
0.73 0.13 0.13
Matches are distributed among these distances:
19 10 0.20
20 4 0.08
22 18 0.37
23 16 0.33
24 1 0.02
ACGTcount: A:0.58, C:0.05, G:0.06, T:0.31
Consensus pattern (22 bp):
AAATATATACATAATATAATTA
Found at i:125192311 original size:2 final size:2
Alignment explanation
Indices: 125192304--125192376 Score: 55
Period size: 2 Copynumber: 37.5 Consensus size: 2
125192294 TAACATGTAA
* * *
125192304 AT AT AT AT AT AT AT AT AT AT AA AT A- AT AT AGT AT -T AA AG AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT
* *
125192345 AT AT AC AT A- AA AT AGT AT A- AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT A
125192377 CGTAATATAG
Statistics
Matches: 57, Mismatches: 8, Indels: 12
0.74 0.10 0.16
Matches are distributed among these distances:
1 4 0.07
2 49 0.86
3 4 0.07
ACGTcount: A:0.55, C:0.01, G:0.04, T:0.40
Consensus pattern (2 bp):
AT
Found at i:125192371 original size:25 final size:25
Alignment explanation
Indices: 125192301--125192374 Score: 80
Period size: 25 Copynumber: 2.9 Consensus size: 25
125192291 AGATAACATG
125192301 TAAATATA-TATATATATATATATAAA
1 TAAA-ATAGTATA-ATATATATATAAA
* * *
125192327 TAATATAGTATTAA-AGATATATACA
1 TAAAATAGTA-TAATATATATATAAA
125192352 TAAAATAGTATAATATATATATA
1 TAAAATAGTATAATATATATATA
125192375 TACGTAATAT
Statistics
Matches: 40, Mismatches: 5, Indels: 7
0.77 0.10 0.13
Matches are distributed among these distances:
24 3 0.08
25 29 0.73
26 6 0.15
27 2 0.05
ACGTcount: A:0.55, C:0.01, G:0.04, T:0.39
Consensus pattern (25 bp):
TAAAATAGTATAATATATATATAAA
Found at i:125192383 original size:25 final size:24
Alignment explanation
Indices: 125192303--125192385 Score: 76
Period size: 25 Copynumber: 3.2 Consensus size: 24
125192293 ATAACATGTA
*
125192303 AATATATATATATATATATATAAAT
1 AATATATA-ATATATATATATACAT
* * *
125192328 AATATAGTATTAAAGATATATACAT
1 AATATA-TAATATATATATATACAT
*
125192353 AAAATAGTATAATATATATATATACGT
1 --AATA-TATAATATATATATATACAT
125192380 AATATA
1 AATATA
125192386 GAATTTAGAA
Statistics
Matches: 46, Mismatches: 8, Indels: 9
0.73 0.13 0.14
Matches are distributed among these distances:
24 2 0.04
25 22 0.48
26 2 0.04
27 18 0.39
28 2 0.04
ACGTcount: A:0.54, C:0.02, G:0.05, T:0.39
Consensus pattern (24 bp):
AATATATAATATATATATATACAT
Found at i:125192449 original size:23 final size:25
Alignment explanation
Indices: 125192406--125192451 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
125192396 TATTCCTAAT
125192406 ATATTAAAAGAATATATATAATATA
1 ATATTAAAAGAATATATATAATATA
*
125192431 ATATTAAGA-AATATA-ATAATA
1 ATATTAAAAGAATATATATAATA
125192452 ACAAAAAAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 6 0.30
25 8 0.40
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (25 bp):
ATATTAAAAGAATATATATAATATA
Found at i:125192961 original size:30 final size:30
Alignment explanation
Indices: 125192920--125192980 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
125192910 AGTGGTGGTG
125192920 GAGCAAGTGTGGCTAGTGGAGTAGGTAGTA
1 GAGCAAGTGTGGCTAGTGGAGTAGGTAGTA
* * *
125192950 GAGCAATTGTGGCTAGTGGAGTTGGTGGTA
1 GAGCAAGTGTGGCTAGTGGAGTAGGTAGTA
125192980 G
1 G
125192981 CAAAGGCTAG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.23, C:0.07, G:0.44, T:0.26
Consensus pattern (30 bp):
GAGCAAGTGTGGCTAGTGGAGTAGGTAGTA
Found at i:125193842 original size:15 final size:16
Alignment explanation
Indices: 125193821--125193869 Score: 55
Period size: 15 Copynumber: 2.9 Consensus size: 16
125193811 TATACTACAA
125193821 AATATTTATTATTAAT
1 AATATTTATTATTAAT
*
125193837 -ATATTTATAATTGTAAT
1 AATATTTATTA-T-TAAT
125193854 AAATATTTATTATTAA
1 -AATATTTATTATTAA
125193870 AATGGACCCT
Statistics
Matches: 27, Mismatches: 2, Indels: 7
0.75 0.06 0.19
Matches are distributed among these distances:
15 9 0.33
16 1 0.04
17 7 0.26
18 1 0.04
19 9 0.33
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (16 bp):
AATATTTATTATTAAT
Done.