Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D11
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: 73211361
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1690000 characters in sequence are not A, C, G, or T
File 87 of 240
Found at i:27407106 original size:30 final size:31
Alignment explanation
Indices: 27407070--27407209 Score: 85
Period size: 31 Copynumber: 4.5 Consensus size: 31
27407060 AAATATTTAA
27407070 TAATTAATATATAATATTTTATTAAA-AATT
1 TAATTAATATATAATATTTTATTAAATAATT
* *
27407100 TAATTAAATATTTATTA-TTTATTTAAAT--TT
1 TAATT-AATATATAATATTTTA-TTAAATAATT
* * ** *
27407130 TAA-TAAAATATTATATCATAATAAATAATT
1 TAATTAATATATAATATTTTATTAAATAATT
* * *
27407160 TAATATATTAAATAAT-TATTATTAAATATATT
1 TAAT-TAATATATAATATTTTATTAAATA-ATT
*
27407192 ATAATTAAAATAATAATA
1 -TAATTAATAT-ATAATA
27407210 ATAAAATCTA
Statistics
Matches: 79, Mismatches: 19, Indels: 20
0.67 0.16 0.17
Matches are distributed among these distances:
28 12 0.15
29 3 0.04
30 19 0.24
31 23 0.29
32 13 0.16
33 9 0.11
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (31 bp):
TAATTAATATATAATATTTTATTAAATAATT
Found at i:27407198 original size:15 final size:14
Alignment explanation
Indices: 27407147--27407216 Score: 61
Period size: 15 Copynumber: 4.7 Consensus size: 14
27407137 ATATTATATC
27407147 ATAA-TAAATAATTT
1 ATAATTAAATAA-TT
27407161 AATATATTAAATAATT
1 -ATA-ATTAAATAATT
*
27407177 ATTATTAAATATATT
1 ATAATTAAATA-ATT
*
27407192 ATAATTAAAATAATA
1 ATAATT-AAATAATT
*
27407207 ATAATAAAAT
1 ATAATTAAAT
27407217 CTAATAATAA
Statistics
Matches: 47, Mismatches: 4, Indels: 9
0.78 0.07 0.15
Matches are distributed among these distances:
14 12 0.26
15 20 0.43
16 8 0.17
17 7 0.15
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
ATAATTAAATAATT
Found at i:27407241 original size:19 final size:17
Alignment explanation
Indices: 27407202--27407249 Score: 53
Period size: 19 Copynumber: 2.7 Consensus size: 17
27407192 ATAATTAAAA
27407202 TAATAAT-AATAAAATC
1 TAATAATAAATAAAATC
*
27407218 TAATAATAAATGAAAATT
1 TAATAATAAAT-AAAATC
27407236 TAAATAATATAATA
1 T-AATAATA-AATA
27407250 TTATATAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
16 7 0.26
17 3 0.11
18 6 0.22
19 8 0.30
20 3 0.11
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.33
Consensus pattern (17 bp):
TAATAATAAATAAAATC
Found at i:27407307 original size:19 final size:21
Alignment explanation
Indices: 27407270--27407308 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 21
27407260 TATAATTAAA
27407270 AAATATATTTAATAAAATATT
1 AAATATATTTAATAAAATATT
27407291 AAATA-ATTTAA-AAAATAT
1 AAATATATTTAATAAAATAT
27407309 AACATAAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 7 0.39
20 6 0.33
21 5 0.28
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (21 bp):
AAATATATTTAATAAAATATT
Found at i:27407318 original size:20 final size:20
Alignment explanation
Indices: 27407240--27407308 Score: 63
Period size: 19 Copynumber: 3.5 Consensus size: 20
27407230 AAAATTTAAA
* *
27407240 TAATATAATATTATATAATT
1 TAATAAAATATTAAATAATT
* **
27407260 T-AT-AATTAAAAAATATATT
1 TAATAAAATATTAAATA-ATT
27407279 TAATAAAATATTAAATAATT
1 TAATAAAATATTAAATAATT
27407299 TAA-AAAATAT
1 TAATAAAATAT
27407309 AACATAAATT
Statistics
Matches: 38, Mismatches: 8, Indels: 7
0.72 0.15 0.13
Matches are distributed among these distances:
18 7 0.18
19 13 0.34
20 9 0.24
21 9 0.24
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (20 bp):
TAATAAAATATTAAATAATT
Found at i:27407377 original size:17 final size:18
Alignment explanation
Indices: 27407350--27407385 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
27407340 AAAATAATTT
27407350 ATTACATATAATTTAATA
1 ATTACATATAATTTAATA
*
27407368 ATTA-ATATAATTTCATA
1 ATTACATATAATTTAATA
27407385 A
1 A
27407386 AATCTTGATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 13 0.76
18 4 0.24
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (18 bp):
ATTACATATAATTTAATA
Found at i:27407400 original size:84 final size:86
Alignment explanation
Indices: 27407312--27407474 Score: 210
Period size: 86 Copynumber: 1.9 Consensus size: 86
27407302 AAAATATAAC
* *
27407312 ATAAATTATATTTTATGAA-TT-TA-AATTTA-AAATAATTTATTACATATAATTTAATAATTA-
1 ATAAATTATATTATATGAATTTATACAATTTATAAATAA--TATTA-ATATAATTTAATAATGAT
27407372 ATATAATTTCATAAAATCTTGATA
63 ATATAATTTCATAAAATCTTGATA
* * * *
27407396 ATAAATTTTCTTATATGAATTTATACAATTTATAATTAATATTAATATAATTTAATAGTGATATA
1 ATAAATTATATTATATGAATTTATACAATTTATAAATAATATTAATATAATTTAATAATGATATA
27407461 TAATTTCATAAAAT
66 TAATTTCATAAAAT
27407475 TGTTAATATA
Statistics
Matches: 68, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
84 16 0.24
85 17 0.25
86 24 0.35
87 6 0.09
88 5 0.07
ACGTcount: A:0.47, C:0.04, G:0.03, T:0.47
Consensus pattern (86 bp):
ATAAATTATATTATATGAATTTATACAATTTATAAATAATATTAATATAATTTAATAATGATATA
TAATTTCATAAAATCTTGATA
Found at i:27415546 original size:21 final size:20
Alignment explanation
Indices: 27415503--27415545 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 20
27415493 TCACGTCAAT
27415503 AAATAATTTAAAAGTTATAA
1 AAATAATTTAAAAGTTATAA
27415523 AAATAAATTGTAAAA-TT-TAA
1 AAAT-AATT-TAAAAGTTATAA
27415543 AAA
1 AAA
27415546 AAAACATGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
20 10 0.48
21 6 0.29
22 5 0.24
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.33
Consensus pattern (20 bp):
AAATAATTTAAAAGTTATAA
Found at i:27417933 original size:24 final size:24
Alignment explanation
Indices: 27417860--27417935 Score: 107
Period size: 24 Copynumber: 3.2 Consensus size: 24
27417850 AATCAAAGTC
** * *
27417860 AAATATATTATGTTAATAAATGCA
1 AAATATATTATACTCATAAATGCT
27417884 AAATATATTATACTCATAAATGCT
1 AAATATATTATACTCATAAATGCT
*
27417908 AAATATATTATACTCATAAATACT
1 AAATATATTATACTCATAAATGCT
27417932 AAAT
1 AAAT
27417936 CTTCTAGAAA
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 47 1.00
ACGTcount: A:0.50, C:0.09, G:0.04, T:0.37
Consensus pattern (24 bp):
AAATATATTATACTCATAAATGCT
Found at i:27423662 original size:21 final size:22
Alignment explanation
Indices: 27423638--27423682 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 22
27423628 TGGAATTTAG
27423638 GGTAATTTTAAATA-TTTTAAA
1 GGTAATTTTAAATATTTTTAAA
* **
27423659 GGTATTTTTCCATATTTTTAAA
1 GGTAATTTTAAATATTTTTAAA
27423681 GG
1 GG
27423683 ATATTTAAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 11 0.55
22 9 0.45
ACGTcount: A:0.33, C:0.04, G:0.13, T:0.49
Consensus pattern (22 bp):
GGTAATTTTAAATATTTTTAAA
Found at i:27438416 original size:91 final size:89
Alignment explanation
Indices: 27438251--27438430 Score: 272
Period size: 91 Copynumber: 2.0 Consensus size: 89
27438241 TAATTAAATA
* *
27438251 CAATTTATTATGTACTATTAAAAATAATATAATTAACATTTAGACTTAAAAAATGTCATTTACTT
1 CAATTTATTATGTACTATTAAAAATAACATAATTAACATTTACACTTAAAAAATGTCATTTACTT
27438316 TTCAAAAAAGCTAATAATTTTAACGT
66 TT--AAAAAGCTAATAATTTTAACGT
*
27438342 CAATTTATTATGTACTATTAAAAATAACATAATTAACATTTACTCTTTAAAAAAATGTCATTTAC
1 CAATTTATTATGTACTATTAAAAATAACATAATTAACATTTACAC-TT-AAAAAATGTCATTTAC
*
27438407 TATTT-AAAAGCTAATGATTTTAAC
64 T-TTTAAAAAGCTAATAATTTTAAC
27438431 CTCCATATTT
Statistics
Matches: 82, Mismatches: 4, Indels: 6
0.89 0.04 0.07
Matches are distributed among these distances:
91 60 0.73
92 2 0.02
93 17 0.21
94 3 0.04
ACGTcount: A:0.44, C:0.11, G:0.05, T:0.40
Consensus pattern (89 bp):
CAATTTATTATGTACTATTAAAAATAACATAATTAACATTTACACTTAAAAAATGTCATTTACTT
TTAAAAAGCTAATAATTTTAACGT
Found at i:27438706 original size:31 final size:31
Alignment explanation
Indices: 27438670--27438735 Score: 89
Period size: 31 Copynumber: 2.1 Consensus size: 31
27438660 TTACAATTCG
*
27438670 GTCACTAAACTATTTGAAA-GTTTTCATTTAA
1 GTCACTAAACTA-TTCAAATGTTTTCATTTAA
* *
27438701 GTCACTGAACTATTCAAATGTTTTTATTTAA
1 GTCACTAAACTATTCAAATGTTTTCATTTAA
27438732 GTCA
1 GTCA
27438736 TTGGACTGTT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
30 5 0.16
31 26 0.84
ACGTcount: A:0.33, C:0.14, G:0.11, T:0.42
Consensus pattern (31 bp):
GTCACTAAACTATTCAAATGTTTTCATTTAA
Found at i:27458361 original size:21 final size:21
Alignment explanation
Indices: 27458337--27458382 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
27458327 AAGAAATAAA
27458337 TTAAAGTGTTTTAATTTCACT
1 TTAAAGTGTTTTAATTTCACT
**
27458358 TTAATTTGTTTTAATTTCACT
1 TTAAAGTGTTTTAATTTCACT
27458379 TTAA
1 TTAA
27458383 TTACAAAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.28, C:0.09, G:0.07, T:0.57
Consensus pattern (21 bp):
TTAAAGTGTTTTAATTTCACT
Found at i:27458362 original size:11 final size:11
Alignment explanation
Indices: 27458346--27458384 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
27458336 ATTAAAGTGT
27458346 TTTAATTTCAC
1 TTTAATTTCAC
**
27458357 TTTAATTT-GT
1 TTTAATTTCAC
27458367 TTTAATTTCAC
1 TTTAATTTCAC
27458378 TTTAATT
1 TTTAATT
27458385 ACAAAATTAC
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
10 8 0.35
11 15 0.65
ACGTcount: A:0.26, C:0.10, G:0.03, T:0.62
Consensus pattern (11 bp):
TTTAATTTCAC
Found at i:27458383 original size:21 final size:21
Alignment explanation
Indices: 27458343--27458384 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
27458333 TAAATTAAAG
27458343 TGTTTTAATTTCACTTTAATT
1 TGTTTTAATTTCACTTTAATT
27458364 TGTTTTAATTTCACTTTAATT
1 TGTTTTAATTTCACTTTAATT
27458385 ACAAAATTAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.24, C:0.10, G:0.05, T:0.62
Consensus pattern (21 bp):
TGTTTTAATTTCACTTTAATT
Found at i:27460663 original size:129 final size:129
Alignment explanation
Indices: 27460410--27460845 Score: 480
Period size: 129 Copynumber: 3.4 Consensus size: 129
27460400 TAAGGCTTAC
* * * * * * ***
27460410 TGATTTACGATCATGAATAACCTTTTCTAAGTTAGATGATTTATGATTGTAACTCCAAACAGCTC
1 TGATTTACAATTATAAATAATC-TTTCTAAGTTAGCTGATTTACGATCACAACTCCAAACAGCTC
*
27460475 ATTAATTTACGATCACAACTGATATTATTAAGACTCGCTGATTTACGATCACAACCTAAGTTCAT
65 ATTGATTTACGATCACAACTGATATTATTAAGACTCGCTGATTTACGATCACAACCTAAGTTCAT
* * * *
27460540 TTATTTACAATTATAAATAATCTTTCTGAGTTAGCTAATTTATGATCACAACTCCAAACAGCTCA
1 TGATTTACAATTATAAATAATCTTTCTAAGTTAGCTGATTTACGATCACAACTCCAAACAGCTCA
* * * * * * * *
27460605 TTGATTTACGATCATAGCTAATATTATTAAGTCTCACTGATTTACAATCACATCCTAAGTTAAT
66 TTGATTTACGATCACAACTGATATTATTAAGACTCGCTGATTTACGATCACAACCTAAGTTCAT
** * * * * * ** *
27460669 TGATTTATGATCATGAATAATATTTCTGAGTTAGCTGGTTTACGAT-AGCAACTTTAAATAGCTC
1 TGATTTACAATTATAAATAATCTTTCTAAGTTAGCTGATTTACGATCA-CAACTCCAAACAGCTC
* * * * * *
27460733 GTTGATTCATGATCACAATTGATATTATTAAGACTCGTTGATTTATGATCACAACCTAAGTTCAT
65 ATTGATTTACGATCACAACTGATATTATTAAGACTCGCTGATTTACGATCACAACCTAAGTTCAT
*
27460798 TGATTTGCAATTATGAAA-AATCTTTCTAAGTTAGCTGATTTACGATCA
1 TGATTTACAATTAT-AAATAATCTTTCTAAGTTAGCTGATTTACGATCA
27460846 TGAACAATCT
Statistics
Matches: 249, Mismatches: 54, Indels: 6
0.81 0.17 0.02
Matches are distributed among these distances:
128 1 0.00
129 228 0.92
130 20 0.08
ACGTcount: A:0.34, C:0.16, G:0.12, T:0.38
Consensus pattern (129 bp):
TGATTTACAATTATAAATAATCTTTCTAAGTTAGCTGATTTACGATCACAACTCCAAACAGCTCA
TTGATTTACGATCACAACTGATATTATTAAGACTCGCTGATTTACGATCACAACCTAAGTTCAT
Found at i:27460837 original size:35 final size:36
Alignment explanation
Indices: 27460798--27460875 Score: 86
Period size: 35 Copynumber: 2.2 Consensus size: 36
27460788 CTAAGTTCAT
* * *
27460798 TGATTTGCAATTATGAAAAATCTT-TCTAAGTTAGC
1 TGATTTACAATCATGAAAAATCTTCCCTAAGTTAGC
* * *
27460833 TGATTTACGATCATGAACAATCTTCCCTGAGTTAGC
1 TGATTTACAATCATGAAAAATCTTCCCTAAGTTAGC
*
27460869 TTATTTA
1 TGATTTA
27460876 TGATCGCAAC
Statistics
Matches: 35, Mismatches: 7, Indels: 1
0.81 0.16 0.02
Matches are distributed among these distances:
35 20 0.57
36 15 0.43
ACGTcount: A:0.31, C:0.15, G:0.14, T:0.40
Consensus pattern (36 bp):
TGATTTACAATCATGAAAAATCTTCCCTAAGTTAGC
Found at i:27462699 original size:28 final size:29
Alignment explanation
Indices: 27462648--27462721 Score: 78
Period size: 28 Copynumber: 2.5 Consensus size: 29
27462638 TGTCCAGTTC
* ***
27462648 TCCTAGATTGGTACCCATGGTTTT-TTTG
1 TCCTAGATTGGTACTCAAAATTTTCTTTG
27462676 TCCTAGATTGGTACTCAAAATTTTCTTTG
1 TCCTAGATTGGTACTCAAAATTTTCTTTG
*
27462705 TCCACTAGTTTGGTACT
1 T-C-CTAGATTGGTACT
27462722 TGAGCCCAAC
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
28 20 0.53
29 5 0.13
30 1 0.03
31 12 0.32
ACGTcount: A:0.19, C:0.19, G:0.18, T:0.45
Consensus pattern (29 bp):
TCCTAGATTGGTACTCAAAATTTTCTTTG
Found at i:27471871 original size:16 final size:16
Alignment explanation
Indices: 27471826--27471932 Score: 69
Period size: 15 Copynumber: 6.6 Consensus size: 16
27471816 TGTATATTTC
27471826 ATTTTTTATTTTTAATA
1 ATTTTTTATTTTTAA-A
** *
27471843 ATTATAGTATTTTTAAG
1 ATT-TTTTATTTTTAAA
27471860 ATTTTTTA-TTTTAAA
1 ATTTTTTATTTTTAAA
** *
27471875 GATTTTTTA-AATT-AT
1 -ATTTTTTATTTTTAAA
*
27471890 ATATTTTTATTTAT-AA
1 AT-TTTTTATTTTTAAA
*
27471906 TTTTTTTATTTTTAAA
1 ATTTTTTATTTTTAAA
27471922 ATATTTTTATT
1 AT-TTTTTATT
27471933 GATTTTTAAT
Statistics
Matches: 68, Mismatches: 16, Indels: 12
0.71 0.17 0.12
Matches are distributed among these distances:
14 2 0.03
15 23 0.34
16 19 0.28
17 14 0.21
18 10 0.15
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (16 bp):
ATTTTTTATTTTTAAA
Found at i:27471873 original size:15 final size:15
Alignment explanation
Indices: 27471853--27471932 Score: 56
Period size: 16 Copynumber: 5.1 Consensus size: 15
27471843 ATTATAGTAT
27471853 TTTTAAGATTTTTTA
1 TTTTAAGATTTTTTA
27471868 TTTTAAAGATTTTTTA
1 TTTT-AAGATTTTTTA
** *
27471884 AATT-ATATATTTTTA
1 TTTTAAGAT-TTTTTA
*
27471899 TTTATAA-TTTTTTTA
1 TTT-TAAGATTTTTTA
*
27471914 TTTTTAAAATATTTTTA
1 -TTTTAAGAT-TTTTTA
27471931 TT
1 TT
27471933 GATTTTTAAT
Statistics
Matches: 51, Mismatches: 7, Indels: 13
0.72 0.10 0.18
Matches are distributed among these distances:
14 3 0.06
15 20 0.39
16 21 0.41
17 7 0.14
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (15 bp):
TTTTAAGATTTTTTA
Found at i:27471937 original size:21 final size:19
Alignment explanation
Indices: 27471905--27471949 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
27471895 TTTATTTATA
27471905 ATTTTTTTATTTTTAAAAT
1 ATTTTTTTATTTTTAAAAT
27471924 ATTTTTATTGATTTTT--AAT
1 ATTTTT-TT-ATTTTTAAAAT
27471943 ATTTTTT
1 ATTTTTT
27471950 GGATTATGAT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
18 1 0.04
19 15 0.62
20 2 0.08
21 6 0.25
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (19 bp):
ATTTTTTTATTTTTAAAAT
Found at i:27472076 original size:11 final size:12
Alignment explanation
Indices: 27472047--27472077 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
27472037 TATATTTATA
27472047 TATTTTTATTTC
1 TATTTTTATTTC
27472059 TATTTTTATTTC
1 TATTTTTATTTC
27472071 TATTTTT
1 TATTTTT
27472078 CGTATACATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.16, C:0.06, G:0.00, T:0.77
Consensus pattern (12 bp):
TATTTTTATTTC
Found at i:27487353 original size:19 final size:20
Alignment explanation
Indices: 27487321--27487358 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
27487311 AACCATAAAC
*
27487321 CCTTAGACCAAAACTTTAAT
1 CCTTAGACCAAAACCTTAAT
*
27487341 CCTT-GACCCAAACCTTAA
1 CCTTAGACCAAAACCTTAA
27487359 ATTGAAACAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 12 0.75
20 4 0.25
ACGTcount: A:0.37, C:0.32, G:0.05, T:0.26
Consensus pattern (20 bp):
CCTTAGACCAAAACCTTAAT
Found at i:27506295 original size:118 final size:118
Alignment explanation
Indices: 27506087--27506434 Score: 602
Period size: 118 Copynumber: 3.0 Consensus size: 118
27506077 TGAGGGAGGG
27506087 AGCTTGATCTATGTTCTTGACTATATTATCACTCGTAAATTGCACCTTCCGTTAATTAGTACTTT
1 AGCTTGATCTATGTTCTTGACTATATTATCACTCGTAAATTGCACCTTCCGTTAATTAGTACTTT
*
27506152 AACTGCCATCAAGCTACAGCTAAGATTCTACGGATACATAGCATACCATTTAA
66 AACTACCATCAAGCTACAGCTAAGATTCTACGGATACATAGCATACCATTTAA
*
27506205 AGCTTGATCTATGTTCTTGACTATGTTATCACTCGTAAATTGCACCTTCCGTTAATTAGTACTTT
1 AGCTTGATCTATGTTCTTGACTATATTATCACTCGTAAATTGCACCTTCCGTTAATTAGTACTTT
*
27506270 AACTACCATCAAGCTACAGCTAAGATTCTAC-GATACATAGCATACCATCTAA
66 AACTACCATCAAGCTACAGCTAAGATTCTACGGATACATAGCATACCATTTAA
*
27506322 AGCTTGATCTATGTTCTTGACTATATTCAGCACTCGTAAATTG------CCGTTAATTAGTACTT
1 AGCTTGATCTATGTTCTTGACTATATT-ATCACTCGTAAATTGCACCTTCCGTTAATTAGTACTT
27506381 TAACTACCATCAAGCTACAGCTAAGATTCTACGGATACATAGCATACCATTTAA
65 TAACTACCATCAAGCTACAGCTAAGATTCTACGGATACATAGCATACCATTTAA
27506435 CTGATGGCAG
Statistics
Matches: 222, Mismatches: 6, Indels: 9
0.94 0.03 0.04
Matches are distributed among these distances:
112 48 0.22
113 20 0.09
117 46 0.21
118 108 0.49
ACGTcount: A:0.31, C:0.22, G:0.13, T:0.34
Consensus pattern (118 bp):
AGCTTGATCTATGTTCTTGACTATATTATCACTCGTAAATTGCACCTTCCGTTAATTAGTACTTT
AACTACCATCAAGCTACAGCTAAGATTCTACGGATACATAGCATACCATTTAA
Found at i:27513245 original size:11 final size:11
Alignment explanation
Indices: 27513222--27513261 Score: 50
Period size: 10 Copynumber: 3.9 Consensus size: 11
27513212 AAGAGAATTT
27513222 TTTAA-TAAT-
1 TTTAATTAATA
27513231 TTTAATTAATA
1 TTTAATTAATA
27513242 TTTAATT-ATA
1 TTTAATTAATA
*
27513252 TTTAAATAAT
1 TTTAATTAAT
27513262 TTATTGTCCG
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
9 5 0.19
10 13 0.48
11 9 0.33
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (11 bp):
TTTAATTAATA
Found at i:27513261 original size:21 final size:20
Alignment explanation
Indices: 27513222--27513261 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
27513212 AAGAGAATTT
*
27513222 TTTAATAATTTTAATTAATA
1 TTTAATAATTTTAAATAATA
*
27513242 TTTAATTATATTTAAATAAT
1 TTTAATAAT-TTTAAATAAT
27513262 TTATTGTCCG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (20 bp):
TTTAATAATTTTAAATAATA
Found at i:27513895 original size:22 final size:21
Alignment explanation
Indices: 27513852--27513898 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 21
27513842 TTTTTAATAC
27513852 AAAATAATTCTAATTCATAATT
1 AAAATAATTCTAATTCA-AATT
27513874 AAAATAATTCTCAAATTC-AATT
1 AAAATAATTCT--AATTCAAATT
27513896 AAA
1 AAA
27513899 TGTCTAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
22 18 0.78
24 5 0.22
ACGTcount: A:0.53, C:0.11, G:0.00, T:0.36
Consensus pattern (21 bp):
AAAATAATTCTAATTCAAATT
Found at i:27514940 original size:23 final size:23
Alignment explanation
Indices: 27514914--27514957 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
27514904 GCCACAAAAA
*
27514914 AGTAAAAGCTCGCCAAGTATTCC
1 AGTAAAAGCTCGCAAAGTATTCC
* *
27514937 AGTAAATGCTCTCAAAGTATT
1 AGTAAAAGCTCGCAAAGTATT
27514958 TTATAACTCT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.36, C:0.20, G:0.16, T:0.27
Consensus pattern (23 bp):
AGTAAAAGCTCGCAAAGTATTCC
Found at i:27515129 original size:17 final size:18
Alignment explanation
Indices: 27515098--27515135 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
27515088 CTTTGGGAAT
27515098 TTACACAATCCTCTAAGA
1 TTACACAATCCTCTAAGA
* *
27515116 TTACA-AATCTTCTAATA
1 TTACACAATCCTCTAAGA
27515133 TTA
1 TTA
27515136 GTTTCCATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 13 0.72
18 5 0.28
ACGTcount: A:0.39, C:0.21, G:0.03, T:0.37
Consensus pattern (18 bp):
TTACACAATCCTCTAAGA
Found at i:27516888 original size:26 final size:26
Alignment explanation
Indices: 27516859--27516934 Score: 134
Period size: 26 Copynumber: 2.9 Consensus size: 26
27516849 GAGCAATAAC
27516859 AGGAAGCTCACAAAGAGCCTATAATT
1 AGGAAGCTCACAAAGAGCCTATAATT
*
27516885 AGGAATCTCACAAAGAGCCTATAATT
1 AGGAAGCTCACAAAGAGCCTATAATT
27516911 AGGAAGCTCACAAAGAGCCATATA
1 AGGAAGCTCACAAAGAGCC-TATA
27516935 CGGGTCGCTC
Statistics
Matches: 47, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
26 43 0.91
27 4 0.09
ACGTcount: A:0.43, C:0.20, G:0.18, T:0.18
Consensus pattern (26 bp):
AGGAAGCTCACAAAGAGCCTATAATT
Found at i:27522148 original size:17 final size:18
Alignment explanation
Indices: 27522104--27522148 Score: 53
Period size: 16 Copynumber: 2.7 Consensus size: 18
27522094 ATAAAAATTA
27522104 AATAAATTATA-TTCATT
1 AATAAATTATATTTCATT
*
27522121 AA-AAA-TATATTTTA-T
1 AATAAATTATATTTCATT
27522136 AATAAATTATATT
1 AATAAATTATATT
27522149 AATATTTATT
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
15 7 0.29
16 9 0.38
17 8 0.33
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (18 bp):
AATAAATTATATTTCATT
Found at i:27529779 original size:16 final size:16
Alignment explanation
Indices: 27529760--27529800 Score: 64
Period size: 16 Copynumber: 2.6 Consensus size: 16
27529750 TAATTTGATA
27529760 TAATTTTAATAACAAC
1 TAATTTTAATAACAAC
*
27529776 TAATTTTAATAACAAT
1 TAATTTTAATAACAAC
*
27529792 TAGTTTTAA
1 TAATTTTAA
27529801 GAAAAAAAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.46, C:0.07, G:0.02, T:0.44
Consensus pattern (16 bp):
TAATTTTAATAACAAC
Found at i:27531058 original size:42 final size:42
Alignment explanation
Indices: 27530999--27531090 Score: 166
Period size: 42 Copynumber: 2.2 Consensus size: 42
27530989 AATTATATTT
27530999 ATATATATGCAAATGATTAAATTATGAAATGAGAAATTGTGA
1 ATATATATGCAAATGATTAAATTATGAAATGAGAAATTGTGA
*
27531041 ATATATATGCAAATGATTAAATTATTAAATGAGAAATTGTGA
1 ATATATATGCAAATGATTAAATTATGAAATGAGAAATTGTGA
27531083 ATTATATA
1 A-TATATA
27531091 CATGAAATGT
Statistics
Matches: 48, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
42 42 0.88
43 6 0.12
ACGTcount: A:0.48, C:0.02, G:0.14, T:0.36
Consensus pattern (42 bp):
ATATATATGCAAATGATTAAATTATGAAATGAGAAATTGTGA
Found at i:27531114 original size:42 final size:41
Alignment explanation
Indices: 27530999--27531114 Score: 137
Period size: 42 Copynumber: 2.8 Consensus size: 41
27530989 AATTATATTT
*
27530999 ATATATATGCAAATGATTAAATTATGAAATGAGAAATTGTGA
1 ATATATATGCAAATGATGAAATTATG-AATGAGAAATTGTGA
* *
27531041 ATATATATGCAAATGATTAAATTATTAAATGAGAAATTGTGA
1 ATATATATGCAAATGATGAAATTA-TGAATGAGAAATTGTGA
*
27531083 ATTATATACATG-AAATG-TGATATTATGAATGA
1 A-TATAT--ATGCAAATGATGAAATTATGAATGA
27531115 ATCAATAAAT
Statistics
Matches: 66, Mismatches: 4, Indels: 8
0.85 0.05 0.10
Matches are distributed among these distances:
42 46 0.70
43 12 0.18
44 5 0.08
45 3 0.05
ACGTcount: A:0.47, C:0.03, G:0.16, T:0.35
Consensus pattern (41 bp):
ATATATATGCAAATGATGAAATTATGAATGAGAAATTGTGA
Found at i:27545251 original size:28 final size:28
Alignment explanation
Indices: 27545218--27545280 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
27545208 CAGTAACAAT
* *
27545218 ACAGTGTAAGCCCTGGCCTAATACAGTA
1 ACAGTGTAAGCCCTAGCCCAATACAGTA
** *
27545246 ACAGTGTGGGCCTTAGCCCAATACAGTA
1 ACAGTGTAAGCCCTAGCCCAATACAGTA
27545274 ACAGTGT
1 ACAGTGT
27545281 GGGCCTCAGC
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.30, C:0.24, G:0.24, T:0.22
Consensus pattern (28 bp):
ACAGTGTAAGCCCTAGCCCAATACAGTA
Found at i:27545306 original size:28 final size:28
Alignment explanation
Indices: 27545237--27545306 Score: 95
Period size: 28 Copynumber: 2.5 Consensus size: 28
27545227 GCCCTGGCCT
* *
27545237 AATACAGTAACAGTGTGGGCCTTAGCCC
1 AATACAATAACAGTGTGGGCCTCAGCCC
*
27545265 AATACAGTAACAGTGTGGGCCTCAGCCC
1 AATACAATAACAGTGTGGGCCTCAGCCC
* *
27545293 ATTACAATATCAGT
1 AATACAATAACAGT
27545307 ACAGTGCAAT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.31, C:0.24, G:0.21, T:0.23
Consensus pattern (28 bp):
AATACAATAACAGTGTGGGCCTCAGCCC
Found at i:27545307 original size:34 final size:28
Alignment explanation
Indices: 27545237--27545298 Score: 106
Period size: 28 Copynumber: 2.2 Consensus size: 28
27545227 GCCCTGGCCT
*
27545237 AATACAGTAACAGTGTGGGCCTTAGCCC
1 AATACAGTAACAGTGTGGGCCTCAGCCC
27545265 AATACAGTAACAGTGTGGGCCTCAGCCC
1 AATACAGTAACAGTGTGGGCCTCAGCCC
*
27545293 ATTACA
1 AATACA
27545299 ATATCAGTAC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.31, C:0.26, G:0.23, T:0.21
Consensus pattern (28 bp):
AATACAGTAACAGTGTGGGCCTCAGCCC
Found at i:27545720 original size:27 final size:27
Alignment explanation
Indices: 27545697--27545888 Score: 194
Period size: 27 Copynumber: 7.1 Consensus size: 27
27545687 AGGGGTATAA
*
27545697 CAGTCATTTTACCATATGGAGGTATTT
1 CAGTCATTTTACCCTATGGAGGTATTT
*
27545724 C-GATCATTTTACCCTAT-AAGGGTATTT
1 CAG-TCATTTTACCCTATGGA-GGTATTT
*
27545751 CAGTCATTTTACCCTATGGGGGTATTT
1 CAGTCATTTTACCCTATGGAGGTATTT
* **
27545778 TAGTCATTTTACCCTATAAAGGTATTT
1 CAGTCATTTTACCCTATGGAGGTATTT
* *
27545805 CGGTCATTTTACTCTAT-GAGGGTATTT
1 CAGTCATTTTACCCTATGGA-GGTATTT
* * *
27545832 CAGTTATTTTATCCTATGGGGGTATTT
1 CAGTCATTTTACCCTATGGAGGTATTT
* * *
27545859 CGGTTATTTTATCCTATTGG-GGTATTT
1 CAGTCATTTTACCCTA-TGGAGGTATTT
27545886 CAG
1 CAG
27545889 GGCTCGATCC
Statistics
Matches: 139, Mismatches: 19, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
26 3 0.02
27 131 0.94
28 5 0.04
ACGTcount: A:0.22, C:0.15, G:0.19, T:0.44
Consensus pattern (27 bp):
CAGTCATTTTACCCTATGGAGGTATTT
Found at i:27545886 original size:81 final size:81
Alignment explanation
Indices: 27545688--27545875 Score: 250
Period size: 81 Copynumber: 2.3 Consensus size: 81
27545678 TCATCTCTTA
** * **
27545688 GGGGTATAACAGTCATTTTACCATATGGAGGTATTTCGATCATTTTACCCTATAAGGGTATTTCA
1 GGGGTATTTCAGTCATTTTACCCTATAAAGGTATTTCGATCATTTTACCCTATAAGGGTATTTCA
27545753 GTCATTTTACCCTATG
66 GTCATTTTACCCTATG
* * * *
27545769 GGGGTATTTTAGTCATTTTACCCTATAAAGGTATTTCGGTCATTTTACTCTATGAGGGTATTTCA
1 GGGGTATTTCAGTCATTTTACCCTATAAAGGTATTTCGATCATTTTACCCTATAAGGGTATTTCA
* *
27545834 GTTATTTTATCCTATG
66 GTCATTTTACCCTATG
* * *
27545850 GGGGTATTTCGGTTATTTTATCCTAT
1 GGGGTATTTCAGTCATTTTACCCTAT
27545876 TGGGGTATTT
Statistics
Matches: 92, Mismatches: 15, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
81 92 1.00
ACGTcount: A:0.23, C:0.15, G:0.19, T:0.43
Consensus pattern (81 bp):
GGGGTATTTCAGTCATTTTACCCTATAAAGGTATTTCGATCATTTTACCCTATAAGGGTATTTCA
GTCATTTTACCCTATG
Found at i:27556152 original size:24 final size:24
Alignment explanation
Indices: 27556125--27556177 Score: 97
Period size: 24 Copynumber: 2.2 Consensus size: 24
27556115 CTGAGACCGT
27556125 GTCTCAGTAATAGGAGTACCAACG
1 GTCTCAGTAATAGGAGTACCAACG
*
27556149 GTCTCAGTAGTAGGAGTACCAACG
1 GTCTCAGTAATAGGAGTACCAACG
27556173 GTCTC
1 GTCTC
27556178 GCTGGTCTCC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.23
Consensus pattern (24 bp):
GTCTCAGTAATAGGAGTACCAACG
Found at i:27564753 original size:20 final size:21
Alignment explanation
Indices: 27564730--27564771 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
27564720 ATATGAACTC
27564730 TAAATT-T-GTTATATAATATG
1 TAAATTCTAGTTAT-TAATATG
27564750 TAAATTCTAGTTATTAATATG
1 TAAATTCTAGTTATTAATATG
27564771 T
1 T
27564772 TGATTGTGTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 6 0.30
21 9 0.45
22 5 0.25
ACGTcount: A:0.38, C:0.02, G:0.10, T:0.50
Consensus pattern (21 bp):
TAAATTCTAGTTATTAATATG
Found at i:27564967 original size:21 final size:21
Alignment explanation
Indices: 27564928--27564968 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
27564918 ATAAATTTGC
* *
27564928 TGTGAAAAATGTTGGATATTT
1 TGTGAAAAATGATGAATATTT
*
27564949 TGTGAAATATGATGAATATT
1 TGTGAAAAATGATGAATATT
27564969 CATGTTGGAG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.37, C:0.00, G:0.22, T:0.41
Consensus pattern (21 bp):
TGTGAAAAATGATGAATATTT
Found at i:27565067 original size:19 final size:19
Alignment explanation
Indices: 27565043--27565079 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
27565033 TTTATTAGTA
*
27565043 TAATTTGATTGTTTACTTG
1 TAATTTGATTATTTACTTG
*
27565062 TAATTTGTTTATTTACTT
1 TAATTTGATTATTTACTT
27565080 AATTGTAAAT
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:0.22, C:0.05, G:0.11, T:0.62
Consensus pattern (19 bp):
TAATTTGATTATTTACTTG
Found at i:27565192 original size:115 final size:112
Alignment explanation
Indices: 27564990--27565228 Score: 347
Period size: 115 Copynumber: 2.1 Consensus size: 112
27564980 TGGGTATATT
* * *
27564990 TTAAT-ATATATTTGTAATTATTATAATAAATTAGATTAATATTTTTATTAGTATAATTTGATTG
1 TTAATAATATATTCGTAATTATTATAATAAATTAGATTAATAATTTTATTAGTAAAATTTGATTG
*
27565054 TTTACTTGTAATTTGTTTATTTACTTAATTGTAAATTATTTATTCTA
66 TTTACTTGTAATTTGTTTATTTACTTAAATGTAAATTATTTATTCTA
* *
27565101 TTAGTAATATATTCGTAATTATTATAATAAATTAGATATTGATAATTTTATTAGTAAAAATTAT-
1 TTAATAATATATTCGTAATTATTATAATAAATTAG--ATTAATAATTTTATTAGT-AAAATT-TG
* * *
27565165 ATTGTTTACTTGTAATTTGTTTGTTTACTTAAATGTAAATTTTTTATTTTA
62 ATTGTTTACTTGTAATTTGTTTATTTACTTAAATGTAAATTATTTATTCTA
27565216 TTAATAATATATT
1 TTAATAATATATT
27565229 TAATTTAAAT
Statistics
Matches: 113, Mismatches: 10, Indels: 6
0.88 0.08 0.05
Matches are distributed among these distances:
111 4 0.04
112 28 0.25
114 16 0.14
115 64 0.57
116 1 0.01
ACGTcount: A:0.36, C:0.03, G:0.08, T:0.54
Consensus pattern (112 bp):
TTAATAATATATTCGTAATTATTATAATAAATTAGATTAATAATTTTATTAGTAAAATTTGATTG
TTTACTTGTAATTTGTTTATTTACTTAAATGTAAATTATTTATTCTA
Found at i:27568061 original size:65 final size:64
Alignment explanation
Indices: 27567955--27568082 Score: 193
Period size: 65 Copynumber: 2.0 Consensus size: 64
27567945 TCGCAAGCCA
* * *
27567955 TCTCTAGTCTTGTGTTTAGCTCCATTCTCTCAAATGATATTATTCCCCCACAATATGATGTAGG
1 TCTCTAGTCTTGTGTTTAACTCCATTATCTCAAATGATATTATACCCCCACAATATGATGTAGG
* * *
27568019 TCTCTAGTGCTTGTGTTTAACTCCATTATCTCAAATGTTATTATACCCCCGCGATATGATGTAG
1 TCTCTAGT-CTTGTGTTTAACTCCATTATCTCAAATGATATTATACCCCCACAATATGATGTAG
27568083 ATAAACCTTT
Statistics
Matches: 57, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
64 8 0.14
65 49 0.86
ACGTcount: A:0.23, C:0.23, G:0.15, T:0.39
Consensus pattern (64 bp):
TCTCTAGTCTTGTGTTTAACTCCATTATCTCAAATGATATTATACCCCCACAATATGATGTAGG
Found at i:27569368 original size:26 final size:25
Alignment explanation
Indices: 27569330--27569550 Score: 174
Period size: 26 Copynumber: 8.5 Consensus size: 25
27569320 GGGATGTACT
27569330 TTATTTAGCAGGCCTTGAGTCAGTGA
1 TTATTTAGCAGGCCTTGAG-CAGTGA
* * *
27569356 TTATTTAGTAGGCCTTGAGCCGTCGT
1 TTATTTAGCAGGCCTTGAGCAGT-GA
* *
27569382 TTATTTAGCAGGTCTTGAGCCGGTGA
1 TTATTTAGCAGGCCTTGAG-CAGTGA
** **
27569408 TTATTTAGCAGGCCTTGAGTTGATTT
1 TTATTTAGCAGGCCTTGAGCAG-TGA
* **
27569434 TTATTTAGCAGGGCCTTGAGTCGGTTT
1 TTATTTAGCA-GGCCTTGAG-CAGTGA
* *
27569461 TTATTTACCAGGCCTTGAGCTAGTGT
1 TTATTTAGCAGGCCTTGAGC-AGTGA
* *
27569487 TTATTTAGCA-GCCTTTGAACCGGTGA
1 TTATTTAGCAGGCC-TTG-AGCAGTGA
* *
27569513 TTATTTAGTAGGCTTTGAGCTAGTGA
1 TTATTTAGCAGGCCTTGAGC-AGTGA
*
27569539 TTAGTTAGCAGG
1 TTATTTAGCAGG
27569551 TACTATGTAC
Statistics
Matches: 158, Mismatches: 27, Indels: 20
0.77 0.13 0.10
Matches are distributed among these distances:
25 10 0.06
26 119 0.75
27 28 0.18
28 1 0.01
ACGTcount: A:0.20, C:0.15, G:0.27, T:0.38
Consensus pattern (25 bp):
TTATTTAGCAGGCCTTGAGCAGTGA
Found at i:27569408 original size:52 final size:51
Alignment explanation
Indices: 27569329--27569550 Score: 230
Period size: 52 Copynumber: 4.3 Consensus size: 51
27569319 CGGGATGTAC
* * * *
27569329 TTTATTTAGCAGGCCTTGAGTCAGTGATTATTTAGTAGGCCTTGAGCCGTCG
1 TTTATTTAGCAGGCCTTGAGCCGGTGATTATTTAGCAGGCCTTGAGCAGT-G
* ** *
27569381 TTTATTTAGCAGGTCTTGAGCCGGTGATTATTTAGCAGGCCTTGAGTTGATT
1 TTTATTTAGCAGGCCTTGAGCCGGTGATTATTTAGCAGGCCTTGAGCAG-TG
* ** *
27569433 TTTATTTAGCAGGGCCTTGAGTCGGTTTTTATTTACCAGGCCTTGAGCTAGTG
1 TTTATTTAGCA-GGCCTTGAGCCGGTGATTATTTAGCAGGCCTTGAGC-AGTG
* * *
27569486 TTTATTTAGCA-GCCTTTGAACCGGTGATTATTTAGTAGGCTTTGAGCTAGTG
1 TTTATTTAGCAGGCC-TTGAGCCGGTGATTATTTAGCAGGCCTTGAGC-AGTG
* *
27569538 ATTAGTTAGCAGG
1 TTTATTTAGCAGG
27569551 TACTATGTAC
Statistics
Matches: 141, Mismatches: 24, Indels: 9
0.81 0.14 0.05
Matches are distributed among these distances:
51 3 0.02
52 93 0.66
53 44 0.31
54 1 0.01
ACGTcount: A:0.20, C:0.15, G:0.27, T:0.39
Consensus pattern (51 bp):
TTTATTTAGCAGGCCTTGAGCCGGTGATTATTTAGCAGGCCTTGAGCAGTG
Found at i:27569531 original size:105 final size:104
Alignment explanation
Indices: 27569329--27569531 Score: 275
Period size: 105 Copynumber: 1.9 Consensus size: 104
27569319 CGGGATGTAC
** * *
27569329 TTTATTTAGCAGGCCTTGAGTCAGTGATTATTTAGTAGGCCTTGAGCCGTCGTTTATTTAGCAGG
1 TTTATTTAGCAGGCCTTGAGTCAGTGATTATTTACCAGGCCTTGAGCAGTCGTTTATTTAGCAGC
*
27569394 TCTTGAGCCGGTGATTATTTAGCAGGCCTTGAGTTGATT
66 TCTTGAACCGGTGATTATTTAGCAGGCCTTGAGTTGATT
* **
27569433 TTTATTTAGCAGGGCCTTGAGTCGGTTTTTATTTACCAGGCCTTGAGCTAGT-GTTTATTTAGCA
1 TTTATTTAGCA-GGCCTTGAGTCAGTGATTATTTACCAGGCCTTGAGC-AGTCGTTTATTTAGCA
* *
27569497 GC-CTTTGAACCGGTGATTATTTAGTAGGCTTTGAG
64 GCTC-TTGAACCGGTGATTATTTAGCAGGCCTTGAG
27569532 CTAGTGATTA
Statistics
Matches: 86, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
104 12 0.14
105 72 0.84
106 2 0.02
ACGTcount: A:0.19, C:0.15, G:0.26, T:0.39
Consensus pattern (104 bp):
TTTATTTAGCAGGCCTTGAGTCAGTGATTATTTACCAGGCCTTGAGCAGTCGTTTATTTAGCAGC
TCTTGAACCGGTGATTATTTAGCAGGCCTTGAGTTGATT
Found at i:27576180 original size:11 final size:11
Alignment explanation
Indices: 27576166--27576217 Score: 50
Period size: 11 Copynumber: 4.6 Consensus size: 11
27576156 ATTAATCATT
27576166 TAATAATAAAA
1 TAATAATAAAA
*
27576177 TAATACTAAAAA
1 TAATAAT-AAAA
**
27576189 TCTTAATAAAA
1 TAATAATAAAA
* *
27576200 TATTAATTAAA
1 TAATAATAAAA
27576211 TAATAAT
1 TAATAAT
27576218 TAATTAATTA
Statistics
Matches: 33, Mismatches: 7, Indels: 2
0.79 0.17 0.05
Matches are distributed among these distances:
11 25 0.76
12 8 0.24
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.35
Consensus pattern (11 bp):
TAATAATAAAA
Found at i:27576209 original size:15 final size:16
Alignment explanation
Indices: 27576191--27576236 Score: 51
Period size: 15 Copynumber: 3.0 Consensus size: 16
27576181 ACTAAAAATC
27576191 TTAATAAAAT-ATTAA
1 TTAATAAAATAATTAA
*
27576206 TTAA-ATAATAATTAA
1 TTAATAAAATAATTAA
* *
27576221 TTAATTAATTAATTAA
1 TTAATAAAATAATTAA
27576237 AAATATCACA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
14 4 0.16
15 13 0.52
16 8 0.32
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (16 bp):
TTAATAAAATAATTAA
Found at i:27576216 original size:19 final size:20
Alignment explanation
Indices: 27576192--27576238 Score: 53
Period size: 19 Copynumber: 2.4 Consensus size: 20
27576182 CTAAAAATCT
27576192 TAATAAAAT-ATTAATTAAA
1 TAATAAAATAATTAATTAAA
* *
27576211 TAAT-AATTAATTAATTAAT
1 TAATAAAATAATTAATTAAA
27576230 TAATTAAAA
1 TAA-TAAAA
27576239 ATATCACAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 4
0.76 0.10 0.14
Matches are distributed among these distances:
18 3 0.14
19 16 0.73
20 1 0.05
21 2 0.09
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (20 bp):
TAATAAAATAATTAATTAAA
Found at i:27576221 original size:4 final size:4
Alignment explanation
Indices: 27576201--27576236 Score: 56
Period size: 4 Copynumber: 9.2 Consensus size: 4
27576191 TTAATAAAAT
*
27576201 ATTA ATTA AATA A-TA ATTA ATTA ATTA ATTA ATTA A
1 ATTA ATTA ATTA ATTA ATTA ATTA ATTA ATTA ATTA A
27576237 AAATATCACA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
3 3 0.10
4 27 0.90
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (4 bp):
ATTA
Found at i:27588185 original size:126 final size:126
Alignment explanation
Indices: 27587950--27588209 Score: 355
Period size: 126 Copynumber: 2.1 Consensus size: 126
27587940 CTTTTGGGCT
* *
27587950 GACACTTTCCGAAGTGTTGGGATAGACTTGTCGACATACACTTTGGCCAACTCTTTGTATTAAGG
1 GACACTTTCCGAAGTGTTAGGATAGACTTGTCGACATACACTTTGGCCAACTATTTGTATTAAGG
* *
27588015 TTGGGATAGGTATGCCTAAGGCAACACTTAAATAAGAGTTGGTTTTGTCCAGTACTATGCC
66 TTGGGATAGGCATGCCTAAGGCAACACTTAAATAAGAGTCGGTTTTGTCCAGTACTATGCC
* * *
27588076 GACATTTTCCTAAGTGTTAGGATAGACTTG-CTGACATATGA-TTTGGCCAACTATTTGTA-TAT
1 GACACTTTCCGAAGTGTTAGGATAGACTTGTC-GACATA-CACTTTGGCCAACTATTTGTATTA-
* * ** * *
27588138 GGGTTGGGATATGCATGCCTAAGGCAACACTTAAATAAGAGTCGGTTTTGTCCAACACTATACT
63 AGGTTGGGATAGGCATGCCTAAGGCAACACTTAAATAAGAGTCGGTTTTGTCCAGTACTATGCC
27588202 GACACTTT
1 GACACTTT
27588210 TGGGCTGACA
Statistics
Matches: 117, Mismatches: 14, Indels: 6
0.85 0.10 0.04
Matches are distributed among these distances:
125 3 0.03
126 113 0.97
127 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.22, T:0.33
Consensus pattern (126 bp):
GACACTTTCCGAAGTGTTAGGATAGACTTGTCGACATACACTTTGGCCAACTATTTGTATTAAGG
TTGGGATAGGCATGCCTAAGGCAACACTTAAATAAGAGTCGGTTTTGTCCAGTACTATGCC
Found at i:27590965 original size:15 final size:15
Alignment explanation
Indices: 27590945--27590975 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
27590935 TGTAGCTCTG
27590945 ATACCATTAAATGTA
1 ATACCATTAAATGTA
27590960 ATACCATTAAATGTA
1 ATACCATTAAATGTA
27590975 A
1 A
27590976 CACCTCTAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.48, C:0.13, G:0.06, T:0.32
Consensus pattern (15 bp):
ATACCATTAAATGTA
Found at i:27593716 original size:40 final size:38
Alignment explanation
Indices: 27593662--27593784 Score: 104
Period size: 40 Copynumber: 3.1 Consensus size: 38
27593652 CGTTTGAATT
* *
27593662 AAAAATGCCACTAAAAATCAAGCATTAGCGGCGCTTTTAC
1 AAAAACGCCGCTAAAAATCAAGCATTAGCGGCG-TTTT-C
* * * * *
27593702 AAAAACGCCGCTAAAGATCGAGCATTAGTGGCAAATTTTG
1 AAAAACGCCGCTAAAAATCAAGCATTAGCGGC--GTTTTC
* * *
27593742 GAAAACACCGCCAAAAAT-AAGCATTAGCGGCGTTTTCC
1 AAAAACGCCGCTAAAAATCAAGCATTAGCGGCGTTTT-C
27593780 AAAAA
1 AAAAA
27593785 GCACCACTAA
Statistics
Matches: 64, Mismatches: 16, Indels: 8
0.73 0.18 0.09
Matches are distributed among these distances:
37 4 0.06
38 4 0.06
39 11 0.17
40 41 0.64
41 4 0.06
ACGTcount: A:0.41, C:0.21, G:0.18, T:0.20
Consensus pattern (38 bp):
AAAAACGCCGCTAAAAATCAAGCATTAGCGGCGTTTTC
Found at i:27600161 original size:43 final size:43
Alignment explanation
Indices: 27600096--27600240 Score: 127
Period size: 44 Copynumber: 3.3 Consensus size: 43
27600086 AAGTTATGTT
* * *
27600096 TTTAGCGGTGTTTCTGT-GAGAAGCGCCGCTAAAGGTTTGATC
1 TTTAGCGGCGTTTGTATAGAGAAGCGCCGCTAAAGGTTTGATC
* * *
27600138 TATAGCGGCGTTT-T-TGACGAGAAGCACCGCTAAA-GTTCATGGTC
1 TTTAGCGGCGTTTGTAT-A-GAGAAGCGCCGCTAAAGGTT--TGATC
* * * *
27600182 TTTAGCGGCGTTTGTATAAAAAAGCGCCGCAAAAGGTCTTGTTC
1 TTTAGCGGCGTTTGTATAGAGAAGCGCCGCTAAAGGT-TTGATC
27600226 TTTAGCGGCGTTTGT
1 TTTAGCGGCGTTTGT
27600241 TTCTAAAAAC
Statistics
Matches: 84, Mismatches: 10, Indels: 16
0.76 0.09 0.15
Matches are distributed among these distances:
40 1 0.01
41 1 0.01
42 14 0.17
43 15 0.18
44 47 0.56
45 4 0.05
46 2 0.02
ACGTcount: A:0.22, C:0.18, G:0.28, T:0.32
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTATAGAGAAGCGCCGCTAAAGGTTTGATC
Found at i:27600364 original size:22 final size:22
Alignment explanation
Indices: 27600332--27600375 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
27600322 TAGCGGTGCT
*
27600332 AAAAAGCGCCGCTAAAGGCCTA
1 AAAAAGCGCCGCTAAAAGCCTA
*
27600354 AAAAAGTGCCGCTAAAAGCCTA
1 AAAAAGCGCCGCTAAAAGCCTA
27600376 TTTTGGTGTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.43, C:0.25, G:0.20, T:0.11
Consensus pattern (22 bp):
AAAAAGCGCCGCTAAAAGCCTA
Found at i:27612713 original size:40 final size:40
Alignment explanation
Indices: 27612663--27612875 Score: 248
Period size: 40 Copynumber: 5.3 Consensus size: 40
27612653 AAGAAAATGT
* * *
27612663 CCCTAAATGCACATGCGTGCCCCTGATTGTACTTCGGTAC
1 CCCTGAATGCACATACGTGCCCCTGTTTGTACTTCGGTAC
* * *
27612703 CCCTGAATGCACATATG-GGCCCTTTTTGTACTTCGGTAC
1 CCCTGAATGCACATACGTGCCCCTGTTTGTACTTCGGTAC
* * * * *
27612742 CTCTGAATGTACATATGTGCCCCTGTTTGTACTTTGATAC
1 CCCTGAATGCACATACGTGCCCCTGTTTGTACTTCGGTAC
* *
27612782 CCCTGAATGCACATACGTGCCCCTTTTTGTACTTGGGTAC
1 CCCTGAATGCACATACGTGCCCCTGTTTGTACTTCGGTAC
* * * *
27612822 CCCTGAATGCACATACATGCCCCTATTTGTACTTCAGTTC
1 CCCTGAATGCACATACGTGCCCCTGTTTGTACTTCGGTAC
* *
27612862 CCTTGAAGGCACAT
1 CCCTGAATGCACAT
27612876 TTGTGCTCTA
Statistics
Matches: 147, Mismatches: 25, Indels: 2
0.84 0.14 0.01
Matches are distributed among these distances:
39 34 0.23
40 113 0.77
ACGTcount: A:0.20, C:0.29, G:0.18, T:0.32
Consensus pattern (40 bp):
CCCTGAATGCACATACGTGCCCCTGTTTGTACTTCGGTAC
Found at i:27612772 original size:20 final size:20
Alignment explanation
Indices: 27612749--27612813 Score: 51
Period size: 20 Copynumber: 3.2 Consensus size: 20
27612739 TACCTCTGAA
27612749 TGTACATATGTGCCCCTGTT
1 TGTACATATGTGCCCCTGTT
* * **
27612769 TGTAC-TTTGATACCCCTGAA
1 TGTACATATG-TGCCCCTGTT
* * *
27612789 TGCACATACGTGCCCCTTTT
1 TGTACATATGTGCCCCTGTT
27612809 TGTAC
1 TGTAC
27612814 TTGGGTACCC
Statistics
Matches: 31, Mismatches: 12, Indels: 4
0.66 0.26 0.09
Matches are distributed among these distances:
19 3 0.10
20 26 0.84
21 2 0.06
ACGTcount: A:0.18, C:0.28, G:0.17, T:0.37
Consensus pattern (20 bp):
TGTACATATGTGCCCCTGTT
Found at i:27612895 original size:119 final size:119
Alignment explanation
Indices: 27612663--27612901 Score: 268
Period size: 119 Copynumber: 2.0 Consensus size: 119
27612653 AAGAAAATGT
* * *
27612663 CCCTAAATGCACATGCGTGCCCCTGATTGTACTTCGGTACCCCTGAATGCACATATGGGCCCTTT
1 CCCTAAATGCACATACGTGCCCCTGATTGTACTTCGGTACCCCTGAATGCACATATGGCCCCTAT
* * *** * *
27612728 TTGTACTTCGGTACCTCTGAATGTACATATGTGCCCCTGTTTGTACTTTGATAC
66 TTGTACTTCGGTACCTCTGAAGGCACATATGTGCCCCTAAATGCACTTTAATAC
* ** *
27612782 CCCTGAATGCACATACGTGCCCCTTTTTGTACTTGGGTACCCCTGAATGCACATACAT-GCCCCT
1 CCCTAAATGCACATACGTGCCCCTGATTGTACTTCGGTACCCCTGAATGCACAT--ATGGCCCCT
* * * *
27612846 ATTTGTACTTCAGTTCC-CTTGAAGGCACATTTGTG-CTCTAAATGCACTTTAATAC
64 ATTTGTACTTCGGTACCTC-TGAAGGCACATATGTGCCCCTAAATGCACTTTAATAC
27612901 C
1 C
27612902 TCGGTATTGC
Statistics
Matches: 99, Mismatches: 18, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
119 65 0.66
120 32 0.32
121 2 0.02
ACGTcount: A:0.21, C:0.28, G:0.18, T:0.33
Consensus pattern (119 bp):
CCCTAAATGCACATACGTGCCCCTGATTGTACTTCGGTACCCCTGAATGCACATATGGCCCCTAT
TTGTACTTCGGTACCTCTGAAGGCACATATGTGCCCCTAAATGCACTTTAATAC
Found at i:27615409 original size:56 final size:56
Alignment explanation
Indices: 27615339--27615456 Score: 139
Period size: 56 Copynumber: 2.1 Consensus size: 56
27615329 TCTATGCCTG
* * * * *
27615339 TGTGGGTATACTGACTTGGGACACAC-GATCAAACCACACGCCCGTGTGCTAGGCCA
1 TGTGAGTATACTGACTTAGGACACACAG-CCAAACCACACACCCGTATGCTAGGCCA
* * * *
27615395 TGTGAGTATACTGACTTAGGTCACACAGCCAAACTACACATCCGTATGCTAGGCCG
1 TGTGAGTATACTGACTTAGGACACACAGCCAAACCACACACCCGTATGCTAGGCCA
27615451 TGTGAG
1 TGTGAG
27615457 CTATTTGAGC
Statistics
Matches: 52, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
56 51 0.98
57 1 0.02
ACGTcount: A:0.26, C:0.26, G:0.25, T:0.22
Consensus pattern (56 bp):
TGTGAGTATACTGACTTAGGACACACAGCCAAACCACACACCCGTATGCTAGGCCA
Found at i:27616493 original size:25 final size:25
Alignment explanation
Indices: 27616443--27616536 Score: 109
Period size: 25 Copynumber: 3.8 Consensus size: 25
27616433 ATTCATATAT
*
27616443 GCTCATACGAGCTGTA-AACGGGAA
1 GCTCATACGAGCTGAATAACGGGAA
* *
27616467 GCTCCTCCGAGCTGAATAACGGGAA
1 GCTCATACGAGCTGAATAACGGGAA
* * *
27616492 GCTCATAAGAGCTGAATATCGAGAA
1 GCTCATACGAGCTGAATAACGGGAA
* *
27616517 GCTCATGCGAGCTGTATAAC
1 GCTCATACGAGCTGAATAAC
27616537 AGACTGCTCG
Statistics
Matches: 57, Mismatches: 12, Indels: 1
0.81 0.17 0.01
Matches are distributed among these distances:
24 13 0.23
25 44 0.77
ACGTcount: A:0.32, C:0.22, G:0.27, T:0.19
Consensus pattern (25 bp):
GCTCATACGAGCTGAATAACGGGAA
Found at i:27616596 original size:25 final size:24
Alignment explanation
Indices: 27616489--27616606 Score: 94
Period size: 25 Copynumber: 4.8 Consensus size: 24
27616479 TGAATAACGG
* * *
27616489 GAAGCTCATAAGAGCTGAATATCGA
1 GAAGCTCATAAGAGTTGTATAAC-A
** *
27616514 GAAGCTCATGCGAGCTGTATAACA
1 GAAGCTCATAAGAGTTGTATAACA
* *
27616538 GACTGCTCGTAAGAGTTGTATAACA
1 GA-AGCTCATAAGAGTTGTATAACA
*
27616563 GGAAACTCATAAGAGTTGTA-AATCGA
1 -GAAGCTCATAAGAGTTGTATAA-C-A
*
27616589 GAAGCTCATAAGACTTGT
1 GAAGCTCATAAGAGTTGT
27616607 GGTGTGTCCG
Statistics
Matches: 75, Mismatches: 14, Indels: 8
0.77 0.14 0.08
Matches are distributed among these distances:
24 5 0.07
25 67 0.89
26 3 0.04
ACGTcount: A:0.36, C:0.16, G:0.24, T:0.24
Consensus pattern (24 bp):
GAAGCTCATAAGAGTTGTATAACA
Found at i:27618510 original size:5 final size:5
Alignment explanation
Indices: 27618495--27618528 Score: 54
Period size: 5 Copynumber: 7.2 Consensus size: 5
27618485 AAGATTTGGC
27618495 TATAA -ATAA TATAA TATAA TATAA TATAA T-TAA T
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA T
27618529 TATTGTACTA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
4 8 0.29
5 20 0.71
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
TATAA
Found at i:27618640 original size:31 final size:30
Alignment explanation
Indices: 27618605--27618664 Score: 111
Period size: 31 Copynumber: 2.0 Consensus size: 30
27618595 CAGTTAGATG
27618605 CTACAACCCTTTAAGAAAACACATAAAATTC
1 CTACAACCCTTTAAGAAAACACA-AAAATTC
27618636 CTACAACCCTTTAAGAAAACACAAAAATT
1 CTACAACCCTTTAAGAAAACACAAAAATT
27618665 TTATATATAT
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
30 6 0.21
31 23 0.79
ACGTcount: A:0.50, C:0.25, G:0.03, T:0.22
Consensus pattern (30 bp):
CTACAACCCTTTAAGAAAACACAAAAATTC
Found at i:27628560 original size:18 final size:19
Alignment explanation
Indices: 27628522--27628569 Score: 71
Period size: 19 Copynumber: 2.5 Consensus size: 19
27628512 ACTAGAAAAT
27628522 AATTCAAAATAATTTTAAA
1 AATTCAAAATAATTTTAAA
27628541 AATTCAAAAT-ATTTATAAA
1 AATTCAAAATAATTT-TAAA
27628560 AATTCCAAAA
1 AATT-CAAAA
27628570 ATTCATAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
18 4 0.15
19 18 0.67
20 5 0.19
ACGTcount: A:0.58, C:0.08, G:0.00, T:0.33
Consensus pattern (19 bp):
AATTCAAAATAATTTTAAA
Found at i:27628577 original size:19 final size:19
Alignment explanation
Indices: 27628522--27628577 Score: 62
Period size: 19 Copynumber: 2.9 Consensus size: 19
27628512 ACTAGAAAAT
*
27628522 AATTCAAAATAATT-TTAAA
1 AATTCAAAAT-ATTCATAAA
*
27628541 AATTCAAAATATTTATAAA
1 AATTCAAAATATTCATAAA
27628560 AATTCCAAAA-ATTCATAA
1 AATT-CAAAATATTCATAA
27628578 TTTAAAAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
18 3 0.09
19 25 0.76
20 5 0.15
ACGTcount: A:0.57, C:0.09, G:0.00, T:0.34
Consensus pattern (19 bp):
AATTCAAAATATTCATAAA
Found at i:27630703 original size:15 final size:14
Alignment explanation
Indices: 27630674--27630717 Score: 58
Period size: 14 Copynumber: 3.3 Consensus size: 14
27630664 CTTGAGCCTT
27630674 ATTT-ATTTA-TTC
1 ATTTCATTTATTTC
27630686 ATTTCATTTTATTTC
1 ATTTCA-TTTATTTC
27630701 ATTTCATTTATTT-
1 ATTTCATTTATTTC
27630714 ATTT
1 ATTT
27630718 ACAAGAAAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
12 4 0.14
13 5 0.17
14 11 0.38
15 9 0.31
ACGTcount: A:0.23, C:0.09, G:0.00, T:0.68
Consensus pattern (14 bp):
ATTTCATTTATTTC
Found at i:27631297 original size:11 final size:10
Alignment explanation
Indices: 27631249--27631297 Score: 53
Period size: 10 Copynumber: 4.7 Consensus size: 10
27631239 TAACATGTTG
*
27631249 AATTTTAATT
1 AATTTTTATT
*
27631259 AATTTTATAATA
1 AATTTT-T-ATT
27631271 AATTTTTATT
1 AATTTTTATT
27631281 AATTTTTATT
1 AATTTTTATT
*
27631291 TATTTTT
1 AATTTTT
27631298 GACAGATTCG
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
10 24 0.73
11 1 0.03
12 8 0.24
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (10 bp):
AATTTTTATT
Found at i:27634567 original size:237 final size:237
Alignment explanation
Indices: 27634152--27634613 Score: 735
Period size: 237 Copynumber: 1.9 Consensus size: 237
27634142 CGGGAGTAGC
* *
27634152 CATTTTTGAATGTTGTCGTATCCTGCGCGATGTTCCAAGGTTAAAACCCTCGTAATCGTCCTTTG
1 CATTTTTGAATGTTGTCATATCCTGCGCGATGCTCCAAGGTTAAAACCCTCGTAATCGTCCTTTG
* * * *
27634217 GTGGGAACAGTATAGGTACGATCTCGCCTATTACGTTGATCATCTTATGACTAAAATTTTTGTCA
66 GTAGGAACAGTATAGGTACGACCTCGCCTATTACGTTGATCATCTTACGACTAAAATTTTTATCA
*
27634282 GACGAGCCGGGTGGTGGACTTGAATTTCCAACATCATCAGTACTACTGTGTAGAGGCCTTGATGT
131 GACGAGCCGGGTGGTGGACTTGAATTTCCAACATCATCAGTACTACTGTGTAGAGGCCTCGATGT
27634347 CTCATTTATCGGTGGTGGACAGGACCGAGTACCAGGAGTGGA
196 CTCATTTATCGGTGGTGGACAGGACCGAGTACCAGGAGTGGA
* * * * *
27634389 CATTTTTGAATGTTGTCATATCTTGCGTGATGCTCTAGGGTTGAAACCCTCGTAATCGTCCTTTG
1 CATTTTTGAATGTTGTCATATCCTGCGCGATGCTCCAAGGTTAAAACCCTCGTAATCGTCCTTTG
* *
27634454 GTAGGAACAGTATAGGTATGACCTCGCCTATTACGTTGATCGTCTTACGACTAAAATTTTTATCA
66 GTAGGAACAGTATAGGTACGACCTCGCCTATTACGTTGATCATCTTACGACTAAAATTTTTATCA
* * * * * *
27634519 GATGAGTCGGGTGGTGGGCTTGAATTTCCAACATCGTCAGTACTACTGTGTGGAGGCGTCGATGT
131 GACGAGCCGGGTGGTGGACTTGAATTTCCAACATCATCAGTACTACTGTGTAGAGGCCTCGATGT
*
27634584 CTCATTTATCGGTGGTTGACAGGACCGAGT
196 CTCATTTATCGGTGGTGGACAGGACCGAGT
27634614 GGTGGACGAC
Statistics
Matches: 204, Mismatches: 21, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
237 204 1.00
ACGTcount: A:0.23, C:0.19, G:0.26, T:0.32
Consensus pattern (237 bp):
CATTTTTGAATGTTGTCATATCCTGCGCGATGCTCCAAGGTTAAAACCCTCGTAATCGTCCTTTG
GTAGGAACAGTATAGGTACGACCTCGCCTATTACGTTGATCATCTTACGACTAAAATTTTTATCA
GACGAGCCGGGTGGTGGACTTGAATTTCCAACATCATCAGTACTACTGTGTAGAGGCCTCGATGT
CTCATTTATCGGTGGTGGACAGGACCGAGTACCAGGAGTGGA
Found at i:27635181 original size:21 final size:22
Alignment explanation
Indices: 27635155--27635197 Score: 70
Period size: 23 Copynumber: 2.0 Consensus size: 22
27635145 TCGATTTTGG
27635155 TCTTCTTC-TTTTTTTCTTTTT
1 TCTTCTTCATTTTTTTCTTTTT
27635176 TCTTCTTCTATTTTTTTCTTTT
1 TCTTCTTC-ATTTTTTTCTTTT
27635198 GACCGGTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 8 0.40
23 12 0.60
ACGTcount: A:0.02, C:0.19, G:0.00, T:0.79
Consensus pattern (22 bp):
TCTTCTTCATTTTTTTCTTTTT
Found at i:27645977 original size:13 final size:13
Alignment explanation
Indices: 27645961--27645985 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
27645951 GTTTTCAAAG
27645961 TATTTTTTGTTAT
1 TATTTTTTGTTAT
27645974 TATTTTTTGTTA
1 TATTTTTTGTTA
27645986 ATTCTTGTTT
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:0.16, C:0.00, G:0.08, T:0.76
Consensus pattern (13 bp):
TATTTTTTGTTAT
Found at i:27661956 original size:7 final size:7
Alignment explanation
Indices: 27661944--27662003 Score: 120
Period size: 7 Copynumber: 8.6 Consensus size: 7
27661934 TAGTCGATTG
27661944 GTATTTA
1 GTATTTA
27661951 GTATTTA
1 GTATTTA
27661958 GTATTTA
1 GTATTTA
27661965 GTATTTA
1 GTATTTA
27661972 GTATTTA
1 GTATTTA
27661979 GTATTTA
1 GTATTTA
27661986 GTATTTA
1 GTATTTA
27661993 GTATTTA
1 GTATTTA
27662000 GTAT
1 GTAT
27662004 ATAACTAATA
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 53 1.00
ACGTcount: A:0.28, C:0.00, G:0.15, T:0.57
Consensus pattern (7 bp):
GTATTTA
Found at i:27663327 original size:96 final size:96
Alignment explanation
Indices: 27663152--27663597 Score: 345
Period size: 108 Copynumber: 4.2 Consensus size: 96
27663142 TTGAGGTATT
* * * *
27663152 ACTTAACAACCCTAAACTAATTTATTAAAAATTTATAAATTTATAATTTATAATTTAATTGACAA
1 ACTTAAAAACCCTAAACTAATTTACTAAAAATTTATAAATTTATAAATTATAATTAAATTGACAA
27663217 ACCCTAACAAAAACCCTAACCCTAACCCTTA
66 ACCCTAACAAAAACCCTAACCCTAACCCTTA
27663248 ACTTAAAAACCCTAAACTAATTTACTAAAAATTTATAAATTTATAAATTATAATTAAATTTATAA
1 ACTTAAAAACCCTAAACTAATTTACTAAAAATTTATAAATTTATAAA-T-T-A-T-AA--T-T-A
*
27663313 TTTAATTGACAAACCCTAACAAAAACCCTAACCCTAATCCTTA
57 ---AATTGACAAACCCTAACAAAAACCCTAACCCTAACCCTTA
*
27663356 ACTTAAAAACCCTAAACCCTTAACTTAAAAACCCTAAACTAATTTATTAAAAATTTATAAATTTA
1 ACTTAAAAACCCTAAA--C-TAA-TT---TA--CTAAA--AATTTA-T--AAATTTATAAA-TTA
* * ***
27663421 TGATTTATAATT-AAATTTATAATTTAATTGACAAACCCTAACCCTAACCCTAACCCTTA
51 T-AATTA-AATTGACA---A-ACCCT-A---ACAAA----AACCCTAACCCTAACCCTTA
* * *
27663480 ACTTAAAAACCCTAAACTAATTTATTAAAAATTTATAAATTTATAATTTATAATTTAATTGACAA
1 ACTTAAAAACCCTAAACTAATTTACTAAAAATTTATAAATTTATAAATTATAATTAAATTGACAA
27663545 ACCCTAACAAAACTCTAACCCTAACCCTAACCCTTA
66 ACCCTAAC-AAA----AACCCTAACCCTAACCCTTA
27663581 ACTTAAAAACCCTAAAC
1 ACTTAAAAACCCTAAAC
27663598 CCTTAACATA
Statistics
Matches: 287, Mismatches: 23, Indels: 75
0.75 0.06 0.19
Matches are distributed among these distances:
96 44 0.15
97 1 0.00
98 1 0.00
99 1 0.00
100 3 0.01
101 45 0.16
103 2 0.01
104 3 0.01
105 1 0.00
107 4 0.01
108 60 0.21
109 4 0.01
110 11 0.04
111 3 0.01
112 5 0.02
113 11 0.04
115 7 0.02
116 3 0.01
117 8 0.03
119 8 0.03
120 9 0.03
121 4 0.01
122 14 0.05
124 35 0.12
ACGTcount: A:0.46, C:0.20, G:0.01, T:0.33
Consensus pattern (96 bp):
ACTTAAAAACCCTAAACTAATTTACTAAAAATTTATAAATTTATAAATTATAATTAAATTGACAA
ACCCTAACAAAAACCCTAACCCTAACCCTTA
Found at i:27663379 original size:22 final size:22
Alignment explanation
Indices: 27663342--27663394 Score: 90
Period size: 22 Copynumber: 2.5 Consensus size: 22
27663332 CAAAAACCCT
*
27663342 AACCCT-AATCCTTAACTTAAA
1 AACCCTAAACCCTTAACTTAAA
27663363 AACCCTAAACCCTTAACTTAAA
1 AACCCTAAACCCTTAACTTAAA
27663385 AACCCTAAAC
1 AACCCTAAAC
27663395 TAATTTATTA
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
21 6 0.20
22 24 0.80
ACGTcount: A:0.45, C:0.32, G:0.00, T:0.23
Consensus pattern (22 bp):
AACCCTAAACCCTTAACTTAAA
Found at i:27663379 original size:130 final size:124
Alignment explanation
Indices: 27663234--27663496 Score: 429
Period size: 130 Copynumber: 2.1 Consensus size: 124
27663224 CAAAAACCCT
27663234 AACCCT-AACCCTTAACTTAAAAACCCTAAACTAATTTACTAAAAATTTATAAATTTATAAATTA
1 AACCCTAAACCCTTAACTTAAAAACCCTAAACTAATTTACTAAAAATTTATAAATTTATAAATTA
*
27663298 TAATTAAATTTATAATTTAATTGACAAACCCTAACAAAAACCCTAACCCTAATCCTTAACTTAAA
66 TAATTAAATTTATAATTTAATTGACAAACCCT------AACCCTAACCCTAACCCTTAACTTAAA
* * *
27663363 AACCCTAAACCCTTAACTTAAAAACCCTAAACTAATTTATTAAAAATTTATAAATTTATGATTTA
1 AACCCTAAACCCTTAACTTAAAAACCCTAAACTAATTTACTAAAAATTTATAAATTTATAAATTA
27663428 TAATTAAATTTATAATTTAATTGACAAACCCTAACCCTAACCCTAACCCTTAACTTAAA
66 TAATTAAATTTATAATTTAATTGACAAACCCTAACCCTAACCCTAACCCTTAACTTAAA
27663487 AACCCTAAAC
1 AACCCTAAAC
27663497 TAATTTATTA
Statistics
Matches: 129, Mismatches: 4, Indels: 7
0.92 0.03 0.05
Matches are distributed among these distances:
124 36 0.28
129 6 0.05
130 87 0.67
ACGTcount: A:0.46, C:0.21, G:0.01, T:0.32
Consensus pattern (124 bp):
AACCCTAAACCCTTAACTTAAAAACCCTAAACTAATTTACTAAAAATTTATAAATTTATAAATTA
TAATTAAATTTATAATTTAATTGACAAACCCTAACCCTAACCCTAACCCTTAACTTAAA
Found at i:27663405 original size:22 final size:22
Alignment explanation
Indices: 27663353--27663408 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 22
27663343 ACCCTAATCC
**
27663353 TTAACTTAAAAACCCTAAACCC
1 TTAACTTAAAAACCCTAAACAA
27663375 TTAACTTAAAAACCCTAAACTAA
1 TTAACTTAAAAACCCTAAAC-AA
*
27663398 TTTA-TTAAAAA
1 TTAACTTAAAAA
27663409 TTTATAAATT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
22 27 0.90
23 3 0.10
ACGTcount: A:0.50, C:0.21, G:0.00, T:0.29
Consensus pattern (22 bp):
TTAACTTAAAAACCCTAAACAA
Found at i:27663489 original size:102 final size:101
Alignment explanation
Indices: 27663363--27663597 Score: 348
Period size: 102 Copynumber: 2.3 Consensus size: 101
27663353 TTAACTTAAA
*
27663363 AACCCTAAACCCTTAACTTAAAAACCCTAAACTAATTTATTAAAAATTTATAAATTTATGATTTA
1 AACCCT-AACCCTTAACTTAAAAACCCTAAACTAATTTATTAAAAATTTATAAATTTATAATTTA
* * * *
27663428 TAATTAAATTTATAATTTA-ATTGAC-AAACCCTAACCCT
65 TAATTAAATTGACAA---ACACTAACAAAACCCTAACCCT
27663466 AACCCTAACCCTTAACTTAAAAACCCTAAACTAATTTATTAAAAATTTATAAATTTATAATTTAT
1 AACCCTAACCCTTAACTTAAAAACCCTAAACTAATTTATTAAAAATTTATAAATTTATAATTTAT
* * *
27663531 AATTTAATTGACAAACCCTAACAAAACTCTAACCCT
66 AATTAAATTGACAAACACTAACAAAACCCTAACCCT
27663567 AACCCTAACCCTTAACTTAAAAACCCTAAAC
1 AACCCTAACCCTTAACTTAAAAACCCTAAAC
27663598 CCTTAACATA
Statistics
Matches: 122, Mismatches: 8, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
99 1 0.01
100 3 0.02
101 43 0.35
102 69 0.57
103 6 0.05
ACGTcount: A:0.45, C:0.21, G:0.01, T:0.32
Consensus pattern (101 bp):
AACCCTAACCCTTAACTTAAAAACCCTAAACTAATTTATTAAAAATTTATAAATTTATAATTTAT
AATTAAATTGACAAACACTAACAAAACCCTAACCCT
Found at i:27663622 original size:232 final size:232
Alignment explanation
Indices: 27663182--27663619 Score: 614
Period size: 225 Copynumber: 1.9 Consensus size: 232
27663172 TTTATTAAAA
27663182 ATTTATAAATTTATAATTTATAATTTAATTGACAAACCCTAACAAAAACCCTAACCCTAACCCTT
1 ATTTATAAATTTATAATTTATAATTTAATTGACAAACCCT-----AAACCCTAACCCTAACCCTT
*
27663247 AACTTAAAAACCCTAAACTAATTTACTAAAAATTTATAAATTTATAAATTATAATTAAATTTATA
61 AACTTAAAAACCCTAAACTAATTTA-T---AATTTAAAAATTTATAAATTATAATTAAATTTATA
*
27663312 ATTTAATTGACAAACCCTAACAAAAACCCTAACCCTAATCCTTAACTTAAAAACCCTAAACCCTT
122 ATTTAATTGACAAACCCTAACAAAAACCCTAACCCTAACCCTTAACTTAAAAACCCTAAACCCTT
*
27663377 AACTTAAAAACCCTAAACTAATTTATTAAAAATTTATAAATTTATG
187 AACTAAAAAACCCTAAACTAATTTATTAAAAATTTATAAATTTATG
27663423 ATTTAT-AA-TTA-AATTTATAATTTAATTGACAAACCCT-AACCCTAACCCTAACCCTTAACTT
1 ATTTATAAATTTATAATTTATAATTTAATTGACAAACCCTAAACCCTAACCCTAACCCTTAACTT
27663484 AAAAACCCTAAACTAA-TT-T-A-TTAAAAATTTATAAATT-T-A-T-AATTTATAATTTAATTG
66 AAAAACCCTAAACTAATTTATAATTTAAAAATTTATAAATTATAATTAAATTTATAATTTAATTG
27663541 ACAAACCCTAACAAAACTCTAACCCTAACCCTAACCCTTAACTTAAAAACCCTAAACCCTTAAC-
131 ACAAACCCTAAC-AAA----AACCCTAACCCTAACCCTTAACTTAAAAACCCTAAACCCTTAACT
*
27663605 ATAAAAACTCTAAAC
191 A-AAAAACCCTAAAC
27663620 CCTTAACTTA
Statistics
Matches: 187, Mismatches: 4, Indels: 28
0.85 0.02 0.13
Matches are distributed among these distances:
220 29 0.16
221 4 0.02
222 1 0.01
223 1 0.01
224 16 0.09
225 56 0.30
229 1 0.01
231 2 0.01
232 40 0.21
238 26 0.14
239 3 0.02
240 2 0.01
241 6 0.03
ACGTcount: A:0.46, C:0.21, G:0.01, T:0.32
Consensus pattern (232 bp):
ATTTATAAATTTATAATTTATAATTTAATTGACAAACCCTAAACCCTAACCCTAACCCTTAACTT
AAAAACCCTAAACTAATTTATAATTTAAAAATTTATAAATTATAATTAAATTTATAATTTAATTG
ACAAACCCTAACAAAAACCCTAACCCTAACCCTTAACTTAAAAACCCTAAACCCTTAACTAAAAA
ACCCTAAACTAATTTATTAAAAATTTATAAATTTATG
Found at i:27663684 original size:22 final size:21
Alignment explanation
Indices: 27663567--27663681 Score: 151
Period size: 22 Copynumber: 5.4 Consensus size: 21
27663557 CTCTAACCCT
27663567 AACCCTAACCCTTAACTTAAA
1 AACCCTAACCCTTAACTTAAA
*
27663588 AACCCTAAACCCTTAACATAAA
1 AACCCT-AACCCTTAACTTAAA
*
27663610 AACTCTAAACCCTTAACTTAAA
1 AACCCT-AACCCTTAACTTAAA
*
27663632 AACCCTAACCCTTATCTT-AA
1 AACCCTAACCCTTAACTTAAA
* *
27663652 AACATCTAACTCTTAACTTAAA
1 AAC-CCTAACCCTTAACTTAAA
27663674 AACCCTAA
1 AACCCTAA
27663682 ACTAATTTAT
Statistics
Matches: 82, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
20 5 0.06
21 33 0.40
22 44 0.54
ACGTcount: A:0.44, C:0.30, G:0.00, T:0.25
Consensus pattern (21 bp):
AACCCTAACCCTTAACTTAAA
Found at i:27663717 original size:26 final size:26
Alignment explanation
Indices: 27663684--27663735 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
27663674 AACCCTAAAC
27663684 TAATTTATTAAA-A-ATTTATAAATTTA
1 TAATTTA-TAAATATATTTAT-AATTTA
27663710 TAATTTATAAATATATTTATAATTTA
1 TAATTTATAAATATATTTATAATTTA
27663736 ATTGACAAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
25 4 0.17
26 14 0.58
27 6 0.25
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (26 bp):
TAATTTATAAATATATTTATAATTTA
Found at i:27663793 original size:21 final size:21
Alignment explanation
Indices: 27663767--27663836 Score: 106
Period size: 21 Copynumber: 3.4 Consensus size: 21
27663757 CCCTAACCCT
*
27663767 AACCCTAACCCTTAACTTAAA
1 AACCCTAACACTTAACTTAAA
*
27663788 AACCCTAACTCTTAACTTAAA
1 AACCCTAACACTTAACTTAAA
*
27663809 AACCCTAACATTTAACTT-AA
1 AACCCTAACACTTAACTTAAA
27663829 AACCCTAA
1 AACCCTAA
27663837 ACTAATTTAT
Statistics
Matches: 46, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
20 10 0.22
21 36 0.78
ACGTcount: A:0.44, C:0.30, G:0.00, T:0.26
Consensus pattern (21 bp):
AACCCTAACACTTAACTTAAA
Found at i:27663869 original size:155 final size:156
Alignment explanation
Indices: 27663617--27663993 Score: 625
Period size: 155 Copynumber: 2.4 Consensus size: 156
27663607 AAAAACTCTA
* *
27663617 AACCCTTAACTTAAAAACCCTAACCCTTATCTT-AAAACATCTAACTCTTAACTTAAAAACCCTA
1 AACCCTTAACTTAAAAACCCTAACCCTTAACTTAAAAAC-CCTAACTCTTAACTTAAAAACCCTA
*
27663681 AACTAATTTATTAAAAATTTATAAATTTATAATTTATAAATATATTTATAATTTAATTGACAAAC
65 AACTAATTTATTAAAAATTTATAAATTTATAATTTATAAATACATTTATAATTTAATTGACAAAC
*
27663746 CCTAATAAAAACCCTAACCCTAACCCT
130 CCTAACAAAAACCCTAACCCTAACCCT
*
27663773 AACCCTTAACTTAAAAACCCTAACTCTTAACTTAAAAACCCTAACAT-TTAACTT-AAAACCCTA
1 AACCCTTAACTTAAAAACCCTAACCCTTAACTTAAAAACCCTAAC-TCTTAACTTAAAAACCCTA
* *
27663836 AACTAATTTATTAAAAATTTATAAATTTATAATTTATAATTACATTTATAATTTAATTGACAGAC
65 AACTAATTTATTAAAAATTTATAAATTTATAATTTATAAATACATTTATAATTTAATTGACAAAC
27663901 CCTAACAAAAACCCTAACCCTAACCCT
130 CCTAACAAAAACCCTAACCCTAACCCT
* * *
27663928 AACCCTTAACTTAAAAACCCTAACCCTTAACTTAAAAACCCTAACCCTTAAATTAAAAACCTTAA
1 AACCCTTAACTTAAAAACCCTAACCCTTAACTTAAAAACCCTAACTCTTAACTTAAAAACCCTAA
27663993 A
66 A
27663994 ACCATACCAT
Statistics
Matches: 206, Mismatches: 11, Indels: 8
0.92 0.05 0.04
Matches are distributed among these distances:
155 147 0.71
156 53 0.26
157 6 0.03
ACGTcount: A:0.45, C:0.23, G:0.01, T:0.31
Consensus pattern (156 bp):
AACCCTTAACTTAAAAACCCTAACCCTTAACTTAAAAACCCTAACTCTTAACTTAAAAACCCTAA
ACTAATTTATTAAAAATTTATAAATTTATAATTTATAAATACATTTATAATTTAATTGACAAACC
CTAACAAAAACCCTAACCCTAACCCT
Found at i:27663948 original size:21 final size:21
Alignment explanation
Indices: 27663922--27663988 Score: 125
Period size: 21 Copynumber: 3.2 Consensus size: 21
27663912 CCCTAACCCT
27663922 AACCCTAACCCTTAACTTAAA
1 AACCCTAACCCTTAACTTAAA
27663943 AACCCTAACCCTTAACTTAAA
1 AACCCTAACCCTTAACTTAAA
*
27663964 AACCCTAACCCTTAAATTAAA
1 AACCCTAACCCTTAACTTAAA
27663985 AACC
1 AACC
27663989 TTAAAACCAT
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
21 45 1.00
ACGTcount: A:0.45, C:0.33, G:0.00, T:0.22
Consensus pattern (21 bp):
AACCCTAACCCTTAACTTAAA
Found at i:27667322 original size:125 final size:124
Alignment explanation
Indices: 27667094--27667529 Score: 570
Period size: 125 Copynumber: 3.5 Consensus size: 124
27667084 CAAACATGCT
* * * * ** * * *
27667094 ACTGTTGCAAAAGTGCGCCCACGAGGGCGCGGTTTCATAAATTCTTCTGATAAAGCATCCTGCTT
1 ACTGTAGCAAAAGCGCGTCCACGTGGGCGCAATTTAAGAAATTCTTCTGATAAAGCATCCTACTT
* * * * *
27667159 GAAGCATTTTTTATACTATTCATTCAGAAATGTCAACTCAAAATTATATTTTTAGGACCT
66 GAAGCGTTTTTTATACTATTCACTCAGAAACGTCAACTCGAAATTAT-TTTTTAGGACCA
* * *
27667219 ATTGTAGCAAAAGCGTGTCCACGTGGGCGCAATTTAAGAAATTCTTCTAATAAAGCATCCTACTT
1 ACTGTAGCAAAAGCGCGTCCACGTGGGCGCAATTTAAGAAATTCTTCTGATAAAGCATCCTACTT
*
27667284 GAAGCGTTTTTTATACTATTCGCTCAGAAACGTCAACTCGAAATTATTTTTTCAGGACCA
66 GAAGCGTTTTTTATACTATTCACTCAGAAACGTCAACTCGAAATTATTTTTT-AGGACCA
* * * *
27667344 ACTGGAGCAAAAGCACGTCCACGTGGGTGCAATTTTAGAAATTCTTCTGATAAAGCATCC-ATCT
1 ACTGTAGCAAAAGCGCGTCCACGTGGGCGCAATTTAAGAAATTCTTCTGATAAAGCATCCTA-CT
** *
27667408 TGAAGCG-TTTTTATACTATTTTCTCAGAAGCGTCAACTCGAAATTATTTTTTTAGGACCA
65 TGAAGCGTTTTTTATACTATTCACTCAGAAACGTCAACTCGAAATTA-TTTTTTAGGACCA
* * *
27667468 ACTGTAGCAAAAGCGCGTCCACGTGGGCACGATTTCAGAAATTCTTCTGATAAAGCATCCTA
1 ACTGTAGCAAAAGCGCGTCCACGTGGGCGCAATTTAAGAAATTCTTCTGATAAAGCATCCTA
27667530 AACCCTAAAC
Statistics
Matches: 273, Mismatches: 34, Indels: 8
0.87 0.11 0.03
Matches are distributed among these distances:
124 103 0.38
125 170 0.62
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.32
Consensus pattern (124 bp):
ACTGTAGCAAAAGCGCGTCCACGTGGGCGCAATTTAAGAAATTCTTCTGATAAAGCATCCTACTT
GAAGCGTTTTTTATACTATTCACTCAGAAACGTCAACTCGAAATTATTTTTTAGGACCA
Found at i:27667617 original size:21 final size:22
Alignment explanation
Indices: 27667578--27667619 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
27667568 CTTTAAAACC
* *
27667578 CTAAAAACCTTAAACCCTAACT
1 CTAAAAACCTCAAAACCTAACT
27667600 CTAAAAA-CTCAAAACCTAAC
1 CTAAAAACCTCAAAACCTAAC
27667620 AATGGAGAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.50, C:0.31, G:0.00, T:0.19
Consensus pattern (22 bp):
CTAAAAACCTCAAAACCTAACT
Found at i:27669235 original size:12 final size:12
Alignment explanation
Indices: 27669218--27669272 Score: 65
Period size: 12 Copynumber: 4.5 Consensus size: 12
27669208 TCAAAGGTAG
27669218 TTTTTTATTTAT
1 TTTTTTATTTAT
**
27669230 TTTTTTGGCTTAT
1 TTTTTT-ATTTAT
*
27669243 TTATTTATTTAT
1 TTTTTTATTTAT
*
27669255 TTATTTATTTAT
1 TTTTTTATTTAT
27669267 TTTTTT
1 TTTTTT
27669273 GTTTGTTTTA
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
12 27 0.75
13 9 0.25
ACGTcount: A:0.16, C:0.02, G:0.04, T:0.78
Consensus pattern (12 bp):
TTTTTTATTTAT
Found at i:27669246 original size:4 final size:4
Alignment explanation
Indices: 27669239--27669268 Score: 60
Period size: 4 Copynumber: 7.5 Consensus size: 4
27669229 TTTTTTTGGC
27669239 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TT
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TT
27669269 TTTTGTTTGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTAT
Found at i:27670256 original size:21 final size:21
Alignment explanation
Indices: 27670226--27670266 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
27670216 TCTTCTTAGT
27670226 TATTTATTTTAATTTGCTTTC
1 TATTTATTTTAATTTGCTTTC
* * *
27670247 TATTTTTTTTATTTTTCTTT
1 TATTTATTTTAATTTGCTTT
27670267 GCATATTATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.15, C:0.07, G:0.02, T:0.76
Consensus pattern (21 bp):
TATTTATTTTAATTTGCTTTC
Found at i:27670311 original size:24 final size:25
Alignment explanation
Indices: 27670269--27670327 Score: 66
Period size: 24 Copynumber: 2.4 Consensus size: 25
27670259 TTTTCTTTGC
* ** *
27670269 ATATTATTTACTTTTAATTG-CTTT
1 ATATTATTTACCTCAAATTGTCTAT
27670293 ATATTATTTACCTCAAATTGTTCTAT
1 ATATTATTTACCTCAAATTG-TCTAT
27670319 ATATTATTT
1 ATATTATTT
27670328 CGTTTTCTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
24 17 0.59
26 12 0.41
ACGTcount: A:0.29, C:0.10, G:0.03, T:0.58
Consensus pattern (25 bp):
ATATTATTTACCTCAAATTGTCTAT
Found at i:27673904 original size:24 final size:24
Alignment explanation
Indices: 27673796--27673927 Score: 180
Period size: 25 Copynumber: 5.5 Consensus size: 24
27673786 ATACGGAACA
* *
27673796 AATA-CAGAGAGCACAAATGTGCT
1 AATATCAGAGAGCACCAACGTGCT
**
27673819 AA-A-CAGAGAGCACTGACGTGCT
1 AATATCAGAGAGCACCAACGTGCT
27673841 AAATATCAGAGAGCACCAACGTGCT
1 -AATATCAGAGAGCACCAACGTGCT
27673866 AATAATCAGAGAGCACCAACGTGCT
1 AAT-ATCAGAGAGCACCAACGTGCT
*
27673891 AATATCAGAAAGCACCAACGTGCT
1 AATATCAGAGAGCACCAACGTGCT
27673915 AATATCAGAGAGC
1 AATATCAGAGAGC
27673928 GCACTAAAGT
Statistics
Matches: 98, Mismatches: 7, Indels: 7
0.88 0.06 0.06
Matches are distributed among these distances:
22 17 0.17
23 4 0.04
24 36 0.37
25 41 0.42
ACGTcount: A:0.41, C:0.22, G:0.21, T:0.16
Consensus pattern (24 bp):
AATATCAGAGAGCACCAACGTGCT
Found at i:27673910 original size:49 final size:49
Alignment explanation
Indices: 27673795--27673927 Score: 175
Period size: 49 Copynumber: 2.8 Consensus size: 49
27673785 TATACGGAAC
* * * **
27673795 AAATA-CAGAGAGCACAAATGTGCTAA-A-CAGAGAGCACTGACGTGCT
1 AAATATCAGAAAGCACCAACGTGCTAATATCAGAGAGCACCAACGTGCT
*
27673841 AAATATCAGAGAGCACCAACGTGCTAATAATCAGAGAGCACCAACGTGCT
1 AAATATCAGAAAGCACCAACGTGCTAAT-ATCAGAGAGCACCAACGTGCT
27673891 -AATATCAGAAAGCACCAACGTGCTAATATCAGAGAGC
1 AAATATCAGAAAGCACCAACGTGCTAATATCAGAGAGC
27673928 GCACTAAAGT
Statistics
Matches: 78, Mismatches: 5, Indels: 6
0.88 0.06 0.07
Matches are distributed among these distances:
46 5 0.06
47 19 0.24
48 10 0.13
49 27 0.35
50 17 0.22
ACGTcount: A:0.41, C:0.22, G:0.21, T:0.16
Consensus pattern (49 bp):
AAATATCAGAAAGCACCAACGTGCTAATATCAGAGAGCACCAACGTGCT
Found at i:27674764 original size:12 final size:13
Alignment explanation
Indices: 27674747--27674778 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
27674737 GATTTCCATC
27674747 AATTCAAT-CACT
1 AATTCAATCCACT
27674759 AATTC-ATCCACT
1 AATTCAATCCACT
27674771 AATTCAAT
1 AATTCAAT
27674779 ATAAGCTACA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 2 0.11
12 14 0.78
13 2 0.11
ACGTcount: A:0.41, C:0.25, G:0.00, T:0.34
Consensus pattern (13 bp):
AATTCAATCCACT
Found at i:27674966 original size:11 final size:11
Alignment explanation
Indices: 27674950--27674975 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
27674940 TCTTTCTTTC
27674950 TTTCTCCCCTG
1 TTTCTCCCCTG
27674961 TTTCTCCCCTG
1 TTTCTCCCCTG
27674972 TTTC
1 TTTC
27674976 GTTTCAATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.00, C:0.42, G:0.08, T:0.50
Consensus pattern (11 bp):
TTTCTCCCCTG
Found at i:27675045 original size:5 final size:5
Alignment explanation
Indices: 27675035--27675069 Score: 52
Period size: 5 Copynumber: 6.8 Consensus size: 5
27675025 TATATATATA
*
27675035 ATAAT ATAAT ATAAT ATTAT AATAAT ATAAT ATAA
1 ATAAT ATAAT ATAAT ATAAT -ATAAT ATAAT ATAA
27675070 CAACTCACTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
5 23 0.85
6 4 0.15
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
ATAAT
Found at i:27675055 original size:21 final size:22
Alignment explanation
Indices: 27675026--27675069 Score: 81
Period size: 21 Copynumber: 2.0 Consensus size: 22
27675016 CTTTTGCTTT
27675026 ATATATATAATAATATAATATA
1 ATATATATAATAATATAATATA
27675048 ATAT-TATAATAATATAATATA
1 ATATATATAATAATATAATATA
27675069 A
1 A
27675070 CAACTCACTT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 18 0.82
22 4 0.18
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (22 bp):
ATATATATAATAATATAATATA
Found at i:27681161 original size:24 final size:24
Alignment explanation
Indices: 27681053--27681184 Score: 180
Period size: 25 Copynumber: 5.5 Consensus size: 24
27681043 ATACGGAACA
* *
27681053 AATA-CAGAGAGCACAAATGTGCT
1 AATATCAGAGAGCACCAACGTGCT
**
27681076 AA-A-CAGAGAGCACTGACGTGCT
1 AATATCAGAGAGCACCAACGTGCT
27681098 AAATATCAGAGAGCACCAACGTGCT
1 -AATATCAGAGAGCACCAACGTGCT
27681123 AATAATCAGAGAGCACCAACGTGCT
1 AAT-ATCAGAGAGCACCAACGTGCT
*
27681148 AATATCAGAAAGCACCAACGTGCT
1 AATATCAGAGAGCACCAACGTGCT
27681172 AATATCAGAGAGC
1 AATATCAGAGAGC
27681185 GCGCTAAAGT
Statistics
Matches: 98, Mismatches: 7, Indels: 7
0.88 0.06 0.06
Matches are distributed among these distances:
22 17 0.17
23 4 0.04
24 36 0.37
25 41 0.42
ACGTcount: A:0.41, C:0.22, G:0.21, T:0.16
Consensus pattern (24 bp):
AATATCAGAGAGCACCAACGTGCT
Found at i:27681167 original size:49 final size:49
Alignment explanation
Indices: 27681052--27681184 Score: 175
Period size: 49 Copynumber: 2.8 Consensus size: 49
27681042 TATACGGAAC
* * * **
27681052 AAATA-CAGAGAGCACAAATGTGCTAA-A-CAGAGAGCACTGACGTGCT
1 AAATATCAGAAAGCACCAACGTGCTAATATCAGAGAGCACCAACGTGCT
*
27681098 AAATATCAGAGAGCACCAACGTGCTAATAATCAGAGAGCACCAACGTGCT
1 AAATATCAGAAAGCACCAACGTGCTAAT-ATCAGAGAGCACCAACGTGCT
27681148 -AATATCAGAAAGCACCAACGTGCTAATATCAGAGAGC
1 AAATATCAGAAAGCACCAACGTGCTAATATCAGAGAGC
27681185 GCGCTAAAGT
Statistics
Matches: 78, Mismatches: 5, Indels: 6
0.88 0.06 0.07
Matches are distributed among these distances:
46 5 0.06
47 19 0.24
48 10 0.13
49 27 0.35
50 17 0.22
ACGTcount: A:0.41, C:0.22, G:0.21, T:0.16
Consensus pattern (49 bp):
AAATATCAGAAAGCACCAACGTGCTAATATCAGAGAGCACCAACGTGCT
Found at i:27682025 original size:12 final size:13
Alignment explanation
Indices: 27682008--27682039 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
27681998 GATTTCCATC
27682008 AATTCAAT-CACT
1 AATTCAATCCACT
27682020 AATTC-ATCCACT
1 AATTCAATCCACT
27682032 AATTCAAT
1 AATTCAAT
27682040 ATAAGCTACA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 2 0.11
12 14 0.78
13 2 0.11
ACGTcount: A:0.41, C:0.25, G:0.00, T:0.34
Consensus pattern (13 bp):
AATTCAATCCACT
Found at i:27682228 original size:11 final size:11
Alignment explanation
Indices: 27682212--27682237 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
27682202 TCTTTCTTTC
27682212 TTTCTCCCCTG
1 TTTCTCCCCTG
27682223 TTTCTCCCCTG
1 TTTCTCCCCTG
27682234 TTTC
1 TTTC
27682238 GTTTCAATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.00, C:0.42, G:0.08, T:0.50
Consensus pattern (11 bp):
TTTCTCCCCTG
Found at i:27682307 original size:5 final size:5
Alignment explanation
Indices: 27682297--27682331 Score: 52
Period size: 5 Copynumber: 6.8 Consensus size: 5
27682287 TATATATATA
*
27682297 ATAAT ATAAT ATAAT ATTAT AATAAT ATAAT ATAA
1 ATAAT ATAAT ATAAT ATAAT -ATAAT ATAAT ATAA
27682332 CAACTCACTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
5 23 0.85
6 4 0.15
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
ATAAT
Found at i:27682317 original size:21 final size:22
Alignment explanation
Indices: 27682288--27682331 Score: 81
Period size: 21 Copynumber: 2.0 Consensus size: 22
27682278 CTTTTGCTTT
27682288 ATATATATAATAATATAATATA
1 ATATATATAATAATATAATATA
27682310 ATAT-TATAATAATATAATATA
1 ATATATATAATAATATAATATA
27682331 A
1 A
27682332 CAACTCACTT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 18 0.82
22 4 0.18
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (22 bp):
ATATATATAATAATATAATATA
Found at i:27692512 original size:948 final size:948
Alignment explanation
Indices: 27690200--27693111 Score: 4824
Period size: 948 Copynumber: 3.0 Consensus size: 948
27690190 AATTTAAGAT
*
27690200 TGCCTAAAAATGAATGGTGCAATGGAAGCAGCCAATAAAAATATCAAGAAAATTGTGTGGAAAAT
1 TGCCTAAAAATGAATGGTGCAATGGAAGCGGCCAATAAAAATATC------A----G-GGAAAAT
* * *
27690265 GACTGAGACTTACAAGAACTGGCATGAGAAATAAACAGATAAGACTTACAAGGACTTACAATGAC
55 GACTGAGACTTACAAGGACTGGCATGAGAAATAAACAGACAAGACTTACAAGGACTTACAAGGAC
* * *
27690330 TGGAACGAGATGAAAATCAGATGGCTGATGCGTTGGCTACTCTAGCCTCCATGATTAAAATGAAT
120 TGGCACGAGATGAAAATCAGATGGCTGACGCGTTGGCTACTCTAGCCTCCATGATTAAAATGAAC
27690395 AGACAAGAGGACATGAAGCCTATCCAGATGAGCATCTATGAAACCCCAGCTCACTGTTACAATAT
185 AGACAAGAGGACATGAAGCCTATCCAGATGAGCATCTATGAAACCCCAGCTCACTGTTACAATAT
*
27690460 CGAAGAGGGAGAAAAGGATGATAGCCCTTGGTATAAAGATATATTGCTATATGTGAAGAATCGTG
250 CGAAGAGGGAGAAAAGGATGATAGCCCTTGGTATAAAGATATATTGCGATATGTGAAGAATCGTG
27690525 AGTATCCTAACCAGGCAACTGAGAATGATAAAAGGGCTCTGAGAA-ACTAGCCATTGATTATGTC
315 AGTATCCTAA-CAGGCAACTGAGAATGATAAAAGGGCTCTGAGAAGACTAGCCATTGATTATGTC
* * * * *
27690589 TTAGATTGGGACATCTTATATAAAAATGGAAAGGAACATGTACTATTAAGATGTGTGGACGCTGT
379 TTAGATGGGGAGATCTTATATAAAAAGGGAAAGGATCAGGTACTATTAAGATGTGTGGACGCTGT
27690654 GAAGGCTAAGAAAATCTTAGAGGAAGTCCATGAGGGTATTTGCGGAACGCATGCCAGTGGGTTCA
444 GAAGGCTAAGAAAATCTTAGAGGAAGTCCATGAGGGTATTTGCGGAACGCATGCCAGTGGGTTCA
* * *
27690719 CAATGGTTAGACAGATTATGAGGTTCGGGTACTACTGGTCCACCATAGAATGAGATTGTATCAAT
509 CAATGGCTAGACAGATTATGAGGTTCGGGTACTACTGGTCCACCATAGAAGGAGATTGCATCAAT
*
27690784 TATGCCAAGAAGTGCCATAAATGCCAAATTTATGGTGATAAAGTGTATGCACCTCCTTTGCCTCT
574 TATGCCAAGAAGTGCCATAAATGCCAAATTTATGGTGATAAAGTGCATGCACCTCCTTTGCCTCT
* *
27690849 TCATGTTATGACTTCTCCATGGCCTTTCTCTATGTGGGGTAT-GATGTCATTGGGCCAATATTGT
639 TCATGTTATGACTTCTCCATGGCCTTTCTCTATGTGGGGTATGGATGTCATCGGGCCAATATCGT
*
27690913 CGAAGGCTTCTAATGGGCATCGTTTCATCTTTCTGGTTATTGATTACTTCACTAAATGGGTAGAA
704 CGAAGGCTTCTAATAGGCATCGTTTCATCTTTCTGGTTATTGATTACTTCACTAAATGGGTAGAA
27690978 GCTGCTTCGTATGCTAATGTCACAAAGTCAGCAGTCAGCAAGTTCTTGAAAAAGGAGATCATATG
769 GCTGCTTCGTATGCTAATGTCACAAAGTCAGCAGTCAGCAAGTTCTTGAAAAAGGAGATCATATG
* *
27691043 TCGATATGGAATGCCCGAAAGAATCATATCTGACAATAGGTTGAATTTGAACAAGAGCTTAATAG
834 TCGATATGGAATGCCCGAAAGAATCATATCTGACAATGGGTTGAATTTGAACAAGAGCTCAATAG
* * *
27691108 TAGATGTCTGCAGTCAATTTAAGATCAGGCACCATGATTCGTCACCGTAC
899 TGGATGTCTGCAGTCAATTTAAGATCAGACACCATAATTCGTCACCGTAC
*
27691158 TGCCTAAAAATGAATGGTGCAATGGAAGCGGACAATAAAAATATCAAGAAAATTGTGGGAAAAAT
1 TGCCTAAAAATGAATGGTGCAATGGAAGCGGCCAATAAAAATATC------A----GGG-AAAAT
* *
27691223 GACTGAGACTTACAAGGACTGGCATGAGAAATAAATAAACAAGACTTACAAGGACTTACAAGGAC
55 GACTGAGACTTACAAGGACTGGCATGAGAAATAAACAGACAAGACTTACAAGGACTTACAAGGAC
* *
27691288 TGGCACGATATGAAAATCAGATGGCTGACGCATTGGCTACTCTAGCCTCCATGATTAAAATGAAC
120 TGGCACGAGATGAAAATCAGATGGCTGACGCGTTGGCTACTCTAGCCTCCATGATTAAAATGAAC
*
27691353 AGACAAGAGGACATGAAGCCTATCCAGATGAGCATCTATGGAACCCCAGCTCACTGTTACAATAT
185 AGACAAGAGGACATGAAGCCTATCCAGATGAGCATCTATGAAACCCCAGCTCACTGTTACAATAT
* ** * *
27691418 CGAAGAGAGAGAAAATAATGATAGCCCTTGGTATAAAGATATATTGTGATATGTGAAAAATCGTG
250 CGAAGAGGGAGAAAAGGATGATAGCCCTTGGTATAAAGATATATTGCGATATGTGAAGAATCGTG
*
27691483 AGTATCCTAACTAGGCAACTGAGAAGGATAAAAGGGCTCTGAGAAGACTAGCCATTGATTATGTC
315 AGTATCCTAAC-AGGCAACTGAGAATGATAAAAGGGCTCTGAGAAGACTAGCCATTGATTATGTC
* *
27691548 TTAGATGGTGAGATCTTATATAAAAAGGGAAAGGATCAGGTACTATTAAGATGTGTGGATGCTGT
379 TTAGATGGGGAGATCTTATATAAAAAGGGAAAGGATCAGGTACTATTAAGATGTGTGGACGCTGT
* * *
27691613 GAAGGCTAAGAAAATATCAGAGGAAGTCCATGAGGGTATTTGCGGAACGCATGCCAATGGGTTCA
444 GAAGGCTAAGAAAATCTTAGAGGAAGTCCATGAGGGTATTTGCGGAACGCATGCCAGTGGGTTCA
*
27691678 CAATGGCTAGACAGATTATGAGGTTCGGGTACTGCTGGTCCACCATAGAAGGAGATTGCATCAAT
509 CAATGGCTAGACAGATTATGAGGTTCGGGTACTACTGGTCCACCATAGAAGGAGATTGCATCAAT
* **
27691743 TATGCCAAGAAGTGCCATAAATGCCTAATTTATGGTGATAAAGTGCATGCACCTCCTTCACCTCT
574 TATGCCAAGAAGTGCCATAAATGCCAAATTTATGGTGATAAAGTGCATGCACCTCCTTTGCCTCT
* *
27691808 TCATGTTATGACTTCTCCATAGCCTTTCTCTATGTGGGGTATGGATGTCATCGGGCCAATAACGT
639 TCATGTTATGACTTCTCCATGGCCTTTCTCTATGTGGGGTATGGATGTCATCGGGCCAATATCGT
27691873 CGAAGGCTTCTAATAGGCATCGTTTCATCTTTCTGGTTATTGATTACTTCACTAAATGGGTAGAA
704 CGAAGGCTTCTAATAGGCATCGTTTCATCTTTCTGGTTATTGATTACTTCACTAAATGGGTAGAA
* *
27691938 GCTACTTCGTATGCTAATGTCACAAAGTCAGCAGTCAGCAAGTTCTTGAAAAATGAGATCATATG
769 GCTGCTTCGTATGCTAATGTCACAAAGTCAGCAGTCAGCAAGTTCTTGAAAAAGGAGATCATATG
*
27692003 TCGATATGGAATGCTCGAAAGAATCATATCTGACAATGGGTTGAATTTGAACAAGAGCTCAATAG
834 TCGATATGGAATGCCCGAAAGAATCATATCTGACAATGGGTTGAATTTGAACAAGAGCTCAATAG
*
27692068 CGGATGTCTGCAGTCAATTTAAGATCAGACACCATAATTCGTCACCGTAC
899 TGGATGTCTGCAGTCAATTTAAGATCAGACACCATAATTCGTCACCGTAC
* *
27692118 TGCCTAAAAATGAATGGTGCAATAGAAGCGGCCAATAAAAATATC-GGGAAAATGACTAAGACTT
1 TGCCTAAAAATGAATGGTGCAATGGAAGCGGCCAATAAAAATATCAGGGAAAATGACTGAGACTT
* * *
27692182 ATAAGGACTGGCATCAGAAATAAACAGACAATACTTACAAGGACTTACAAGGACTGGCACGAGAT
66 ACAAGGACTGGCATGAGAAATAAACAGACAAGACTTACAAGGACTTACAAGGACTGGCACGAGAT
* *
27692247 GAAAATCAGATGGCTGACGCGTTGGTTACTCTAGCCTCCATGATTAAAATGAACAGACAATAGGA
131 GAAAATCAGATGGCTGACGCGTTGGCTACTCTAGCCTCCATGATTAAAATGAACAGACAAGAGGA
*
27692312 CATGAAGCCTATCCAGATGAGCATCTATGAAATCCCAGCTCACTGTTACAATATCGAAGAGGGAG
196 CATGAAGCCTATCCAGATGAGCATCTATGAAACCCCAGCTCACTGTTACAATATCGAAGAGGGAG
*
27692377 AAAAGGATGATAGCCCTTGGTATAAAGATATATTACGATATGTGAAGAATCGTGAGTATCCTGAA
261 AAAAGGATGATAGCCCTTGGTATAAAGATATATTGCGATATGTGAAGAATCGTGAGTATCCT-AA
* ** * * *
27692442 CAGGTAGGTGAGAATGATAAGAGAGCTCTGAGAAGACTAGCCATTGACTATGTCTTAGATGGGGA
325 CAGGCAACTGAGAATGATAAAAGGGCTCTGAGAAGACTAGCCATTGATTATGTCTTAGATGGGGA
*
27692507 GATCTTATATAAAAAGGGAAAGGATCAGGTACTATTAAGATGTGTGGACGCTATGAAGGCTAAGA
390 GATCTTATATAAAAAGGGAAAGGATCAGGTACTATTAAGATGTGTGGACGCTGTGAAGGCTAAGA
* * *
27692572 AAATCTTAGAGGAGGTCCATGAGAGTATTTGCGGAATGCATGCCAGTGGGTTCACAATGGCTAGA
455 AAATCTTAGAGGAAGTCCATGAGGGTATTTGCGGAACGCATGCCAGTGGGTTCACAATGGCTAGA
*
27692637 CAGATTATGAGATTCGGGTACTACTGGTCCACCATAGAAGGAGATTGCATCAATTATGCCAAGAA
520 CAGATTATGAGGTTCGGGTACTACTGGTCCACCATAGAAGGAGATTGCATCAATTATGCCAAGAA
*
27692702 GTACCATAAATGCCAAATTTATGGTGATAAAGTGCATGCACCTCCTTTGCCTCTTCATGTTATGA
585 GTGCCATAAATGCCAAATTTATGGTGATAAAGTGCATGCACCTCCTTTGCCTCTTCATGTTATGA
27692767 CTTCTCCATGGCCTTTCTCTATGTGGGGTATGGATGTCATCGGGCCAATATCG-CTGAAGGCTTC
650 CTTCTCCATGGCCTTTCTCTATGTGGGGTATGGATGTCATCGGGCCAATATCGTC-GAAGGCTTC
27692831 TAATAGGCATCGTTTCATCTTTCTGGTTATTGATTACTTCACTAAATGGGTAGAAGCTGCTTCGT
714 TAATAGGCATCGTTTCATCTTTCTGGTTATTGATTACTTCACTAAATGGGTAGAAGCTGCTTCGT
* *
27692896 ATGCTAATATCACAAAGTTAGCAGTCAGCAAGTTCTTGAAAAAGGAGATCATATGTCGATATGGA
779 ATGCTAATGTCACAAAGTCAGCAGTCAGCAAGTTCTTGAAAAAGGAGATCATATGTCGATATGGA
* * * *
27692961 ATGCCCGAAAGAATCATATCTGACAATGCGTTGAATTTGAACAACAGTTCAATAGTGGAGGTCTG
844 ATGCCCGAAAGAATCATATCTGACAATGGGTTGAATTTGAACAAGAGCTCAATAGTGGATGTCTG
27693026 CAGTCAATTTAAGATCAGACACCATAATTCGTCACCGTAC
909 CAGTCAATTTAAGATCAGACACCATAATTCGTCACCGTAC
* * *
27693066 TGTCTAAAAATGAATGGTGAAATGGAAGCGGCTAATAAAAATATCA
1 TGCCTAAAAATGAATGGTGCAATGGAAGCGGCCAATAAAAATATCA
27693112 AGAAAATTGT
Statistics
Matches: 1837, Mismatches: 110, Indels: 23
0.93 0.06 0.01
Matches are distributed among these distances:
947 1 0.00
948 883 0.48
949 6 0.00
957 3 0.00
958 345 0.19
959 302 0.16
960 297 0.16
ACGTcount: A:0.34, C:0.17, G:0.23, T:0.26
Consensus pattern (948 bp):
TGCCTAAAAATGAATGGTGCAATGGAAGCGGCCAATAAAAATATCAGGGAAAATGACTGAGACTT
ACAAGGACTGGCATGAGAAATAAACAGACAAGACTTACAAGGACTTACAAGGACTGGCACGAGAT
GAAAATCAGATGGCTGACGCGTTGGCTACTCTAGCCTCCATGATTAAAATGAACAGACAAGAGGA
CATGAAGCCTATCCAGATGAGCATCTATGAAACCCCAGCTCACTGTTACAATATCGAAGAGGGAG
AAAAGGATGATAGCCCTTGGTATAAAGATATATTGCGATATGTGAAGAATCGTGAGTATCCTAAC
AGGCAACTGAGAATGATAAAAGGGCTCTGAGAAGACTAGCCATTGATTATGTCTTAGATGGGGAG
ATCTTATATAAAAAGGGAAAGGATCAGGTACTATTAAGATGTGTGGACGCTGTGAAGGCTAAGAA
AATCTTAGAGGAAGTCCATGAGGGTATTTGCGGAACGCATGCCAGTGGGTTCACAATGGCTAGAC
AGATTATGAGGTTCGGGTACTACTGGTCCACCATAGAAGGAGATTGCATCAATTATGCCAAGAAG
TGCCATAAATGCCAAATTTATGGTGATAAAGTGCATGCACCTCCTTTGCCTCTTCATGTTATGAC
TTCTCCATGGCCTTTCTCTATGTGGGGTATGGATGTCATCGGGCCAATATCGTCGAAGGCTTCTA
ATAGGCATCGTTTCATCTTTCTGGTTATTGATTACTTCACTAAATGGGTAGAAGCTGCTTCGTAT
GCTAATGTCACAAAGTCAGCAGTCAGCAAGTTCTTGAAAAAGGAGATCATATGTCGATATGGAAT
GCCCGAAAGAATCATATCTGACAATGGGTTGAATTTGAACAAGAGCTCAATAGTGGATGTCTGCA
GTCAATTTAAGATCAGACACCATAATTCGTCACCGTAC
Found at i:27695274 original size:132 final size:132
Alignment explanation
Indices: 27695023--27695438 Score: 566
Period size: 132 Copynumber: 3.2 Consensus size: 132
27695013 TGGATTGAAG
* * ** *
27695023 AAGATGGTGAATCTTATCTTCCCGAGGTAGTAGATAAGCAGATTTAAGCCACCAGTCCTGTCTCC
1 AAGACGGTGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCACCAGTCCTATCTCC
* * *
27695088 CTGAGCAGCAGTGGAGTAGGTTGAAGATTATGGATCCTGTCTCCCTAAGCAGTAGTGGAGCAGAT
66 CTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATCCTGTCTCCTTAAGCAGTAGTGGAGCAGAT
*
27695153 CC
131 CA
* * *
27695155 AAGACGGTGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAAATTTAAGCCACCAATCCTATCTTC
1 AAGACGGTGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCACCAGTCCTATCTCC
* *
27695220 CTGAGCAGCAGTGGAGTAGGTTGAAGAATGTAGATCCTGTCTCCTTAAGTAGTAGTGGAGCAGAT
66 CTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATCCTGTCTCCTTAAGCAGTAGTGGAGCAGAT
27695285 CA
131 CA
* * *
27695287 AAGATGGTGAATCTTATCTTCCTAAGGTAGTAGGGAAGCAGATTTAAACCACCAGTCCTATCTCC
1 AAGACGGTGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCACCAGTCCTATCTCC
** * * * * *
27695352 CAAAGTAGCAGTGGAGTAGGTTCAAGATTGTAGATCATGTAT-CTCTGAGCAGTAGTGGAGCAGA
66 CTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATCCTGTCTCCT-TAAGCAGTAGTGGAGCAGA
*
27695416 TCG
130 TCA
* *
27695419 AAGACAGCGAATCTTA-CTTC
1 AAGACGGTGAATCTTATCTTC
27695439 TTCAACGTTA
Statistics
Matches: 250, Mismatches: 33, Indels: 3
0.87 0.12 0.01
Matches are distributed among these distances:
131 6 0.02
132 244 0.98
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.26
Consensus pattern (132 bp):
AAGACGGTGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCACCAGTCCTATCTCC
CTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATCCTGTCTCCTTAAGCAGTAGTGGAGCAGAT
CA
Found at i:27695481 original size:50 final size:50
Alignment explanation
Indices: 27695422--27695586 Score: 213
Period size: 50 Copynumber: 3.3 Consensus size: 50
27695412 CAGATCGAAG
* * * *
27695422 ACAGCGAATCTTACTTCTTCAACGTTACAGTAAAACAGATTGAAGCTACA
1 ACAGCGAATCTTACTTCTCCGACGTTGCAGTAAAACAGATTAAAGCTACA
* * * * * *
27695472 ACAGTGAATCTTACTTCCCCGACGTTGCAGTGAAGCGGGTTAAAGCTACA
1 ACAGCGAATCTTACTTCTCCGACGTTGCAGTAAAACAGATTAAAGCTACA
* * *
27695522 ACAGCGAATCTTAGTTCTCCGACGTTGCAATAAAATAGATTAAAGCTACA
1 ACAGCGAATCTTACTTCTCCGACGTTGCAGTAAAACAGATTAAAGCTACA
27695572 ACAGCGAATCTTACT
1 ACAGCGAATCTTACT
27695587 ACCCTAGCAT
Statistics
Matches: 95, Mismatches: 20, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
50 95 1.00
ACGTcount: A:0.35, C:0.22, G:0.18, T:0.25
Consensus pattern (50 bp):
ACAGCGAATCTTACTTCTCCGACGTTGCAGTAAAACAGATTAAAGCTACA
Found at i:27697078 original size:25 final size:25
Alignment explanation
Indices: 27697024--27697089 Score: 71
Period size: 25 Copynumber: 2.6 Consensus size: 25
27697014 TTTTGAACTT
* *
27697024 ATATTATTTCTTTTAAATTGTTCTA
1 ATATTATTTATTTTAAATTGTTCCA
*
27697049 TTATTATTTATTTTAAATT-TTCCA
1 ATATTATTTATTTTAAATTGTTCCA
**
27697073 CATATTATGCATTTTAA
1 -ATATTATTTATTTTAA
27697090 GCTATATTAA
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
24 4 0.12
25 30 0.88
ACGTcount: A:0.30, C:0.09, G:0.03, T:0.58
Consensus pattern (25 bp):
ATATTATTTATTTTAAATTGTTCCA
Found at i:27697341 original size:23 final size:23
Alignment explanation
Indices: 27697309--27697356 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
27697299 TGGTTATTTA
* *
27697309 TTTTAATTTGCTTTGTATGTTAT
1 TTTTAATTTGCTTTGCATATTAT
*
27697332 TTTTATTTTGCTTTGCATATTAT
1 TTTTAATTTGCTTTGCATATTAT
27697355 TT
1 TT
27697357 ACTTTGATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.17, C:0.06, G:0.10, T:0.67
Consensus pattern (23 bp):
TTTTAATTTGCTTTGCATATTAT
Found at i:27703733 original size:24 final size:24
Alignment explanation
Indices: 27703706--27703754 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
27703696 TAAACAACTT
27703706 TTGAATTAATGGTTTATCATATTA
1 TTGAATTAATGGTTTATCATATTA
27703730 TTGAATTAATGGTTTATCATATTA
1 TTGAATTAATGGTTTATCATATTA
27703754 T
1 T
27703755 AACATGTAGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.33, C:0.04, G:0.12, T:0.51
Consensus pattern (24 bp):
TTGAATTAATGGTTTATCATATTA
Found at i:27704704 original size:26 final size:27
Alignment explanation
Indices: 27704656--27704706 Score: 70
Period size: 26 Copynumber: 1.9 Consensus size: 27
27704646 TAAACCAAAC
*
27704656 TTTTAATAAGCACTTTTCCACAACACT
1 TTTTAATAAGCACTTTTCAACAACACT
27704683 TTTTAA-AAGCACTTCTT-AACAACA
1 TTTTAATAAGCACTT-TTCAACAACA
27704707 ATGCTAAACT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
26 14 0.64
27 8 0.36
ACGTcount: A:0.37, C:0.24, G:0.04, T:0.35
Consensus pattern (27 bp):
TTTTAATAAGCACTTTTCAACAACACT
Found at i:27727213 original size:24 final size:23
Alignment explanation
Indices: 27727186--27727272 Score: 79
Period size: 24 Copynumber: 3.8 Consensus size: 23
27727176 GAGGGTGGTG
* *
27727186 AAGGTGGTGAGGTTGTTGGTAATA
1 AAGGTGGTGAGGGTGTTGG-AGTA
* *
27727210 AAGGTGGTGAGGGTG-AGG-GTG
1 AAGGTGGTGAGGGTGTTGGAGTA
* * *
27727231 AGGGTGGTGAGGTTGCTGGCAGTA
1 AAGGTGGTGAGGGTGTTGG-AGTA
27727255 AAGGTGGTGAGGGTGTTG
1 AAGGTGGTGAGGGTGTTG
27727273 AGGATCAGGG
Statistics
Matches: 49, Mismatches: 11, Indels: 6
0.74 0.17 0.09
Matches are distributed among these distances:
21 14 0.29
22 2 0.04
23 2 0.04
24 31 0.63
ACGTcount: A:0.20, C:0.02, G:0.52, T:0.26
Consensus pattern (23 bp):
AAGGTGGTGAGGGTGTTGGAGTA
Found at i:27727257 original size:45 final size:43
Alignment explanation
Indices: 27727171--27727269 Score: 137
Period size: 45 Copynumber: 2.3 Consensus size: 43
27727161 GGTAATGAAA
* *
27727171 GTGGTGAGGGT-GGTGAAGGTGGTGAGGTTGTTGGTAATAAAG
1 GTGGTGAGGGTGGGTGAAGGTGGTGAGGTTGCTGGCAATAAAG
* *
27727213 GTGGTGAGGGTGAGGGTGAGGGTGGTGAGGTTGCTGGCAGTAAAG
1 GTGGTGAGGGT--GGGTGAAGGTGGTGAGGTTGCTGGCAATAAAG
27727258 GTGGTGAGGGTG
1 GTGGTGAGGGTG
27727270 TTGAGGATCA
Statistics
Matches: 50, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
42 11 0.22
43 1 0.02
45 38 0.76
ACGTcount: A:0.18, C:0.02, G:0.55, T:0.25
Consensus pattern (43 bp):
GTGGTGAGGGTGGGTGAAGGTGGTGAGGTTGCTGGCAATAAAG
Found at i:27728894 original size:21 final size:21
Alignment explanation
Indices: 27728854--27728904 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 21
27728844 ATTTATAACA
* *
27728854 TATTCAATTCTCATCTCTTGC
1 TATTCAAATCTCATCACTTGC
27728875 TATTTCAAATCTCAT-ACTTGC
1 TA-TTCAAATCTCATCACTTGC
27728896 TATTCAAAT
1 TATTCAAAT
27728905 AGCTTTTCAC
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
20 7 0.26
21 9 0.33
22 11 0.41
ACGTcount: A:0.27, C:0.24, G:0.04, T:0.45
Consensus pattern (21 bp):
TATTCAAATCTCATCACTTGC
Found at i:27730069 original size:9 final size:9
Alignment explanation
Indices: 27730055--27730086 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
27730045 TAGTTTCATC
27730055 TTTCTTTCT
1 TTTCTTTCT
27730064 TTTCTTTCT
1 TTTCTTTCT
*
27730073 TTCCTTTCT
1 TTTCTTTCT
27730082 TTTCT
1 TTTCT
27730087 CCCTATTTTG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (9 bp):
TTTCTTTCT
Found at i:27730071 original size:13 final size:13
Alignment explanation
Indices: 27730053--27730083 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
27730043 CCTAGTTTCA
*
27730053 TCTTTCTTTCTTT
1 TCTTTCTTTCCTT
27730066 TCTTTCTTTCCTT
1 TCTTTCTTTCCTT
27730079 TCTTT
1 TCTTT
27730084 TCTCCCTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (13 bp):
TCTTTCTTTCCTT
Found at i:27730141 original size:14 final size:14
Alignment explanation
Indices: 27730122--27730167 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
27730112 TTCTATTCTT
27730122 TATTTATTTTATTA
1 TATTTATTTTATTA
*
27730136 TATTTACTTTATTA
1 TATTTATTTTATTA
* *
27730150 T-TATATTATA-TA
1 TATTTATTTTATTA
27730162 TATTTA
1 TATTTA
27730168 CTTAAATATT
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
12 3 0.12
13 9 0.35
14 14 0.54
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (14 bp):
TATTTATTTTATTA
Found at i:27730177 original size:26 final size:25
Alignment explanation
Indices: 27730125--27730178 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 25
27730115 TATTCTTTAT
* * *
27730125 TTATTTTATTATATTTACTTTATTA
1 TTATATTATTATATTTACTTAAATA
27730150 TTATATTATATATATTTACTTAAATA
1 TTATATTAT-TATATTTACTTAAATA
27730176 TTA
1 TTA
27730179 AGTAATACAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
25 8 0.32
26 17 0.68
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (25 bp):
TTATATTATTATATTTACTTAAATA
Found at i:27730190 original size:26 final size:26
Alignment explanation
Indices: 27730135--27730192 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 26
27730125 TTATTTTATT
* * * *
27730135 ATATTTACTTTATTATTATATTATAT
1 ATATTTACTTAAATATTATATAATAC
27730161 ATATTTACTTAAATATTA-AGTAATAC
1 ATATTTACTTAAATATTATA-TAATAC
27730187 ATATTT
1 ATATTT
27730193 TATTAATATA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
25 1 0.04
26 26 0.96
ACGTcount: A:0.40, C:0.05, G:0.02, T:0.53
Consensus pattern (26 bp):
ATATTTACTTAAATATTATATAATAC
Found at i:27732186 original size:159 final size:158
Alignment explanation
Indices: 27731855--27732313 Score: 561
Period size: 159 Copynumber: 2.9 Consensus size: 158
27731845 AACAAAGGAT
* * * *
27731855 CATGCATTCAACCTAACACAACAGGAGCACAGGTATATCGTAAACACTTTTTCATTGTCAATTCC
1 CATGCATTCAGCCTAACACAACTGGATCACAGGTATATCGTAAACACTTTTT-AATGTCAATTCC
* *
27731920 AAAATATTAAAATCTAATTT-GGGTTCTAATTTTTTTGGTCTTAGTCTGGTACTAGTACGAGAAC
65 AAAATATTTAAATCTAATTTGGGGTTCTGATTTTTTTGGTCTTAGTCTGGTACTAGTACGAGAAC
* * *
27731984 TAGAAACCCAAAAAATAACAACATAACAC
130 TAGAAACCAAAAAAAGAACAACAGAACAC
* * * **
27732013 CATGCATTAAGCCTAATACAACTGGATCACAGGTATATCGTATACACTATTTTAATGTCAATTTA
1 CATGCATTCAGCCTAACACAACTGGATCACAGGTATATCGTAAACACT-TTTTAATGTCAATTCC
* * * *
27732078 AAAATATTTTAATCTAATTTGGGGTTTTGATTTTTTTGGTGTTAGTCTGGTA-TGAGTA-TACGA
65 AAAATATTTAAATCTAATTTGGGGTTCTGATTTTTTTGGTCTTAGTCTGGTACT-AGTACGA-GA
**
27732141 ACTAGAAGTCAAAAAAAGAACAACAGAACAC
128 ACTAGAAACCAAAAAAAGAACAACAGAACAC
* *
27732172 CATGCATTCAGCCTAACACAACTGGATCGCAGGTATATCGTAAACATTTTTTTAATGTCAATTCC
1 CATGCATTCAGCCTAACACAACTGGATCACAGGTATATCGTAAACA-CTTTTTAATGTCAATTCC
* * * * *
27732237 AAATTATTTAAATCTAATTTGGGGTTCTGA--CTTTTGTTCTCT-GTCTGGTACAAGTATGAGAA
65 AAAATATTTAAATCTAATTTGGGGTTCTGATTTTTTTGGTCT-TAGTCTGGTACTAGTACGAGAA
* *
27732299 CTACAAGCCAAAAAA
129 CTAGAAACCAAAAAA
27732314 GGATGGCATA
Statistics
Matches: 256, Mismatches: 37, Indels: 17
0.83 0.12 0.05
Matches are distributed among these distances:
157 35 0.14
158 73 0.29
159 147 0.57
160 1 0.00
ACGTcount: A:0.36, C:0.17, G:0.15, T:0.32
Consensus pattern (158 bp):
CATGCATTCAGCCTAACACAACTGGATCACAGGTATATCGTAAACACTTTTTAATGTCAATTCCA
AAATATTTAAATCTAATTTGGGGTTCTGATTTTTTTGGTCTTAGTCTGGTACTAGTACGAGAACT
AGAAACCAAAAAAAGAACAACAGAACAC
Found at i:27732529 original size:82 final size:82
Alignment explanation
Indices: 27732390--27732593 Score: 329
Period size: 82 Copynumber: 2.5 Consensus size: 82
27732380 TAAAGATGGT
* * **
27732390 TAACATGTTTTGTTTGTTTTTT-AAATGATTTGTTGAAATGGTTGGTTAACATTTTACTACTATA
1 TAACATATTTTGTTTGTTTTTTGAAATGATTTATTGAAATGGTTGGTTAACAACTTACTACTATA
27732454 GGATCATTTTGTTAGCA
66 GGATCATTTTGTTAGCA
27732471 TAACATATTTTGTTTGTTTTTTGAAATGATTTATTGAAATGGTTGGTTAACAACTTACTACTATA
1 TAACATATTTTGTTTGTTTTTTGAAATGATTTATTGAAATGGTTGGTTAACAACTTACTACTATA
* *
27732536 TGATCATTTTGTTAGTA
66 GGATCATTTTGTTAGCA
*
27732553 TAACATATTTTGTTTGGTTTTTTGAAATGATTTTTTGAAAT
1 TAACATATTTTGTTT-GTTTTTTGAAATGATTTATTGAAAT
27732594 ATGTATACTA
Statistics
Matches: 114, Mismatches: 7, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
81 21 0.18
82 69 0.61
83 24 0.21
ACGTcount: A:0.27, C:0.06, G:0.16, T:0.50
Consensus pattern (82 bp):
TAACATATTTTGTTTGTTTTTTGAAATGATTTATTGAAATGGTTGGTTAACAACTTACTACTATA
GGATCATTTTGTTAGCA
Found at i:27733871 original size:21 final size:21
Alignment explanation
Indices: 27733847--27733891 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
27733837 CAAATACAGT
27733847 TCCAATGTCATACTTATCAAC
1 TCCAATGTCATACTTATCAAC
27733868 TCCAATGTCATACTTATCAAC
1 TCCAATGTCATACTTATCAAC
27733889 TCC
1 TCC
27733892 GTAATCTAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.31, C:0.31, G:0.04, T:0.33
Consensus pattern (21 bp):
TCCAATGTCATACTTATCAAC
Done.