Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr12
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: 39383930
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.32
Warning! 780790 characters in sequence are not A, C, G, or T
File 82 of 126
Found at i:25068742 original size:34 final size:34
Alignment explanation
Indices: 25068703--25068771 Score: 120
Period size: 34 Copynumber: 2.0 Consensus size: 34
25068693 ATCGCTGTAG
*
25068703 ATAGTAAACTCTTTCTCAGGCTCTGGCTGTATCA
1 ATAGTAAACTCTTTCCCAGGCTCTGGCTGTATCA
*
25068737 ATAGTAAACTCTTTCCCAGGCTCTGGCTGTGTCA
1 ATAGTAAACTCTTTCCCAGGCTCTGGCTGTATCA
25068771 A
1 A
25068772 GACAGGGGCC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.23, C:0.25, G:0.19, T:0.33
Consensus pattern (34 bp):
ATAGTAAACTCTTTCCCAGGCTCTGGCTGTATCA
Found at i:25073972 original size:46 final size:46
Alignment explanation
Indices: 25073825--25073972 Score: 144
Period size: 46 Copynumber: 3.2 Consensus size: 46
25073815 GTAACCCGCC
*
25073825 CCTAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CTAGTTATAT
1 CCTAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACAT
* * * ***
25073874 -TTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTC-ACAT
1 CCTAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACAT
25073917 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCAT
1 CC-TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAA-CAT
25073965 CCT-AGTGA
1 CCTAAGTGA
25073973 CATGTCACTT
Statistics
Matches: 80, Mismatches: 13, Indels: 15
0.74 0.12 0.14
Matches are distributed among these distances:
43 3 0.04
45 2 0.03
46 36 0.45
47 31 0.39
48 8 0.10
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.24
Consensus pattern (46 bp):
CCTAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACAT
Found at i:25074410 original size:30 final size:30
Alignment explanation
Indices: 25074376--25074435 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
25074366 ATTTAATACG
25074376 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * * *
25074406 AACTTTTGCATAATTATACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
25074436 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.30, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:25081484 original size:93 final size:93
Alignment explanation
Indices: 25081375--25082289 Score: 1769
Period size: 93 Copynumber: 9.8 Consensus size: 93
25081365 GCCCCTAAGT
* * * * *
25081375 GAACTC-GAACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTTGGACTCAACTCA
1 GAACTCAG-ACTCAACTCAATGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
25081439 ACGAGTTCGGATGCCTAGTTACATTTCAC
65 ACGAGTTCGGATGCCTAGTTACATTTCAC
25081468 GAACTCAGACTCAACTCAATGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAATGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
25081533 CGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
25081561 GAACTCAGACTCAACTCAATGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAATGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
25081626 CGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
25081654 GAACTCAGACTCAACTCAATGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAATGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
25081719 CGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
25081747 GAACTCAGACTCAACTCAATGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAATGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
25081812 CGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
25081840 GAACTCAGACTCAACTCAATGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAATGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
25081905 CGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
25081933 GAACTCAGACTCAACTCAATGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAATGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
25081998 CGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
25082026 GAACTCAGACTCAACTCAATGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAATGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
25082091 CGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
25082119 GAACTCAGACTCAACTCAATGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAATGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
25082184 CGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
25082212 GAACTCAGACTCAACTCAATGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAATGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
25082277 CGAGTTCGGATGC
66 CGAGTTCGGATGC
25082290 TCAACCATCC
Statistics
Matches: 816, Mismatches: 5, Indels: 2
0.99 0.01 0.00
Matches are distributed among these distances:
93 815 1.00
94 1 0.00
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.24
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAATGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:25085858 original size:46 final size:46
Alignment explanation
Indices: 25085788--25086108 Score: 430
Period size: 46 Copynumber: 7.0 Consensus size: 46
25085778 TTCGACATGA
* * * * * * *
25085788 TGCCATAGTGTCTTTCAACTATGGTCCTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
* ** *** *
25085834 TGCCATGGTATCATTCAACCATGGTCTTATTCATTTCCCCGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTT-CATATCAGGT
* * *
25085881 TGCCATGATATCTTTCAACCATGGTCTTACACATTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
25085927 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
25085973 TGCCATGGTATCTTTCAACCATGGTCTTACACGTTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
25086019 TGCCATGATATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
25086065 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTC-TATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAG
25086109 AGAGCACACT
Statistics
Matches: 251, Mismatches: 21, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
45 3 0.01
46 206 0.82
47 42 0.17
ACGTcount: A:0.22, C:0.25, G:0.15, T:0.38
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:25087528 original size:49 final size:49
Alignment explanation
Indices: 25087475--25087572 Score: 187
Period size: 49 Copynumber: 2.0 Consensus size: 49
25087465 TAAAAATAGA
*
25087475 CTCATTAAGGAATTTAACCGTATAAAGTATGTAACAAAATTATTTTTTT
1 CTCATTAAGGAATTTAACCATATAAAGTATGTAACAAAATTATTTTTTT
25087524 CTCATTAAGGAATTTAACCATATAAAGTATGTAACAAAATTATTTTTTT
1 CTCATTAAGGAATTTAACCATATAAAGTATGTAACAAAATTATTTTTTT
25087573 ATAATATTTA
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 48 1.00
ACGTcount: A:0.40, C:0.10, G:0.09, T:0.41
Consensus pattern (49 bp):
CTCATTAAGGAATTTAACCATATAAAGTATGTAACAAAATTATTTTTTT
Found at i:25088308 original size:11 final size:11
Alignment explanation
Indices: 25088292--25088343 Score: 52
Period size: 11 Copynumber: 4.7 Consensus size: 11
25088282 TATACTAAAT
25088292 AAATAATAATA
1 AAATAATAATA
*
25088303 AAATAAT-ATT
1 AAATAATAATA
* *
25088313 AAATATCTCATA
1 AAATA-ATAATA
*
25088325 AAATATTAATA
1 AAATAATAATA
25088336 AAATAATA
1 AAATAATA
25088344 TTTATCTATT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
10 7 0.21
11 19 0.58
12 7 0.21
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (11 bp):
AAATAATAATA
Found at i:25090607 original size:27 final size:27
Alignment explanation
Indices: 25090547--25090607 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 27
25090537 CAAACATATC
* **
25090547 ATAGGGGCAAATCAGTCATTTTACCTC
1 ATAGGGGCAAATCAGTCATTTCACCAA
25090574 ATAGGGGCATAAT-AGTCATTTCACCAA
1 ATAGGGGCA-AATCAGTCATTTCACCAA
*
25090601 ATTGGGG
1 ATAGGGG
25090608 TCTTGGTGCA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
27 26 0.90
28 3 0.10
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.28
Consensus pattern (27 bp):
ATAGGGGCAAATCAGTCATTTCACCAA
Found at i:25092457 original size:49 final size:49
Alignment explanation
Indices: 25092412--25092643 Score: 277
Period size: 49 Copynumber: 4.7 Consensus size: 49
25092402 CTGGTACGCA
*
25092412 TAGTAGCCTGCA-TATAGTACTACACATGCGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACT-TAGTACTACACATGTGACCAATTATCCGGTACACG
* * * *
25092461 TAGTAACCGGCACTTAGTACTACACACGTGACCAATTATTCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCCGGTACACG
* ** * *
25092510 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACC-AATTATCCGGTACACG
* * * * *
25092560 TAGTAGCCTGCACTTAGTACTACACATGTGATCACAGTTTTCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACATGTGA-C-CAATTATCCGGTACACG
*
25092611 TAGTAGCCTGCACTTAGTACTACACATGCGACC
1 TAGTAGCCTGCACTTAGTACTACACATGTGACC
25092644 TCACAATAGA
Statistics
Matches: 157, Mismatches: 22, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
49 74 0.47
50 43 0.27
51 39 0.25
52 1 0.01
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.25
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCCGGTACACG
Found at i:25092633 original size:101 final size:98
Alignment explanation
Indices: 25092404--25092643 Score: 304
Period size: 99 Copynumber: 2.4 Consensus size: 98
25092394 AAAGCTATCT
* ** *
25092404 GGTACGCATAGTAGCCTGCA-TATAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAAC
1 GGTACGCATAGTAGCCTGCACT-TAGTACTACACACGCGACCAACCATCCGATACACGTAGTAAC
25092468 CGGCACTTAGTACTACACACGTGACCAATTATTC
65 CGGCACTTAGTACTACACACGTGACCAATTATTC
* * * * *
25092502 GGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACGTAGTAGC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACACGCGACC-AACCATCCGATACACGTAGTAAC
* * *
25092567 CTGCACTTAGTACTACACATGTGATCACAGTT-TTC
65 CGGCACTTAGTACTACACACGTGA-C-CAATTATTC
*
25092602 GGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACC
1 -GGTACGCATAGTAGCCTGCACTTAGTACTACACACGCGACC
25092644 TCACAATAGA
Statistics
Matches: 121, Mismatches: 16, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
98 35 0.29
99 41 0.34
100 4 0.03
101 41 0.34
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.25
Consensus pattern (98 bp):
GGTACGCATAGTAGCCTGCACTTAGTACTACACACGCGACCAACCATCCGATACACGTAGTAACC
GGCACTTAGTACTACACACGTGACCAATTATTC
Found at i:25092644 original size:101 final size:99
Alignment explanation
Indices: 25092404--25092644 Score: 317
Period size: 101 Copynumber: 2.4 Consensus size: 99
25092394 AAAGCTATCT
** *
25092404 GGTACGCATAGTAGCCTGCA-TATAGTACTACACATGCGACC-AATTATCCGGTACACGTAGTAA
1 GGTACGCATAGTAGCCTGCACT-TAGTACTACACATGCGACCTAACCATCCGATACACGTAGTAA
25092467 CCGGCACTTAGTACTACACACGTGACCAATTATTC
65 CCGGCACTTAGTACTACACACGTGACCAATTATTC
* * * * * *
25092502 GGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACGTAGTAGC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACCATCCGATACACGTAGTAAC
* * *
25092567 CTGCACTTAGTACTACACATGTGATCACAGTT-TTC
66 CGGCACTTAGTACTACACACGTGA-C-CAATTATTC
25092602 GGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCT
1 -GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCT
25092645 CACAATAGAT
Statistics
Matches: 122, Mismatches: 16, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
98 35 0.29
99 41 0.34
100 4 0.03
101 42 0.34
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.25
Consensus pattern (99 bp):
GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACCATCCGATACACGTAGTAAC
CGGCACTTAGTACTACACACGTGACCAATTATTC
Found at i:25095688 original size:40 final size:40
Alignment explanation
Indices: 25095614--25095785 Score: 224
Period size: 40 Copynumber: 4.3 Consensus size: 40
25095604 GATAATCGGA
* *
25095614 CTAAGATCCGAAGGCATTTGTGCGAGTTGCTATATCCAGG
1 CTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCCGGG
* * * * *
25095654 CTATGTCCCGAAGGCATTTATGCTAG-TGATTATATCCGGG
1 CTAAGACCCGAAGGCATTTGTGCGAGTTG-CTATATCCGGG
25095694 CTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCCGGG
1 CTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCCGGG
* *
25095734 CTAAGACCCGAGGGCATTTGTGCGAGTTGTTATATCC-GG
1 CTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCCGGG
25095773 CTAA-ATCCCGAAG
1 CTAAGA-CCCGAAG
25095786 ATACTTGGGT
Statistics
Matches: 114, Mismatches: 15, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
38 1 0.01
39 14 0.12
40 97 0.85
41 2 0.02
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
CTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCCGGG
Found at i:25104181 original size:40 final size:40
Alignment explanation
Indices: 25104126--25104311 Score: 277
Period size: 40 Copynumber: 4.7 Consensus size: 40
25104116 TGATTATTCG
*
25104126 GATTATATCCGGGCTAACTCCCGAAGGCATTTGTGCTATT
1 GATTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATT
*
25104166 GATTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGT
1 GATTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATT
*
25104206 GATTATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTATT
1 GATTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATT
* * *
25104246 GACTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTT
1 GATTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTA-TT
* *
25104287 G-CTATATCC-GGCTAAATCCCGAAGG
1 GATTATATCCGGGCTAAGTCCCGAAGG
25104312 TACTTGCGTT
Statistics
Matches: 135, Mismatches: 10, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
39 14 0.10
40 118 0.87
41 3 0.02
ACGTcount: A:0.23, C:0.22, G:0.26, T:0.29
Consensus pattern (40 bp):
GATTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATT
Found at i:25108076 original size:29 final size:29
Alignment explanation
Indices: 25107997--25108198 Score: 144
Period size: 29 Copynumber: 6.9 Consensus size: 29
25107987 ATGTGCTAAA
* *
25107997 CGATGGTCGTAACCTTCCCTTGTCATATT
1 CGATGGTCGTAACCATCCCTTTTCATATT
* *
25108026 CAATGGTCGAAACCATCCCTTTTCATATT
1 CGATGGTCGTAACCATCCCTTTTCATATT
*
25108055 CGATGGTCGGAACCATCCCTTTTCAGTAATT
1 CGATGGTCGTAACCATCCCTTTTCA-T-ATT
* *
25108086 -GA-GGATCATCACCATCCCTTTTCATAGTT
1 CGATGG-TCGTAACCATCCCTTTTCATA-TT
* * *
25108115 -GATGGTCATCACCATCCTTTTTCATTATT
1 CGATGGTCGTAACCATCCCTTTTCA-TATT
* ** * * *
25108144 -GATAG-CCAAAGCTATCCCTTTTCTTATC
1 CGATGGTCGTAA-CCATCCCTTTTCATATT
* * *
25108172 CAATGGTTGTCACCATCCCTTTTCATA
1 CGATGGTCGTAACCATCCCTTTTCATA
25108199 ATTGATAGCC
Statistics
Matches: 138, Mismatches: 26, Indels: 18
0.76 0.14 0.10
Matches are distributed among these distances:
28 6 0.04
29 105 0.76
30 24 0.17
31 3 0.02
ACGTcount: A:0.23, C:0.27, G:0.13, T:0.37
Consensus pattern (29 bp):
CGATGGTCGTAACCATCCCTTTTCATATT
Found at i:25108163 original size:58 final size:57
Alignment explanation
Indices: 25108035--25108229 Score: 167
Period size: 58 Copynumber: 3.4 Consensus size: 57
25108025 TCAATGGTCG
* *** * *
25108035 AAACCATCCCTTTTCATATTCGATGGTCGGAACCATCCCTTTTCAGTAATTGA-GGATCA
1 AAACTATCCCTTTTCATATT-GATGGTCATCACCATCCCTTTTCA-TAATTGATAG-CCA
** * * *
25108094 TCACCATCCCTTTTCATAGTTGATGGTCATCACCATCCTTTTTCATTATTGATAGCCA
1 AAACTATCCCTTTTCATA-TTGATGGTCATCACCATCCCTTTTCATAATTGATAGCCA
* * ** **
25108152 AAGCTATCCCTTTTCTTATCCAATGGTTGTCACCATCCCTTTTCATAATTGATAGCCA
1 AAACTATCCCTTTTCATAT-TGATGGTCATCACCATCCCTTTTCATAATTGATAGCCA
* *
25108210 AAACTATCCTTTTTAATATT
1 AAACTATCCCTTTTCATATT
25108230 TGAGAGCCGA
Statistics
Matches: 108, Mismatches: 25, Indels: 8
0.77 0.18 0.06
Matches are distributed among these distances:
57 1 0.01
58 68 0.63
59 37 0.34
60 2 0.02
ACGTcount: A:0.26, C:0.26, G:0.11, T:0.38
Consensus pattern (57 bp):
AAACTATCCCTTTTCATATTGATGGTCATCACCATCCCTTTTCATAATTGATAGCCA
Found at i:25108218 original size:29 final size:29
Alignment explanation
Indices: 25108183--25108255 Score: 83
Period size: 29 Copynumber: 2.5 Consensus size: 29
25108173 AATGGTTGTC
* *
25108183 ACCATCCCTTTTCATAATTGATAGCCAAA
1 ACCATCCTTTTTCATAATTGAGAGCCAAA
* * * *
25108212 ACTATCCTTTTTAATATTTGAGAGCCGAA
1 ACCATCCTTTTTCATAATTGAGAGCCAAA
*
25108241 GCCATCCTTTTTCAT
1 ACCATCCTTTTTCAT
25108256 TGGTCAATGA
Statistics
Matches: 35, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.29, C:0.25, G:0.10, T:0.37
Consensus pattern (29 bp):
ACCATCCTTTTTCATAATTGAGAGCCAAA
Found at i:25108253 original size:87 final size:87
Alignment explanation
Indices: 25108094--25108253 Score: 205
Period size: 87 Copynumber: 1.8 Consensus size: 87
25108084 TTGAGGATCA
* * * ** * * *
25108094 TCACCATCCCTTTTCATAGTTGATGGTCATCACCATCCTTTTTCATTATTGATAGCCAAAGCTAT
1 TCACCATCCCTTTTCATAATTGATAGCCAAAACCATCCTTTTTAATTATTGAGAGCCAAAGCCAT
25108159 CCCTTTTCTTATCCAATGGTTG
66 CCCTTTTCTTATCCAATGGTTG
* *
25108181 TCACCATCCCTTTTCATAATTGATAGCCAAAACTATCCTTTTTAA-TATTTGAGAGCCGAAGCCA
1 TCACCATCCCTTTTCATAATTGATAGCCAAAACCATCCTTTTTAATTA-TTGAGAGCCAAAGCCA
*
25108245 TCCTTTTTC
65 TCCCTTTTC
25108254 ATTGGTCAAT
Statistics
Matches: 61, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
86 2 0.03
87 59 0.97
ACGTcount: A:0.24, C:0.26, G:0.11, T:0.39
Consensus pattern (87 bp):
TCACCATCCCTTTTCATAATTGATAGCCAAAACCATCCTTTTTAATTATTGAGAGCCAAAGCCAT
CCCTTTTCTTATCCAATGGTTG
Found at i:25108342 original size:12 final size:13
Alignment explanation
Indices: 25108314--25108356 Score: 54
Period size: 12 Copynumber: 3.3 Consensus size: 13
25108304 TTTGATATTA
25108314 TAAAATGATAGAATT
1 TAAAATGAT--AATT
25108329 TAAAAT-ATAATT
1 TAAAATGATAATT
25108341 TAAAATGAT-ATT
1 TAAAATGATAATT
25108353 TAAA
1 TAAA
25108357 GGTACGAACT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
12 17 0.63
13 2 0.07
14 2 0.07
15 6 0.22
ACGTcount: A:0.56, C:0.00, G:0.07, T:0.37
Consensus pattern (13 bp):
TAAAATGATAATT
Found at i:25112748 original size:26 final size:26
Alignment explanation
Indices: 25112719--25112769 Score: 102
Period size: 26 Copynumber: 2.0 Consensus size: 26
25112709 ATAATTACAA
25112719 GCCAAAACATAATGGCTATAACATCT
1 GCCAAAACATAATGGCTATAACATCT
25112745 GCCAAAACATAATGGCTATAACATC
1 GCCAAAACATAATGGCTATAACATC
25112770 AACCGAAACA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.43, C:0.24, G:0.12, T:0.22
Consensus pattern (26 bp):
GCCAAAACATAATGGCTATAACATCT
Found at i:25112778 original size:26 final size:26
Alignment explanation
Indices: 25112720--25112779 Score: 93
Period size: 26 Copynumber: 2.3 Consensus size: 26
25112710 TAATTACAAG
**
25112720 CCAAAACATAATGGCTATAACATCTG
1 CCAAAACATAATGGCTATAACATCAA
25112746 CCAAAACATAATGGCTATAACATCAA
1 CCAAAACATAATGGCTATAACATCAA
*
25112772 CCGAAACA
1 CCAAAACA
25112780 CCTATACATG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.47, C:0.25, G:0.10, T:0.18
Consensus pattern (26 bp):
CCAAAACATAATGGCTATAACATCAA
Found at i:25114112 original size:29 final size:29
Alignment explanation
Indices: 25114067--25114325 Score: 191
Period size: 29 Copynumber: 8.9 Consensus size: 29
25114057 ATGTGCTAAA
*
25114067 CGATGGTCGTAACCATCCCTTTTCATATT
1 CGATGGTCGAAACCATCCCTTTTCATATT
* *
25114096 CGGTGGTCGAAACCATCCCTTTTCATTAAT
1 CGATGGTCGAAACCATCCCTTTTCA-TATT
* * ** *
25114126 CGATAGTTGTCACCATCCCTTTTACTTA-T
1 CGATGGTCGAAACCATCCCTTTT-CATATT
* * * * *
25114155 CGATAGTTGAATCTATCCCGTTTCATATT
1 CGATGGTCGAAACCATCCCTTTTCATATT
* * * *
25114184 CGATAGCCGAAGCTATCCCTTTTCATATT
1 CGATGGTCGAAACCATCCCTTTTCATATT
* * **
25114213 CAATGGTTGTCACCATCCCTTTTCATAGTT
1 CGATGGTCGAAACCATCCCTTTTCATA-TT
** *
25114243 -GATGGTCGTCACCATCCCTTTTCATAAT
1 CGATGGTCGAAACCATCCCTTTTCATATT
* * * *
25114271 CAATAGTCGAAGCTATCCCTTTTCATATT
1 CGATGGTCGAAACCATCCCTTTTCATATT
* *
25114300 CGATAGGT-GAAGCTATCCCTTTTCAT
1 CGAT-GGTCGAAACCATCCCTTTTCAT
25114326 TGGTTGATGA
Statistics
Matches: 185, Mismatches: 39, Indels: 12
0.78 0.17 0.05
Matches are distributed among these distances:
28 4 0.02
29 153 0.83
30 27 0.15
31 1 0.01
ACGTcount: A:0.23, C:0.26, G:0.14, T:0.37
Consensus pattern (29 bp):
CGATGGTCGAAACCATCCCTTTTCATATT
Found at i:25114266 original size:87 final size:87
Alignment explanation
Indices: 25114067--25114305 Score: 275
Period size: 87 Copynumber: 2.7 Consensus size: 87
25114057 ATGTGCTAAA
* * * * * *
25114067 CGATGGTCGTAACCATCCCTTTTCATATTCGGTGGTCGAAACCATCCCTTTTCATTAATCGATAG
1 CGATGGTCGTAACCATCCCTTTTCATATTCGATAGTCGAAGCTATCCCTTTTCA-TATTCAATAG
*
25114132 TTGTCACCATCCCTTTTACTTAT
65 TTGTCACCATCCCTTTTACATAT
* * * * * *
25114155 CGATAGTTG-AATCTATCCCGTTTCATATTCGATAGCCGAAGCTATCCCTTTTCATATTCAATGG
1 CGATGGTCGTAA-CCATCCCTTTTCATATTCGATAGTCGAAGCTATCCCTTTTCATATTCAATAG
25114219 TTGTCACCATCCCTTTT-CATAGT
65 TTGTCACCATCCCTTTTACATA-T
* * * * *
25114242 TGATGGTCGTCACCATCCCTTTTCATAATCAATAGTCGAAGCTATCCCTTTTCATATTCGATAG
1 CGATGGTCGTAACCATCCCTTTTCATATTCGATAGTCGAAGCTATCCCTTTTCATATTCAATAG
25114306 GTGAAGCTAT
Statistics
Matches: 124, Mismatches: 24, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
86 3 0.02
87 78 0.63
88 43 0.35
ACGTcount: A:0.23, C:0.26, G:0.14, T:0.37
Consensus pattern (87 bp):
CGATGGTCGTAACCATCCCTTTTCATATTCGATAGTCGAAGCTATCCCTTTTCATATTCAATAGT
TGTCACCATCCCTTTTACATAT
Found at i:25114318 original size:87 final size:88
Alignment explanation
Indices: 25114169--25114334 Score: 221
Period size: 87 Copynumber: 1.9 Consensus size: 88
25114159 AGTTGAATCT
* * *
25114169 ATCCCGTTTCATATTCGATAGCCGAAGCTATCCCTTTTCATATTCAATGGTTGTCACCATCCCTT
1 ATCCCGTTTCATAATCAATAGCCGAAGCTATCCCTTTTCATATTCAATGGTTGTAACCATCCCTT
25114234 TTCA-TAGTTGATGGTCGTCACC
66 TTCATTAGTTGATGGTCGTCACC
* * * *
25114256 ATCCCTTTTCATAATCAATAGTCGAAGCTATCCCTTTTCATATTCGATAGG-TG-AAGCTATCCC
1 ATCCCGTTTCATAATCAATAGCCGAAGCTATCCCTTTTCATATTCAAT-GGTTGTAA-CCATCCC
*
25114319 TTTTCATTGGTTGATG
64 TTTTCATTAGTTGATG
25114335 ATAGCCGATA
Statistics
Matches: 68, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
86 1 0.01
87 57 0.84
88 10 0.15
ACGTcount: A:0.22, C:0.25, G:0.15, T:0.38
Consensus pattern (88 bp):
ATCCCGTTTCATAATCAATAGCCGAAGCTATCCCTTTTCATATTCAATGGTTGTAACCATCCCTT
TTCATTAGTTGATGGTCGTCACC
Found at i:25114860 original size:28 final size:29
Alignment explanation
Indices: 25114828--25114882 Score: 69
Period size: 28 Copynumber: 1.9 Consensus size: 29
25114818 TACTTTTAAA
*
25114828 TAACAACTAATAT-ATCAA-ATTCATCATT
1 TAACAACTAAAATCA-CAAGATTCATCATT
*
25114856 TAACATCTAAAATCACAAGATTCATCA
1 TAACAACTAAAATCACAAGATTCATCA
25114883 ATGGAATCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
28 14 0.61
29 9 0.39
ACGTcount: A:0.47, C:0.20, G:0.02, T:0.31
Consensus pattern (29 bp):
TAACAACTAAAATCACAAGATTCATCATT
Found at i:25115736 original size:29 final size:29
Alignment explanation
Indices: 25115694--25115751 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
25115684 TAAATATATG
25115694 TATAATATCTCTTTGGAACTCACTAAGTT
1 TATAATATCTCTTTGGAACTCACTAAGTT
25115723 TATAATATCTCTTTGGAACTCACTAAGTT
1 TATAATATCTCTTTGGAACTCACTAAGTT
25115752 CATATGAACA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.31, C:0.17, G:0.10, T:0.41
Consensus pattern (29 bp):
TATAATATCTCTTTGGAACTCACTAAGTT
Found at i:25119340 original size:20 final size:21
Alignment explanation
Indices: 25119295--25119340 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 21
25119285 ATCATGGATG
*
25119295 TATTATGCTAGAAATTAGAAA
1 TATTATGCTAGAAAATAGAAA
*
25119316 T-TTATGGTAGAAAAT-GAAA
1 TATTATGCTAGAAAATAGAAA
25119335 TATTAT
1 TATTAT
25119341 TGATAGATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
19 5 0.23
20 16 0.73
21 1 0.05
ACGTcount: A:0.46, C:0.02, G:0.15, T:0.37
Consensus pattern (21 bp):
TATTATGCTAGAAAATAGAAA
Found at i:25125054 original size:41 final size:42
Alignment explanation
Indices: 25124950--25125067 Score: 123
Period size: 41 Copynumber: 2.8 Consensus size: 42
25124940 TGTGTTCTCA
** * **
25124950 TGTAAGACCACATCTGGGACGTTGGCATCGATAAGTGATTACG
1 TGTAAGACCATGTCTGGGACATTGGCATCG-TATTTGATTACG
* * * *
25124993 TGTAAGACTATGTTTAGGACATCGGCATCGTATTTGATT-CG
1 TGTAAGACCATGTCTGGGACATTGGCATCGTATTTGATTACG
*
25125034 TGTAAGACCCTGTCTGGGACATTGGCATCG-ATTT
1 TGTAAGACCATGTCTGGGACATTGGCATCGTATTT
25125068 ATCGATATGT
Statistics
Matches: 61, Mismatches: 14, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
40 4 0.07
41 27 0.44
42 7 0.11
43 23 0.38
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.31
Consensus pattern (42 bp):
TGTAAGACCATGTCTGGGACATTGGCATCGTATTTGATTACG
Found at i:25155487 original size:40 final size:41
Alignment explanation
Indices: 25155443--25155559 Score: 166
Period size: 40 Copynumber: 2.9 Consensus size: 41
25155433 GGATATAGCT
* * *
25155443 ACTCGCTCAAATGCCTTCAGGACATAGCCCGG-TTAGAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTAGAGTA
* * *
25155483 ACTCGAACAATTGCCTTCGGGACTTAGCCCGGATT-TAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTAGAGTA
25155523 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTAG
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTAG
25155560 TCACTAGCGC
Statistics
Matches: 66, Mismatches: 9, Indels: 3
0.85 0.12 0.04
Matches are distributed among these distances:
40 64 0.97
41 2 0.03
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (41 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTAGAGTA
Found at i:25155579 original size:39 final size:40
Alignment explanation
Indices: 25155450--25155591 Score: 135
Period size: 40 Copynumber: 3.6 Consensus size: 40
25155440 GCTACTCGCT
* * * * * *
25155450 CAAATGCCTTCAGGACATAGCCCGG-TTAGAGTAACTCGAA
1 CAAATACCTTCGGGACTTAGCCCGGATT-TAGTAACTAGCA
* * *
25155490 CAATTGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
1 CAAATACCTTCGGGACTTAGCCCGGATTTAGTAACTAGCA
* * *
25155530 CAAATGCCTTCGGGACTTAGCCCGGA-TTAGTCACTAGCG
1 CAAATACCTTCGGGACTTAGCCCGGATTTAGTAACTAGCA
* *
25155569 CAGATACCTTCGAGACTTAGCCC
1 CAAATACCTTCGGGACTTAGCCC
25155592 AGTTATCATC
Statistics
Matches: 89, Mismatches: 12, Indels: 3
0.86 0.12 0.03
Matches are distributed among these distances:
39 30 0.34
40 57 0.64
41 2 0.02
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (40 bp):
CAAATACCTTCGGGACTTAGCCCGGATTTAGTAACTAGCA
Found at i:25163660 original size:39 final size:40
Alignment explanation
Indices: 25163534--25163677 Score: 148
Period size: 40 Copynumber: 3.6 Consensus size: 40
25163524 ACTACTCGCT
* * * * *
25163534 CAAATGCCTTCTGGACATAGCCCAG-TTAGAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTAGCA
* ** *
25163574 CAATTGCCTTCAAGACTTAGCCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTAGCA
* **
25163614 CAAATGCCTTCGGGACTTAGCCCGGA-TTAGTCACTAGTG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTAGCA
*
25163653 CAGATGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
25163678 TTATCATCCA
Statistics
Matches: 89, Mismatches: 14, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
39 33 0.37
40 54 0.61
41 2 0.02
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTAGCA
Found at i:25167822 original size:20 final size:19
Alignment explanation
Indices: 25167799--25167838 Score: 71
Period size: 20 Copynumber: 2.1 Consensus size: 19
25167789 AAAGAAAAAA
25167799 TAGAAAAATAGGAAAAGTTT
1 TAGAAAAATAGGAAAA-TTT
25167819 TAGAAAAATAGGAAAATTT
1 TAGAAAAATAGGAAAATTT
25167838 T
1 T
25167839 GCAAACAAGG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 4 0.20
20 16 0.80
ACGTcount: A:0.55, C:0.00, G:0.17, T:0.28
Consensus pattern (19 bp):
TAGAAAAATAGGAAAATTT
Found at i:25171059 original size:27 final size:27
Alignment explanation
Indices: 25171037--25171197 Score: 196
Period size: 27 Copynumber: 6.0 Consensus size: 27
25171027 AGTACCATCG
* *
25171037 ATTTATAAAATTACTGTTTTACCCTTA
1 ATTTATAAAATTACCGTTTTACCCTCA
* * ** *
25171064 ATTTACAGAATTATTGTTTTACCCTCG
1 ATTTATAAAATTACCGTTTTACCCTCA
*
25171091 ATTTATAGAATTACCGTTTTACCCTCA
1 ATTTATAAAATTACCGTTTTACCCTCA
25171118 ATTTATAAAATTACCGTTTTACCCTCA
1 ATTTATAAAATTACCGTTTTACCCTCA
* *
25171145 ATTTATAGAATTACCATTTTACCCTCA
1 ATTTATAAAATTACCGTTTTACCCTCA
* * **
25171172 GTTTAAAAAATTACTATTTTACCCTC
1 ATTTATAAAATTACCGTTTTACCCTC
25171198 GATTGTGAAA
Statistics
Matches: 118, Mismatches: 16, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 118 1.00
ACGTcount: A:0.32, C:0.20, G:0.06, T:0.43
Consensus pattern (27 bp):
ATTTATAAAATTACCGTTTTACCCTCA
Found at i:25171076 original size:54 final size:54
Alignment explanation
Indices: 25171017--25171185 Score: 140
Period size: 54 Copynumber: 3.1 Consensus size: 54
25171007 TTGACTTGTT
* *
25171017 AAATTACCAAAGTACCATCGATTTATAAAATTACTGTTTTACCCTTAATTTACA
1 AAATTACCAAAGTACCATCGATTTATAAAATTACCGTTTTACCCTCAATTTACA
* ****** * * *
25171071 GAATTATTGTTTTACCCTCGATTTATAGAATTACCGTTTTACCCTCAATTTATA
1 AAATTACCAAAGTACCATCGATTTATAAAATTACCGTTTTACCCTCAATTTACA
**** * * * * * *
25171125 AAATTACCGTTTTACCCTCAATTTATAGAATTACCATTTTACCCTCAGTTTAAA
1 AAATTACCAAAGTACCATCGATTTATAAAATTACCGTTTTACCCTCAATTTACA
25171179 AAATTAC
1 AAATTAC
25171186 TATTTTACCC
Statistics
Matches: 96, Mismatches: 19, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
54 96 1.00
ACGTcount: A:0.34, C:0.20, G:0.07, T:0.40
Consensus pattern (54 bp):
AAATTACCAAAGTACCATCGATTTATAAAATTACCGTTTTACCCTCAATTTACA
Found at i:25171126 original size:81 final size:81
Alignment explanation
Indices: 25171037--25171197 Score: 216
Period size: 81 Copynumber: 2.0 Consensus size: 81
25171027 AGTACCATCG
* * *** * *
25171037 ATTTATAAAATTACTGTTTTACCCTTAATTTACAGAATTATTGTTTTACCCTC-GATTTATAGAA
1 ATTTATAAAATTACCGTTTTACCCTCAATTTACAGAATTACCATTTTACCCTCAG-TTTAAAAAA
*
25171101 TTACCGTTTTACCCTCA
65 TTACCATTTTACCCTCA
*
25171118 ATTTATAAAATTACCGTTTTACCCTCAATTTATAGAATTACCATTTTACCCTCAGTTTAAAAAAT
1 ATTTATAAAATTACCGTTTTACCCTCAATTTACAGAATTACCATTTTACCCTCAGTTTAAAAAAT
*
25171183 TACTATTTTACCCTC
66 TACCATTTTACCCTC
25171198 GATTGTGAAA
Statistics
Matches: 69, Mismatches: 10, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
81 68 0.99
82 1 0.01
ACGTcount: A:0.32, C:0.20, G:0.06, T:0.43
Consensus pattern (81 bp):
ATTTATAAAATTACCGTTTTACCCTCAATTTACAGAATTACCATTTTACCCTCAGTTTAAAAAAT
TACCATTTTACCCTCA
Found at i:25171263 original size:27 final size:27
Alignment explanation
Indices: 25171233--25171355 Score: 167
Period size: 27 Copynumber: 4.6 Consensus size: 27
25171223 TGTATGATCG
25171233 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
25171260 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
* * * *
25171287 AATTACCGAAATACCACTGGTTTGTGA
1 AATTACCAAAATACCCCTAGTTTGTAA
* * *
25171314 AATTACCGATATA-CCCTCAATTTGTAA
1 AATTACCAAAATACCCCT-AGTTTGTAA
25171341 AATTACCAAAATACC
1 AATTACCAAAATACC
25171356 TCTGATTTAC
Statistics
Matches: 83, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
26 3 0.04
27 79 0.95
28 1 0.01
ACGTcount: A:0.40, C:0.22, G:0.09, T:0.29
Consensus pattern (27 bp):
AATTACCAAAATACCCCTAGTTTGTAA
Found at i:25171274 original size:54 final size:54
Alignment explanation
Indices: 25171200--25171355 Score: 172
Period size: 54 Copynumber: 2.9 Consensus size: 54
25171190 TTACCCTCGA
* ** *
25171200 TTGTGAAATTACTGAAATACCCCT-GTATGATCGAATTACCAAAATACCCCTAGT
1 TTGTGAAATTACCGAAATACCCCTAGTATG-TAAAATTACCAAAATACCACTAGT
* * * * *
25171254 TTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCGAAATACCACTGGT
1 TTGTGAAATTACCGAAATACCCCTAGTATGTAAAATTACCAAAATACCACTAGT
* * *
25171308 TTGTGAAATTACCGATATA-CCCTCAATTTGTAAAATTACCAAAATACC
1 TTGTGAAATTACCGAAATACCCCT-AGTATGTAAAATTACCAAAATACC
25171356 TCTGATTTAC
Statistics
Matches: 86, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
53 4 0.05
54 78 0.91
55 4 0.05
ACGTcount: A:0.38, C:0.21, G:0.11, T:0.30
Consensus pattern (54 bp):
TTGTGAAATTACCGAAATACCCCTAGTATGTAAAATTACCAAAATACCACTAGT
Found at i:25171328 original size:81 final size:81
Alignment explanation
Indices: 25171233--25171382 Score: 205
Period size: 81 Copynumber: 1.9 Consensus size: 81
25171223 TGTATGATCG
* ** *
25171233 AATTACCAAAATACCC-CTAGTTTGTAAAATTACCAAAATACCCCT-AGTTTGTAAAATTACCGA
1 AATTACCAAAATACCCTC-AATTTGTAAAATTACCAAAATACCCCTGA-TTTACAAAATTACAGA
25171296 AATACCACTGGTTTGTGA
64 AATACCACTGGTTTGTGA
* * *
25171314 AATTACCGATATACCCTCAATTTGTAAAATTACCAAAATACCTCTGATTTACAAAATTACAGAAA
1 AATTACCAAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTGATTTACAAAATTACAGAAA
25171379 TACC
66 TACC
25171383 CTTGACTTTC
Statistics
Matches: 60, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
81 58 0.97
82 2 0.03
ACGTcount: A:0.41, C:0.21, G:0.09, T:0.29
Consensus pattern (81 bp):
AATTACCAAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTGATTTACAAAATTACAGAAA
TACCACTGGTTTGTGA
Found at i:25171363 original size:27 final size:26
Alignment explanation
Indices: 25171233--25171467 Score: 145
Period size: 27 Copynumber: 8.7 Consensus size: 26
25171223 TGTATGATCG
25171233 AATTACCAAAATACCCCT-AGTTTGTAA
1 AATTACCAAAATA-CCCTGA-TTTGTAA
25171260 AATTACCAAAATACCCCT-AGTTTGTAA
1 AATTACCAAAATA-CCCTGA-TTTGTAA
* * *
25171287 AATTACCGAAATACCACTGGTTTGTGA
1 AATTACCAAAATACC-CTGATTTGTAA
* * *
25171314 AATTACCGATATACCCTCAATTTGTAA
1 AATTACCAAAATACCCT-GATTTGTAA
**
25171341 AATTACCAAAATACCTCTGATTTACAA
1 AATTACCAAAATACC-CTGATTTGTAA
*
25171368 AATTA-CAGAAATACCCTTGACTTTCTAAA
1 AATTACCA-AAATACCC-TGA-TTTGT-AA
* * * **
25171397 AATTA-TAGAAATACCTTTGGTTTACAA
1 AATTACCA-AAATACC-CTGATTTGTAA
* * *
25171424 AATTACTAAAATACCCTTGGTTTGTAG
1 AATTACCAAAATACCC-TGATTTGTAA
* *
25171451 ATTTACCAAAACACCCT
1 AATTACCAAAATACCCT
25171468 TGTAGGATGA
Statistics
Matches: 171, Mismatches: 26, Indels: 23
0.78 0.12 0.10
Matches are distributed among these distances:
26 8 0.05
27 135 0.79
28 10 0.06
29 18 0.11
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.31
Consensus pattern (26 bp):
AATTACCAAAATACCCTGATTTGTAA
Found at i:25171371 original size:54 final size:54
Alignment explanation
Indices: 25171233--25171440 Score: 161
Period size: 54 Copynumber: 3.8 Consensus size: 54
25171223 TGTATGATCG
* ** * *
25171233 AATTACCAAAATACCCCT-AGTTTGTAAAATTACCAAAATACCC-CTAGTTTGTAA
1 AATTACCAAAATACCTCTGA-TTTACAAAATTACCGAAATACCCTC-AATTTGTAA
* * * *** *
25171287 AATTACCGAAATACCACTGGTTTGTGAAATTACCGATATACCCTCAATTTGTAA
1 AATTACCAAAATACCTCTGATTTACAAAATTACCGAAATACCCTCAATTTGTAA
* * * *
25171341 AATTACCAAAATACCTCTGATTTACAAAATTACAGAAATACCCTTGACTTTCTAAA
1 AATTACCAAAATACCTCTGATTTACAAAATTACCGAAATACCC-TCAATTTGT-AA
* * * **
25171397 AATTA-TAGAAATACCTTTGGTTTACAAAATTACTAAAATACCCT
1 AATTACCA-AAATACCTCTGATTTACAAAATTACCGAAATACCCT
25171441 TGGTTTGTAG
Statistics
Matches: 126, Mismatches: 23, Indels: 9
0.80 0.15 0.06
Matches are distributed among these distances:
54 79 0.63
55 9 0.07
56 38 0.30
ACGTcount: A:0.40, C:0.20, G:0.08, T:0.31
Consensus pattern (54 bp):
AATTACCAAAATACCTCTGATTTACAAAATTACCGAAATACCCTCAATTTGTAA
Found at i:25172406 original size:25 final size:24
Alignment explanation
Indices: 25172368--25172436 Score: 77
Period size: 25 Copynumber: 2.8 Consensus size: 24
25172358 GGAAGTGCTA
*
25172368 AAAAGGGCTCTGCCCTAGTTTACC
1 AAAAGGGCTTTGCCCTAGTTTACC
*
25172392 GAAAAGGGCTTTG-CCTCAGTTTATC
1 -AAAAGGGCTTTGCCCT-AGTTTACC
* *
25172417 AAAAGGGCTTTTCCCCAGTT
1 AAAAGGGCTTTGCCCTAGTT
25172437 ATTAAAAGAG
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
24 18 0.47
25 20 0.53
ACGTcount: A:0.25, C:0.25, G:0.22, T:0.29
Consensus pattern (24 bp):
AAAAGGGCTTTGCCCTAGTTTACC
Found at i:25172425 original size:24 final size:23
Alignment explanation
Indices: 25172368--25172449 Score: 76
Period size: 25 Copynumber: 3.4 Consensus size: 23
25172358 GGAAGTGCTA
* *
25172368 AAAAGGGCTCTGCCCTAGTTTACC
1 AAAAGGGCTTTGCCC-AGTTTATC
25172392 GAAAAGGGCTTTGCCTCAGTTTATC
1 -AAAAGGGCTTTGCC-CAGTTTATC
* *
25172417 AAAAGGGCTTTTCCCCAG-TTATT
1 AAAAGGGC-TTTGCCCAGTTTATC
25172440 AAAAGAGGCT
1 AAAAG-GGCT
25172450 AGGCCTCCAG
Statistics
Matches: 50, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
23 10 0.20
24 14 0.28
25 25 0.50
26 1 0.02
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (23 bp):
AAAAGGGCTTTGCCCAGTTTATC
Found at i:25172443 original size:23 final size:24
Alignment explanation
Indices: 25172368--25172449 Score: 85
Period size: 24 Copynumber: 3.4 Consensus size: 24
25172358 GGAAGTGCTA
* * *
25172368 AAAAGGGCTCTGCCCTAGTTTACC
1 AAAAGGGCTTTGCCCCAGTTTATC
*
25172392 GAAAAGGGCTTTGCCTCAGTTTATC
1 -AAAAGGGCTTTGCCCCAGTTTATC
* *
25172417 AAAAGGGCTTTTCCCCAG-TTATT
1 AAAAGGGCTTTGCCCCAGTTTATC
25172440 AAAAGAGGCT
1 AAAAG-GGCT
25172450 AGGCCTCCAG
Statistics
Matches: 49, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
23 9 0.18
24 20 0.41
25 20 0.41
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (24 bp):
AAAAGGGCTTTGCCCCAGTTTATC
Found at i:25172696 original size:31 final size:31
Alignment explanation
Indices: 25172658--25172736 Score: 149
Period size: 31 Copynumber: 2.5 Consensus size: 31
25172648 CGTTTACAGT
*
25172658 AAAGGCTTCAGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
25172689 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
25172720 AAAGGCTTCGGCCCAGT
1 AAAGGCTTCGGCCCAGT
25172737 AGCTGTTAAA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 47 1.00
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.27
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:25175259 original size:47 final size:47
Alignment explanation
Indices: 25175206--25175299 Score: 170
Period size: 47 Copynumber: 2.0 Consensus size: 47
25175196 TAGTTGTGCT
*
25175206 TAGTTTTTTTTCCCATAGTAGGTGTAAATATCATGGAGTGAAAAAAC
1 TAGTTTTTTTTCCCATAGCAGGTGTAAATATCATGGAGTGAAAAAAC
*
25175253 TAGTTTTTTTTCCCATAGCAGTTGTAAATATCATGGAGTGAAAAAAC
1 TAGTTTTTTTTCCCATAGCAGGTGTAAATATCATGGAGTGAAAAAAC
25175300 CAGAAAAAAA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 45 1.00
ACGTcount: A:0.34, C:0.12, G:0.18, T:0.36
Consensus pattern (47 bp):
TAGTTTTTTTTCCCATAGCAGGTGTAAATATCATGGAGTGAAAAAAC
Found at i:25177887 original size:32 final size:32
Alignment explanation
Indices: 25177842--25177905 Score: 112
Period size: 32 Copynumber: 2.0 Consensus size: 32
25177832 ATCTTCTACG
25177842 GAATGCCATTACCGATACTCGGTAGTATTTCA
1 GAATGCCATTACCGATACTCGGTAGTATTTCA
25177874 GAATGCCGA-TACCGATACTCGGTAGTATTTCA
1 GAATGCC-ATTACCGATACTCGGTAGTATTTCA
25177906 CATTTTCCAA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
32 30 0.97
33 1 0.03
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (32 bp):
GAATGCCATTACCGATACTCGGTAGTATTTCA
Found at i:25181097 original size:21 final size:20
Alignment explanation
Indices: 25181055--25181097 Score: 50
Period size: 21 Copynumber: 2.1 Consensus size: 20
25181045 AGAAAAAGTC
* * *
25181055 AAAAGTAATAACAAGAAGAA
1 AAAAGTAAGAACAAAAACAA
25181075 AAAAGTACAGAACAAAAACAA
1 AAAAGTA-AGAACAAAAACAA
25181096 AA
1 AA
25181098 GCACTGTGAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.72, C:0.09, G:0.12, T:0.07
Consensus pattern (20 bp):
AAAAGTAAGAACAAAAACAA
Found at i:25185470 original size:40 final size:40
Alignment explanation
Indices: 25185409--25185572 Score: 220
Period size: 40 Copynumber: 4.1 Consensus size: 40
25185399 TGATATCTCA
* * * *
25185409 CACACTAAGTGCTATACATAGCTGAAGCTATCTCAAATCG
1 CACACTAAGTGCCATATATAGCTGAAGCTATATCGAATCG
* * *
25185449 CACACTAAGTGCCATATATAGCTAAAGCTATGTCGAATTG
1 CACACTAAGTGCCATATATAGCTGAAGCTATATCGAATCG
* * *
25185489 CACACTAAGTGCCATTTATAGCCGAAACTATATCGAATCG
1 CACACTAAGTGCCATATATAGCTGAAGCTATATCGAATCG
* *
25185529 CACACTAAGTGCCATATATAGCTGAAGCTATGTCGAATCA
1 CACACTAAGTGCCATATATAGCTGAAGCTATATCGAATCG
25185569 CACA
1 CACA
25185573 TATTTGTACT
Statistics
Matches: 107, Mismatches: 17, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 107 1.00
ACGTcount: A:0.35, C:0.24, G:0.16, T:0.25
Consensus pattern (40 bp):
CACACTAAGTGCCATATATAGCTGAAGCTATATCGAATCG
Found at i:25185542 original size:80 final size:80
Alignment explanation
Indices: 25185409--25185566 Score: 244
Period size: 80 Copynumber: 2.0 Consensus size: 80
25185399 TGATATCTCA
* * * *
25185409 CACACTAAGTGCTATACATAGCTGAAGCTATCTCAAATCGCACACTAAGTGCCATATATAGCTAA
1 CACACTAAGTGCCATACATAGCCGAAACTATATCAAATCGCACACTAAGTGCCATATATAGCTAA
25185474 AGCTATGTCGAATTG
66 AGCTATGTCGAATTG
** * *
25185489 CACACTAAGTGCCATTTATAGCCGAAACTATATCGAATCGCACACTAAGTGCCATATATAGCTGA
1 CACACTAAGTGCCATACATAGCCGAAACTATATCAAATCGCACACTAAGTGCCATATATAGCTAA
25185554 AGCTATGTCGAAT
66 AGCTATGTCGAAT
25185567 CACACATATT
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
80 70 1.00
ACGTcount: A:0.35, C:0.23, G:0.16, T:0.26
Consensus pattern (80 bp):
CACACTAAGTGCCATACATAGCCGAAACTATATCAAATCGCACACTAAGTGCCATATATAGCTAA
AGCTATGTCGAATTG
Found at i:25189125 original size:15 final size:15
Alignment explanation
Indices: 25189107--25189135 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
25189097 ATATTTATAA
25189107 AATTATTATTATTAT
1 AATTATTATTATTAT
25189122 AATTATTATTATTA
1 AATTATTATTATTA
25189136 GATAGGGAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
AATTATTATTATTAT
Found at i:25190027 original size:28 final size:28
Alignment explanation
Indices: 25189994--25190047 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
25189984 AAATGTCGTA
*
25189994 TATTTTGGATTCATTTT-TTTCCTTCTTC
1 TATTTTCGATTC-TTTTCTTTCCTTCTTC
*
25190022 TATTTTCTATTCTTTTCTTTCCTTCT
1 TATTTTCGATTCTTTTCTTTCCTTCT
25190048 CTCATCTCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 4 0.17
28 19 0.83
ACGTcount: A:0.09, C:0.20, G:0.04, T:0.67
Consensus pattern (28 bp):
TATTTTCGATTCTTTTCTTTCCTTCTTC
Found at i:25190741 original size:8 final size:8
Alignment explanation
Indices: 25190724--25190753 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
25190714 CTAGATCGGC
25190724 AAAAGCCG
1 AAAAGCCG
*
25190732 AAAAGTCG
1 AAAAGCCG
25190740 AAAAGCCG
1 AAAAGCCG
25190748 AAAAGC
1 AAAAGC
25190754 TAGCATTTGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.53, C:0.20, G:0.23, T:0.03
Consensus pattern (8 bp):
AAAAGCCG
Found at i:25191480 original size:60 final size:59
Alignment explanation
Indices: 25191404--25191540 Score: 143
Period size: 60 Copynumber: 2.3 Consensus size: 59
25191394 AACTATGTTA
* * *
25191404 ATATGGGCAAGACCCAATATA-TCTCGACT-TGTAATAAGGCTACGGCCCAGATTGATACTG
1 ATATGGGCTAGGCCCAATATACTCT-GA-TATGTAA-AAGGCTACGGCCCAGATTAATACTG
** * * *
25191464 ATATGGGCTAGGCCCAATATACTCTGATACTGTAAGGGGCTATGGCCTAGATTAATATTG
1 ATATGGGCTAGGCCCAATATACTCTGATA-TGTAAAAGGCTACGGCCCAGATTAATACTG
25191524 ATATGGGCTAAGGCCCA
1 ATATGGGCT-AGGCCCA
25191541 GTTAACACTG
Statistics
Matches: 65, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
59 1 0.02
60 49 0.75
61 15 0.23
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (59 bp):
ATATGGGCTAGGCCCAATATACTCTGATATGTAAAAGGCTACGGCCCAGATTAATACTG
Found at i:25196077 original size:60 final size:60
Alignment explanation
Indices: 25196001--25196137 Score: 147
Period size: 60 Copynumber: 2.3 Consensus size: 60
25195991 AACTATGTTA
* *
25196001 ATATGGG-TAAGACCCAATATA-TCTCGACT-TGTAATAAGGCTACGGCCCAGATTGATACTG
1 ATATGGGCTAAGGCCCAATATACTCT-GA-TATGTAA-AAGGCTACGGCCCAGATTAATACTG
* ** * *
25196061 ATATGGGGT-AGGCCCAATATACTCTGATACTGTAAGGGGCTATGGCCCAGATTAATATTG
1 ATATGGGCTAAGGCCCAATATACTCTGATA-TGTAAAAGGCTACGGCCCAGATTAATACTG
25196121 ATATGGGCTAAGGCCCA
1 ATATGGGCTAAGGCCCA
25196138 GTTAACACTG
Statistics
Matches: 65, Mismatches: 7, Indels: 9
0.80 0.09 0.11
Matches are distributed among these distances:
59 1 0.02
60 48 0.74
61 16 0.25
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.26
Consensus pattern (60 bp):
ATATGGGCTAAGGCCCAATATACTCTGATATGTAAAAGGCTACGGCCCAGATTAATACTG
Found at i:25197117 original size:28 final size:28
Alignment explanation
Indices: 25197035--25197123 Score: 135
Period size: 29 Copynumber: 3.1 Consensus size: 28
25197025 CGAGCATGAC
25197035 TATAAATGTGAATTGGGCCT-GATGGGCCA
1 TATAAATGTG-ATTGGGCCTAG-TGGGCCA
*
25197064 TATAAATGTGATTTGGGCCTAATGGGCCA
1 TATAAATGTGA-TTGGGCCTAGTGGGCCA
25197093 TATAAATGTGATTGGGCCTAGTGGGCCA
1 TATAAATGTGATTGGGCCTAGTGGGCCA
25197121 TAT
1 TAT
25197124 GCAGGTATGT
Statistics
Matches: 56, Mismatches: 2, Indels: 5
0.89 0.03 0.08
Matches are distributed among these distances:
28 20 0.36
29 36 0.64
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.30
Consensus pattern (28 bp):
TATAAATGTGATTGGGCCTAGTGGGCCA
Found at i:25203569 original size:100 final size:100
Alignment explanation
Indices: 25203409--25203608 Score: 400
Period size: 100 Copynumber: 2.0 Consensus size: 100
25203399 ATATGTTTTC
25203409 CTCCTCCTCCTCTACATTCCACATCCTTGATGTATGTAGCACACTTGTAAGTAACATTATCTATA
1 CTCCTCCTCCTCTACATTCCACATCCTTGATGTATGTAGCACACTTGTAAGTAACATTATCTATA
25203474 ATCTTTATTATTTACTTTTATAAATATTTAAGCTG
66 ATCTTTATTATTTACTTTTATAAATATTTAAGCTG
25203509 CTCCTCCTCCTCTACATTCCACATCCTTGATGTATGTAGCACACTTGTAAGTAACATTATCTATA
1 CTCCTCCTCCTCTACATTCCACATCCTTGATGTATGTAGCACACTTGTAAGTAACATTATCTATA
25203574 ATCTTTATTATTTACTTTTATAAATATTTAAGCTG
66 ATCTTTATTATTTACTTTTATAAATATTTAAGCTG
25203609 TCCATCTGTG
Statistics
Matches: 100, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
100 100 1.00
ACGTcount: A:0.28, C:0.22, G:0.08, T:0.42
Consensus pattern (100 bp):
CTCCTCCTCCTCTACATTCCACATCCTTGATGTATGTAGCACACTTGTAAGTAACATTATCTATA
ATCTTTATTATTTACTTTTATAAATATTTAAGCTG
Found at i:25205960 original size:46 final size:46
Alignment explanation
Indices: 25205900--25206173 Score: 478
Period size: 46 Copynumber: 6.0 Consensus size: 46
25205890 TTTGACATGA
* * * * * *
25205900 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
25205946 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
25205992 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
25206038 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
25206084 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
25206130 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
25206174 AGAGCACACT
Statistics
Matches: 221, Mismatches: 6, Indels: 2
0.97 0.03 0.01
Matches are distributed among these distances:
45 4 0.02
46 217 0.98
ACGTcount: A:0.23, C:0.24, G:0.15, T:0.38
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:25209202 original size:28 final size:28
Alignment explanation
Indices: 25209162--25209216 Score: 101
Period size: 28 Copynumber: 2.0 Consensus size: 28
25209152 AAACCATTGG
*
25209162 TCCCAACGGCTAATTAAATAGTCGTTGA
1 TCCCAACAGCTAATTAAATAGTCGTTGA
25209190 TCCCAACAGCTAATTAAATAGTCGTTG
1 TCCCAACAGCTAATTAAATAGTCGTTG
25209217 TGGAAAAAAG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.33, C:0.22, G:0.16, T:0.29
Consensus pattern (28 bp):
TCCCAACAGCTAATTAAATAGTCGTTGA
Found at i:25210835 original size:30 final size:29
Alignment explanation
Indices: 25210768--25210835 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 29
25210758 ATTAACAAAA
*
25210768 TTAAGAATTTAGTCTTTGTATTTTTATTTC
1 TTAA-AATTTAGTCTTTCTATTTTTATTTC
*
25210798 ATAAAATTTAGTCTTTCTATTTTTCATATT-
1 TTAAAATTTAGTCTTTCTATTTTT-AT-TTC
25210828 TTAAAATT
1 TTAAAATT
25210836 CAAGTCCAAC
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
29 19 0.58
30 12 0.36
31 2 0.06
ACGTcount: A:0.29, C:0.07, G:0.06, T:0.57
Consensus pattern (29 bp):
TTAAAATTTAGTCTTTCTATTTTTATTTC
Found at i:25216691 original size:30 final size:31
Alignment explanation
Indices: 25216636--25216703 Score: 84
Period size: 30 Copynumber: 2.2 Consensus size: 31
25216626 ACTCTTAAAA
** * **
25216636 TATTTACACTATTGGCCCTTCAAATTTTTTG
1 TATTTACACTATTAACCCCTCAAATTTTGAG
25216667 TATTTACACT-TTAACCCCTCAAATTTTGAG
1 TATTTACACTATTAACCCCTCAAATTTTGAG
25216697 TATTTAC
1 TATTTAC
25216704 TCTTGGGCAA
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
30 22 0.69
31 10 0.31
ACGTcount: A:0.26, C:0.21, G:0.07, T:0.46
Consensus pattern (31 bp):
TATTTACACTATTAACCCCTCAAATTTTGAG
Found at i:25218869 original size:21 final size:23
Alignment explanation
Indices: 25218828--25218876 Score: 84
Period size: 21 Copynumber: 2.2 Consensus size: 23
25218818 ATTGAGATAA
25218828 TTGAAGAATTCATTCTAGAACAG
1 TTGAAGAATTCATTCTAGAACAG
25218851 TTGAAGAATTCA-T-TAGAACAG
1 TTGAAGAATTCATTCTAGAACAG
25218872 TTGAA
1 TTGAA
25218877 TCTGACAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
21 13 0.50
22 1 0.04
23 12 0.46
ACGTcount: A:0.41, C:0.10, G:0.18, T:0.31
Consensus pattern (23 bp):
TTGAAGAATTCATTCTAGAACAG
Found at i:25219899 original size:43 final size:43
Alignment explanation
Indices: 25219850--25220089 Score: 245
Period size: 43 Copynumber: 5.6 Consensus size: 43
25219840 TCATAAATGT
* * *
25219850 CGCTAAAGAACA-GTACTTTTAGCGGCATTTGTGATAAAAGCGC
1 CGCTAAAGATCATGTTC-TTTAGCGGCGTTTGTGATAAAAGCGC
* * **
25219893 CGCTAAAGATCATGTTCTTTAGCAGCGTTTGTGAAAAAAAAGC
1 CGCTAAAGATCATGTTCTTTAGCGGCGTTTGTGATAAAAGCGC
* * *
25219936 CGCTAAA-AGTCAT-TCTCTATGGTGGCGTTTGTGATAAAAGCGC
1 CGCTAAAGA-TCATGT-TCTTTAGCGGCGTTTGTGATAAAAGCGC
* * * *
25219979 CGCTAAAGGTCATGTTCTTTAGTGGTGTTTGT-AAAAAAGCGC
1 CGCTAAAGATCATGTTCTTTAGCGGCGTTTGTGATAAAAGCGC
* * * *
25220021 CGCTAAAGGTCATGTTCTCTAGAGGCGTTTTTGATAAAAGCGC
1 CGCTAAAGATCATGTTCTTTAGCGGCGTTTGTGATAAAAGCGC
* *
25220064 CGCTAAAGGTCATGTTCTTTAACGGC
1 CGCTAAAGATCATGTTCTTTAGCGGC
25220090 ATATTTTCAT
Statistics
Matches: 164, Mismatches: 27, Indels: 12
0.81 0.13 0.06
Matches are distributed among these distances:
42 39 0.24
43 121 0.74
44 4 0.02
ACGTcount: A:0.28, C:0.18, G:0.24, T:0.30
Consensus pattern (43 bp):
CGCTAAAGATCATGTTCTTTAGCGGCGTTTGTGATAAAAGCGC
Found at i:25220069 original size:85 final size:85
Alignment explanation
Indices: 25219877--25220084 Score: 294
Period size: 85 Copynumber: 2.4 Consensus size: 85
25219867 TTTAGCGGCA
*
25219877 TTTGTGATAAAAGCGCCGCTAAAGATCATGTTCTTTAGCAGCGTTTGTGAAAAAAAAGCCGCTAA
1 TTTGTGATAAAAGCGCCGCTAAAGGTCATGTTCTTTAGCAGCGTTTGTGAAAAAAAAGCCGCTAA
*
25219942 AAGTCATTCTCTATGGTGGCG
66 AAGTCATTCTCTA-GGAGGCG
** * **
25219963 TTTGTGATAAAAGCGCCGCTAAAGGTCATGTTCTTTAGTGGTGTTTGT-AAAAAAGCGCCGCTAA
1 TTTGTGATAAAAGCGCCGCTAAAGGTCATGTTCTTTAGCAGCGTTTGTGAAAAAAAAGCCGCTAA
*
25220027 AGGTCATGTTCTCTA-GAGGCG
66 AAGTCA--TTCTCTAGGAGGCG
*
25220048 TTTTTGATAAAAGCGCCGCTAAAGGTCATGTTCTTTA
1 TTTGTGATAAAAGCGCCGCTAAAGGTCATGTTCTTTA
25220085 ACGGCATATT
Statistics
Matches: 111, Mismatches: 9, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
85 60 0.54
86 44 0.40
87 7 0.06
ACGTcount: A:0.28, C:0.17, G:0.24, T:0.31
Consensus pattern (85 bp):
TTTGTGATAAAAGCGCCGCTAAAGGTCATGTTCTTTAGCAGCGTTTGTGAAAAAAAAGCCGCTAA
AAGTCATTCTCTAGGAGGCG
Found at i:25224292 original size:39 final size:39
Alignment explanation
Indices: 25224248--25224403 Score: 190
Period size: 39 Copynumber: 4.0 Consensus size: 39
25224238 TCATGTTATA
*
25224248 CATATAATCACCTAACATCCAAGCATATATCACAATACT
1 CATATAATCACATAACATCCAAGCATATATCACAATACT
* ** *
25224287 TATATAATCACATAACATTTAAGCATATATTACAATACT
1 CATATAATCACATAACATCCAAGCATATATCACAATACT
* *
25224326 CATATAATTACATAATA-CTCAAGCATATATCACAATA-T
1 CATATAATCACATAACATC-CAAGCATATATCACAATACT
* **
25224364 ACATATAATCTCATAACATTTAAGCATATATCACAATACT
1 -CATATAATCACATAACATCCAAGCATATATCACAATACT
25224404 TAAAACATGT
Statistics
Matches: 97, Mismatches: 16, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
38 1 0.01
39 95 0.98
40 1 0.01
ACGTcount: A:0.46, C:0.21, G:0.03, T:0.31
Consensus pattern (39 bp):
CATATAATCACATAACATCCAAGCATATATCACAATACT
Found at i:25228634 original size:39 final size:39
Alignment explanation
Indices: 25228557--25228645 Score: 106
Period size: 39 Copynumber: 2.3 Consensus size: 39
25228547 TGAGCCTAAT
* *
25228557 AGGCCTCGTGTTAGTGACTTATCGAGATTTAAGACTAGC
1 AGGCTTCGTGCTAGTGACTTATCGAGATTTAAGACTAGC
* * * * *
25228596 AGGCTTTGTGCTAGTGACTTATCGGGTTTTGAGCCTAGC
1 AGGCTTCGTGCTAGTGACTTATCGAGATTTAAGACTAGC
*
25228635 ATGCTTCGTGC
1 AGGCTTCGTGC
25228646 CAGTCTTTAT
Statistics
Matches: 41, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.19, C:0.19, G:0.28, T:0.34
Consensus pattern (39 bp):
AGGCTTCGTGCTAGTGACTTATCGAGATTTAAGACTAGC
Found at i:25229870 original size:14 final size:14
Alignment explanation
Indices: 25229851--25229879 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
25229841 GTAGGACATG
25229851 TTAGTTGTTAACCA
1 TTAGTTGTTAACCA
25229865 TTAGTTGTTAACCA
1 TTAGTTGTTAACCA
25229879 T
1 T
25229880 GGAAAAAGCC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.28, C:0.14, G:0.14, T:0.45
Consensus pattern (14 bp):
TTAGTTGTTAACCA
Found at i:25233412 original size:20 final size:19
Alignment explanation
Indices: 25233346--25233426 Score: 81
Period size: 20 Copynumber: 4.1 Consensus size: 19
25233336 TGTACAAGAC
* *
25233346 TTGCACTTTGATGCCCCTAT
1 TTGCACTTTGGTGCCCCT-G
25233366 TTGCACTTTGGTGCCCCTG
1 TTGCACTTTGGTGCCCCTG
* *
25233385 TATACACTTTGGTGTCCCTG
1 T-TGCACTTTGGTGCCCCTG
**
25233405 TTCGCACTACGGTGCCCCTG
1 TT-GCACTTTGGTGCCCCTG
25233425 TT
1 TT
25233427 ATGCATCTAT
Statistics
Matches: 51, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
19 2 0.04
20 49 0.96
ACGTcount: A:0.11, C:0.31, G:0.21, T:0.37
Consensus pattern (19 bp):
TTGCACTTTGGTGCCCCTG
Found at i:25233412 original size:40 final size:40
Alignment explanation
Indices: 25233349--25233425 Score: 100
Period size: 40 Copynumber: 1.9 Consensus size: 40
25233339 ACAAGACTTG
* **
25233349 CACTTTGATGCCCCTATTTGCACTTTGGTGCCCCTGTATA
1 CACTTTGATGCCCCTATTCGCACTACGGTGCCCCTGTATA
* * *
25233389 CACTTTGGTGTCCCTGTTCGCACTACGGTGCCCCTGT
1 CACTTTGATGCCCCTATTCGCACTACGGTGCCCCTGT
25233426 TATGCATCTA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 31 1.00
ACGTcount: A:0.12, C:0.32, G:0.21, T:0.35
Consensus pattern (40 bp):
CACTTTGATGCCCCTATTCGCACTACGGTGCCCCTGTATA
Found at i:25249950 original size:21 final size:21
Alignment explanation
Indices: 25249919--25249981 Score: 63
Period size: 21 Copynumber: 3.0 Consensus size: 21
25249909 TATTAAATAA
25249919 GGTTTAGGGGTTAGTAGTTAGG
1 GGTTT-GGGGTTAGTAGTTAGG
* **
25249941 GGTTTGGGGTTTGGGGTTAGG
1 GGTTTGGGGTTAGTAGTTAGG
* * *
25249962 GGTTAGAGGTTAATAGTTAG
1 GGTTTGGGGTTAGTAGTTAG
25249982 TGATTTAAGG
Statistics
Matches: 32, Mismatches: 9, Indels: 1
0.76 0.21 0.02
Matches are distributed among these distances:
21 27 0.84
22 5 0.16
ACGTcount: A:0.17, C:0.00, G:0.46, T:0.37
Consensus pattern (21 bp):
GGTTTGGGGTTAGTAGTTAGG
Found at i:25249966 original size:7 final size:7
Alignment explanation
Indices: 25249922--25249973 Score: 59
Period size: 7 Copynumber: 7.4 Consensus size: 7
25249912 TAAATAAGGT
25249922 TTAGGGG
1 TTAGGGG
**
25249929 TTAGTAG
1 TTAGGGG
25249936 TTAGGGG
1 TTAGGGG
*
25249943 TTTGGGG
1 TTAGGGG
*
25249950 TTTGGGG
1 TTAGGGG
25249957 TTAGGGG
1 TTAGGGG
*
25249964 TTAGAGG
1 TTAGGGG
25249971 TTA
1 TTA
25249974 ATAGTTAGTG
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
7 38 1.00
ACGTcount: A:0.15, C:0.00, G:0.48, T:0.37
Consensus pattern (7 bp):
TTAGGGG
Found at i:25251992 original size:5 final size:5
Alignment explanation
Indices: 25251982--25252109 Score: 256
Period size: 5 Copynumber: 25.6 Consensus size: 5
25251972 AAAACCAATC
25251982 AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT
1 AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT
25252032 AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT
1 AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT
25252082 AATAT AATAT AATAT AATAT AATAT AAT
1 AATAT AATAT AATAT AATAT AATAT AAT
25252110 TATCTTATTA
Statistics
Matches: 123, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 123 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
AATAT
Found at i:25252293 original size:22 final size:21
Alignment explanation
Indices: 25252268--25252330 Score: 65
Period size: 21 Copynumber: 3.0 Consensus size: 21
25252258 GTACTCTTAA
*
25252268 TTATTTTATTTTTTCTAATTTG
1 TTATTTAATTTTTT-TAATTTG
25252290 TTA-TTAATTTTTTTTAATTTG
1 TTATTTAA-TTTTTTTAATTTG
* * *
25252311 GTGTTTGATTTTTTTAATTT
1 TTATTTAATTTTTTTAATTT
25252331 AGTACTTAAG
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
21 23 0.66
22 12 0.34
ACGTcount: A:0.19, C:0.02, G:0.08, T:0.71
Consensus pattern (21 bp):
TTATTTAATTTTTTTAATTTG
Found at i:25252344 original size:22 final size:19
Alignment explanation
Indices: 25252275--25252346 Score: 54
Period size: 21 Copynumber: 3.4 Consensus size: 19
25252265 TAATTATTTT
25252275 ATTTTTTCTAATTTGTTATTA
1 ATTTTTT-TAATTTG-TATTA
* *
25252296 ATTTTTTTTAATTTGGTGTTTG
1 A-TTTTTTTAATTT-GT-ATTA
25252318 ATTTTTTTAATTTAGTACTTA
1 ATTTTTTTAATTT-GTA-TTA
25252339 AGTTTTTT
1 A-TTTTTT
25252347 GGGTTCATTT
Statistics
Matches: 41, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
21 25 0.61
22 16 0.39
ACGTcount: A:0.21, C:0.03, G:0.10, T:0.67
Consensus pattern (19 bp):
ATTTTTTTAATTTGTATTA
Found at i:25254214 original size:22 final size:21
Alignment explanation
Indices: 25254181--25254225 Score: 72
Period size: 22 Copynumber: 2.1 Consensus size: 21
25254171 TATAGCGACG
*
25254181 CTAAAAAACGCCGCTAAAGGC
1 CTAAAAAACGCCGCTAAAAGC
25254202 CTAAAAAAGCGCCGCTAAAAGC
1 CTAAAAAA-CGCCGCTAAAAGC
25254224 CT
1 CT
25254226 GTTTTGGTGT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 8 0.36
22 14 0.64
ACGTcount: A:0.42, C:0.29, G:0.18, T:0.11
Consensus pattern (21 bp):
CTAAAAAACGCCGCTAAAAGC
Found at i:25259156 original size:39 final size:39
Alignment explanation
Indices: 25259112--25259190 Score: 131
Period size: 39 Copynumber: 2.0 Consensus size: 39
25259102 TTTAAATTAA
* *
25259112 TCGAGTTGGCGAATCCTATTTTATTATCCTAACATGATT
1 TCGAGTTGACGAATCCTATTTTATCATCCTAACATGATT
*
25259151 TCGAGTTGACGAATCCTATTTTATCATCCTAACTTGATT
1 TCGAGTTGACGAATCCTATTTTATCATCCTAACATGATT
25259190 T
1 T
25259191 GAAATTTTCT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.25, C:0.19, G:0.14, T:0.42
Consensus pattern (39 bp):
TCGAGTTGACGAATCCTATTTTATCATCCTAACATGATT
Found at i:25266809 original size:31 final size:34
Alignment explanation
Indices: 25266774--25266835 Score: 78
Period size: 32 Copynumber: 1.9 Consensus size: 34
25266764 TCGTTTAAAT
25266774 TTTGT-TTCTTTT-TCTATTT-CTTT-TTATTTTA
1 TTTGTATTCTTTTAT-TATTTACTTTATTATTTTA
*
25266805 TTTGTATTGTTTTATTATTTACTTTATTATT
1 TTTGTATTCTTTTATTATTTACTTTATTATT
25266836 ATAATATTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
31 5 0.19
32 11 0.42
33 5 0.19
34 5 0.19
ACGTcount: A:0.15, C:0.06, G:0.05, T:0.74
Consensus pattern (34 bp):
TTTGTATTCTTTTATTATTTACTTTATTATTTTA
Found at i:25267925 original size:11 final size:11
Alignment explanation
Indices: 25267911--25267942 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
25267901 GTTTAAGTTT
25267911 AGTTAATTATA
1 AGTTAATTATA
25267922 AGTTAA-T-TA
1 AGTTAATTATA
25267931 AGTTAATTATA
1 AGTTAATTATA
25267942 A
1 A
25267943 TAAATTAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
9 8 0.42
10 2 0.11
11 9 0.47
ACGTcount: A:0.47, C:0.00, G:0.09, T:0.44
Consensus pattern (11 bp):
AGTTAATTATA
Found at i:25269033 original size:22 final size:22
Alignment explanation
Indices: 25268912--25269040 Score: 132
Period size: 22 Copynumber: 5.9 Consensus size: 22
25268902 ATATGGATTC
** *
25268912 AGCACTTTAGTGCTCTCTATCT
1 AGCACTTCGGTGCTCTCTATTT
* *
25268934 AGCACTTCGATGCTCTCTATTC
1 AGCACTTCGGTGCTCTCTATTT
* *
25268956 AACACTTCGGTGCTCTCTACTT
1 AGCACTTCGGTGCTCTCTATTT
* ** **
25268978 GGCGTTTTAGTGCTCTCTATTT
1 AGCACTTCGGTGCTCTCTATTT
*
25269000 AGCACTTTGGTGCTCTCTATTT
1 AGCACTTCGGTGCTCTCTATTT
*
25269022 AGCACTACGGTGCTCTCTA
1 AGCACTTCGGTGCTCTCTA
25269041 GTATGGTGTA
Statistics
Matches: 85, Mismatches: 22, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 85 1.00
ACGTcount: A:0.16, C:0.27, G:0.17, T:0.40
Consensus pattern (22 bp):
AGCACTTCGGTGCTCTCTATTT
Found at i:25269033 original size:66 final size:66
Alignment explanation
Indices: 25268917--25269040 Score: 194
Period size: 66 Copynumber: 1.9 Consensus size: 66
25268907 GATTCAGCAC
*
25268917 TTTAGTGCTCTCTATCTAGCACTTCGATGCTCTCTATTCAACACTTCGGTGCTCTCTACTTGGCG
1 TTTAGTGCTCTCTATCTAGCACTTCGATGCTCTCTATTCAACACTACGGTGCTCTCTACTTGGCG
25268982 T
66 T
* * * * *
25268983 TTTAGTGCTCTCTATTTAGCACTTTGGTGCTCTCTATTTAGCACTACGGTGCTCTCTA
1 TTTAGTGCTCTCTATCTAGCACTTCGATGCTCTCTATTCAACACTACGGTGCTCTCTA
25269041 GTATGGTGTA
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
66 52 1.00
ACGTcount: A:0.15, C:0.27, G:0.17, T:0.41
Consensus pattern (66 bp):
TTTAGTGCTCTCTATCTAGCACTTCGATGCTCTCTATTCAACACTACGGTGCTCTCTACTTGGCG
T
Found at i:25275402 original size:13 final size:13
Alignment explanation
Indices: 25275384--25275408 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
25275374 ATAATGTTTA
25275384 AATTAACAATATG
1 AATTAACAATATG
25275397 AATTAACAATAT
1 AATTAACAATAT
25275409 CCTCTAATTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.08, G:0.04, T:0.32
Consensus pattern (13 bp):
AATTAACAATATG
Found at i:25278973 original size:25 final size:25
Alignment explanation
Indices: 25278939--25279021 Score: 96
Period size: 25 Copynumber: 3.3 Consensus size: 25
25278929 GTCATTTGTA
*
25278939 AAGCCTTTGTGGCGATTTACTTCAG
1 AAGCCTTTGTGGCAATTTACTTCAG
* * *
25278964 AAGCCTTTGTGGCAAGTCACTTGTA-
1 AAGCCTTTGTGGCAATTTACTT-CAG
**
25278989 AAGCCTTTGTGGCAATTTACTTGGG
1 AAGCCTTTGTGGCAATTTACTTCAG
25279014 AAGCCTTT
1 AAGCCTTT
25279022 TTGGTGAGTC
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
25 47 0.98
26 1 0.02
ACGTcount: A:0.22, C:0.19, G:0.24, T:0.35
Consensus pattern (25 bp):
AAGCCTTTGTGGCAATTTACTTCAG
Found at i:25279032 original size:50 final size:50
Alignment explanation
Indices: 25278926--25279032 Score: 151
Period size: 50 Copynumber: 2.1 Consensus size: 50
25278916 ACGCATTACA
* *
25278926 TGAGTCATTTGTAAAGCCTTTGTGGCGATTTACTTCAGAAGCCTTTGTGG
1 TGAGTCACTTGTAAAGCCTTTGTGGCAATTTACTTCAGAAGCCTTTGTGG
** ** *
25278976 CAAGTCACTTGTAAAGCCTTTGTGGCAATTTACTTGGGAAGCCTTTTTGG
1 TGAGTCACTTGTAAAGCCTTTGTGGCAATTTACTTCAGAAGCCTTTGTGG
25279026 TGAGTCA
1 TGAGTCA
25279033 TCTATAAAGC
Statistics
Matches: 48, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
50 48 1.00
ACGTcount: A:0.21, C:0.17, G:0.25, T:0.36
Consensus pattern (50 bp):
TGAGTCACTTGTAAAGCCTTTGTGGCAATTTACTTCAGAAGCCTTTGTGG
Found at i:25279041 original size:50 final size:50
Alignment explanation
Indices: 25278926--25279051 Score: 148
Period size: 50 Copynumber: 2.5 Consensus size: 50
25278916 ACGCATTACA
* *
25278926 TGAGTCATTTGTAAAGCCTTTGTGGCGATTTACTTCAGAAGCCTTTGTGG
1 TGAGTCATCTGTAAAGCCTTTGTGGCAATTTACTTCAGAAGCCTTTGTGG
** ** *
25278976 CAAGTCA-CTTGTAAAGCCTTTGTGGCAATTTACTTGGGAAGCCTTTTTGG
1 TGAGTCATC-TGTAAAGCCTTTGTGGCAATTTACTTCAGAAGCCTTTGTGG
*
25279026 TGAGTCATCTATAAAG-CTTATGTGGC
1 TGAGTCATCTGTAAAGCCTT-TGTGGC
25279052 GTAATGTCTG
Statistics
Matches: 63, Mismatches: 10, Indels: 6
0.80 0.13 0.08
Matches are distributed among these distances:
49 3 0.05
50 59 0.94
51 1 0.02
ACGTcount: A:0.22, C:0.17, G:0.25, T:0.37
Consensus pattern (50 bp):
TGAGTCATCTGTAAAGCCTTTGTGGCAATTTACTTCAGAAGCCTTTGTGG
Found at i:25282976 original size:49 final size:49
Alignment explanation
Indices: 25282917--25283010 Score: 170
Period size: 49 Copynumber: 1.9 Consensus size: 49
25282907 CAAAACAGAT
* *
25282917 GGATGCATTGTTTTTGTAAAGAGTATACAGTAAGGAGTTTTCAATCATG
1 GGATGAATTGTTTTTGTAAAGAGTATACAATAAGGAGTTTTCAATCATG
25282966 GGATGAATTGTTTTTGTAAAGAGTATACAATAAGGAGTTTTCAAT
1 GGATGAATTGTTTTTGTAAAGAGTATACAATAAGGAGTTTTCAAT
25283011 AAGTAAATTG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 43 1.00
ACGTcount: A:0.33, C:0.06, G:0.23, T:0.37
Consensus pattern (49 bp):
GGATGAATTGTTTTTGTAAAGAGTATACAATAAGGAGTTTTCAATCATG
Found at i:25283824 original size:26 final size:26
Alignment explanation
Indices: 25283743--25283824 Score: 73
Period size: 26 Copynumber: 3.2 Consensus size: 26
25283733 AATATTATTT
25283743 TAATAAATTTAAT-TTAATATTT-ATC
1 TAATAAATTTAATATTAA-ATTTAATC
* ** *
25283768 TATATAAGA-TAAATATTCTA-TTAATG
1 TA-ATAA-ATTTAATATTAAATTTAATC
25283794 TAATAAATTTAATATTAAATTTAATC
1 TAATAAATTTAATATTAAATTTAATC
25283820 TAATA
1 TAATA
25283825 TTTATCTTGA
Statistics
Matches: 43, Mismatches: 8, Indels: 11
0.69 0.13 0.18
Matches are distributed among these distances:
24 1 0.02
25 16 0.37
26 23 0.53
27 3 0.07
ACGTcount: A:0.48, C:0.04, G:0.02, T:0.46
Consensus pattern (26 bp):
TAATAAATTTAATATTAAATTTAATC
Found at i:25285969 original size:50 final size:50
Alignment explanation
Indices: 25285864--25285993 Score: 143
Period size: 50 Copynumber: 2.6 Consensus size: 50
25285854 TTATTGAGTT
* * * *
25285864 TATGAGAGGTCTCACGTAAGACCATGTCTGGGACATGGCGTTGGCACCGA
1 TATGAGAGGTCCCACGTAAGACCATGTCTGAGACATGGCATGGGCACCGA
* * * *
25285914 GATGAGAGGTCCCCCGTAAGACCATGTCTGAGACATGGCATGGGTACTGA
1 TATGAGAGGTCCCACGTAAGACCATGTCTGAGACATGGCATGGGCACCGA
** * * *
25285964 TATGAGAACTCCTATGTAAGACCATATCTG
1 TATGAGAGGTCCCACGTAAGACCATGTCTG
25285994 GGATATGACA
Statistics
Matches: 65, Mismatches: 15, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
50 65 1.00
ACGTcount: A:0.27, C:0.22, G:0.28, T:0.23
Consensus pattern (50 bp):
TATGAGAGGTCCCACGTAAGACCATGTCTGAGACATGGCATGGGCACCGA
Found at i:25288142 original size:23 final size:20
Alignment explanation
Indices: 25288099--25288142 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 20
25288089 TAAAACCTAA
25288099 TTAATTAACTAATTATAAAC
1 TTAATTAACTAATTATAAAC
25288119 TTAATCTAACTATATATATAAAC
1 TTAAT-TAACTA-AT-TATAAAC
25288142 T
1 T
25288143 AGTGGATGGA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 5 0.24
21 6 0.29
22 2 0.10
23 8 0.38
ACGTcount: A:0.48, C:0.11, G:0.00, T:0.41
Consensus pattern (20 bp):
TTAATTAACTAATTATAAAC
Found at i:25290092 original size:4 final size:4
Alignment explanation
Indices: 25290076--25290119 Score: 81
Period size: 4 Copynumber: 11.2 Consensus size: 4
25290066 GGATGAATAA
25290076 GTAT GTA- GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT G
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT G
25290120 GGGCTTAGAT
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 3 0.08
4 36 0.92
ACGTcount: A:0.25, C:0.00, G:0.27, T:0.48
Consensus pattern (4 bp):
GTAT
Found at i:25300054 original size:33 final size:33
Alignment explanation
Indices: 25300012--25300084 Score: 128
Period size: 33 Copynumber: 2.2 Consensus size: 33
25300002 TAACCATTCC
25300012 AACAACATAAATATTCATAGATATGTTCAGCAT
1 AACAACATAAATATTCATAGATATGTTCAGCAT
* *
25300045 AACATCATAAATATTCATAGATATGTTTAGCAT
1 AACAACATAAATATTCATAGATATGTTCAGCAT
25300078 AACAACA
1 AACAACA
25300085 ACAGAAATTA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
33 37 1.00
ACGTcount: A:0.47, C:0.15, G:0.08, T:0.30
Consensus pattern (33 bp):
AACAACATAAATATTCATAGATATGTTCAGCAT
Found at i:25303756 original size:25 final size:24
Alignment explanation
Indices: 25303714--25303760 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 24
25303704 TCTTTTCAAA
*
25303714 AATTTAATTAATATAAAATATTAAT
1 AATTTAATAAATATAAAA-ATTAAT
25303739 AATTTAATAAAT-TGAAAAATTA
1 AATTTAATAAATAT-AAAAATTA
25303761 GAGAATTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
24 5 0.25
25 15 0.75
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.40
Consensus pattern (24 bp):
AATTTAATAAATATAAAAATTAAT
Found at i:25303767 original size:25 final size:25
Alignment explanation
Indices: 25303714--25303767 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 25
25303704 TCTTTTCAAA
* *
25303714 AATTTAATTAATATAAAATATTAAT
1 AATTTAATAAATATAAAATATTAAG
25303739 AATTTAATAAAT-TGAAAA-ATTAGAG
1 AATTTAATAAATAT-AAAATATTA-AG
25303764 AATT
1 AATT
25303768 AAATTAAAGT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
24 5 0.20
25 20 0.80
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.39
Consensus pattern (25 bp):
AATTTAATAAATATAAAATATTAAG
Found at i:25304497 original size:29 final size:29
Alignment explanation
Indices: 25304440--25304497 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
25304430 GTTTTTTGAA
* * *
25304440 AATATTTACAAAAAAGACATCTAATTTTT
1 AATATTTACAAAAAAGACAACCAAATTTT
25304469 AATATTTAC-AAAAAGAGCAACCAAATTTT
1 AATATTTACAAAAAAGA-CAACCAAATTTT
25304498 TAAAAATAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 7 0.28
29 18 0.72
ACGTcount: A:0.50, C:0.12, G:0.05, T:0.33
Consensus pattern (29 bp):
AATATTTACAAAAAAGACAACCAAATTTT
Found at i:25304498 original size:30 final size:29
Alignment explanation
Indices: 25304440--25304500 Score: 79
Period size: 30 Copynumber: 2.1 Consensus size: 29
25304430 GTTTTTTGAA
* *
25304440 AATATTTACAAAAAAGACATCTAATTTTT
1 AATATTTACAAAAAAGACACCAAATTTTT
25304469 AATATTTAC-AAAAAGAGCAACCAAATTTTT
1 AATATTTACAAAAAAGA-C-ACCAAATTTTT
25304499 AA
1 AA
25304501 AAATAATTCA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
28 7 0.25
29 10 0.36
30 11 0.39
ACGTcount: A:0.51, C:0.11, G:0.05, T:0.33
Consensus pattern (29 bp):
AATATTTACAAAAAAGACACCAAATTTTT
Found at i:25311980 original size:42 final size:43
Alignment explanation
Indices: 25311916--25312028 Score: 138
Period size: 43 Copynumber: 2.6 Consensus size: 43
25311906 ATCTATTTGA
* *
25311916 GATTTACGTGTAAGACCATGTCTGGGACATTGGCATCG-TATAT
1 GATTT-CGTGTAAGACCATGTCTGGGACAGTGACATCGATATAT
* * *
25311959 GATTTCGTGTAAGACCTTGTCTAGGACAGTGACATCGATATTT
1 GATTTCGTGTAAGACCATGTCTGGGACAGTGACATCGATATAT
* * *
25312002 GATTACATGTAAGACCACGTCTGGGAC
1 GATTTCGTGTAAGACCATGTCTGGGAC
25312029 GATGGAATTG
Statistics
Matches: 59, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
42 28 0.47
43 31 0.53
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.31
Consensus pattern (43 bp):
GATTTCGTGTAAGACCATGTCTGGGACAGTGACATCGATATAT
Found at i:25326018 original size:17 final size:17
Alignment explanation
Indices: 25325975--25326023 Score: 55
Period size: 17 Copynumber: 2.9 Consensus size: 17
25325965 TAAAATTCCA
*
25325975 AAAACCTTAAAAC-ACC
1 AAAACCTTAAAACTAAC
* *
25325991 TAAACCCTAAAACTAAC
1 AAAACCTTAAAACTAAC
*
25326008 AAAACCTTAAACCTAA
1 AAAACCTTAAAACTAA
25326024 AAACCCTAAA
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
16 11 0.42
17 15 0.58
ACGTcount: A:0.55, C:0.29, G:0.00, T:0.16
Consensus pattern (17 bp):
AAAACCTTAAAACTAAC
Found at i:25327417 original size:30 final size:30
Alignment explanation
Indices: 25327372--25327433 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 30
25327362 ATTTATACAT
25327372 TTTTTAATAAATTTTTAAAT-TTTATATTAA
1 TTTTTAATAAATTTTTAAATATTTAT-TTAA
*
25327402 TTTTT-ATAAATTTTTTAATTATTTATTTAA
1 TTTTTAATAAA-TTTTTAAATATTTATTTAA
25327432 TT
1 TT
25327434 ATTGTTGGAC
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
29 5 0.17
30 19 0.66
31 5 0.17
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (30 bp):
TTTTTAATAAATTTTTAAATATTTATTTAA
Found at i:25327428 original size:29 final size:31
Alignment explanation
Indices: 25327372--25327433 Score: 85
Period size: 29 Copynumber: 2.1 Consensus size: 31
25327362 ATTTATACAT
25327372 TTTTTAATAAATTTTTAAATTTTATA-TTAA
1 TTTTTAATAAATTTTTAAATTTTATATTTAA
*
25327402 TTTTT-ATAAATTTTTTAATTATT-TATTTAA
1 TTTTTAATAAATTTTTAAATT-TTATATTTAA
25327432 TT
1 TT
25327434 ATTGTTGGAC
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
29 16 0.55
30 13 0.45
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (31 bp):
TTTTTAATAAATTTTTAAATTTTATATTTAA
Found at i:25329653 original size:25 final size:26
Alignment explanation
Indices: 25329625--25329680 Score: 62
Period size: 25 Copynumber: 2.2 Consensus size: 26
25329615 GGACACACCA
* *
25329625 CAGCTCGCATCAGCTTCTCGATA-TT
1 CAGCTCGCAACAGCTTCCCGATACTT
* *
25329650 CAGCTTGCAAGAGCTTCCCGATACTT
1 CAGCTCGCAACAGCTTCCCGATACTT
25329676 -AGCTC
1 CAGCTC
25329681 TCATGACCTT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
25 23 0.92
26 2 0.08
ACGTcount: A:0.21, C:0.32, G:0.18, T:0.29
Consensus pattern (26 bp):
CAGCTCGCAACAGCTTCCCGATACTT
Found at i:25330761 original size:55 final size:56
Alignment explanation
Indices: 25330667--25330786 Score: 161
Period size: 55 Copynumber: 2.2 Consensus size: 56
25330657 GCTCAAATTG
* * * *
25330667 CTCAAACGGCTTAGCACACGGGTGTGTGGTTTGGCCGTGTG-ACCAAGTTAGTATA
1 CTCACACGGCTTAGCACACGGGCGTGTGGCTTGGCCGTGTGTACCAAGTCAGTATA
* * *
25330722 CTCACACGGCTTAGCACATGGGCGTGTGGCTTGGTCGTGTGTCCCAAGTCAGTATA
1 CTCACACGGCTTAGCACACGGGCGTGTGGCTTGGCCGTGTGTACCAAGTCAGTATA
*
25330778 TTCACACGG
1 CTCACACGG
25330787 GCGTGGACAC
Statistics
Matches: 56, Mismatches: 8, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
55 36 0.64
56 20 0.36
ACGTcount: A:0.20, C:0.23, G:0.30, T:0.27
Consensus pattern (56 bp):
CTCACACGGCTTAGCACACGGGCGTGTGGCTTGGCCGTGTGTACCAAGTCAGTATA
Found at i:25337111 original size:25 final size:25
Alignment explanation
Indices: 25337074--25337167 Score: 84
Period size: 25 Copynumber: 3.8 Consensus size: 25
25337064 GACGCACCAC
* ** *
25337074 AGCTTGCATGAGCTTTTCGATATTT
1 AGCTCGCATGAGCTTCCCGATACTT
*
25337099 AGCTCGCAAGAGCTTCCCGATACTT
1 AGCTCGCATGAGCTTCCCGATACTT
* *
25337124 AGCTCTCATGAGCTTCCCGTTA-TT
1 AGCTCGCATGAGCTTCCCGATACTT
*
25337148 CAGCTCAG-AAGAGCTTCCCG
1 -AGCTC-GCATGAGCTTCCCG
25337168 TTTACTACTC
Statistics
Matches: 57, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
24 2 0.04
25 55 0.96
ACGTcount: A:0.21, C:0.28, G:0.20, T:0.31
Consensus pattern (25 bp):
AGCTCGCATGAGCTTCCCGATACTT
Found at i:25337168 original size:25 final size:25
Alignment explanation
Indices: 25337097--25337169 Score: 85
Period size: 25 Copynumber: 2.9 Consensus size: 25
25337087 TTTTCGATAT
* *
25337097 TTAGCTCGCAAGAGCTTCCCGATAC
1 TTAGCTCACAAGAGCTTCCCGTTAC
* *
25337122 TTAGCTCTCATGAGCTTCCCGTTA-
1 TTAGCTCACAAGAGCTTCCCGTTAC
*
25337146 TTCAGCTCAGAAGAGCTTCCCGTT
1 TT-AGCTCACAAGAGCTTCCCGTT
25337170 TACTACTCGT
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
24 2 0.05
25 39 0.95
ACGTcount: A:0.21, C:0.30, G:0.19, T:0.30
Consensus pattern (25 bp):
TTAGCTCACAAGAGCTTCCCGTTAC
Found at i:25338261 original size:56 final size:56
Alignment explanation
Indices: 25338152--25338270 Score: 148
Period size: 56 Copynumber: 2.1 Consensus size: 56
25338142 GCTCAAATTG
* * * * *
25338152 CTCACACGGCTTAGCACATGGGCGTGTGGTTTGGATGTATGACCTAAGGCAGTATA
1 CTCACACAGCTTAGCACACGGGCGTGTGGCTTGGACGTATGACCCAAGGCAGTATA
* * * *
25338208 CTCACACAGCTTAGCACACGGGCGTGTGGCTTGGCCGTGTGTCCCAAGTCAGTATA
1 CTCACACAGCTTAGCACACGGGCGTGTGGCTTGGACGTATGACCCAAGGCAGTATA
*
25338264 TTCACAC
1 CTCACAC
25338271 GGGCATGGAC
Statistics
Matches: 53, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
56 53 1.00
ACGTcount: A:0.22, C:0.25, G:0.28, T:0.25
Consensus pattern (56 bp):
CTCACACAGCTTAGCACACGGGCGTGTGGCTTGGACGTATGACCCAAGGCAGTATA
Found at i:25339361 original size:23 final size:23
Alignment explanation
Indices: 25339333--25339379 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
25339323 CTACTACTTA
25339333 AAATCTCTGACGGAGTTGATATT
1 AAATCTCTGACGGAGTTGATATT
25339356 AAATCTCTGACGGAGTTGATATT
1 AAATCTCTGACGGAGTTGATATT
25339379 A
1 A
25339380 CAAGTAATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.32, C:0.13, G:0.21, T:0.34
Consensus pattern (23 bp):
AAATCTCTGACGGAGTTGATATT
Found at i:25339531 original size:26 final size:26
Alignment explanation
Indices: 25339502--25339552 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
25339492 GAAAGTAAAA
*
25339502 AATATTATTATGAGAGTATTTTTATC
1 AATATTATTATGAGAATATTTTTATC
25339528 AATATTATTATGAGAATATTTTTAT
1 AATATTATTATGAGAATATTTTTAT
25339553 ATATTGTATA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.37, C:0.02, G:0.10, T:0.51
Consensus pattern (26 bp):
AATATTATTATGAGAATATTTTTATC
Found at i:25347075 original size:46 final size:43
Alignment explanation
Indices: 25347003--25347087 Score: 116
Period size: 46 Copynumber: 1.9 Consensus size: 43
25346993 TGCTATGTGA
*
25347003 ACCGGTATCATTAATTATAAGGTGGTTGCTATGTGCTGATCCC
1 ACCGGTATCATTAATTAAAAGGTGGTTGCTATGTGCTGATCCC
* *
25347046 ACCGGATATCATTGATTACAAAGGGTGGTTGCTGTGTGCTGA
1 ACCGG-TATCATTAATTA-AAA-GGTGGTTGCTATGTGCTGA
25347088 ATCCACTGTG
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
43 5 0.14
44 11 0.31
45 2 0.06
46 18 0.50
ACGTcount: A:0.24, C:0.16, G:0.27, T:0.33
Consensus pattern (43 bp):
ACCGGTATCATTAATTAAAAGGTGGTTGCTATGTGCTGATCCC
Found at i:25350334 original size:9 final size:9
Alignment explanation
Indices: 25350316--25350373 Score: 89
Period size: 9 Copynumber: 6.4 Consensus size: 9
25350306 TTTTGTTAAA
25350316 AATTAACCG
1 AATTAACCG
*
25350325 AATTACCCG
1 AATTAACCG
25350334 AATTAACCG
1 AATTAACCG
*
25350343 AATTACCCG
1 AATTAACCG
*
25350352 AATTACCCG
1 AATTAACCG
25350361 AATTAACCG
1 AATTAACCG
25350370 AATT
1 AATT
25350374 GAATCACTAC
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 45 1.00
ACGTcount: A:0.40, C:0.26, G:0.10, T:0.24
Consensus pattern (9 bp):
AATTAACCG
Found at i:25350339 original size:18 final size:18
Alignment explanation
Indices: 25350316--25350373 Score: 98
Period size: 18 Copynumber: 3.2 Consensus size: 18
25350306 TTTTGTTAAA
25350316 AATTAACCGAATTACCCG
1 AATTAACCGAATTACCCG
25350334 AATTAACCGAATTACCCG
1 AATTAACCGAATTACCCG
* *
25350352 AATTACCCGAATTAACCG
1 AATTAACCGAATTACCCG
25350370 AATT
1 AATT
25350374 GAATCACTAC
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 38 1.00
ACGTcount: A:0.40, C:0.26, G:0.10, T:0.24
Consensus pattern (18 bp):
AATTAACCGAATTACCCG
Found at i:25350347 original size:27 final size:27
Alignment explanation
Indices: 25350316--25350373 Score: 107
Period size: 27 Copynumber: 2.1 Consensus size: 27
25350306 TTTTGTTAAA
25350316 AATTAACCGAATTACCCGAATTAACCG
1 AATTAACCGAATTACCCGAATTAACCG
*
25350343 AATTACCCGAATTACCCGAATTAACCG
1 AATTAACCGAATTACCCGAATTAACCG
25350370 AATT
1 AATT
25350374 GAATCACTAC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.40, C:0.26, G:0.10, T:0.24
Consensus pattern (27 bp):
AATTAACCGAATTACCCGAATTAACCG
Found at i:25351378 original size:12 final size:13
Alignment explanation
Indices: 25351353--25351382 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
25351343 ATAATGATAA
25351353 ATTAAAATTTTAT
1 ATTAAAATTTTAT
25351366 ATTAAAA-TTTAT
1 ATTAAAATTTTAT
25351378 ATTAA
1 ATTAA
25351383 TATTAAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.59
13 7 0.41
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (13 bp):
ATTAAAATTTTAT
Found at i:25351415 original size:13 final size:13
Alignment explanation
Indices: 25351353--25351415 Score: 53
Period size: 13 Copynumber: 5.1 Consensus size: 13
25351343 ATAATGATAA
* *
25351353 ATTAAAATTTTAT
1 ATTAATATTATAT
*
25351366 ATTAAAATT-TAT
1 ATTAATATTATAT
25351378 ATTAATATTA-A-
1 ATTAATATTATAT
*
25351389 A-TAATATAATTAT
1 ATTAATATTA-TAT
25351402 ATTAATATTATAT
1 ATTAATATTATAT
25351415 A
1 A
25351416 AAACAAAAAT
Statistics
Matches: 42, Mismatches: 3, Indels: 10
0.76 0.05 0.18
Matches are distributed among these distances:
10 7 0.17
11 1 0.02
12 13 0.31
13 14 0.33
14 7 0.17
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (13 bp):
ATTAATATTATAT
Found at i:25371258 original size:13 final size:13
Alignment explanation
Indices: 25371240--25371264 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
25371230 TGTAAGAAGG
25371240 ACAAACAAACAAC
1 ACAAACAAACAAC
25371253 ACAAACAAACAA
1 ACAAACAAACAA
25371265 GCGCAAAGAA
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:0.72, C:0.28, G:0.00, T:0.00
Consensus pattern (13 bp):
ACAAACAAACAAC
Found at i:25372089 original size:22 final size:22
Alignment explanation
Indices: 25372049--25372090 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
25372039 TTTACATTTG
*
25372049 TTTTTATTAATTCATTTATTAT
1 TTTTTATTAATTAATTTATTAT
25372071 TTTTTATT-ATTAATATTATT
1 TTTTTATTAATTAAT-TTATT
25372091 GGTATACTCG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (22 bp):
TTTTTATTAATTAATTTATTAT
Found at i:25377486 original size:31 final size:31
Alignment explanation
Indices: 25377448--25377510 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
25377438 ATTTTAGGGG
25377448 AGCTCAACTATAAATAGAGAGCCTCCCCCTT
1 AGCTCAACTATAAATAGAGAGCCTCCCCCTT
25377479 AGCTCAACTATAAATAGAGAGCCTCCCCCTT
1 AGCTCAACTATAAATAGAGAGCCTCCCCCTT
25377510 A
1 A
25377511 CTTGTAAATC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.33, C:0.32, G:0.13, T:0.22
Consensus pattern (31 bp):
AGCTCAACTATAAATAGAGAGCCTCCCCCTT
Found at i:25378095 original size:13 final size:13
Alignment explanation
Indices: 25378079--25378103 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
25378069 TTGTAAAAAA
25378079 ATTATGTATATGT
1 ATTATGTATATGT
25378092 ATTATGTATATG
1 ATTATGTATATG
25378104 CAAATATATC
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:0.32, C:0.00, G:0.16, T:0.52
Consensus pattern (13 bp):
ATTATGTATATGT
Found at i:25381718 original size:10 final size:10
Alignment explanation
Indices: 25381684--25381726 Score: 50
Period size: 10 Copynumber: 4.1 Consensus size: 10
25381674 TCAATTCAGC
25381684 TTTCACTTTTT
1 TTTCA-TTTTT
*
25381695 TTCTCATTGTT
1 TT-TCATTTTT
25381706 TTTCATTTTT
1 TTTCATTTTT
*
25381716 TTTAATTTTT
1 TTTCATTTTT
25381726 T
1 T
25381727 GTTTCTCTGT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
10 17 0.61
11 8 0.29
12 3 0.11
ACGTcount: A:0.12, C:0.12, G:0.02, T:0.74
Consensus pattern (10 bp):
TTTCATTTTT
Found at i:25381871 original size:15 final size:16
Alignment explanation
Indices: 25381845--25381875 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
25381835 ACATTATTCC
25381845 AAATATATATTTTACA
1 AAATATATATTTTACA
25381861 AAATATA-ATTTTACA
1 AAATATATATTTTACA
25381876 TTTCAAACAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.53
16 7 0.47
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (16 bp):
AAATATATATTTTACA
Found at i:25382666 original size:21 final size:20
Alignment explanation
Indices: 25382639--25382705 Score: 66
Period size: 21 Copynumber: 3.2 Consensus size: 20
25382629 GCTCCACCAA
*
25382639 AAAAATATACATAAA-ATATT
1 AAAAATATA-ATAAACAAATT
25382659 ATAAAATAATAATAAACAAATT
1 A-AAAAT-ATAATAAACAAATT
*
25382681 AAAAATAATAAAAAACAAA-T
1 AAAAAT-ATAATAAACAAATT
25382701 AAAAA
1 AAAAA
25382706 ACTGAAAAAG
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
20 7 0.17
21 27 0.64
22 8 0.19
ACGTcount: A:0.73, C:0.04, G:0.00, T:0.22
Consensus pattern (20 bp):
AAAAATATAATAAACAAATT
Found at i:25382701 original size:11 final size:11
Alignment explanation
Indices: 25382666--25382707 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
25382656 ATTATAAAAT
*
25382666 AATAATAAACA
1 AATAAAAAACA
* *
25382677 AATTAAAAA-T
1 AATAAAAAACA
25382687 AATAAAAAACA
1 AATAAAAAACA
25382698 AATAAAAAAC
1 AATAAAAAAC
25382708 TGAAAAAGGA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
10 8 0.32
11 17 0.68
ACGTcount: A:0.76, C:0.07, G:0.00, T:0.17
Consensus pattern (11 bp):
AATAAAAAACA
Found at i:25382706 original size:21 final size:21
Alignment explanation
Indices: 25382661--25382706 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
25382651 AAAATATTAT
* *
25382661 AAAATAATAATAAACAAATTA
1 AAAATAATAAAAAACAAATAA
25382682 AAAATAATAAAAAACAAATAA
1 AAAATAATAAAAAACAAATAA
25382703 AAAA
1 AAAA
25382707 CTGAAAAAGG
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:0.78, C:0.04, G:0.00, T:0.17
Consensus pattern (21 bp):
AAAATAATAAAAAACAAATAA
Found at i:25383645 original size:43 final size:43
Alignment explanation
Indices: 25383611--25383860 Score: 299
Period size: 43 Copynumber: 5.8 Consensus size: 43
25383601 AGGTCATGGT
*
25383611 CTTTAGCTGCGCTTTTCCCACAAACGCCGCTAAAGACCATC-AC
1 CTTTAGCAGCGCTTTTCCCACAAACGCCGCTAAAGACCA-CGAC
* * *
25383654 CTTTAGCAGTGCTTTTCCCACAAACGCAGCTAAAGACCATGAC
1 CTTTAGCAGCGCTTTTCCCACAAACGCCGCTAAAGACCACGAC
* * * *
25383697 CTTTAGCGGCGCTCTTCCCGA-AAACGCCGCTATAGACCACAAC
1 CTTTAGCAGCGCTTTTCCC-ACAAACGCCGCTAAAGACCACGAC
* * *
25383740 CTTTTAGCAGCACTTTTCCCACAAACACCGCTATAGACCACGAC
1 C-TTTAGCAGCGCTTTTCCCACAAACGCCGCTAAAGACCACGAC
*
25383784 CTTTAGC-GACGCTTTTCCCACAAACGCCGCTATAGACCACGAC
1 CTTTAGCAG-CGCTTTTCCCACAAACGCCGCTAAAGACCACGAC
* * * *
25383827 CTTTAGCGGCGCTTATCGCAAAAACGCCGCTAAA
1 CTTTAGCAGCGCTTTTCCCACAAACGCCGCTAAA
25383861 AAATAACCTT
Statistics
Matches: 179, Mismatches: 22, Indels: 12
0.84 0.10 0.06
Matches are distributed among these distances:
42 1 0.01
43 140 0.78
44 38 0.21
ACGTcount: A:0.28, C:0.35, G:0.16, T:0.22
Consensus pattern (43 bp):
CTTTAGCAGCGCTTTTCCCACAAACGCCGCTAAAGACCACGAC
Found at i:25383789 original size:87 final size:86
Alignment explanation
Indices: 25383611--25383830 Score: 300
Period size: 87 Copynumber: 2.5 Consensus size: 86
25383601 AGGTCATGGT
* * **
25383611 CTTTAGCTGCGCTTTTCCCACAAACGCCGCTAAAGACCATCACC-TTTAGCAGTGCTTTTCCCAC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGACCA-CACCTTTTAGCAGCACTTTTCCCAC
* *
25383675 AAACGCAGCTAAAGACCATGAC
65 AAACACAGCTAAAGACCACGAC
*
25383697 CTTTAGCGGCGCTCTTCCCGA-AAACGCCGCTATAGACCACAACCTTTTAGCAGCACTTTTCCCA
1 CTTTAGCGGCGCTTTTCCC-ACAAACGCCGCTATAGACCAC-ACCTTTTAGCAGCACTTTTCCCA
* *
25383761 CAAACACCGCTATAGACCACGAC
64 CAAACACAGCTAAAGACCACGAC
*
25383784 CTTTAGCGACGCTTTTCCCACAAACGCCGCTATAGACCACGACCTTT
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGACCAC-ACCTTT
25383831 AGCGGCGCTT
Statistics
Matches: 118, Mismatches: 12, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
85 1 0.01
86 38 0.32
87 79 0.67
ACGTcount: A:0.27, C:0.35, G:0.15, T:0.23
Consensus pattern (86 bp):
CTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGACCACACCTTTTAGCAGCACTTTTCCCACA
AACACAGCTAAAGACCACGAC
Done.