Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D05
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: 64368997
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1610000 characters in sequence are not A, C, G, or T
File 61 of 208
Found at i:23001081 original size:18 final size:17
Alignment explanation
Indices: 23001058--23001125 Score: 55
Period size: 18 Copynumber: 3.8 Consensus size: 17
23001048 AGTTTGACAA
23001058 AATACATCTCACCATATT
1 AATACAT-TCACCATATT
* *
23001076 AATACAAATCACCAAATT
1 AATAC-ATTCACCATATT
* *
23001094 AACACAGTTCACCATAAT
1 AATACA-TTCACCATATT
*
23001112 AATATAATTCACCA
1 AATA-CATTCACCA
23001126 AGTTAACATG
Statistics
Matches: 39, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
17 1 0.03
18 36 0.92
19 2 0.05
ACGTcount: A:0.47, C:0.25, G:0.01, T:0.26
Consensus pattern (17 bp):
AATACATTCACCATATT
Found at i:23001527 original size:27 final size:26
Alignment explanation
Indices: 23001492--23001562 Score: 70
Period size: 27 Copynumber: 2.7 Consensus size: 26
23001482 AACCTATAAA
*
23001492 CACATATATATTATATATAATAAAACC
1 CACACATATA-TATATATAATAAAACC
* * * *
23001519 CACACATATAATATATGTATTCAACCC
1 CACACATAT-ATATATATAATAAAACC
*
23001546 CACACATTTATATATAT
1 CACACATATATATATAT
23001563 GTATATTACC
Statistics
Matches: 36, Mismatches: 7, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
26 7 0.19
27 28 0.78
28 1 0.03
ACGTcount: A:0.45, C:0.20, G:0.01, T:0.34
Consensus pattern (26 bp):
CACACATATATATATATAATAAAACC
Found at i:23005462 original size:31 final size:33
Alignment explanation
Indices: 23005420--23005500 Score: 98
Period size: 31 Copynumber: 2.5 Consensus size: 33
23005410 ATGGGCACAC
*
23005420 ATGCCCTTGTGGCCCACACACCCAGAT-TGG-CT
1 ATGCCCGTGTGGCCCACACACCCA-ATATGGCCT
*
23005452 -TGCCCGTGTGGCCCACACGCCCAATATGGCCT
1 ATGCCCGTGTGGCCCACACACCCAATATGGCCT
*
23005484 AT-CCCGTGTGGCTCACA
1 ATGCCCGTGTGGCCCACA
23005501 TGACCACACT
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
30 2 0.05
31 24 0.56
32 16 0.37
33 1 0.02
ACGTcount: A:0.17, C:0.38, G:0.23, T:0.21
Consensus pattern (33 bp):
ATGCCCGTGTGGCCCACACACCCAATATGGCCT
Found at i:23008604 original size:42 final size:42
Alignment explanation
Indices: 23008545--23008628 Score: 168
Period size: 42 Copynumber: 2.0 Consensus size: 42
23008535 AATTTAACTA
23008545 AACCTAAATGTACTCCTAGGTTAATGTATCAACTTTTCCTAT
1 AACCTAAATGTACTCCTAGGTTAATGTATCAACTTTTCCTAT
23008587 AACCTAAATGTACTCCTAGGTTAATGTATCAACTTTTCCTAT
1 AACCTAAATGTACTCCTAGGTTAATGTATCAACTTTTCCTAT
23008629 TCCTTGTTTC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.31, C:0.21, G:0.10, T:0.38
Consensus pattern (42 bp):
AACCTAAATGTACTCCTAGGTTAATGTATCAACTTTTCCTAT
Found at i:23010039 original size:26 final size:26
Alignment explanation
Indices: 23010009--23010084 Score: 89
Period size: 26 Copynumber: 2.9 Consensus size: 26
23009999 GCCAACACAC
23010009 CAATATCGCAGCAAAGCTGCCAGTAA
1 CAATATCGCAGCAAAGCTGCCAGTAA
* ** *
23010035 TAATATCATAGCAAAGCTGCCAATAA
1 CAATATCGCAGCAAAGCTGCCAGTAA
* * *
23010061 CAGTAACGCATCAAAGCTGCCAGT
1 CAATATCGCAGCAAAGCTGCCAGT
23010085 GACAGTATAT
Statistics
Matches: 39, Mismatches: 11, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
26 39 1.00
ACGTcount: A:0.39, C:0.25, G:0.17, T:0.18
Consensus pattern (26 bp):
CAATATCGCAGCAAAGCTGCCAGTAA
Found at i:23010297 original size:27 final size:28
Alignment explanation
Indices: 23010267--23010401 Score: 136
Period size: 27 Copynumber: 5.0 Consensus size: 28
23010257 GGGTACAACA
*
23010267 GTCATTTTACCCAATAG-GGGTATTTCG
1 GTCATTTTACCCAATCGAGGGTATTTCG
* * *
23010294 GTCATTTTA-CCATTCGAAGGTATTTTG
1 GTCATTTTACCCAATCGAGGGTATTTCG
* *
23010321 GTCATTTTACCCTAT-GGGGGTATTTCG
1 GTCATTTTACCCAATCGAGGGTATTTCG
* *
23010348 GTAATTTTACCC-TTCGAGGGTATTTCG
1 GTCATTTTACCCAATCGAGGGTATTTCG
* *
23010375 GTAATTTTTACCC-TTCGAGGGTATTTC
1 GTCA-TTTTACCCAATCGAGGGTATTTC
23010402 AGTACTTTTT
Statistics
Matches: 92, Mismatches: 12, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
26 6 0.07
27 61 0.66
28 25 0.27
ACGTcount: A:0.19, C:0.18, G:0.21, T:0.41
Consensus pattern (28 bp):
GTCATTTTACCCAATCGAGGGTATTTCG
Found at i:23010349 original size:54 final size:54
Alignment explanation
Indices: 23010267--23010410 Score: 173
Period size: 54 Copynumber: 2.6 Consensus size: 54
23010257 GGGTACAACA
* * * *
23010267 GTCATTTTACCCAATAGGGGTATTTCGGTCATTTTACCATTCGAAGGTATTTTG
1 GTCATTTTACCCTATGGGGGTATTTCGGTAATTTTACCATTCGAAGGTATTTCG
* *
23010321 GTCATTTTACCCTATGGGGGTATTTCGGTAATTTTACCCTTCGAGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCGGTAATTTTACCATTCGAAGGTATTTCG
* * * *
23010375 GTAATTTTTACCCT-TCGAGGGTATTTCAGTACTTTT
1 GTCA-TTTTACCCTAT-GGGGGTATTTCGGTAATTTT
23010411 TTAGCCCAAG
Statistics
Matches: 78, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
54 52 0.67
55 26 0.33
ACGTcount: A:0.19, C:0.17, G:0.21, T:0.42
Consensus pattern (54 bp):
GTCATTTTACCCTATGGGGGTATTTCGGTAATTTTACCATTCGAAGGTATTTCG
Found at i:23010392 original size:28 final size:27
Alignment explanation
Indices: 23010284--23010410 Score: 157
Period size: 27 Copynumber: 4.7 Consensus size: 27
23010274 TACCCAATAG
* *
23010284 GGGTATTTCGGTCATTTTACCATTCGA
1 GGGTATTTCGGTAATTTTACCCTTCGA
* * * *
23010311 AGGTATTTTGGTCATTTTACCCTAT-GG
1 GGGTATTTCGGTAATTTTACCCT-TCGA
23010338 GGGTATTTCGGTAATTTTACCCTTCGA
1 GGGTATTTCGGTAATTTTACCCTTCGA
23010365 GGGTATTTCGGTAATTTTTACCCTTCGA
1 GGGTATTTCGGTAA-TTTTACCCTTCGA
* *
23010393 GGGTATTTCAGTACTTTT
1 GGGTATTTCGGTAATTTT
23010411 TTAGCCCAAG
Statistics
Matches: 87, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
26 1 0.01
27 60 0.69
28 26 0.30
ACGTcount: A:0.18, C:0.17, G:0.22, T:0.43
Consensus pattern (27 bp):
GGGTATTTCGGTAATTTTACCCTTCGA
Found at i:23014315 original size:13 final size:14
Alignment explanation
Indices: 23014297--23014330 Score: 61
Period size: 13 Copynumber: 2.5 Consensus size: 14
23014287 ACAATTGTGT
23014297 AATTATAATTTAA-
1 AATTATAATTTAAG
23014310 AATTATAATTTAAG
1 AATTATAATTTAAG
23014324 AATTATA
1 AATTATA
23014331 TATAATTGTA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 13 0.65
14 7 0.35
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (14 bp):
AATTATAATTTAAG
Found at i:23015365 original size:12 final size:12
Alignment explanation
Indices: 23015345--23015404 Score: 70
Period size: 12 Copynumber: 5.1 Consensus size: 12
23015335 GTTTTTTAGT
23015345 TTAT-TTTATTA
1 TTATATTTATTA
* *
23015356 ATATAGTTATTA
1 TTATATTTATTA
*
23015368 TTATTTTTATTA
1 TTATATTTATTA
23015380 TTACTA-TTATTA
1 TTA-TATTTATTA
23015392 TTATATTTATTA
1 TTATATTTATTA
23015404 T
1 T
23015405 ACTTACATAT
Statistics
Matches: 40, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
11 5 0.12
12 34 0.85
13 1 0.03
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.65
Consensus pattern (12 bp):
TTATATTTATTA
Found at i:23015377 original size:6 final size:6
Alignment explanation
Indices: 23015345--23015404 Score: 54
Period size: 6 Copynumber: 10.2 Consensus size: 6
23015335 GTTTTTTAGT
* * *
23015345 TTATT- TTATTA ATA-TA GTTATTA TTATTT TTATTA TTACTA TTATTA
1 TTATTA TTATTA TTATTA -TTATTA TTATTA TTATTA TTATTA TTATTA
23015392 TTA-TA TTTATTA T
1 TTATTA -TTATTA T
23015405 ACTTACATAT
Statistics
Matches: 44, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
5 9 0.20
6 31 0.70
7 4 0.09
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.65
Consensus pattern (6 bp):
TTATTA
Found at i:23015378 original size:24 final size:24
Alignment explanation
Indices: 23015348--23015407 Score: 79
Period size: 24 Copynumber: 2.5 Consensus size: 24
23015338 TTTTAGTTTA
23015348 TTTTATTAATA-TAGTTATTATTAT
1 TTTTATTAATACTA-TTATTATTAT
*
23015372 TTTTATTATTACTATTATTATTAT
1 TTTTATTAATACTATTATTATTAT
*
23015396 ATTTATT-ATACT
1 TTTTATTAATACT
23015408 TACATATATA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
23 4 0.12
24 26 0.81
25 2 0.06
ACGTcount: A:0.32, C:0.03, G:0.02, T:0.63
Consensus pattern (24 bp):
TTTTATTAATACTATTATTATTAT
Found at i:23015379 original size:9 final size:9
Alignment explanation
Indices: 23015345--23015404 Score: 54
Period size: 9 Copynumber: 6.8 Consensus size: 9
23015335 GTTTTTTAGT
23015345 TTATT-TTA
1 TTATTATTA
*
23015353 TTAATA-TA
1 TTATTATTA
23015361 GTTATTATTA
1 -TTATTATTA
*
23015371 TTTTTATTA
1 TTATTATTA
*
23015380 TTACTATTA
1 TTATTATTA
23015389 TTATTA-TA
1 TTATTATTA
23015397 TTTATTAT
1 -TTATTAT
23015405 ACTTACATAT
Statistics
Matches: 41, Mismatches: 6, Indels: 8
0.75 0.11 0.15
Matches are distributed among these distances:
8 8 0.20
9 31 0.76
10 2 0.05
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.65
Consensus pattern (9 bp):
TTATTATTA
Found at i:23015580 original size:25 final size:26
Alignment explanation
Indices: 23015552--23015611 Score: 72
Period size: 26 Copynumber: 2.3 Consensus size: 26
23015542 CATTCATATT
23015552 TTTTATAATT-ATTTATGTTT-T-CATG
1 TTTTATAATTCA--TATGTTTATACATG
*
23015577 TTTTATAATTCATATGTTTATACATT
1 TTTTATAATTCATATGTTTATACATG
23015603 TTTTATAAT
1 TTTTATAAT
23015612 ATGTACAAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
24 7 0.23
25 11 0.35
26 13 0.42
ACGTcount: A:0.28, C:0.05, G:0.05, T:0.62
Consensus pattern (26 bp):
TTTTATAATTCATATGTTTATACATG
Found at i:23015580 original size:26 final size:26
Alignment explanation
Indices: 23015549--23015611 Score: 78
Period size: 25 Copynumber: 2.5 Consensus size: 26
23015539 ATACATTCAT
23015549 ATTTTTTATAATT-ATTTATGTTT-T-C
1 ATTTTTTATAATTCA--TATGTTTATAC
*
23015574 ATGTTTTATAATTCATATGTTTATAC
1 ATTTTTTATAATTCATATGTTTATAC
23015600 ATTTTTTATAAT
1 ATTTTTTATAAT
23015612 ATGTACAAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
24 7 0.21
25 13 0.39
26 13 0.39
ACGTcount: A:0.29, C:0.05, G:0.05, T:0.62
Consensus pattern (26 bp):
ATTTTTTATAATTCATATGTTTATAC
Found at i:23022371 original size:44 final size:44
Alignment explanation
Indices: 23022322--23022897 Score: 263
Period size: 44 Copynumber: 13.2 Consensus size: 44
23022312 ATACTAATTC
* *
23022322 TATCTCCCTGGTTGGTAGTGGAATAGATTGAAGATTTCAGATCT
1 TATCTCCCTGGTTGGTAGTGGAGTAGATTGAAGATGTCAGATCT
* * * * *
23022366 TATCTCCCTAGGCAT--TAGTGGAGCAGATCGAAGATGACAGATTT
1 TATCTCCCT-GG-TTGGTAGTGGAGTAGATTGAAGATGTCAGATCT
* * **
23022410 TACCTCCCT-G-TGGTTACAGTGGAGTACATTGAAGCCGT-A-AT-T
1 TATCTCCCTGGTTGG-T--AGTGGAGTAGATTGAAGATGTCAGATCT
* * *
23022452 CTATCTCCCTGGTTGGCAGTGGAATAGATTGAAGATTTCAGATCT
1 -TATCTCCCTGGTTGGTAGTGGAGTAGATTGAAGATGTCAGATCT
* * * * *
23022497 TATCTCCCTAGGCAT--TAGTGGAGCAGATCGAAGATGACAGATTT
1 TATCTCCCT-GG-TTGGTAGTGGAGTAGATTGAAGATGTCAGATCT
* * **
23022541 TACCTCCCT-G-TGGTTACAGTGGAGTACATTGAAGCCGT-A-AT-T
1 TATCTCCCTGGTTGG-T--AGTGGAGTAGATTGAAGATGTCAGATCT
* * *
23022583 CTATCTCCCTGGTTGGCAGTGGAATAGATTGAAGATTTCAGATCT
1 -TATCTCCCTGGTTGGTAGTGGAGTAGATTGAAGATGTCAGATCT
* * * * *
23022628 TATCTCCCTAGGCAT--TAGTGGAGAAGATCGAAGATGGCAGATTT
1 TATCTCCCT-GG-TTGGTAGTGGAGTAGATTGAAGATGTCAGATCT
* * **
23022672 TACCTCCCT-G-TGGTTACAGTGGAGTACATTGAAGCCGT-A-AT-T
1 TATCTCCCTGGTTGG-T--AGTGGAGTAGATTGAAGATGTCAGATCT
* * *
23022714 CTATCTCCCTGGTTGGCAGTGGAATAGATTGAAGATTTCAGATCT
1 -TATCTCCCTGGTTGGTAGTGGAGTAGATTGAAGATGTCAGATCT
* * * ** * *
23022759 TATCTCCTTAGGCAT--TAGTAGAGTAGATCAAAGATGGCAGATTT
1 TATCTCCCT-GG-TTGGTAGTGGAGTAGATTGAAGATGTCAGATCT
* ** *
23022803 TACCTCCCTGAGGTT-ACAGTGGAGTACATTGAAGCCA-GT-A-AT-T
1 TATCTCCCT--GGTTGGTAGTGGAGTAGATTGAAG--ATGTCAGATCT
* * *
23022846 CTATCTCCCTGGTTGGCAGTGGAATAGATTGAAGATTTCAGATCT
1 -TATCTCCCTGGTTGGTAGTGGAGTAGATTGAAGATGTCAGATCT
23022891 TATCTCC
1 TATCTCC
23022898 TTAAGCGGTA
Statistics
Matches: 392, Mismatches: 89, Indels: 102
0.67 0.15 0.17
Matches are distributed among these distances:
40 3 0.01
41 1 0.00
42 59 0.15
43 54 0.14
44 186 0.47
45 83 0.21
46 5 0.01
47 1 0.00
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.31
Consensus pattern (44 bp):
TATCTCCCTGGTTGGTAGTGGAGTAGATTGAAGATGTCAGATCT
Found at i:23022457 original size:87 final size:86
Alignment explanation
Indices: 23022366--23022749 Score: 218
Period size: 87 Copynumber: 4.4 Consensus size: 86
23022356 TTTCAGATCT
*
23022366 TATCTCCCTAGGCATT-AGTGGAGCAGATCGAAGATGACAGATTTTACCTCCCTGTGGTTACAGT
1 TATCTCCCT-GG-ATTCAGTGGAGTAGATCGAAGATG-CAGATTTTACCTCCCTGTGGTTACAGT
*
23022430 GGAGTACATTGAAGCCGTA-ATTC
63 GGAGTACATTGAAGACGTAGATTC
* * * * * *
23022453 TATCTCCCTGG-TTGGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAG-GCATT--A
1 TATCTCCCTGGATT--CAGTGGAGTAGATCGAAGA-TGCAGATTTTACCTCCCT-GTG-GTTACA
* * * * * *
23022514 GTGGAGCAGATCGAAGATGACAGATTT
61 GTGGAGTACATTGAAGACG-TAGATTC
* * * * ** * * * *
23022541 TACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCGTA-ATTCTATCTCCC--TGGTTGGCAGT
1 TATCTCCCTG-GATT-CAGTGGAGTAGATCGAAGATGCAGATTTTACCTCCCTGTGGTT-ACAGT
* * **
23022603 GGAATAGATTGAAGATTTCAGA-TC
63 GGAGTACATTGAAGACGT-AGATTC
*
23022627 TTATCTCCCTAGGCATT-AGTGGAGAAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTACAG
1 -TATCTCCCT-GG-ATTCAGTGGAGTAGATCGAAGAT-GCAGATTTTACCTCCCTGTGGTTACAG
*
23022691 TGGAGTACATTGAAGCCGTA-ATTC
62 TGGAGTACATTGAAGACGTAGATTC
* *
23022715 TATCTCCCTGG-TTGGCAGTGGAATAGATTGAAGAT
1 TATCTCCCTGGATT--CAGTGGAGTAGATCGAAGAT
23022750 TTCAGATCTT
Statistics
Matches: 221, Mismatches: 50, Indels: 52
0.68 0.15 0.16
Matches are distributed among these distances:
84 6 0.03
85 1 0.00
86 34 0.15
87 106 0.48
88 33 0.15
89 34 0.15
90 7 0.03
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.30
Consensus pattern (86 bp):
TATCTCCCTGGATTCAGTGGAGTAGATCGAAGATGCAGATTTTACCTCCCTGTGGTTACAGTGGA
GTACATTGAAGACGTAGATTC
Found at i:23022550 original size:131 final size:131
Alignment explanation
Indices: 23022316--23023051 Score: 1204
Period size: 131 Copynumber: 5.6 Consensus size: 131
23022306 TCGAAGATAC
*
23022316 TAATTCTATCTCCCTGGTTGGTAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAGGCAT
1 TAATTCTATCTCCCTGGTTGGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAGGCAT
*
23022381 TAGTGGAGCAGATCGAAGATGACAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCC
66 TAGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCC
23022446 G
131 G
23022447 TAATTCTATCTCCCTGGTTGGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAGGCAT
1 TAATTCTATCTCCCTGGTTGGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAGGCAT
*
23022512 TAGTGGAGCAGATCGAAGATGACAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCC
66 TAGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCC
23022577 G
131 G
23022578 TAATTCTATCTCCCTGGTTGGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAGGCAT
1 TAATTCTATCTCCCTGGTTGGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAGGCAT
*
23022643 TAGTGGAGAAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCC
66 TAGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCC
23022708 G
131 G
*
23022709 TAATTCTATCTCCCTGGTTGGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCTTAGGCAT
1 TAATTCTATCTCCCTGGTTGGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAGGCAT
* * * *
23022774 TAGTAGAGTAGATCAAAGATGGCAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCC
66 TAGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCC
23022839 AG
131 -G
* * **
23022841 TAATTCTATCTCCCTGGTTGGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCTTAAGCGG
1 TAATTCTATCTCCCTGGTTGGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAGGCAT
*
23022906 TAGTGGAGCAGATCGAAGATGGC-GAATTTTACCTCCCTGGGGTTACAGTGGAGTACATTGAAGC
66 TAGTGGAGCAGATCGAAGATGGCAG-ATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGC
23022970 CAG
130 C-G
* * * * * ** * *
23022973 TAATTCTATCTCCTTGGTCGACAGTGGAATCGATCGAAGAATAGCAGATTTTATCTCCCTAAGCA
1 TAATTCTATCTCCCTGGTTGGCAGTGGAATAGATTGAAG-ATTTCAGATCTTATCTCCCTAGGCA
* *
23023038 GTAGTGGAGTAGAT
65 TTAGTGGAGCAGAT
23023052 GATGACGGCG
Statistics
Matches: 576, Mismatches: 26, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
131 385 0.67
132 158 0.27
133 33 0.06
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.31
Consensus pattern (131 bp):
TAATTCTATCTCCCTGGTTGGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAGGCAT
TAGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCC
G
Found at i:23024512 original size:12 final size:12
Alignment explanation
Indices: 23024492--23024551 Score: 70
Period size: 12 Copynumber: 5.1 Consensus size: 12
23024482 GTTTTTTAGT
23024492 TTAT-TTTATTA
1 TTATATTTATTA
* *
23024503 ATATAGTTATTA
1 TTATATTTATTA
*
23024515 TTATTTTTATTA
1 TTATATTTATTA
23024527 TTACTA-TTATTA
1 TTA-TATTTATTA
23024539 TTATATTTATTA
1 TTATATTTATTA
23024551 T
1 T
23024552 ACTTACATAT
Statistics
Matches: 40, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
11 5 0.12
12 34 0.85
13 1 0.03
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.65
Consensus pattern (12 bp):
TTATATTTATTA
Found at i:23024524 original size:6 final size:6
Alignment explanation
Indices: 23024492--23024551 Score: 54
Period size: 6 Copynumber: 10.2 Consensus size: 6
23024482 GTTTTTTAGT
* * *
23024492 TTATT- TTATTA ATA-TA GTTATTA TTATTT TTATTA TTACTA TTATTA
1 TTATTA TTATTA TTATTA -TTATTA TTATTA TTATTA TTATTA TTATTA
23024539 TTA-TA TTTATTA T
1 TTATTA -TTATTA T
23024552 ACTTACATAT
Statistics
Matches: 44, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
5 9 0.20
6 31 0.70
7 4 0.09
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.65
Consensus pattern (6 bp):
TTATTA
Found at i:23024525 original size:24 final size:24
Alignment explanation
Indices: 23024495--23024554 Score: 79
Period size: 24 Copynumber: 2.5 Consensus size: 24
23024485 TTTTAGTTTA
23024495 TTTTATTAATA-TAGTTATTATTAT
1 TTTTATTAATACTA-TTATTATTAT
*
23024519 TTTTATTATTACTATTATTATTAT
1 TTTTATTAATACTATTATTATTAT
*
23024543 ATTTATT-ATACT
1 TTTTATTAATACT
23024555 TACATATATA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
23 4 0.12
24 26 0.81
25 2 0.06
ACGTcount: A:0.32, C:0.03, G:0.02, T:0.63
Consensus pattern (24 bp):
TTTTATTAATACTATTATTATTAT
Found at i:23024526 original size:9 final size:9
Alignment explanation
Indices: 23024492--23024551 Score: 54
Period size: 9 Copynumber: 6.8 Consensus size: 9
23024482 GTTTTTTAGT
23024492 TTATT-TTA
1 TTATTATTA
*
23024500 TTAATA-TA
1 TTATTATTA
23024508 GTTATTATTA
1 -TTATTATTA
*
23024518 TTTTTATTA
1 TTATTATTA
*
23024527 TTACTATTA
1 TTATTATTA
23024536 TTATTA-TA
1 TTATTATTA
23024544 TTTATTAT
1 -TTATTAT
23024552 ACTTACATAT
Statistics
Matches: 41, Mismatches: 6, Indels: 8
0.75 0.11 0.15
Matches are distributed among these distances:
8 8 0.20
9 31 0.76
10 2 0.05
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.65
Consensus pattern (9 bp):
TTATTATTA
Found at i:23024728 original size:25 final size:26
Alignment explanation
Indices: 23024700--23024759 Score: 72
Period size: 26 Copynumber: 2.3 Consensus size: 26
23024690 CATTCATATT
23024700 TTTTATAATT-ATTTATGTTT-T-CATG
1 TTTTATAATTCA--TATGTTTATACATG
*
23024725 TTTTATAATTCATATGTTTATACATT
1 TTTTATAATTCATATGTTTATACATG
23024751 TTTTATAAT
1 TTTTATAAT
23024760 ATGTACAAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
24 7 0.23
25 11 0.35
26 13 0.42
ACGTcount: A:0.28, C:0.05, G:0.05, T:0.62
Consensus pattern (26 bp):
TTTTATAATTCATATGTTTATACATG
Found at i:23024728 original size:26 final size:26
Alignment explanation
Indices: 23024697--23024759 Score: 78
Period size: 25 Copynumber: 2.5 Consensus size: 26
23024687 ATACATTCAT
23024697 ATTTTTTATAATT-ATTTATGTTT-T-C
1 ATTTTTTATAATTCA--TATGTTTATAC
*
23024722 ATGTTTTATAATTCATATGTTTATAC
1 ATTTTTTATAATTCATATGTTTATAC
23024748 ATTTTTTATAAT
1 ATTTTTTATAAT
23024760 ATGTACAAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
24 7 0.21
25 13 0.39
26 13 0.39
ACGTcount: A:0.29, C:0.05, G:0.05, T:0.62
Consensus pattern (26 bp):
ATTTTTTATAATTCATATGTTTATAC
Found at i:23026094 original size:21 final size:22
Alignment explanation
Indices: 23026070--23026110 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
23026060 GTGTAATACA
*
23026070 ATGAAAAT-TTTATTTAATTGT
1 ATGAAAATATTTAATTAATTGT
23026091 ATGAAAATATTTAATTAATT
1 ATGAAAATATTTAATTAATT
23026111 TCAAATATGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.44, C:0.00, G:0.07, T:0.49
Consensus pattern (22 bp):
ATGAAAATATTTAATTAATTGT
Found at i:23034665 original size:23 final size:25
Alignment explanation
Indices: 23034613--23034666 Score: 62
Period size: 23 Copynumber: 2.3 Consensus size: 25
23034603 ATATTAACAA
* *
23034613 CTAAATTTCACAATATTTCATGTTG
1 CTAAATATCAAAATATTTCATGTTG
23034638 -T-AATATCAAAATATTT-A-GTTG
1 CTAAATATCAAAATATTTCATGTTG
23034659 CTAAATAT
1 CTAAATAT
23034667 AATCTTCAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
21 4 0.16
22 2 0.08
23 18 0.72
24 1 0.04
ACGTcount: A:0.39, C:0.11, G:0.07, T:0.43
Consensus pattern (25 bp):
CTAAATATCAAAATATTTCATGTTG
Found at i:23041043 original size:20 final size:18
Alignment explanation
Indices: 23041012--23041062 Score: 57
Period size: 20 Copynumber: 2.7 Consensus size: 18
23041002 GCATAATTTT
* *
23041012 AAATTTTAAAAATTTAAA
1 AAATTATAAAAATTGAAA
23041030 ATAATATATAAAAATTGAAA
1 A-AAT-TATAAAAATTGAAA
*
23041050 AAATTAAAAAAAT
1 AAATTATAAAAAT
23041063 ATTTAAATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
18 9 0.32
19 6 0.21
20 13 0.46
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (18 bp):
AAATTATAAAAATTGAAA
Found at i:23041278 original size:19 final size:20
Alignment explanation
Indices: 23041256--23041296 Score: 50
Period size: 21 Copynumber: 2.1 Consensus size: 20
23041246 TAAATTTTAG
23041256 TTTTATA-A-TTTATATGTTT
1 TTTTATAGATTTTATAT-TTT
*
23041275 TTTTCTAGATTTTATATTTT
1 TTTTATAGATTTTATATTTT
23041295 TT
1 TT
23041297 CTGAATTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
19 6 0.32
20 6 0.32
21 7 0.37
ACGTcount: A:0.22, C:0.02, G:0.05, T:0.71
Consensus pattern (20 bp):
TTTTATAGATTTTATATTTT
Found at i:23041294 original size:18 final size:18
Alignment explanation
Indices: 23041273--23041334 Score: 56
Period size: 18 Copynumber: 3.3 Consensus size: 18
23041263 ATTTATATGT
23041273 TTTTTTCTAGATTTTATA
1 TTTTTTCTAGATTTTATA
23041291 TTTTTTCT-GAATTTTTATATA
1 TTTTTTCTAG-A--TTT-TATA
*
23041312 TTTATTTCTA-TTTTTATA
1 TTT-TTTCTAGATTTTATA
23041330 TTTTT
1 TTTTT
23041335 AATGTGTCTA
Statistics
Matches: 37, Mismatches: 1, Indels: 13
0.73 0.02 0.25
Matches are distributed among these distances:
17 3 0.08
18 16 0.43
19 3 0.08
20 3 0.08
21 7 0.19
22 5 0.14
ACGTcount: A:0.21, C:0.05, G:0.03, T:0.71
Consensus pattern (18 bp):
TTTTTTCTAGATTTTATA
Found at i:23041335 original size:20 final size:19
Alignment explanation
Indices: 23041264--23041334 Score: 70
Period size: 20 Copynumber: 3.6 Consensus size: 19
23041254 AGTTTTATAA
*
23041264 TTTATATGTTTTTTTCTAGAT
1 TTTATAT-TTTTTTTCTA-TT
* **
23041285 TTTATATTTTTTCTGAATT
1 TTTATATTTTTTTTCTATT
*
23041304 TTTATATATTTATTTCTATT
1 TTTATAT-TTTTTTTCTATT
23041324 TTTATATTTTT
1 TTTATATTTTT
23041335 AATGTGTCTA
Statistics
Matches: 40, Mismatches: 9, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
19 11 0.28
20 22 0.55
21 7 0.17
ACGTcount: A:0.21, C:0.04, G:0.04, T:0.70
Consensus pattern (19 bp):
TTTATATTTTTTTTCTATT
Found at i:23043044 original size:6 final size:6
Alignment explanation
Indices: 23043035--23043107 Score: 76
Period size: 6 Copynumber: 11.8 Consensus size: 6
23043025 GAAAGTAAAA
* * *
23043035 GTGTAT GTGTAT GTGTAT GTGTAT GTGTAC GTGT-T CGTGTAC GTGTAC
1 GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT -GTGTAT GTGTAT
*
23043083 GTGTACGT GTGTGT GTGTAT GTGTA
1 GTGTA--T GTGTAT GTGTAT GTGTA
23043108 ATAATATGTG
Statistics
Matches: 57, Mismatches: 6, Indels: 8
0.80 0.08 0.11
Matches are distributed among these distances:
6 53 0.93
8 4 0.07
ACGTcount: A:0.14, C:0.07, G:0.36, T:0.44
Consensus pattern (6 bp):
GTGTAT
Found at i:23043459 original size:30 final size:31
Alignment explanation
Indices: 23043423--23043486 Score: 80
Period size: 31 Copynumber: 2.1 Consensus size: 31
23043413 ATGATTCATC
*
23043423 ATTGGAAA-ATTAAATAA-AGAAA-ATGATTAA
1 ATTGGAAAGATGAAATAATA-AAAGATGA-TAA
23043453 ATTGGAAAGATGAAATAATAAAAGATGATAA
1 ATTGGAAAGATGAAATAATAAAAGATGATAA
23043484 ATT
1 ATT
23043487 AATTAAATAA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
30 8 0.27
31 17 0.57
32 5 0.17
ACGTcount: A:0.58, C:0.00, G:0.16, T:0.27
Consensus pattern (31 bp):
ATTGGAAAGATGAAATAATAAAAGATGATAA
Found at i:23044512 original size:25 final size:28
Alignment explanation
Indices: 23044484--23044544 Score: 76
Period size: 27 Copynumber: 2.3 Consensus size: 28
23044474 CTTATGAGTG
*
23044484 TCTCGATATATA-GCTC-TTC-GGAGCT
1 TCTCGATATAAAGGCTCTTTCAGGAGCT
*
23044509 TCTCGAT-TAAAGGCTCTTTCATGAGCT
1 TCTCGATATAAAGGCTCTTTCAGGAGCT
23044536 TCTCGATAT
1 TCTCGATAT
23044545 TGGCTCTCTT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
24 3 0.10
25 11 0.37
26 3 0.10
27 12 0.40
28 1 0.03
ACGTcount: A:0.21, C:0.23, G:0.18, T:0.38
Consensus pattern (28 bp):
TCTCGATATAAAGGCTCTTTCAGGAGCT
Found at i:23049328 original size:23 final size:21
Alignment explanation
Indices: 23049302--23049347 Score: 65
Period size: 23 Copynumber: 2.1 Consensus size: 21
23049292 ATATGTTTTC
*
23049302 ATTTAATTTTGATATATTATATA
1 ATTTAATTTT-ATA-ATAATATA
23049325 ATTTAATTTTATAATAATATA
1 ATTTAATTTTATAATAATATA
23049346 AT
1 AT
23049348 ATTATATAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 9 0.41
22 3 0.14
23 10 0.45
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.54
Consensus pattern (21 bp):
ATTTAATTTTATAATAATATA
Found at i:23049347 original size:16 final size:16
Alignment explanation
Indices: 23049315--23049353 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
23049305 TAATTTTGAT
*
23049315 ATATTAT-ATAATTTA
1 ATATTATAATAATATA
*
23049330 ATTTTATAATAATATA
1 ATATTATAATAATATA
23049346 ATATTATA
1 ATATTATA
23049354 TAAACATTAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
15 6 0.30
16 14 0.70
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (16 bp):
ATATTATAATAATATA
Found at i:23055770 original size:43 final size:43
Alignment explanation
Indices: 23055722--23055805 Score: 159
Period size: 43 Copynumber: 2.0 Consensus size: 43
23055712 ACACTAGGGT
*
23055722 AGGACTTTCATTCATTTTCAGACTGTATGCGCCTGATTTTTTG
1 AGGACTTCCATTCATTTTCAGACTGTATGCGCCTGATTTTTTG
23055765 AGGACTTCCATTCATTTTCAGACTGTATGCGCCTGATTTTT
1 AGGACTTCCATTCATTTTCAGACTGTATGCGCCTGATTTTT
23055806 ACTGTTAAAC
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.19, C:0.20, G:0.18, T:0.43
Consensus pattern (43 bp):
AGGACTTCCATTCATTTTCAGACTGTATGCGCCTGATTTTTTG
Found at i:23068177 original size:31 final size:30
Alignment explanation
Indices: 23068142--23068215 Score: 89
Period size: 29 Copynumber: 2.5 Consensus size: 30
23068132 TTAATGGCTT
*
23068142 AATGACTAAAATATTACAACATGAT-AAGATA
1 AATGACTAAAATATT--AACATGATAAACATA
**
23068173 AATGACTAAAATA-TAACATTTTAAACATA
1 AATGACTAAAATATTAACATGATAAACATA
23068202 AATGACTAAAATAT
1 AATGACTAAAATAT
23068216 AAGTTGAGAT
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
28 6 0.16
29 18 0.47
30 1 0.03
31 13 0.34
ACGTcount: A:0.55, C:0.09, G:0.07, T:0.28
Consensus pattern (30 bp):
AATGACTAAAATATTAACATGATAAACATA
Found at i:23070010 original size:23 final size:23
Alignment explanation
Indices: 23069984--23070028 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
23069974 AATTGGTAGT
23069984 TTCTAGGCTTTGATTGTTCTGTC
1 TTCTAGGCTTTGATTGTTCTGTC
23070007 TTCTAGGCTTTGATTGTTCTGT
1 TTCTAGGCTTTGATTGTTCTGT
23070029 TTGCTTGCCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.09, C:0.16, G:0.22, T:0.53
Consensus pattern (23 bp):
TTCTAGGCTTTGATTGTTCTGTC
Found at i:23076016 original size:6 final size:6
Alignment explanation
Indices: 23076005--23076066 Score: 124
Period size: 6 Copynumber: 10.3 Consensus size: 6
23075995 TGCTTAGTTG
23076005 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
1 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
23076053 GTATAT GTATAT GT
1 GTATAT GTATAT GT
23076067 GTGTGTGTTT
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 56 1.00
ACGTcount: A:0.32, C:0.00, G:0.18, T:0.50
Consensus pattern (6 bp):
GTATAT
Found at i:23077581 original size:12 final size:12
Alignment explanation
Indices: 23077560--23077597 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
23077550 TTTTCATAAA
*
23077560 CAAATCTTCTCT
1 CAAATTTTCTCT
23077572 CAAATTTTCTCT
1 CAAATTTTCTCT
*
23077584 C-AATTTCCTCT
1 CAAATTTTCTCT
23077595 CAA
1 CAA
23077598 TTTCCTTCCT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
11 10 0.43
12 13 0.57
ACGTcount: A:0.26, C:0.32, G:0.00, T:0.42
Consensus pattern (12 bp):
CAAATTTTCTCT
Found at i:23077594 original size:11 final size:11
Alignment explanation
Indices: 23077568--23077603 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
23077558 AACAAATCTT
*
23077568 CTCTCAAATTTT
1 CTCTC-AATTTC
23077580 CTCTCAATTTC
1 CTCTCAATTTC
23077591 CTCTCAATTTC
1 CTCTCAATTTC
23077602 CT
1 CT
23077604 TCCTGATTTC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 18 0.78
12 5 0.22
ACGTcount: A:0.19, C:0.33, G:0.00, T:0.47
Consensus pattern (11 bp):
CTCTCAATTTC
Found at i:23078667 original size:20 final size:21
Alignment explanation
Indices: 23078634--23078673 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
23078624 TAATGCGGTA
23078634 AATTTTATATTAGAT-TTTAC
1 AATTTTATATTAGATATTTAC
23078654 AATTATTATA-TAGATATTTA
1 AATT-TTATATTAGATATTTA
23078674 AAAATAAAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.40, C:0.03, G:0.05, T:0.53
Consensus pattern (21 bp):
AATTTTATATTAGATATTTAC
Found at i:23080121 original size:22 final size:22
Alignment explanation
Indices: 23080012--23080121 Score: 84
Period size: 22 Copynumber: 5.0 Consensus size: 22
23080002 CTCTAAATCT
23080012 TAAACTTAAAAACCAT-AAACCC
1 TAAACTTAAAAACC-TCAAACCC
** * *
23080034 TAAACTTAAAAATATTAACCCC
1 TAAACTTAAAAACCTCAAACCC
* * *
23080056 TAAAACCTT---AACTTTAAAATCC
1 T-AAA-CTTAAAAAC-CTCAAACCC
23080078 TAAACTTAAAAACCTCATAACCC
1 TAAACTTAAAAACCTCA-AACCC
23080101 TAAACTTAAAAACCTCAAACC
1 TAAACTTAAAAACCTCAAACC
23080122 TCAAACCTTA
Statistics
Matches: 69, Mismatches: 11, Indels: 16
0.72 0.11 0.17
Matches are distributed among these distances:
20 3 0.04
21 6 0.09
22 30 0.43
23 27 0.39
24 3 0.04
ACGTcount: A:0.50, C:0.26, G:0.00, T:0.24
Consensus pattern (22 bp):
TAAACTTAAAAACCTCAAACCC
Found at i:23080122 original size:7 final size:7
Alignment explanation
Indices: 23080110--23080178 Score: 57
Period size: 7 Copynumber: 9.9 Consensus size: 7
23080100 CTAAACTTAA
23080110 AAACCTC
1 AAACCTC
23080117 AAACCTC
1 AAACCTC
*
23080124 AAACCTT
1 AAACCTC
*
23080131 AAACCTA
1 AAACCTC
*
23080138 AAACATC
1 AAACCTC
* *
23080145 CAACCTT
1 AAACCTC
* * *
23080152 TAACTTA
1 AAACCTC
*
23080159 AAACCCC
1 AAACCTC
23080166 AAACCTC
1 AAACCTC
23080173 AAACCT
1 AAACCT
23080179 TAAAACTTTA
Statistics
Matches: 47, Mismatches: 15, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
7 47 1.00
ACGTcount: A:0.45, C:0.36, G:0.00, T:0.19
Consensus pattern (7 bp):
AAACCTC
Found at i:23080127 original size:22 final size:23
Alignment explanation
Indices: 23080076--23080121 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
23080066 ACTTTAAAAT
23080076 CCTAAACTTAAAAACCTCATAAC
1 CCTAAACTTAAAAACCTCATAAC
23080099 CCTAAACTTAAAAACCTCA-AAC
1 CCTAAACTTAAAAACCTCATAAC
23080121 C
1 C
23080122 TCAAACCTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 4 0.17
23 19 0.83
ACGTcount: A:0.48, C:0.33, G:0.00, T:0.20
Consensus pattern (23 bp):
CCTAAACTTAAAAACCTCATAAC
Found at i:23080136 original size:21 final size:21
Alignment explanation
Indices: 23080110--23080381 Score: 83
Period size: 21 Copynumber: 12.6 Consensus size: 21
23080100 CTAAACTTAA
*
23080110 AAACCTCAAACCTCAAACCTT
1 AAACCTAAAACCTCAAACCTT
* *
23080131 AAACCTAAAACATCCAACCTT
1 AAACCTAAAACCTCAAACCTT
* * * *
23080152 TAACTTAAAACCCCAAACCTC
1 AAACCTAAAACCTCAAACCTT
** *
23080173 AAACCTTAAAA-CTTTAACTTT
1 AAACC-TAAAACCTCAAACCTT
*
23080194 AAAACCTTAACCCTAATCCT-AACCCTT
1 -AAACC-TAA----AA-CCTCAAACCTT
* *
23080221 AAA-TTAAAAAAC-CATAACCTT
1 AAACCT-AAAACCTCA-AACCTT
* * *
23080242 TAACTTAAAAACCTCAAACCCT
1 AAACCT-AAAACCTCAAACCTT
*
23080264 AAACCTAAAAACC-C-CACCTT
1 AAACCT-AAAACCTCAAACCTT
* *
23080284 AAACCTAAAAACTCTAAACTTT
1 AAACCTAAAACCTC-AAACCTT
* * ** *
23080306 AAACTTAAAAACATTTAACCCT
1 AAACCT-AAAACCTCAAACCTT
* * *
23080328 AAACTTAAAAACTCTAACCTT
1 AAACCTAAAACCTCAAACCTT
* *
23080349 TAA-CTAAAAACCCCAAA-CTCT
1 AAACCT-AAAACCTCAAACCT-T
23080370 AAACCTAAAACC
1 AAACCTAAAACC
23080382 CTTAATACTT
Statistics
Matches: 182, Mismatches: 49, Indels: 40
0.67 0.18 0.15
Matches are distributed among these distances:
19 5 0.03
20 16 0.09
21 81 0.45
22 59 0.32
23 7 0.04
24 1 0.01
25 2 0.01
26 5 0.03
27 4 0.02
28 2 0.01
ACGTcount: A:0.47, C:0.30, G:0.00, T:0.23
Consensus pattern (21 bp):
AAACCTAAAACCTCAAACCTT
Found at i:23080163 original size:35 final size:36
Alignment explanation
Indices: 23080124--23080209 Score: 93
Period size: 35 Copynumber: 2.4 Consensus size: 36
23080114 CTCAAACCTC
* *
23080124 AAACCTTAAACCTAAAACATCCAACCTTTAAC-TTA
1 AAACCTTAAACCTAAAACATCAAAACTTTAACTTTA
** * * *
23080159 AAACCCCAAACCTCAAACCTTAAAACTTTAACTTTA
1 AAACCTTAAACCTAAAACATCAAAACTTTAACTTTA
*
23080195 AAACCTTAACCCTAA
1 AAACCTTAAACCTAA
23080210 TCCTAACCCT
Statistics
Matches: 39, Mismatches: 11, Indels: 1
0.76 0.22 0.02
Matches are distributed among these distances:
35 25 0.64
36 14 0.36
ACGTcount: A:0.45, C:0.30, G:0.00, T:0.24
Consensus pattern (36 bp):
AAACCTTAAACCTAAAACATCAAAACTTTAACTTTA
Found at i:23080261 original size:22 final size:22
Alignment explanation
Indices: 23080214--23080366 Score: 86
Period size: 22 Copynumber: 7.1 Consensus size: 22
23080204 CCCTAATCCT
* * *
23080214 AACCCTTAAATTAAAAAAC-CA
1 AACCTTTAACTTAAAAACCTCA
23080235 TAACCTTTAACTTAAAAACCTCA
1 -AACCTTTAACTTAAAAACCTCA
* * *
23080258 AACCCTAAACCTAAAAACC-C-
1 AACCTTTAACTTAAAAACCTCA
* * *
23080278 CACCTTAAACCTAAAAA-CTCTA
1 AACCTTTAACTTAAAAACCTC-A
* **
23080300 AA-CTTTAAACTTAAAAACATTT
1 AACCTTT-AACTTAAAAACCTCA
* * *
23080322 AACCCTAAACTTAAAAA-CTCT
1 AACCTTTAACTTAAAAACCTCA
*
23080343 AACCTTTAAC-TAAAAACCCCA
1 AACCTTTAACTTAAAAACCTCA
23080364 AAC
1 AAC
23080367 TCTAAACCTA
Statistics
Matches: 101, Mismatches: 22, Indels: 17
0.72 0.16 0.12
Matches are distributed among these distances:
19 1 0.01
20 22 0.22
21 19 0.19
22 54 0.53
23 5 0.05
ACGTcount: A:0.49, C:0.28, G:0.00, T:0.23
Consensus pattern (22 bp):
AACCTTTAACTTAAAAACCTCA
Found at i:23080295 original size:42 final size:42
Alignment explanation
Indices: 23080237--23080379 Score: 103
Period size: 42 Copynumber: 3.4 Consensus size: 42
23080227 AAAAACCATA
* *
23080237 ACCTTTAACTTAAAAAC-CTCAAACCCTAAACCTAAAAACCCC
1 ACCTTAAACCTAAAAACTCT-AAACCCTAAACCTAAAAACCCC
** * ***
23080279 ACCTTAAACCTAAAAACTCTAAACTTTAAACTTAAAAACATTTA
1 ACCTTAAACCTAAAAACTCTAAACCCTAAACCTAAAAAC--CCC
* * * *
23080323 ACCCTAAACTTAAAAACTCT-AACCTTTAA-CTAAAAACCCC
1 ACCTTAAACCTAAAAACTCTAAACCCTAAACCTAAAAACCCC
*
23080363 AAACTCTAAACCTAAAA
1 -ACCT-TAAACCTAAAA
23080380 CCCTTAATAC
Statistics
Matches: 77, Mismatches: 19, Indels: 10
0.73 0.18 0.09
Matches are distributed among these distances:
41 2 0.03
42 48 0.62
43 9 0.12
44 18 0.23
ACGTcount: A:0.48, C:0.29, G:0.00, T:0.23
Consensus pattern (42 bp):
ACCTTAAACCTAAAAACTCTAAACCCTAAACCTAAAAACCCC
Found at i:23080326 original size:64 final size:64
Alignment explanation
Indices: 23080217--23080379 Score: 161
Period size: 64 Copynumber: 2.5 Consensus size: 64
23080207 TAATCCTAAC
* * * *
23080217 CCTTAAATTAAAAA-ACCATAACCTTT-AACTTAAAAACCTCAAACCCTAAACCTAAAAAC-CCC
1 CCTTAAACTAAAAACCCCA-AA-CTTTAAACTTAAAAACATCAAACCCTAAACCTAAAAACTCCA
23080279 A
64 A
* * ** * *
23080280 CCTTAAACCTAAAAACTCTAAACTTTAAACTTAAAAACATTTAACCCTAAACTTAAAAACTCTAA
1 CCTTAAA-CTAAAAACCCCAAACTTTAAACTTAAAAACATCAAACCCTAAACCTAAAAACTCCAA
* * *
23080345 CCTTTAACTAAAAACCCCAAACTCTAAACCTAAAA
1 CCTTAAACTAAAAACCCCAAACTTTAAACTTAAAA
23080380 CCCTTAATAC
Statistics
Matches: 82, Mismatches: 14, Indels: 7
0.80 0.14 0.07
Matches are distributed among these distances:
63 11 0.13
64 61 0.74
65 10 0.12
ACGTcount: A:0.49, C:0.28, G:0.00, T:0.23
Consensus pattern (64 bp):
CCTTAAACTAAAAACCCCAAACTTTAAACTTAAAAACATCAAACCCTAAACCTAAAAACTCCAA
Found at i:23080421 original size:21 final size:21
Alignment explanation
Indices: 23080395--23080443 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
23080385 AATACTTAAT
23080395 TTTAAAACCACAAACCCCAAA
1 TTTAAAACCACAAACCCCAAA
** *
23080416 TTTAAAACCTTAAACCCTAAA
1 TTTAAAACCACAAACCCCAAA
*
23080437 CTTAAAA
1 TTTAAAA
23080444 ATCCTAAACA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.51, C:0.27, G:0.00, T:0.22
Consensus pattern (21 bp):
TTTAAAACCACAAACCCCAAA
Found at i:23080451 original size:22 final size:21
Alignment explanation
Indices: 23080243--23080592 Score: 119
Period size: 22 Copynumber: 16.4 Consensus size: 21
23080233 CATAACCTTT
23080243 AACTTAAAAACCTCAAACCCTA
1 AACTTAAAAACCT-AAACCCTA
* ** *
23080265 AACCTAAAAACC-CCACCTTA
1 AACTTAAAAACCTAAACCCTA
* **
23080285 AACCTAAAAACTCTAAACTTTA
1 AACTTAAAAAC-CTAAACCCTA
* *
23080307 AACTTAAAAACATTTAACCCTA
1 AACTTAAAAAC-CTAAACCCTA
* *
23080329 AACTTAAAAACTCT-AACCTTT
1 AACTTAAAAAC-CTAAACCCTA
* *
23080350 AAC-TAAAAACCCCAAACTCTA
1 AACTTAAAAA-CCTAAACCCTA
* * * ** *
23080371 AACCTAAAACCCTTAATACTT
1 AACTTAAAAACCTAAACCCTA
* * * *
23080392 AATTTTAAAACCACAAACCCCA
1 AACTTAAAAACC-TAAACCCTA
*
23080414 AA-TTTAAAACCTTAAACCCTA
1 AACTTAAAAACC-TAAACCCTA
*
23080435 AACTTAAAAATCCTAAACACTAA
1 AACTTAAAAA-CCTAAACCCT-A
* *
23080458 AACTT--TAACTTTAAAACCCTA
1 AACTTAAAAAC-CT-AAACCCTA
* *
23080479 ACAC-T--AATCCT-AACCCTT
1 A-ACTTAAAAACCTAAACCCTA
* * *
23080497 AGCTTAAAAATGCT-AACCCTT
1 AACTTAAAAA-CCTAAACCCTA
**
23080518 AACTTAAAAACCTCAAACTTTA
1 AACTTAAAAACCT-AAACCCTA
* **
23080540 AACCTAAAAATTATAAACCCTA
1 AACTTAAAAA-CCTAAACCCTA
* *
23080562 AACTTTAAAACATAAAACCCTA
1 AACTTAAAAACCT-AAACCCTA
*
23080584 AACCTAAAA
1 AACTTAAAA
23080593 CTTAAAACCC
Statistics
Matches: 241, Mismatches: 67, Indels: 40
0.69 0.19 0.11
Matches are distributed among these distances:
17 1 0.00
18 8 0.03
20 29 0.12
21 77 0.32
22 117 0.49
23 9 0.04
ACGTcount: A:0.48, C:0.27, G:0.01, T:0.24
Consensus pattern (21 bp):
AACTTAAAAACCTAAACCCTA
Found at i:23080514 original size:21 final size:21
Alignment explanation
Indices: 23080488--23080527 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
23080478 AACACTAATC
*
23080488 CTAACCCTTAGCTTAAAAATG
1 CTAACCCTTAACTTAAAAATG
23080509 CTAACCCTTAACTTAAAAA
1 CTAACCCTTAACTTAAAAA
23080528 CCTCAAACTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.42, C:0.25, G:0.05, T:0.28
Consensus pattern (21 bp):
CTAACCCTTAACTTAAAAATG
Found at i:23080591 original size:21 final size:21
Alignment explanation
Indices: 23080538--23080602 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 21
23080528 CCTCAAACTT
23080538 TAAACCTAAAA-ATTATAAACCC
1 TAAACCTAAAACA-TA-AAACCC
*
23080560 TAAACTTTAAAACATAAAACCC
1 TAAAC-CTAAAACATAAAACCC
*
23080582 TAAACCTAAAACTTAAAACCC
1 TAAACCTAAAACATAAAACCC
23080603 CCTAACCCTA
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
21 14 0.37
22 16 0.42
23 7 0.18
24 1 0.03
ACGTcount: A:0.54, C:0.25, G:0.00, T:0.22
Consensus pattern (21 bp):
TAAACCTAAAACATAAAACCC
Found at i:23080630 original size:21 final size:21
Alignment explanation
Indices: 23080606--23080714 Score: 92
Period size: 21 Copynumber: 5.0 Consensus size: 21
23080596 AAAACCCCCT
23080606 AACCCTAACCCTAAACCTAAA
1 AACCCTAACCCTAAACCTAAA
* * *
23080627 AACCTTAACCCTTAACTTAAA
1 AACCCTAACCCTAAACCTAAA
* *
23080648 AACCATAAACCTTAAACCTAAA
1 AACCCT-AACCCTAAACCTAAA
* * * * **
23080670 AACACTAACCTTTAACTTTTA
1 AACCCTAACCCTAAACCTAAA
23080691 AACCCTAAACCCTAAACCATAAA
1 AACCCT-AACCCTAAACC-TAAA
23080714 A
1 A
23080715 CACAAAAACT
Statistics
Matches: 66, Mismatches: 19, Indels: 4
0.74 0.21 0.04
Matches are distributed among these distances:
21 39 0.59
22 24 0.36
23 3 0.05
ACGTcount: A:0.48, C:0.30, G:0.00, T:0.22
Consensus pattern (21 bp):
AACCCTAACCCTAAACCTAAA
Found at i:23080664 original size:43 final size:43
Alignment explanation
Indices: 23080612--23080714 Score: 136
Period size: 43 Copynumber: 2.4 Consensus size: 43
23080602 CCCTAACCCT
23080612 AACCCTAAACCTAAAAAC-CTTAACCCTTAACTTAAAAACCATA
1 AACCCTAAACCTAAAAACAC-TAACCCTTAACTTAAAAACCATA
* * ** *
23080655 AACCTTAAACCTAAAAACACTAACCTTTAACTTTTAAACCCTA
1 AACCCTAAACCTAAAAACACTAACCCTTAACTTAAAAACCATA
23080698 AACCCTAAACCATAAAA
1 AACCCTAAACC-TAAAA
23080715 CACAAAAACT
Statistics
Matches: 52, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
43 46 0.88
44 6 0.12
ACGTcount: A:0.49, C:0.29, G:0.00, T:0.22
Consensus pattern (43 bp):
AACCCTAAACCTAAAAACACTAACCCTTAACTTAAAAACCATA
Found at i:23080723 original size:23 final size:22
Alignment explanation
Indices: 23080710--23080760 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
23080700 CCCTAAACCA
*
23080710 TAAAACACAAAAACTTTAAACC
1 TAAAACACAAAAACCTTAAACC
* **
23080732 TTAAACTTAAAAACCTTAAACCC
1 TAAAACACAAAAACCTTAAA-CC
23080755 TAAAAC
1 TAAAAC
23080761 CTTAACTTTA
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
22 16 0.70
23 7 0.30
ACGTcount: A:0.55, C:0.24, G:0.00, T:0.22
Consensus pattern (22 bp):
TAAAACACAAAAACCTTAAACC
Found at i:23080745 original size:15 final size:14
Alignment explanation
Indices: 23080720--23080774 Score: 58
Period size: 15 Copynumber: 3.8 Consensus size: 14
23080710 TAAAACACAA
*
23080720 AAACTTTAAACCTT
1 AAACTTAAAACCTT
23080734 AAACTTAAAAACCTT
1 AAACTT-AAAACCTT
*
23080749 AAACCCTAAAACCTT
1 AAA-CTTAAAACCTT
23080764 -AACTTTAAAAC
1 AAAC-TTAAAAC
23080775 TCTAACCCTA
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
13 1 0.03
14 14 0.40
15 18 0.51
16 2 0.06
ACGTcount: A:0.49, C:0.24, G:0.00, T:0.27
Consensus pattern (14 bp):
AAACTTAAAACCTT
Found at i:23080848 original size:22 final size:22
Alignment explanation
Indices: 23080789--23080983 Score: 109
Period size: 21 Copynumber: 8.9 Consensus size: 22
23080779 ACCCTAATCT
*
23080789 TAACCCTTAACTTAAAAACCA-
1 TAACCCTTAACTTAAAAAACAC
*
23080810 TAACCCTTAAATT-AAAAACAC
1 TAACCCTTAACTTAAAAAACAC
*
23080831 TAACCCTTAACTTAAAAAACCC
1 TAACCCTTAACTTAAAAAACAC
* * *
23080853 TAAACCCTAAACCTAAAAAATC-T
1 T-AACCCTTAACTTAAAAAA-CAC
* * *
23080876 TAAACCTTAAAC-T-CAAAACCC
1 TAACCCTT-AACTTAAAAAACAC
* * *
23080897 TAAACCTTAAACCT-AAAAACCC
1 TAACCCTT-AACTTAAAAAACAC
* *
23080919 TAAACTCTAAACTTAAAAAAC-C
1 T-AACCCTTAACTTAAAAAACAC
* * *
23080941 CAAACCTTAAACTT-AAAAACAT
1 TAACCCTT-AACTTAAAAAACAC
*
23080963 TAAACCCTAAACTTAAAAAAC
1 T-AACCCTTAACTTAAAAAAC
23080984 CTCAAACCTT
Statistics
Matches: 137, Mismatches: 24, Indels: 24
0.74 0.13 0.13
Matches are distributed among these distances:
20 7 0.05
21 50 0.36
22 38 0.28
23 41 0.30
24 1 0.01
ACGTcount: A:0.51, C:0.27, G:0.00, T:0.22
Consensus pattern (22 bp):
TAACCCTTAACTTAAAAAACAC
Found at i:23080922 original size:15 final size:15
Alignment explanation
Indices: 23080854--23080929 Score: 50
Period size: 16 Copynumber: 5.1 Consensus size: 15
23080844 AAAAAACCCT
23080854 AAACCCTAAACCTAAA
1 AAACCCTAAACCT-AA
* * *
23080870 AAATCTTAAACCT-T
1 AAACCCTAAACCTAA
* *
23080884 AAACTCAAAACCCT--
1 AAACCCTAAA-CCTAA
*
23080898 AAACCTTAAACCTAA
1 AAACCCTAAACCTAA
23080913 AAACCCTAAACTCTAA
1 AAACCCTAAAC-CTAA
23080929 A
1 A
23080930 CTTAAAAAAC
Statistics
Matches: 45, Mismatches: 11, Indels: 8
0.70 0.17 0.12
Matches are distributed among these distances:
13 3 0.07
14 13 0.29
15 13 0.29
16 16 0.36
ACGTcount: A:0.51, C:0.29, G:0.00, T:0.20
Consensus pattern (15 bp):
AAACCCTAAACCTAA
Found at i:23080946 original size:44 final size:44
Alignment explanation
Indices: 23080790--23080999 Score: 207
Period size: 44 Copynumber: 4.8 Consensus size: 44
23080780 CCCTAATCTT
* * *
23080790 AACCCTTAACTT-AAAAA-CCATAACCCTTAAA-TTAAAAACACT-
1 AACCCTAAACTTAAAAAACCCA-AA-CCTTAAACCTAAAAACCCTA
* * * *
23080832 AACCCTTAACTTAAAAAACCCTAAACCCTAAACCTAAAAAATCTTA
1 AACCCTAAACTTAAAAAACCC-AAACCTTAAACCT-AAAAACCCTA
* *
23080878 AACCTTAAAC-T-CAAAACCCTAAACCTTAAACCTAAAAACCCTA
1 AACCCTAAACTTAAAAAACCC-AAACCTTAAACCTAAAAACCCTA
* * **
23080921 AACTCTAAACTTAAAAAACCCAAACCTTAAACTTAAAAACATTA
1 AACCCTAAACTTAAAAAACCCAAACCTTAAACCTAAAAACCCTA
23080965 AACCCTAAACTTAAAAAACCTCAAACCTTAAACCT
1 AACCCTAAACTTAAAAAACC-CAAACCTTAAACCT
23081000 TAAACCTCAA
Statistics
Matches: 140, Mismatches: 19, Indels: 15
0.80 0.11 0.09
Matches are distributed among these distances:
42 12 0.09
43 27 0.19
44 65 0.46
45 28 0.20
46 8 0.06
ACGTcount: A:0.50, C:0.28, G:0.00, T:0.21
Consensus pattern (44 bp):
AACCCTAAACTTAAAAAACCCAAACCTTAAACCTAAAAACCCTA
Found at i:23081020 original size:44 final size:45
Alignment explanation
Indices: 23080839--23081017 Score: 158
Period size: 44 Copynumber: 4.0 Consensus size: 45
23080829 ACTAACCCTT
* * **
23080839 AACTTAAAAAACC-CTAAACCCTAAACCTAAAAAATCTTAAAC-CTTA
1 AACTTAAAAAACCTC-AAACCTTAAACCTTAAACCTC-TAAACTC-TA
* * *
23080885 AAC-TCAAAACCCT-AAACCTTAAACCTAAAAACC-CTAAACTCTA
1 AACTTAAAAAACCTCAAACCTTAAACCT-TAAACCTCTAAACTCTA
* *
23080928 AACTTAAAAAACC-CAAACCTTAAA-CTTAAAAACAT-TAAACCCTA
1 AACTTAAAAAACCTCAAACCTTAAACCTT--AAACCTCTAAACTCTA
*
23080972 AACTTAAAAAACCTCAAACCTTAAACCTTAAACCTCAAAACTCTA
1 AACTTAAAAAACCTCAAACCTTAAACCTTAAACCTCTAAACTCTA
23081017 A
1 A
23081018 CTTTTAATTT
Statistics
Matches: 109, Mismatches: 13, Indels: 23
0.75 0.09 0.16
Matches are distributed among these distances:
43 12 0.11
44 61 0.56
45 30 0.28
46 6 0.06
ACGTcount: A:0.51, C:0.28, G:0.00, T:0.21
Consensus pattern (45 bp):
AACTTAAAAAACCTCAAACCTTAAACCTTAAACCTCTAAACTCTA
Found at i:23081068 original size:22 final size:22
Alignment explanation
Indices: 23081037--23081096 Score: 86
Period size: 22 Copynumber: 2.8 Consensus size: 22
23081027 TAAAAACCCC
* *
23081037 AAACT-TAAACCTTGAACTTAA
1 AAACTATAAACCCTAAACTTAA
23081058 AAACTATAAACCCTAAACTTAA
1 AAACTATAAACCCTAAACTTAA
*
23081080 AAACCATAAACCCTAAA
1 AAACTATAAACCCTAAA
23081097 ACCTTAACTT
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
21 5 0.14
22 30 0.86
ACGTcount: A:0.53, C:0.23, G:0.02, T:0.22
Consensus pattern (22 bp):
AAACTATAAACCCTAAACTTAA
Found at i:23081090 original size:29 final size:29
Alignment explanation
Indices: 23081058--23081113 Score: 67
Period size: 29 Copynumber: 1.9 Consensus size: 29
23081048 TTGAACTTAA
* *
23081058 AAACTATAAACCCTAAACTTAAAAACCAT
1 AAACCATAAAACCTAAACTTAAAAACCAT
* * *
23081087 AAACCCTAAAACCTTAACTTTAAAACC
1 AAACCATAAAACCTAAACTTAAAAACC
23081114 CTAACCCTTA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
29 22 1.00
ACGTcount: A:0.52, C:0.27, G:0.00, T:0.21
Consensus pattern (29 bp):
AAACCATAAAACCTAAACTTAAAAACCAT
Found at i:23083200 original size:13 final size:14
Alignment explanation
Indices: 23083177--23083210 Score: 52
Period size: 13 Copynumber: 2.4 Consensus size: 14
23083167 TTGCGTTTCT
23083177 TCTTGTTTTATTTTA
1 TCTT-TTTTATTTTA
23083192 T-TTTTTTATTTTA
1 TCTTTTTTATTTTA
23083205 TCTTTT
1 TCTTTT
23083211 ACATAAGAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 11 0.61
14 6 0.33
15 1 0.06
ACGTcount: A:0.12, C:0.06, G:0.03, T:0.79
Consensus pattern (14 bp):
TCTTTTTTATTTTA
Found at i:23084038 original size:21 final size:21
Alignment explanation
Indices: 23083999--23084040 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
23083989 ATTAATATAG
*
23083999 TATTATTATTATTGCTTACCT
1 TATTATTATTATTACTTACCT
* *
23084020 TATTATTATTTTTATTTACCT
1 TATTATTATTATTACTTACCT
23084041 ATTTATACCG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.24, C:0.12, G:0.02, T:0.62
Consensus pattern (21 bp):
TATTATTATTATTACTTACCT
Found at i:23084123 original size:25 final size:25
Alignment explanation
Indices: 23084095--23084155 Score: 86
Period size: 25 Copynumber: 2.4 Consensus size: 25
23084085 TATTTTAAAC
*
23084095 TTTATAATTTATATATATACATATT
1 TTTATAATTTATATACATACATATT
* *
23084120 TTTATAATATATATACGTACATATT
1 TTTATAATTTATATACATACATATT
*
23084145 TTCATAATTTA
1 TTTATAATTTA
23084156 CTTGTATATA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.39, C:0.07, G:0.02, T:0.52
Consensus pattern (25 bp):
TTTATAATTTATATACATACATATT
Found at i:23084211 original size:2 final size:2
Alignment explanation
Indices: 23084204--23084244 Score: 55
Period size: 2 Copynumber: 20.5 Consensus size: 2
23084194 TTTTATAACT
* * *
23084204 TA TA TA TA TA TC TA TA TA TA TC TA CA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
23084245 TTTTTTATAA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.44, C:0.07, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:23089557 original size:7 final size:7
Alignment explanation
Indices: 23089545--23089591 Score: 62
Period size: 7 Copynumber: 7.0 Consensus size: 7
23089535 TCTGAGTAAA
23089545 AAAAATG
1 AAAAATG
23089552 AAAAATG
1 AAAAATG
*
23089559 -AGAATG
1 AAAAATG
23089565 AAAAATG
1 AAAAATG
*
23089572 ATAAATG
1 AAAAATG
23089579 -AAAATG
1 AAAAATG
23089585 AAAAATG
1 AAAAATG
23089592 GAGAGGCTAA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
6 10 0.29
7 24 0.71
ACGTcount: A:0.66, C:0.00, G:0.17, T:0.17
Consensus pattern (7 bp):
AAAAATG
Found at i:23089566 original size:13 final size:14
Alignment explanation
Indices: 23089547--23089591 Score: 58
Period size: 13 Copynumber: 3.4 Consensus size: 14
23089537 TGAGTAAAAA
23089547 AAATGAAAAATGA-
1 AAATGAAAAATGAT
*
23089560 GAATGAAAAATGAT
1 AAATGAAAAATGAT
*
23089574 AAATG-AAAATGAA
1 AAATGAAAAATGAT
23089587 AAATG
1 AAATG
23089592 GAGAGGCTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
13 24 0.86
14 4 0.14
ACGTcount: A:0.64, C:0.00, G:0.18, T:0.18
Consensus pattern (14 bp):
AAATGAAAAATGAT
Found at i:23089568 original size:20 final size:20
Alignment explanation
Indices: 23089545--23089591 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
23089535 TCTGAGTAAA
*
23089545 AAAAATGAAAAATGAGAATG
1 AAAAATGAAAAATGAAAATG
*
23089565 AAAAATGATAAATGAAAATG
1 AAAAATGAAAAATGAAAATG
23089585 AAAAATG
1 AAAAATG
23089592 GAGAGGCTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.66, C:0.00, G:0.17, T:0.17
Consensus pattern (20 bp):
AAAAATGAAAAATGAAAATG
Found at i:23090899 original size:44 final size:43
Alignment explanation
Indices: 23090834--23091748 Score: 372
Period size: 44 Copynumber: 21.1 Consensus size: 43
23090824 AGAATTTCAG
* * * *
23090834 ATCTTATCTCCCTGAGGTTACAGCGGAGCAGATTAAAGCTAGTA
1 ATCTTATCTCCCTGAGATTACAGTGGAGTAGATTGAAGCTAG-A
* **
23090878 ATCTTATCTCCCTGAGATTACAGTGGAGTGGATT-AAAATAAAGA
1 ATCTTATCTCCCTGAGATTACAGTGGAGTAGATTGAAGCT--AGA
* * * * *
23090922 ATCTTATCTCTCTGA-AGTTACAGTAGAGTAGATCGTATC-AG-
1 ATCTTATCTCCCTGAGA-TTACAGTGGAGTAGATTGAAGCTAGA
* * * *
23090963 GTCTTATCTCTCTGAGATTACAGCGGAGTGGATTGAAGCTAGTA
1 ATCTTATCTCCCTGAGATTACAGTGGAGTAGATTGAAGCTAG-A
** ** *
23091007 ATCTTATCTCCCTGAGATTACAGTGGAGCGGATT-AAAATAAAA
1 ATCTTATCTCCCTGAGATTACAGTGGAGTAGATTGAAGCT-AGA
* * * * * *
23091050 GATTTTATCTCTCTGA-AGTTACAGTAGAGTAGATCGTATC-AG-
1 -ATCTTATCTCCCTGAGA-TTACAGTGGAGTAGATTGAAGCTAGA
* * ** **
23091092 GTCTTATCTCCCTAAGATTACAACGGAACAGATTGAAGCTAGTA
1 ATCTTATCTCCCTGAGATTACAGTGGAGTAGATTGAAGCTAG-A
* * ** ** *
23091136 ATCCTGTCTCCCTGAGATTACAGTGGAGCGGATT-AAAATAAAGG
1 ATCTTATCTCCCTGAGATTACAGTGGAGTAGATTGAAGCT--AGA
* * * * * *
23091180 ATTTTATCTCTCTGA-AGTTACAGTAGAGTA-AATCATATC-AG-
1 ATCTTATCTCCCTGAGA-TTACAGTGGAGTAGATTGA-AGCTAGA
* * *
23091221 GTCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTA
1 ATCTTATCTCCCTGAGATTACAGTGGAGTAGATTGAAGCTAG-A
* ** ** *
23091265 ATCCTATCTCCCTGAGATTACAGTGGAGCGGATT-AAAATAAAGG
1 ATCTTATCTCCCTGAGATTACAGTGGAGTAGATTGAAGCT--AGA
* ** * * *
23091309 ATCTTATCTCTCTGA-AGTTACAGCAGAGTAGATCGCATC-AG-
1 ATCTTATCTCCCTGAGA-TTACAGTGGAGTAGATTGAAGCTAGA
* *** **
23091350 GTCTTATCTCCCTGAGATTACAGTGGAGTAGACCAAAAAATTTCAG-
1 ATCTTATCTCCCTGAGATTACAGTGGAGTAG---ATTGAAGCT-AGA
* * * *
23091396 ATATTATCTCCCTGAGGTTATAGTGGAGCAGATTGAAGCTAGA
1 ATCTTATCTCCCTGAGATTACAGTGGAGTAGATTGAAGCTAGA
* * ** **
23091439 GATCTTATCTCCTTGAGATTACAGCGGAGTAGATCCAAGAC-ACT
1 -ATCTTATCTCCCTGAGATTACAGTGGAGTAGATTGAAG-CTAGA
* ** ** *
23091483 ATCCTATCTCCCTGA-AGTTACAGTGGAGCGGATT-AAAATAAAGG
1 ATCTTATCTCCCTGAGA-TTACAGTGGAGTAGATTGAAGCT--AGA
* * * * * *
23091527 ATCTCATCAT-TCTGA-AGTTACAGTAGAGTAGATCGCATC-AG-
1 ATCTTATC-TCCCTGAGA-TTACAGTGGAGTAGATTGAAGCTAGA
* * ** *
23091568 GTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAG-
1 ATCTTATCTCCCTGAGATTACAGTGGAGTAGATTGAAG---CT-AGA
* * *
23091614 ATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGA
1 ATCTTATCTCCCTGAGATTACAGTGGAGTAGATTGAAGCTAGA
* * * * *
23091657 TATCTTATCTCCCTGATG-TTACAGTGGAGCATATTAAAGCCAGGG
1 -ATCTTATCTCCCTGA-GATTACAGTGGAGTAGATTGAAGCTA-GA
* **
23091702 ATCTTATCTCCCTGAGATTATAACGGAGTAGATTGAAGCTAGTA
1 ATCTTATCTCCCTGAGATTACAGTGGAGTAGATTGAAGCTAG-A
23091746 ATC
1 ATC
23091749 CTAACTATCT
Statistics
Matches: 642, Mismatches: 171, Indels: 116
0.69 0.18 0.12
Matches are distributed among these distances:
40 1 0.00
41 131 0.20
42 28 0.04
43 52 0.08
44 351 0.55
45 15 0.02
46 64 0.10
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (43 bp):
ATCTTATCTCCCTGAGATTACAGTGGAGTAGATTGAAGCTAGA
Found at i:23091065 original size:129 final size:129
Alignment explanation
Indices: 23090830--23091377 Score: 882
Period size: 129 Copynumber: 4.2 Consensus size: 129
23090820 CCGAAGAATT
* * * *
23090830 TCAGATCTTATCTCCCTGAGGTTACAGCGGAGCAGATTAAAGCTAGTAATCTTATCTCCCTGAGA
1 TCAGGTCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGA
*
23090895 TTACAGTGGAGTGGATTAAAAT-AAAGAATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGTA
66 TTACAGTGGAGCGGATTAAAATAAAAG-ATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGTA
* ** *
23090959 TCAGGTCTTATCTCTCTGAGATTACAGCGGAGTGGATTGAAGCTAGTAATCTTATCTCCCTGAGA
1 TCAGGTCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGA
*
23091024 TTACAGTGGAGCGGATTAAAATAAAAGATTTTATCTCTCTGAAGTTACAGTAGAGTAGATCGTA
66 TTACAGTGGAGCGGATTAAAATAAAAGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGTA
* * * *
23091088 TCAGGTCTTATCTCCCTAAGATTACAACGGAACAGATTGAAGCTAGTAATCCTGTCTCCCTGAGA
1 TCAGGTCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGA
* * * *
23091153 TTACAGTGGAGCGGATTAAAATAAAGGATTTTATCTCTCTGAAGTTACAGTAGAGTAAATCATA
66 TTACAGTGGAGCGGATTAAAATAAAAGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGTA
23091217 TCAGGTCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGA
1 TCAGGTCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGA
* * *
23091282 TTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCA
66 TTACAGTGGAGCGGATTAAAATAAAAGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGTA
*
23091346 TCAGGTCTTATCTCCCTGAGATTACAGTGGAG
1 TCAGGTCTTATCTCCCTGAGATTACAGCGGAG
23091378 TAGACCAAAA
Statistics
Matches: 389, Mismatches: 29, Indels: 2
0.93 0.07 0.00
Matches are distributed among these distances:
129 385 0.99
130 4 0.01
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.30
Consensus pattern (129 bp):
TCAGGTCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGA
TTACAGTGGAGCGGATTAAAATAAAAGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGTA
Found at i:23091097 original size:85 final size:85
Alignment explanation
Indices: 23091008--23091377 Score: 236
Period size: 85 Copynumber: 4.3 Consensus size: 85
23090998 AAGCTAGTAA
* *
23091008 TCTTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAAGATTTTATCTCTCTGA-AGTTAC
1 TCTTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAAGATCTTATCTCCCTGAGA-TTAC
* * *
23091072 AGTAGAGTAGATCGTATCAGG
65 AGCAGAGCAGATCGAATCAGG
* ** * * ** ** * *
23091093 TCTTATCTCCCTAAGATTACAACGGAACAGATTGAAGCTAGTA-ATCCTGTCTCCCTGAGATTAC
1 TCTTATCTCCCTGAGATTACAGTGGAGCGGATT-AAAATAAAAGATCTTATCTCCCTGAGATTAC
** * ** *
23091157 AGTGGAGCGGATTAAAATAAAGG
65 AGCAGAGCAGA-TCGAAT-CAGG
* * * ** *
23091180 ATTTTATCTCTCTGA-AGTTACAGT--A---GAGTAAATCATATCAGGTCTTATCTCCCTGAGAT
1 -TCTTATCTCCCTGAGA-TTACAGTGGAGCGGATTAAA--ATAAAAGATCTTATCTCCCTGAGAT
* * * *
23091239 TACAGCGGAGCAGATTGAAGCTAGTAA
62 TACAGCAGAGCAGATCGAATC-AG--G
* * *
23091266 TCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGA-AGTTAC
1 TCTTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAAGATCTTATCTCCCTGAGA-TTAC
* *
23091330 AGCAGAGTAGATCGCATCAGG
65 AGCAGAGCAGATCGAATCAGG
23091351 TCTTATCTCCCTGAGATTACAGTGGAG
1 TCTTATCTCCCTGAGATTACAGTGGAG
23091378 TAGACCAAAA
Statistics
Matches: 210, Mismatches: 56, Indels: 38
0.69 0.18 0.12
Matches are distributed among these distances:
82 2 0.01
83 3 0.01
84 8 0.04
85 122 0.58
86 11 0.05
87 8 0.04
88 50 0.24
90 6 0.03
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.29
Consensus pattern (85 bp):
TCTTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAAGATCTTATCTCCCTGAGATTACA
GCAGAGCAGATCGAATCAGG
Found at i:23091510 original size:218 final size:219
Alignment explanation
Indices: 23091222--23091687 Score: 726
Period size: 218 Copynumber: 2.1 Consensus size: 219
23091212 TCATATCAGG
** *
23091222 TCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACA
1 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCCAAGCTACTAATCCTATCTCCCTGAGATTACA
*
23091287 GTGGAGCGGATTAAAATAAAGGATCTTATC-TCTCTGAAGTTACAGCAGAGTAGATCGCATCAGG
66 GTGGAGCGGATTAAAATAAAGGATCTCATCAT-TCTGAAGTTACAGCAGAGTAGATCGCATCAGG
23091351 TCTTATCTCCCTGAGATTACAGTGGAGTAGACCAAAAAATTTCAGATATTATCTCCCTGAGGTTA
130 TCTTATCTCCCTGAGATTACAGTGGAGTAGACCAAAAAATTTCAGATATTATCTCCCTGAGGTTA
* *
23091416 TAGTGGAGCAGATTGAAGCTAGAGA
195 CAGTGGAGCAGATTGAAGCCAGAGA
* *
23091441 TCTTATCTCCTTGAGATTACAGCGGAGTAGATCCAAGAC-ACT-ATCCTATCTCCCTGA-AGTTA
1 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCCAAG-CTACTAATCCTATCTCCCTGAGA-TTA
*
23091503 CAGTGGAGCGGATTAAAATAAAGGATCTCATCATTCTGAAGTTACAGTAGAGTAGATCGCATCAG
64 CAGTGGAGCGGATTAAAATAAAGGATCTCATCATTCTGAAGTTACAGCAGAGTAGATCGCATCAG
* * * *
23091568 GTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAGGTT
129 GTCTTATCTCCCTGAGATTACAGTGGAGTAGACCAAAAAATTTCAGATATTATCTCCCTGAGGTT
*
23091633 ACAGTGGAGCAGATTGAAGCCAGATA
194 ACAGTGGAGCAGATTGAAGCCAGAGA
*
23091659 TCTTATCTCCCTGATG-TTACAGTGGAGCA
1 TCTTATCTCCCTGA-GATTACAGCGGAGCA
23091688 TATTAAAGCC
Statistics
Matches: 226, Mismatches: 17, Indels: 9
0.90 0.07 0.04
Matches are distributed among these distances:
217 1 0.00
218 187 0.83
219 37 0.16
220 1 0.00
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (219 bp):
TCTTATCTCCCTGAGATTACAGCGGAGCAGATCCAAGCTACTAATCCTATCTCCCTGAGATTACA
GTGGAGCGGATTAAAATAAAGGATCTCATCATTCTGAAGTTACAGCAGAGTAGATCGCATCAGGT
CTTATCTCCCTGAGATTACAGTGGAGTAGACCAAAAAATTTCAGATATTATCTCCCTGAGGTTAC
AGTGGAGCAGATTGAAGCCAGAGA
Found at i:23091521 original size:131 final size:128
Alignment explanation
Indices: 23091393--23091809 Score: 315
Period size: 131 Copynumber: 3.2 Consensus size: 128
23091383 CAAAAAATTT
* * *
23091393 CAGATATTATCTCCCTGAGGTTATAGTGGAGCAGATTGAAGCTAGAGATCTTATCTCCTTGAGAT
1 CAGATATTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGC-AG-GATCTTATCTCCCTGAGAT
23091458 TACAGCGGAGTAGATCCAAGACACTATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATA
64 TACAGCGGAGTAGATCCAAGACACTATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATA
* * * * * * * * * *
23091523 AAGGATCTCATCAT-TCTGAAGTTACAGTAGAGTAGATCGCATCAGG-TCTTATCTCCCTGAGGT
1 CA-GATATTATC-TCCCTGAAGTTACAGTGGAGCAGATTGAAGCAGGATCTTATCTCCCTGAGAT
* * * * *
23091586 TACAGTGGAGTAGA-CCGAAGA-ATTTCAGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATT-
64 TACAGCGGAGTAGATCC-AAGACA---C-TATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTA
* **
23091648 GAAGC
124 AAATA
* * *
23091653 CAGATATCTTATCTCCCTGATGTTACAGTGGAGCATATTAAAGCCAGGGATCTTATCTCCCTGAG
1 CAGATA--TTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAG-CA-GGATCTTATCTCCCTGAG
* * ** * * ** * *
23091718 ATTATAACGGAGTAGATTGAAG-CTAGTAATCCTAACTATCTGAAGTTACAGTAGAGTGGATTAA
62 ATTACAGCGGAGTAGATCCAAGAC-ACT-ATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAA
23091782 AATA
125 AATA
* * *
23091786 AAGGATCTTATCTCTCTGAAGTTA
1 CA-GATATTATCTCCCTGAAGTTA
23091810 TAGTAGAATA
Statistics
Matches: 212, Mismatches: 56, Indels: 36
0.70 0.18 0.12
Matches are distributed among these distances:
127 3 0.01
128 32 0.15
129 4 0.02
130 8 0.04
131 82 0.39
132 44 0.21
133 5 0.02
134 33 0.16
135 1 0.00
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (128 bp):
CAGATATTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGCAGGATCTTATCTCCCTGAGATTA
CAGCGGAGTAGATCCAAGACACTATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATA
Found at i:23091781 original size:88 final size:88
Alignment explanation
Indices: 23091613--23091782 Score: 189
Period size: 88 Copynumber: 1.9 Consensus size: 88
23091603 AAGAATTTCA
* ** * * * *
23091613 GATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGATATCTTATCTCCCTGATGTTA
1 GATCTTATCTCCCTGAGATTACAACGGAGCAGATTGAAGCCAGATATCCTAACTACCTGAAGTTA
* *
23091678 CAGTGGAGCATATTAAAGCCAGG
66 CAGTAGAGCAGATTAAAGCCAGG
* * * *
23091701 GATCTTATCTCCCTGAGATTATAACGGAGTAGATTGAAGCTAG-TAATCCTAACTATCTGAAGTT
1 GATCTTATCTCCCTGAGATTACAACGGAGCAGATTGAAGCCAGAT-ATCCTAACTACCTGAAGTT
**
23091765 ACAGTAGAGTGGATTAAA
65 ACAGTAGAGCAGATTAAA
23091783 ATAAAGGATC
Statistics
Matches: 66, Mismatches: 15, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
87 1 0.02
88 65 0.98
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (88 bp):
GATCTTATCTCCCTGAGATTACAACGGAGCAGATTGAAGCCAGATATCCTAACTACCTGAAGTTA
CAGTAGAGCAGATTAAAGCCAGG
Found at i:23092725 original size:13 final size:14
Alignment explanation
Indices: 23092707--23092735 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
23092697 TTTCTACTTG
23092707 TTTTATTTTAT-TT
1 TTTTATTTTATCTT
23092720 TTTTATTTTATCTT
1 TTTTATTTTATCTT
23092734 TT
1 TT
23092736 ACATAAGAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.14, C:0.03, G:0.00, T:0.83
Consensus pattern (14 bp):
TTTTATTTTATCTT
Found at i:23093562 original size:21 final size:21
Alignment explanation
Indices: 23093523--23093564 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
23093513 ATTAATATAG
*
23093523 TATTATTATTATTGCTTACCT
1 TATTATTATTATTACTTACCT
* *
23093544 TATTATTATTTTTATTTACCT
1 TATTATTATTATTACTTACCT
23093565 ATTTATACCC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.24, C:0.12, G:0.02, T:0.62
Consensus pattern (21 bp):
TATTATTATTATTACTTACCT
Found at i:23093649 original size:25 final size:25
Alignment explanation
Indices: 23093621--23093681 Score: 77
Period size: 25 Copynumber: 2.4 Consensus size: 25
23093611 TATTTAAAAC
* *
23093621 TTTATAATTTATATATATACATATT
1 TTTATAATTTATATACATACATAGT
* *
23093646 TTTATAATATATATACGTACATAGT
1 TTTATAATTTATATACATACATAGT
*
23093671 TTCATAATTTA
1 TTTATAATTTA
23093682 CTTGTATATA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.39, C:0.07, G:0.03, T:0.51
Consensus pattern (25 bp):
TTTATAATTTATATACATACATAGT
Found at i:23096750 original size:249 final size:250
Alignment explanation
Indices: 23096312--23096867 Score: 880
Period size: 249 Copynumber: 2.2 Consensus size: 250
23096302 AACATGCTAT
*
23096312 TGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTAGCAGA
1 TGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCATAGCAGA
* *
23096377 AGCGATTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTCCAGGACTAACTATAG
66 AGCGATTTTATACTATTTGCTCAGAAACGTAAACTCGAAATTATTTCTTCCAGGACCAACTATAG
** * *
23096442 CAAAAGTGCGTCCACGAGGGCGCGATTTCAGAAATTCTTCTCAAATAGCATCCTGCTTGAAGCG-
131 CAAAAGCACGTCCACGAGGGCGCGATTTCACAAATTCTTCGCAAATAGCATCCTGCTTGAAGCGT
* *
23096506 TTTTTATACTATTTGCTCAGAAACATCAACTCGAAATAATTTTTTCAGGACCTAC
196 TTTTTATACTATTTGCTCAAAAACATCAACTCGAAATAATTTTTCCAGGACCTAC
* *
23096561 TGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCATGGTAGA
1 TGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCATAGCAGA
*
23096626 AGCGATTTTATACTATTTGCTCAGAAACGTAAACTCGAAATTATTTCTTCCAGGACCAACTGTAG
66 AGCGATTTTATACTATTTGCTCAGAAACGTAAACTCGAAATTATTTCTTCCAGGACCAACTATAG
* * *
23096691 CAAAAGCACGTCCATGAGGGCTCGATTTCACAAATTCTTCGCATATAGCATCCTGCTTGAAGCGT
131 CAAAAGCACGTCCACGAGGGCGCGATTTCACAAATTCTTCGCAAATAGCATCCTGCTTGAAGCGT
* *
23096756 TTTTTATACTATTTGCTCAAAAACGTCAACTCGAAATTATTTTTCCAGGACCTAC
196 TTTTTATACTATTTGCTCAAAAACATCAACTCGAAATAATTTTTCCAGGACCTAC
* * * * * * * *
23096811 TGTAGCAAAAGCGCGTACAAGTGGGCGCGACTGCAAAAATCCTTCTGATAAATCATC
1 TGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCATAAAGCATC
23096868 CTGCTTTGAT
Statistics
Matches: 281, Mismatches: 25, Indels: 1
0.92 0.08 0.00
Matches are distributed among these distances:
249 181 0.64
250 100 0.36
ACGTcount: A:0.31, C:0.23, G:0.18, T:0.29
Consensus pattern (250 bp):
TGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCATAGCAGA
AGCGATTTTATACTATTTGCTCAGAAACGTAAACTCGAAATTATTTCTTCCAGGACCAACTATAG
CAAAAGCACGTCCACGAGGGCGCGATTTCACAAATTCTTCGCAAATAGCATCCTGCTTGAAGCGT
TTTTTATACTATTTGCTCAAAAACATCAACTCGAAATAATTTTTCCAGGACCTAC
Found at i:23096873 original size:125 final size:125
Alignment explanation
Indices: 23096312--23096873 Score: 783
Period size: 125 Copynumber: 4.5 Consensus size: 125
23096302 AACATGCTAT
*
23096312 TGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTAGC-AG
1 TGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCT-GCTTG
23096376 AAGCGATTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTCCAGGA-CTAAC
65 AAGCGATTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTCCAGGACCT-AC
* * * *
23096437 TATAGCAAAAGTGCGTCCACGAGGGCGCGATTTCAGAAATTCTTCTCA-AATAGCATCCTGCTTG
1 TGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCATAA-AGCATCCTGCTTG
* * * *
23096501 AAGCGTTTTTATACTATTTGCTCAGAAACATCAACTCGAAATAATTT-TTTCAGGACCTAC
65 AAGCGATTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTCCAGGACCTAC
* * *
23096561 TGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCATGGTAGA
1 TGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGCTTGA
* *
23096626 AGCGATTTTATACTATTTGCTCAGAAACGTAAACTCGAAATTATTTCTTCCAGGACCAAC
66 AGCGATTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTCCAGGACCTAC
* * * * * *
23096686 TGTAGCAAAAGCACGTCCATGAGGGCTCGATTTCACAAATTCTTCGCATATAGCATCCTGCTTGA
1 TGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGCTTGA
* *
23096751 AGCGTTTTTTATACTATTTGCTCAAAAACGTCAACTCGAAATTATTT-TTCCAGGACCTAC
66 AGCG-ATTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTCCAGGACCTAC
* * * * * * * *
23096811 TGTAGCAAAAGCGCGTACAAGTGGGCGCGACTGCAAAAATCCTTCTGATAAATCATCCTGCTT
1 TGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGCTT
23096874 TGATTTTATC
Statistics
Matches: 383, Mismatches: 48, Indels: 12
0.86 0.11 0.03
Matches are distributed among these distances:
124 110 0.29
125 234 0.61
126 39 0.10
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.29
Consensus pattern (125 bp):
TGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGCTTGA
AGCGATTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTCCAGGACCTAC
Found at i:23102164 original size:50 final size:50
Alignment explanation
Indices: 23102085--23102181 Score: 149
Period size: 50 Copynumber: 1.9 Consensus size: 50
23102075 AGATAGTAGA
* *
23102085 TTCAATAGAGTGAAAACATTTTATGGGATGCTTGACAAAGTGGACCATAC
1 TTCAATAGAGTGAAAACATCTTATGGGATGATTGACAAAGTGGACCATAC
* * *
23102135 TTCAATAGGGTGAAAACATCTTATTGGATGATTGATAAAGTGGACCA
1 TTCAATAGAGTGAAAACATCTTATGGGATGATTGACAAAGTGGACCA
23102182 CTGCATATGA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
50 42 1.00
ACGTcount: A:0.36, C:0.12, G:0.23, T:0.29
Consensus pattern (50 bp):
TTCAATAGAGTGAAAACATCTTATGGGATGATTGACAAAGTGGACCATAC
Found at i:23103456 original size:5 final size:5
Alignment explanation
Indices: 23103441--23103471 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
23103431 GAGATGAAAT
*
23103441 TCGAA TAGAA TCGAA TCGAA TCGAA TCGAA T
1 TCGAA TCGAA TCGAA TCGAA TCGAA TCGAA T
23103472 ATATTTGTTC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.42, C:0.16, G:0.19, T:0.23
Consensus pattern (5 bp):
TCGAA
Found at i:23103640 original size:19 final size:19
Alignment explanation
Indices: 23103616--23103659 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
23103606 TAAAAGCAAC
23103616 ACAACATCAACCCAAATAA
1 ACAACATCAACCCAAATAA
* **
23103635 ACAACATGATTCCAAATAA
1 ACAACATCAACCCAAATAA
23103654 ACAACA
1 ACAACA
23103660 AAAATAATAC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.57, C:0.27, G:0.02, T:0.14
Consensus pattern (19 bp):
ACAACATCAACCCAAATAA
Found at i:23106385 original size:90 final size:90
Alignment explanation
Indices: 23106281--23106492 Score: 354
Period size: 90 Copynumber: 2.4 Consensus size: 90
23106271 ATTAAAAATT
* *
23106281 AATTAATATAATAGTACAACAGCATAAATTAAACAAAAAAAAGTATGTTAAACTA-CATTTTAAA
1 AATTAATATAATAGTACAATAGCATAAATTAAACAAAAAAAAGTATGTTAAACTATC-GTTTAAA
23106345 CTTTAAAGTTAGTTAATTGAAGCCTA
65 CTTTAAAGTTAGTTAATTGAAGCCTA
* * *
23106371 AATTAATATAATAGTACAATAGCATAAATTAAACTAAAAAAAGTCTGTTAAGCTATCGTTTAAAC
1 AATTAATATAATAGTACAATAGCATAAATTAAACAAAAAAAAGTATGTTAAACTATCGTTTAAAC
23106436 TTTAAAGTTAGTTAATTGAAGCCTA
66 TTTAAAGTTAGTTAATTGAAGCCTA
*
23106461 AATTAATATAATAGTACAATAGTATAAATTAA
1 AATTAATATAATAGTACAATAGCATAAATTAA
23106493 TTAATTGAAG
Statistics
Matches: 115, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
90 114 0.99
91 1 0.01
ACGTcount: A:0.49, C:0.09, G:0.09, T:0.33
Consensus pattern (90 bp):
AATTAATATAATAGTACAATAGCATAAATTAAACAAAAAAAAGTATGTTAAACTATCGTTTAAAC
TTTAAAGTTAGTTAATTGAAGCCTA
Found at i:23106819 original size:17 final size:17
Alignment explanation
Indices: 23106797--23106848 Score: 68
Period size: 17 Copynumber: 3.1 Consensus size: 17
23106787 TTTTCTCTAT
*
23106797 TAATATTATGTTATTAC
1 TAATATTATATTATTAC
* *
23106814 TAATATAATATTAATAC
1 TAATATTATATTATTAC
*
23106831 TAATATTACATTATTAC
1 TAATATTATATTATTAC
23106848 T
1 T
23106849 TTGGGAATTG
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 29 1.00
ACGTcount: A:0.42, C:0.08, G:0.02, T:0.48
Consensus pattern (17 bp):
TAATATTATATTATTAC
Found at i:23107270 original size:19 final size:18
Alignment explanation
Indices: 23107246--23107307 Score: 54
Period size: 19 Copynumber: 3.2 Consensus size: 18
23107236 GGAGAAGGAA
23107246 AATAGAGCGAAAATCATTC
1 AATAGAGC-AAAATCATTC
*
23107265 AATAGAGCAAAA-CAGATGC
1 AATAGAGCAAAATC--ATTC
*
23107284 AAATAAAGCTAAAATCATTC
1 -AATAGAGC-AAAATCATTC
23107304 AATA
1 AATA
23107308 ATTCAAAAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
17 1 0.03
18 4 0.11
19 15 0.43
20 10 0.29
21 4 0.11
22 1 0.03
ACGTcount: A:0.53, C:0.15, G:0.13, T:0.19
Consensus pattern (18 bp):
AATAGAGCAAAATCATTC
Found at i:23107854 original size:10 final size:10
Alignment explanation
Indices: 23107839--23107868 Score: 60
Period size: 10 Copynumber: 3.0 Consensus size: 10
23107829 AAATTCAAAT
23107839 TTTTTTTCGA
1 TTTTTTTCGA
23107849 TTTTTTTCGA
1 TTTTTTTCGA
23107859 TTTTTTTCGA
1 TTTTTTTCGA
23107869 ATTGAATCGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.10, C:0.10, G:0.10, T:0.70
Consensus pattern (10 bp):
TTTTTTTCGA
Found at i:23124893 original size:3 final size:3
Alignment explanation
Indices: 23124885--23124961 Score: 154
Period size: 3 Copynumber: 25.7 Consensus size: 3
23124875 CAGTTGGGGC
23124885 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
23124933 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
23124962 GTTAGAGAAG
Statistics
Matches: 74, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 74 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:23135550 original size:20 final size:19
Alignment explanation
Indices: 23135508--23135544 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
23135498 TTAGACTGAA
23135508 AATTGAAAAAAAAAGTATC
1 AATTGAAAAAAAAAGTATC
23135527 AATTGAAAAAAAAAGTAT
1 AATTGAAAAAAAAAGTAT
23135545 ATAATTTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.65, C:0.03, G:0.11, T:0.22
Consensus pattern (19 bp):
AATTGAAAAAAAAAGTATC
Found at i:23146266 original size:15 final size:16
Alignment explanation
Indices: 23146246--23146278 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
23146236 ATTTTCAATC
*
23146246 TTAAAATAAAC-CCCA
1 TTAAAACAAACTCCCA
23146261 TTAAAACAAACTCCCA
1 TTAAAACAAACTCCCA
23146277 TT
1 TT
23146279 TTCCATATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.48, C:0.27, G:0.00, T:0.24
Consensus pattern (16 bp):
TTAAAACAAACTCCCA
Found at i:23149723 original size:41 final size:41
Alignment explanation
Indices: 23149516--23149712 Score: 299
Period size: 41 Copynumber: 4.8 Consensus size: 41
23149506 TTTATCGTTA
* * * *
23149516 GTGACATAATTCAGACTTTACGTCTAGCAGGCTTAATGCCG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
*
23149557 GTGA-A-ATTATTCAGACTATAAGTATAGCAGGCTTAATGCCG
1 GTGACACA-T-TTCAGACTATAAGTCTAGCAGGCTTAATGCCG
23149598 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
*
23149639 GTGACACATTTCGGACTATAAGTCTAGCAGGCTTAATGCCG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
*
23149680 GTGACACATTTCGGACTATAAGTCTAGCAGGCT
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCT
23149713 AAGAGCCGGT
Statistics
Matches: 146, Mismatches: 6, Indels: 8
0.91 0.04 0.05
Matches are distributed among these distances:
39 1 0.01
40 1 0.01
41 141 0.97
42 2 0.01
43 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (41 bp):
GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
Found at i:23149983 original size:33 final size:33
Alignment explanation
Indices: 23149927--23150024 Score: 108
Period size: 33 Copynumber: 2.9 Consensus size: 33
23149917 ATAGATATGT
*
23149927 ATATATATATATGT-TGCATTCGGCATAGGTGA
1 ATATATATATGTGTATGCATTCGGCATAGGTGA
*
23149959 ATATATTTATGTGTATGCATTCGGCATAGGTGA
1 ATATATATATGTGTATGCATTCGGCATAGGTGA
* * *
23149992 AAATAAGTGTATGTATCTATGCATTCGGCATAG
1 ATAT-A-TATATG--TGTATGCATTCGGCATAG
23150025 ATGGGTATAG
Statistics
Matches: 56, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
32 12 0.21
33 21 0.38
34 1 0.02
35 5 0.09
37 17 0.30
ACGTcount: A:0.31, C:0.10, G:0.22, T:0.37
Consensus pattern (33 bp):
ATATATATATGTGTATGCATTCGGCATAGGTGA
Found at i:23159560 original size:20 final size:18
Alignment explanation
Indices: 23159527--23159568 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 18
23159517 TAATTTTTAT
23159527 TTCCTCATAATTTTTGGTA
1 TTCCTCAT-ATTTTTGGTA
*
23159546 CTTCCTTATATTTTTGGTA
1 -TTCCTCATATTTTTGGTA
23159565 TTCC
1 TTCC
23159569 CTAAGAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 4 0.19
19 10 0.48
20 7 0.33
ACGTcount: A:0.17, C:0.19, G:0.10, T:0.55
Consensus pattern (18 bp):
TTCCTCATATTTTTGGTA
Found at i:23172329 original size:27 final size:27
Alignment explanation
Indices: 23172289--23172342 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
23172279 TGCAATTAGC
23172289 AGATACATGACAAATC-CTGGTAAAAAA
1 AGATACATGACAAATCTC-GGTAAAAAA
* *
23172316 AGATATATGGCAAATCTCGGTAAAAAA
1 AGATACATGACAAATCTCGGTAAAAAA
23172343 CATTGGAAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 23 0.96
28 1 0.04
ACGTcount: A:0.50, C:0.13, G:0.17, T:0.20
Consensus pattern (27 bp):
AGATACATGACAAATCTCGGTAAAAAA
Found at i:23172961 original size:29 final size:29
Alignment explanation
Indices: 23172919--23172975 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
23172909 TTATGGAAAA
* * *
23172919 GATGGAGAACTTGTTCGTTGAGAGTTCAC
1 GATGAAGAACTTGTTCATTGAGAATTCAC
23172948 GATGAAGAACTTGTTCATTGAGAATTCA
1 GATGAAGAACTTGTTCATTGAGAATTCA
23172976 TGTCAAGGTG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.30, C:0.12, G:0.26, T:0.32
Consensus pattern (29 bp):
GATGAAGAACTTGTTCATTGAGAATTCAC
Found at i:23173069 original size:62 final size:62
Alignment explanation
Indices: 23172993--23173116 Score: 248
Period size: 62 Copynumber: 2.0 Consensus size: 62
23172983 GTGGAGATTG
23172993 TTAGAATTAAGTGAGTTGAATCCTTATTTAAATAAAATACAGTGGTAAAATAAAATAAAAGT
1 TTAGAATTAAGTGAGTTGAATCCTTATTTAAATAAAATACAGTGGTAAAATAAAATAAAAGT
23173055 TTAGAATTAAGTGAGTTGAATCCTTATTTAAATAAAATACAGTGGTAAAATAAAATAAAAGT
1 TTAGAATTAAGTGAGTTGAATCCTTATTTAAATAAAATACAGTGGTAAAATAAAATAAAAGT
23173117 AAAATCCATA
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
62 62 1.00
ACGTcount: A:0.48, C:0.05, G:0.15, T:0.32
Consensus pattern (62 bp):
TTAGAATTAAGTGAGTTGAATCCTTATTTAAATAAAATACAGTGGTAAAATAAAATAAAAGT
Found at i:23186511 original size:23 final size:23
Alignment explanation
Indices: 23186485--23186530 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
23186475 TTATATTCAA
*
23186485 ATCCTAAATGAATGAAGGCACAT
1 ATCCTAAAAGAATGAAGGCACAT
23186508 ATCCTAAAAGAATGAAGGCACAT
1 ATCCTAAAAGAATGAAGGCACAT
23186531 GTGATTAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.46, C:0.17, G:0.17, T:0.20
Consensus pattern (23 bp):
ATCCTAAAAGAATGAAGGCACAT
Found at i:23191888 original size:13 final size:12
Alignment explanation
Indices: 23191854--23191894 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 12
23191844 CAAAAAATTC
23191854 ATTTTTTAATAAA
1 ATTTTTTAA-AAA
23191867 TATTTTTTAAAAA
1 -ATTTTTTAAAAA
23191880 ATTTATTTAAAAA
1 ATTT-TTTAAAAA
23191893 AT
1 AT
23191895 AATTAATAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
12 4 0.15
13 13 0.50
14 9 0.35
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (12 bp):
ATTTTTTAAAAA
Found at i:23196088 original size:25 final size:25
Alignment explanation
Indices: 23196054--23196101 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
23196044 GAGATGATAG
23196054 AAAGAGTACTTCAAGTTATGCATAA
1 AAAGAGTACTTCAAGTTATGCATAA
23196079 AAAGAGTACTTCAAGTTATGCAT
1 AAAGAGTACTTCAAGTTATGCAT
23196102 TTATGCTGGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.42, C:0.12, G:0.17, T:0.29
Consensus pattern (25 bp):
AAAGAGTACTTCAAGTTATGCATAA
Found at i:23197853 original size:18 final size:18
Alignment explanation
Indices: 23197826--23197860 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
23197816 TTTATTTACT
23197826 TGTTTGTTGG-TTTTCAA
1 TGTTTGTTGGCTTTTCAA
23197843 TGTTCTGTTGGCTTTTCA
1 TGTT-TGTTGGCTTTTCA
23197861 TTTTCAGAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.25
18 6 0.38
19 6 0.38
ACGTcount: A:0.09, C:0.11, G:0.23, T:0.57
Consensus pattern (18 bp):
TGTTTGTTGGCTTTTCAA
Found at i:23198502 original size:10 final size:10
Alignment explanation
Indices: 23198489--23198518 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
23198479 TTTTTTTTAG
23198489 TTTTTAATTT
1 TTTTTAATTT
23198499 TTTTTAATTT
1 TTTTTAATTT
*
23198509 TTTATAATTT
1 TTTTTAATTT
23198519 CCAACTTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (10 bp):
TTTTTAATTT
Found at i:23202885 original size:16 final size:16
Alignment explanation
Indices: 23202856--23202896 Score: 64
Period size: 16 Copynumber: 2.6 Consensus size: 16
23202846 TCAAATTCAA
*
23202856 AACTTAAATTTAGTTC
1 AACTTAAATATAGTTC
*
23202872 AACTTCAATATAGTTC
1 AACTTAAATATAGTTC
23202888 AACTTAAAT
1 AACTTAAAT
23202897 TCAAAACTCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.41, C:0.15, G:0.05, T:0.39
Consensus pattern (16 bp):
AACTTAAATATAGTTC
Found at i:23210593 original size:29 final size:27
Alignment explanation
Indices: 23210544--23210601 Score: 71
Period size: 29 Copynumber: 2.1 Consensus size: 27
23210534 AAATAATAAA
* *
23210544 ATTTTAATTTTTTTAATTTAAATTGAT
1 ATTTTAATATTTTTAAATTAAATTGAT
*
23210571 ATTTTATATATTTTTACAATTAAATTTAT
1 ATTTTA-ATATTTTTA-AATTAAATTGAT
23210600 AT
1 AT
23210602 AATATTTTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
27 6 0.23
28 8 0.31
29 12 0.46
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (27 bp):
ATTTTAATATTTTTAAATTAAATTGAT
Found at i:23211357 original size:2 final size:2
Alignment explanation
Indices: 23211350--23211399 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
23211340 TACAATCAAA
23211350 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
23211392 CT CT CT CT
1 CT CT CT CT
23211400 GCCACTACAA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:23220590 original size:91 final size:89
Alignment explanation
Indices: 23220435--23220615 Score: 301
Period size: 91 Copynumber: 2.0 Consensus size: 89
23220425 TCATGCAAAT
*
23220435 CCTTCTAAAATCTAAACCCGTTACTGCATTTACCCCATTTTCGTCTGCATCACATTGTCTTTACT
1 CCTTCTAAAATCTAAACCCGTTACTGCATTTACCCCATTTACGTCTGCATCACATTGTCTTTACT
23220500 CACAATAGGGGCATGCTCCAATTATC
66 CAC-AT-GGGGCATGCTCCAATTATC
*
23220526 CCTTCTAAAATCTAAACCCGTTCCTGCATTTATCCCC-TTTACGTCTGCATCACATTGTCTTTAC
1 CCTTCTAAAATCTAAACCCGTTACTGCATTTA-CCCCATTTACGTCTGCATCACATTGTCTTTAC
*
23220590 TCACATTGGGCATGCTCCAATTATC
65 TCACATGGGGCATGCTCCAATTATC
23220615 C
1 C
23220616 AAAGTTCCAA
Statistics
Matches: 86, Mismatches: 3, Indels: 4
0.92 0.03 0.04
Matches are distributed among these distances:
89 19 0.22
90 2 0.02
91 61 0.71
92 4 0.05
ACGTcount: A:0.24, C:0.31, G:0.10, T:0.35
Consensus pattern (89 bp):
CCTTCTAAAATCTAAACCCGTTACTGCATTTACCCCATTTACGTCTGCATCACATTGTCTTTACT
CACATGGGGCATGCTCCAATTATC
Found at i:23223138 original size:35 final size:37
Alignment explanation
Indices: 23223093--23223162 Score: 126
Period size: 36 Copynumber: 1.9 Consensus size: 37
23223083 AGAACAACTA
23223093 AATTATACAAAACTT-AAAGAAATCATGACACTGGTT
1 AATTATACAAAACTTAAAAGAAATCATGACACTGGTT
23223129 AATT-TACAAAACTTAAAAGAAATCATGACACTGG
1 AATTATACAAAACTTAAAAGAAATCATGACACTGG
23223163 AAGCTATATT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
35 10 0.30
36 23 0.70
ACGTcount: A:0.49, C:0.14, G:0.11, T:0.26
Consensus pattern (37 bp):
AATTATACAAAACTTAAAAGAAATCATGACACTGGTT
Found at i:23224334 original size:28 final size:28
Alignment explanation
Indices: 23224294--23224350 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
23224284 AGAGAATTCA
23224294 AGTTAATAGAGCGTATGTATACTTACCT
1 AGTTAATAGAGCGTATGTATACTTACCT
23224322 AGTTAATAGAGCGTATGTATACTTACCT
1 AGTTAATAGAGCGTATGTATACTTACCT
23224350 A
1 A
23224351 TAATTGATAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.33, C:0.14, G:0.18, T:0.35
Consensus pattern (28 bp):
AGTTAATAGAGCGTATGTATACTTACCT
Found at i:23249029 original size:17 final size:17
Alignment explanation
Indices: 23249007--23249046 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
23248997 GGCTAGGTAC
* *
23249007 CTCTTTGGGTAAGGCTA
1 CTCTTTGGGCAAGGCAA
*
23249024 CTCTTTGGGCGAGGCAA
1 CTCTTTGGGCAAGGCAA
23249041 CTCTTT
1 CTCTTT
23249047 TTGGATGAGG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.15, C:0.23, G:0.28, T:0.35
Consensus pattern (17 bp):
CTCTTTGGGCAAGGCAA
Found at i:23249116 original size:33 final size:33
Alignment explanation
Indices: 23249046--23249127 Score: 83
Period size: 33 Copynumber: 2.5 Consensus size: 33
23249036 GGCAACTCTT
* * * *
23249046 TTTGGATGAGGTTGGTCTTTTAGCTAGCCCTTT
1 TTTGGATGAGGTTGCTCTTTAAGCTAGCCCATC
* * *
23249079 TTTGGGTGAGGTTGCTCTTTAAGTTAGCTCATC
1 TTTGGATGAGGTTGCTCTTTAAGCTAGCCCATC
**
23249112 TTTGGACAAGGTTGCT
1 TTTGGATGAGGTTGCT
23249128 TTTTTAGCAA
Statistics
Matches: 39, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
33 39 1.00
ACGTcount: A:0.15, C:0.15, G:0.28, T:0.43
Consensus pattern (33 bp):
TTTGGATGAGGTTGCTCTTTAAGCTAGCCCATC
Found at i:23251305 original size:43 final size:43
Alignment explanation
Indices: 23251235--23251353 Score: 143
Period size: 43 Copynumber: 2.8 Consensus size: 43
23251225 GGCTCGTACA
* * * * * *
23251235 ATGCCAACGTCCCAGATGTGGTATTACATGTAATCACAGATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGAAAACACAAATCG
* *
23251278 ATGCCACCGTCCTAGACAG-GGTCTTACACGAAAACACAAATCG
1 ATGCCAACGTCCCAGAC-GTGGTCTTACACGAAAACACAAATCG
23251321 ATGCCAACGTCCCAGACGTGGTCTTACAC-AAAA
1 ATGCCAACGTCCCAGACGTGGTCTTACACGAAAA
23251354 TAGATATCGG
Statistics
Matches: 64, Mismatches: 10, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
42 5 0.08
43 58 0.91
44 1 0.02
ACGTcount: A:0.33, C:0.28, G:0.19, T:0.20
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGAAAACACAAATCG
Found at i:23258952 original size:43 final size:43
Alignment explanation
Indices: 23258882--23259010 Score: 143
Period size: 43 Copynumber: 3.0 Consensus size: 43
23258872 GGCTCGTACA
* * * * * * * *
23258882 ATGCCAACGTCCCAGATGTGGTATTACATGTAATCACAGATCG
1 ATGCCAATGTCCTAGACGTGGTCTTACACGAAAACACAAATCG
*
23258925 ATGCCACTGTCCTAGACAG-GGTCTTACACGAAAACACAAATCG
1 ATGCCAATGTCCTAGAC-GTGGTCTTACACGAAAACACAAATCG
* *
23258968 ATGCCAATGTCCTAGACGTGGTCTTACACAAAAACACATATCG
1 ATGCCAATGTCCTAGACGTGGTCTTACACGAAAACACAAATCG
23259011 GAAATCCTAT
Statistics
Matches: 72, Mismatches: 12, Indels: 4
0.82 0.14 0.05
Matches are distributed among these distances:
42 1 0.01
43 70 0.97
44 1 0.01
ACGTcount: A:0.33, C:0.26, G:0.19, T:0.22
Consensus pattern (43 bp):
ATGCCAATGTCCTAGACGTGGTCTTACACGAAAACACAAATCG
Found at i:23261141 original size:19 final size:19
Alignment explanation
Indices: 23261117--23261165 Score: 53
Period size: 19 Copynumber: 2.6 Consensus size: 19
23261107 CTTACGCTCT
* * *
23261117 AGGATGCACTTGGTGTGCC
1 AGGATGCACTTCGAGCGCC
*
23261136 AGGATGCGCTTCGAGCGCC
1 AGGATGCACTTCGAGCGCC
*
23261155 AGTATGCACTT
1 AGGATGCACTT
23261166 TACATGTCAG
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.18, C:0.24, G:0.33, T:0.24
Consensus pattern (19 bp):
AGGATGCACTTCGAGCGCC
Found at i:23263736 original size:3 final size:3
Alignment explanation
Indices: 23263728--23263758 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
23263718 TGTAGACCAC
23263728 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
23263759 GTTTTTCCGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:23271628 original size:13 final size:14
Alignment explanation
Indices: 23271610--23271656 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
23271600 TATTAATATA
*
23271610 TATTTA-CTTTTTT
1 TATTTACCTTTATT
23271623 TATTTACCTTTATT
1 TATTTACCTTTATT
23271637 TATTT-CCATTTATT
1 TATTTACC-TTTATT
*
23271651 TTTTTA
1 TATTTA
23271657 GATACCTATA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
13 8 0.28
14 21 0.72
ACGTcount: A:0.19, C:0.11, G:0.00, T:0.70
Consensus pattern (14 bp):
TATTTACCTTTATT
Found at i:23271663 original size:32 final size:33
Alignment explanation
Indices: 23271611--23271673 Score: 83
Period size: 32 Copynumber: 1.9 Consensus size: 33
23271601 ATTAATATAT
** * *
23271611 ATTTACTTTTTTTATTTACCTTTATTTATTTCC
1 ATTTACTTTTTTTAGATACCTATATATATTTCC
23271644 ATTTA-TTTTTTTAGATACCTATATATATTT
1 ATTTACTTTTTTTAGATACCTATATATATTT
23271674 TATATTTTAT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
32 21 0.81
33 5 0.19
ACGTcount: A:0.24, C:0.11, G:0.02, T:0.63
Consensus pattern (33 bp):
ATTTACTTTTTTTAGATACCTATATATATTTCC
Found at i:23278760 original size:53 final size:53
Alignment explanation
Indices: 23278680--23278783 Score: 165
Period size: 53 Copynumber: 2.0 Consensus size: 53
23278670 TTAAACATTT
* * *
23278680 ACAAAAATATCACTTTATTAAAAAAAA-TTAAAGACATTTTTTGGATGTAAAAA
1 ACAAAAATACCACTTTATTAAAAAAAATTTAAAAACATTTTTTAGAT-TAAAAA
23278733 ACAAAAATACCACTTTATTAAAAAAAATTTAAAAACATTTTTTAGATTAAA
1 ACAAAAATACCACTTTATTAAAAAAAATTTAAAAACATTTTTTAGATTAAA
23278784 TTAGTGTTAA
Statistics
Matches: 47, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
53 30 0.64
54 17 0.36
ACGTcount: A:0.54, C:0.09, G:0.05, T:0.33
Consensus pattern (53 bp):
ACAAAAATACCACTTTATTAAAAAAAATTTAAAAACATTTTTTAGATTAAAAA
Found at i:23281957 original size:16 final size:17
Alignment explanation
Indices: 23281936--23281968 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
23281926 AATTCACTTG
23281936 ATATATTGAAT-TTTTT
1 ATATATTGAATATTTTT
23281952 ATATATTGAATATTTTT
1 ATATATTGAATATTTTT
23281969 CAAAAAATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.61
Consensus pattern (17 bp):
ATATATTGAATATTTTT
Found at i:23284584 original size:13 final size:13
Alignment explanation
Indices: 23284566--23284590 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
23284556 ATTTATCATA
23284566 TAAAATAAATTTT
1 TAAAATAAATTTT
23284579 TAAAATAAATTT
1 TAAAATAAATTT
23284591 ATTATAAAGA
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:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
TAAAATAAATTTT
Done.