Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 129432109
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 129432109
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 341 of 425
Found at i:105614543 original size:25 final size:25
Alignment explanation
Indices: 105614514--105614564 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
105614504 CTAATTAAGA
105614514 TTGTTTTTATTTAATAAATGACAAT
1 TTGTTTTTATTTAATAAATGACAAT
105614539 TTGTTTTTATTTAATAAATGACAAT
1 TTGTTTTTATTTAATAAATGACAAT
105614564 T
1 T
105614565 AATAGGTTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.35, C:0.04, G:0.08, T:0.53
Consensus pattern (25 bp):
TTGTTTTTATTTAATAAATGACAAT
Found at i:105619350 original size:24 final size:24
Alignment explanation
Indices: 105619321--105619376 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 24
105619311 TTCTAATTAA
*
105619321 ATTTTATAAATAATTAATATTTAT
1 ATTTTATAAATAATTAAAATTTAT
* *
105619345 -TGTTTAAAAATATTTAAAATTTAT
1 AT-TTTATAAATAATTAAAATTTAT
105619369 ATTTTATA
1 ATTTTATA
105619377 TATTAAAATA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
23 1 0.04
24 24 0.92
25 1 0.04
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.54
Consensus pattern (24 bp):
ATTTTATAAATAATTAAAATTTAT
Found at i:105625243 original size:30 final size:30
Alignment explanation
Indices: 105625207--105625264 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
105625197 CCGAGCCTTG
*
105625207 GGGCAAAAGTGTAAATATGTAAAAGTTTAA
1 GGGCAAAAATGTAAATATGTAAAAGTTTAA
* *
105625237 GGGCAAAAATGTAATTTTGTAAAAGTTT
1 GGGCAAAAATGTAAATATGTAAAAGTTT
105625265 GAGTCAAGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.43, C:0.03, G:0.22, T:0.31
Consensus pattern (30 bp):
GGGCAAAAATGTAAATATGTAAAAGTTTAA
Found at i:105629567 original size:20 final size:20
Alignment explanation
Indices: 105629538--105629619 Score: 85
Period size: 20 Copynumber: 4.1 Consensus size: 20
105629528 ATAATAAAGA
* *
105629538 TGAAACAGATTTAAATAGAT
1 TGAAATAGATTTAAATCGAT
105629558 TGAAATAGATTTAAATCGAT
1 TGAAATAGATTTAAATCGAT
* **
105629578 TGTAACT-GATGAAAATCGAT
1 TG-AAATAGATTTAAATCGAT
* *
105629598 TGAAAGAGATTTAAATCAAT
1 TGAAATAGATTTAAATCGAT
105629618 TG
1 TG
105629620 TAGCAAATTT
Statistics
Matches: 50, Mismatches: 10, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
19 2 0.04
20 45 0.90
21 3 0.06
ACGTcount: A:0.45, C:0.06, G:0.17, T:0.32
Consensus pattern (20 bp):
TGAAATAGATTTAAATCGAT
Found at i:105631080 original size:42 final size:46
Alignment explanation
Indices: 105631014--105631224 Score: 154
Period size: 49 Copynumber: 4.6 Consensus size: 46
105631004 CTTCGTTTAC
** * *
105631014 TCGATGCCATAGTTCAACTGTGGTCTTACAC-AT-C-T-TCATATA
1 TCGATGCCATAGCCCAACTATGGTCTTACACAATACATATCACATA
* *
105631056 TCGATGTCATAGCCCAGCTATGGTCTTACACGTAATCACATATCACATA
1 TCGATGCCATAGCCCAACTATGGTCTTACAC--AAT-ACATATCACATA
*
105631105 TCGATGCCATAGCCCAACTATGGTCTTACACGAATCACATATCTC--A
1 TCGATGCCATAGCCCAACTATGGTCTTACAC-AAT-ACATATCACATA
* * *
105631151 -CGATGCCATATCCCAGA-TATGGTCTTATACAATAGCATAT-ATCACA
1 TCGATGCCATAGCCCA-ACTATGGTCTTACACAATA-CATATCA-CATA
* * *
105631197 CCGATGTCATATCCCAGA-TATGGTCTTA
1 TCGATGCCATAGCCCA-ACTATGGTCTTA
105631225 TACGGAAATC
Statistics
Matches: 142, Mismatches: 14, Indels: 21
0.80 0.08 0.12
Matches are distributed among these distances:
42 26 0.18
43 1 0.01
44 9 0.06
45 28 0.20
46 3 0.02
47 27 0.19
48 13 0.09
49 35 0.25
ACGTcount: A:0.30, C:0.26, G:0.14, T:0.30
Consensus pattern (46 bp):
TCGATGCCATAGCCCAACTATGGTCTTACACAATACATATCACATA
Found at i:105631116 original size:49 final size:48
Alignment explanation
Indices: 105631053--105631224 Score: 176
Period size: 49 Copynumber: 3.6 Consensus size: 48
105631043 ACATCTTCAT
*
105631053 ATATCGATGTCATAGCCCAGCTATGGTCTTACACGTAATCACATATCAC
1 ATATCGATGCCATAGCCCAGCTATGGTCTTACACG-AATCACATATCAC
* *
105631102 ATATCGATGCCATAGCCCAACTATGGTCTTACACGAATCACATATCTC
1 ATATCGATGCCATAGCCCAGCTATGGTCTTACACGAATCACATATCAC
* * *
105631150 --A-CGATGCCATATCCCAGATATGGTCTTATAC-AAT-AGCATAT-ATC
1 ATATCGATGCCATAGCCCAGCTATGGTCTTACACGAATCA-CATATCA-C
* * * * *
105631194 ACACCGATGTCATATCCCAGATATGGTCTTA
1 ATATCGATGCCATAGCCCAGCTATGGTCTTA
105631225 TACGGAAATC
Statistics
Matches: 109, Mismatches: 9, Indels: 12
0.84 0.07 0.09
Matches are distributed among these distances:
43 1 0.01
44 9 0.08
45 26 0.24
46 2 0.02
47 26 0.24
48 12 0.11
49 33 0.30
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.28
Consensus pattern (48 bp):
ATATCGATGCCATAGCCCAGCTATGGTCTTACACGAATCACATATCAC
Found at i:105631289 original size:31 final size:31
Alignment explanation
Indices: 105631246--105631394 Score: 201
Period size: 31 Copynumber: 4.8 Consensus size: 31
105631236 CTTGTCACTT
* *
105631246 GTAGCCGAAGCTACCACTATTCACTGATCAG
1 GTAGTCGAAGCTACCACTTTTCACTGATCAG
* *
105631277 GTAGTCGGAGCTACCATTTTTCACTGATCAG
1 GTAGTCGAAGCTACCACTTTTCACTGATCAG
* * * *
105631308 GTAGTCAAAGTTACAATTTTTCACTGATCAG
1 GTAGTCGAAGCTACCACTTTTCACTGATCAG
105631339 GTAG-CAGAAGCTACCACTTTTCACTGATCAG
1 GTAGTC-GAAGCTACCACTTTTCACTGATCAG
*
105631370 GTAGCCGAAGCTACCACTTTTCACT
1 GTAGTCGAAGCTACCACTTTTCACT
105631395 TGTCATTTGT
Statistics
Matches: 104, Mismatches: 12, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
30 1 0.01
31 102 0.98
32 1 0.01
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.29
Consensus pattern (31 bp):
GTAGTCGAAGCTACCACTTTTCACTGATCAG
Found at i:105631467 original size:50 final size:51
Alignment explanation
Indices: 105631370--105631498 Score: 152
Period size: 50 Copynumber: 2.5 Consensus size: 51
105631360 CACTGATCAG
* * * * * * *
105631370 GTAGCCGAAGCTACCACTTTTCACTTGTCATTTGTCCTTGATCAGATAAGT
1 GTAGCCAAAACTATCACTTATCACTTGTCACTTATCCTTGATCAGATAAAT
* *
105631421 GTAGCCAAAACTATTACTTATCACTT-TCACTTATCCTTGATTAGATAAAT
1 GTAGCCAAAACTATCACTTATCACTTGTCACTTATCCTTGATCAGATAAAT
* *
105631471 GTAGCCGAAGCTATCACTTATCACTTGT
1 GTAGCCAAAACTATCACTTATCACTTGT
105631499 TGCCATGGTC
Statistics
Matches: 65, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
50 43 0.66
51 22 0.34
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.36
Consensus pattern (51 bp):
GTAGCCAAAACTATCACTTATCACTTGTCACTTATCCTTGATCAGATAAAT
Found at i:105633436 original size:25 final size:25
Alignment explanation
Indices: 105633408--105633463 Score: 112
Period size: 25 Copynumber: 2.2 Consensus size: 25
105633398 ATTTAACTTA
105633408 TACTCACTAAATTAATAATATTTCC
1 TACTCACTAAATTAATAATATTTCC
105633433 TACTCACTAAATTAATAATATTTCC
1 TACTCACTAAATTAATAATATTTCC
105633458 TACTCA
1 TACTCA
105633464 TTTTTCGGAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.39, C:0.21, G:0.00, T:0.39
Consensus pattern (25 bp):
TACTCACTAAATTAATAATATTTCC
Found at i:105634664 original size:13 final size:13
Alignment explanation
Indices: 105634646--105634676 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
105634636 GCATCATTTA
105634646 CATTTACAAGCAT
1 CATTTACAAGCAT
105634659 CATTTACAAGCAT
1 CATTTACAAGCAT
105634672 CATTT
1 CATTT
105634677 GCACTAGTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.35, C:0.23, G:0.06, T:0.35
Consensus pattern (13 bp):
CATTTACAAGCAT
Found at i:105636577 original size:28 final size:27
Alignment explanation
Indices: 105636514--105636583 Score: 122
Period size: 27 Copynumber: 2.6 Consensus size: 27
105636504 ATAGTGAGTC
105636514 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
*
105636541 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
105636569 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
105636584 GTACAAGTTT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:105640792 original size:75 final size:73
Alignment explanation
Indices: 105640633--105640803 Score: 183
Period size: 74 Copynumber: 2.4 Consensus size: 73
105640623 GGTTTTCCTC
* * * * * * **
105640633 ATTGA-AATACTATACCTACATTTTACAACTCGGTATGGCAATGCCATACCTACATTTCTTAACT
1 ATTGATAATACCATACCTACATATCACAACTCAGTATGGCAATACCATACCTACATATCACAACT
105640697 CAGTATGG
66 CAGTATGG
*
105640705 ATTTGATAATACCATACCTACATATCACAACTCAGTATGG-ATGATACCATACTTACATATCACA
1 A-TTGATAATACCATACCTACATATCACAACTCAGTATGGCA--ATACCATACCTACATATCACA
105640769 ACTCAGTATGG
63 ACTCAGTATGG
*
105640780 A-TG---ATACCATACCTACATTTCACA
1 ATTGATAATACCATACCTACATATCACA
105640804 CTTTGCCATG
Statistics
Matches: 85, Mismatches: 10, Indels: 10
0.81 0.10 0.10
Matches are distributed among these distances:
70 20 0.24
72 1 0.01
73 7 0.08
74 29 0.34
75 28 0.33
ACGTcount: A:0.35, C:0.23, G:0.11, T:0.31
Consensus pattern (73 bp):
ATTGATAATACCATACCTACATATCACAACTCAGTATGGCAATACCATACCTACATATCACAACT
CAGTATGG
Found at i:105640815 original size:35 final size:35
Alignment explanation
Indices: 105640639--105640803 Score: 172
Period size: 35 Copynumber: 4.6 Consensus size: 35
105640629 CCTCATTGAA
* * * *
105640639 ATACTATACCTACATTTTACAACTCGGTATGGCA--
1 ATACCATACCTACATATCACAACTCAGTATGG-ATG
* * **
105640673 ATGCCATACCTACATTTCTTAACTCAGTATGGATTTG
1 ATACCATACCTACATATCACAACTCAGTATGGA--TG
105640710 ATAATACCATACCTACATATCACAACTCAGTATGGATG
1 ---ATACCATACCTACATATCACAACTCAGTATGGATG
*
105640748 ATACCATACTTACATATCACAACTCAGTATGGATG
1 ATACCATACCTACATATCACAACTCAGTATGGATG
*
105640783 ATACCATACCTACATTTCACA
1 ATACCATACCTACATATCACA
105640804 CTTTGCCATG
Statistics
Matches: 111, Mismatches: 13, Indels: 13
0.81 0.09 0.09
Matches are distributed among these distances:
33 1 0.01
34 26 0.23
35 53 0.48
38 2 0.02
40 29 0.26
ACGTcount: A:0.35, C:0.24, G:0.10, T:0.31
Consensus pattern (35 bp):
ATACCATACCTACATATCACAACTCAGTATGGATG
Found at i:105642586 original size:15 final size:16
Alignment explanation
Indices: 105642550--105642587 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
105642540 TTTTTTTTCT
*
105642550 TTTTCGTTTAATTAAA
1 TTTTCATTTAATTAAA
*
105642566 TTTTCATTTAA-TAAC
1 TTTTCATTTAATTAAA
105642581 TTTTCAT
1 TTTTCAT
105642588 CTTTTCAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 10 0.50
16 10 0.50
ACGTcount: A:0.29, C:0.11, G:0.03, T:0.58
Consensus pattern (16 bp):
TTTTCATTTAATTAAA
Found at i:105643410 original size:2 final size:2
Alignment explanation
Indices: 105643403--105643436 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
105643393 AGTGGTACAA
105643403 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
105643437 CCTACCCCCA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:105643659 original size:18 final size:17
Alignment explanation
Indices: 105643636--105643669 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
105643626 GCCTCATAGC
105643636 CAGATACAAACAGAATAT
1 CAGATA-AAACAGAATAT
*
105643654 CAGATATAACAGAATA
1 CAGATAAAACAGAATA
105643670 ATAGATGCCA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.56, C:0.15, G:0.12, T:0.18
Consensus pattern (17 bp):
CAGATAAAACAGAATAT
Found at i:105644828 original size:40 final size:40
Alignment explanation
Indices: 105644784--105644889 Score: 124
Period size: 40 Copynumber: 2.6 Consensus size: 40
105644774 AATAGCTCGT
*
105644784 ACAAATGCCTTCGGGACTTAACCCGATTTTGGTAACTCA-C
1 ACAAATGCCTTCGGGACTTAACCCGA-TTTAGTAACTCAGC
* * * *
105644824 ACAAATGCCTTCGGGAATTGACCCGGATTTAGTCACTTAGC
1 ACAAATGCCTTCGGGACTTAACCC-GATTTAGTAACTCAGC
* *
105644865 ACAAAAGCCTTCGGGACTTAGCCCG
1 ACAAATGCCTTCGGGACTTAACCCG
105644890 GATACCATTC
Statistics
Matches: 55, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
40 32 0.58
41 23 0.42
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (40 bp):
ACAAATGCCTTCGGGACTTAACCCGATTTAGTAACTCAGC
Found at i:105644890 original size:41 final size:40
Alignment explanation
Indices: 105644745--105644892 Score: 117
Period size: 40 Copynumber: 3.7 Consensus size: 40
105644735 GCGACTCGCT
* * * *
105644745 CAAAAGCCTTCGGGACATAGCCCGG-TTATAATAGC-TCGTA
1 CAAAAGCCTTCGGGACTTAGCCCGGATT-TAGTA-CTTAGCA
* * * *
105644785 CAAATGCCTTCGGGACTTAACCC-GATTTTGGTAACTCA-CA
1 CAAAAGCCTTCGGGACTTAGCCCGGA-TTTAGT-ACTTAGCA
* *
105644825 CAAATGCCTTCGGGAATT-GACCCGGATTTAGTCACTTAGCA
1 CAAAAGCCTTCGGGACTTAG-CCCGGATTTAGT-ACTTAGCA
105644866 CAAAAGCCTTCGGGACTTAGCCCGGAT
1 CAAAAGCCTTCGGGACTTAGCCCGGAT
105644893 ACCATTCGAA
Statistics
Matches: 85, Mismatches: 15, Indels: 15
0.74 0.13 0.13
Matches are distributed among these distances:
39 1 0.01
40 53 0.62
41 30 0.35
42 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAAAGCCTTCGGGACTTAGCCCGGATTTAGTACTTAGCA
Found at i:105652317 original size:40 final size:40
Alignment explanation
Indices: 105652261--105652360 Score: 119
Period size: 40 Copynumber: 2.5 Consensus size: 40
105652251 GGATATAGCG
* *
105652261 ACTCGCTCAAAAGCCTTCGGGACATAGCCCGGTTATAATA
1 ACTCGCACAAAAGCCTTCGGGACATAACCCGGTTATAATA
* * * * **
105652301 GCTCGCACAAACGCCTTCGGGACTTAACCCGGTTTTGGTA
1 ACTCGCACAAAAGCCTTCGGGACATAACCCGGTTATAATA
*
105652341 ACTCGCACAAATGCCTTCGG
1 ACTCGCACAAAAGCCTTCGG
105652361 AAATTGACCT
Statistics
Matches: 50, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 50 1.00
ACGTcount: A:0.25, C:0.30, G:0.22, T:0.23
Consensus pattern (40 bp):
ACTCGCACAAAAGCCTTCGGGACATAACCCGGTTATAATA
Found at i:105657081 original size:2 final size:2
Alignment explanation
Indices: 105657074--105657104 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
105657064 ATTACAATGG
105657074 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
105657105 ATAAAACATC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:105657455 original size:69 final size:70
Alignment explanation
Indices: 105657377--105657516 Score: 273
Period size: 69 Copynumber: 2.0 Consensus size: 70
105657367 AAAATTCAAG
105657377 ACTTTAAAAGTAAATAATCATAACAAAAAACATAT-AAAAAATATGAAAACAGTTGTAACTAACT
1 ACTTTAAAAGTAAATAATCATAACAAAAAACATATAAAAAAATATGAAAACAGTTGTAACTAACT
105657441 AATAT
66 AATAT
105657446 ACTTTAAAAGTAAATAATCATAACAAAAAACATATAAAAAAATATGAAAACAGTTGTAACTAACT
1 ACTTTAAAAGTAAATAATCATAACAAAAAACATATAAAAAAATATGAAAACAGTTGTAACTAACT
105657511 AATAT
66 AATAT
105657516 A
1 A
105657517 TACAAATTTC
Statistics
Matches: 70, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
69 35 0.50
70 35 0.50
ACGTcount: A:0.59, C:0.10, G:0.06, T:0.26
Consensus pattern (70 bp):
ACTTTAAAAGTAAATAATCATAACAAAAAACATATAAAAAAATATGAAAACAGTTGTAACTAACT
AATAT
Found at i:105659211 original size:132 final size:132
Alignment explanation
Indices: 105658971--105659888 Score: 1162
Period size: 132 Copynumber: 6.9 Consensus size: 132
105658961 GTGGCTTAAA
* * * * * * * *
105658971 CCTGCTCCACTACGACTTTAGAGAGACAAGGCTGGTGGCTTAAATCTGTTCCATTGCCGATACAT
1 CCTGCTCCACTGCAACCTCAGAGAGATAAGGCTAGTGGCTTAAATCTGCTCCATTGTCGATACAT
** * * * * *
105659036 GGAGATAAGATTCACCGTTTTTTATCTACTCCACTACTACTTAGGGAGATAAGATCTGTAACTTG
66 GGAGATAAGATTTGCCGTCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTATCTTG
105659101 AG
131 AG
* * * * *
105659103 CTTGCTCCACTACAACCTCAGAGAGATAAGGCTAGTGGCTTAAATTTACTCTATTGTCGATACAT
1 CCTGCTCCACTGCAACCTCAGAGAGATAAGGCTAGTGGCTTAAATCTGCTCCATTGTCGATACAT
* ** * *
105659168 GGAGATAATATTTGCCGTCTTCAATCTGCTCCACTACTGCTTAGGGAGATAAGATCTATAACTTG
66 GGAGATAAGATTTGCCGTCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTATCTTG
105659233 AG
131 AG
* * * *
105659235 TCTGCTCCACTGCAACCTCAG-GAAGATGAGGCTAGTGGCTTACATCTGCTCCATTGCCGATACA
1 CCTGCTCCACTGCAACCTCAGAG-AGATAAGGCTAGTGGCTTAAATCTGCTCCATTGTCGATACA
* *
105659299 TGGAGATAAGATTTGCCGTCTTTGATCTACTCCACTACTGCTTAGGGAGATAAGACCTGTATCTT
65 TGGAGATAAGATTTGCCGTCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTATCTT
105659364 GAG
130 GAG
* * * *
105659367 CTTGCTCCACTGCAACCTCAGGGAGATAAGGCTAGTGGCTTAAATCTGCTCCATT-ACTGATATA
1 CCTGCTCCACTGCAACCTCAGAGAGATAAGGCTAGTGGCTTAAATCTGCTCCATTGTC-GATACA
* *
105659431 TGGAGATAAGATTTTGCCGTCTTTGGTCTGCTCCACTACTGCTTAGGGAGATAAGACCTGTATCT
65 TGGAGATAAGA-TTTGCCGTCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTATCT
105659496 TGAG
129 TGAG
* * * * * *
105659500 CCTACTCCATTGCAACCTCAGGGAGATAAGGCTAATCGCTTAAATCTGCTCCATTG-CTGATATA
1 CCTGCTCCACTGCAACCTCAGAGAGATAAGGCTAGTGGCTTAAATCTGCTCCATTGTC-GATACA
* * * * *
105659564 TAGAGATAAGATTTGCCATCTTTGGTCTGCTCCACTACTGCTTAGGAAGATAATA-CATGTATCT
65 TGGAGATAAGATTTGCCGTCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATC-TGTATCT
105659628 TGAG
129 TGAG
* *
105659632 CCTGCTCCACTACAACCTCAGAGAGATAAGGCTAGTGGCTTAAATCTACTCCATTGTCGATACAT
1 CCTGCTCCACTGCAACCTCAGAGAGATAAGGCTAGTGGCTTAAATCTGCTCCATTGTCGATACAT
* * * * *
105659697 AGAGATAAGATTTACCGTCGTTGGTCTGCTCCACTACTACTTAGGGAGATAAGA-CATGTATCTT
66 GGAGATAAGATTTGCCGTCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATC-TGTATCTT
105659761 GAG
130 GAG
* * *
105659764 CCTGCTCCACTGCAACTTCAGGGAGATAAGGCTAGTGGCTTAAATCTGCTCCATTGTCGATATAT
1 CCTGCTCCACTGCAACCTCAGAGAGATAAGGCTAGTGGCTTAAATCTGCTCCATTGTCGATACAT
* * * * * * *
105659829 GGAGATAAGATTTTCCTTCTTCGATCTACTCCTCCACTGCTTAGGAAGATAAGATCTGTA
66 GGAGATAAGATTTGCCGTCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTA
105659889 ATTTTCTTCA
Statistics
Matches: 695, Mismatches: 83, Indels: 16
0.88 0.10 0.02
Matches are distributed among these distances:
131 3 0.00
132 566 0.81
133 126 0.18
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (132 bp):
CCTGCTCCACTGCAACCTCAGAGAGATAAGGCTAGTGGCTTAAATCTGCTCCATTGTCGATACAT
GGAGATAAGATTTGCCGTCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTATCTTG
AG
Found at i:105659350 original size:44 final size:43
Alignment explanation
Indices: 105659300--105659487 Score: 126
Period size: 44 Copynumber: 4.3 Consensus size: 43
105659290 GCCGATACAT
* *
105659300 GGAGATAAGATTTGCCGTCTTTGATCTACTCCACTACTGCTTAG
1 GGAGATAAGACTTG-CGTCTTTGATCTGCTCCACTACTGCTTAG
* ** * * ** *
105659344 GGAGATAAGACCTGTATC-TTGAGCTTGCTCCACTGCAACCTCAG
1 GGAGATAAGACTTGCGTCTTTGATC-TGCTCCACTAC-TGCTTAG
* * * * ** * * *
105659388 GGAGATAAGGCTAGTGGCTTAAATCTGCTCCATTACTGATATAT
1 GGAGATAAGACTTGCGTCTTTGATCTGCTCCACTACTGCT-TAG
* *
105659432 GGAGATAAGATTTTGCCGTCTTTGGTCTGCTCCACTACTGCTTAG
1 GGAGATAAGA-CTTG-CGTCTTTGATCTGCTCCACTACTGCTTAG
105659477 GGAGATAAGAC
1 GGAGATAAGAC
105659488 CTGTATCTTG
Statistics
Matches: 101, Mismatches: 37, Indels: 12
0.67 0.25 0.08
Matches are distributed among these distances:
42 5 0.05
43 12 0.12
44 48 0.48
45 17 0.17
46 19 0.19
ACGTcount: A:0.25, C:0.21, G:0.23, T:0.30
Consensus pattern (43 bp):
GGAGATAAGACTTGCGTCTTTGATCTGCTCCACTACTGCTTAG
Found at i:105659797 original size:397 final size:395
Alignment explanation
Indices: 105658971--105659889 Score: 1214
Period size: 397 Copynumber: 2.3 Consensus size: 395
105658961 GTGGCTTAAA
* * * * * * * * *
105658971 CCTGCTCCACTACGACTTTAGAGAGACAAGGCTGGTGGCTTAAATCTGTTCCATTGCCGATACAT
1 CCTGCTCCACTGCAACTTCAGGGAGATAAGGCTAGTGGCTTAAATCTGCTCCATT-CTGATATAT
** * * *
105659036 GGAGATAAGATTCACCGTTTTTTATCTACTCCACTACTACTTAGGGAGATAAGATCTGTAACTTG
65 GGAGATAAGATTTTCCGTCTTTGATCTACTCCACTACTGCTTAGGGAGATAAGATCTGTAACTTG
* * * * * *
105659101 AGCTTGCTCCACTACAACCTCAGAGAGATAAGGCTAGTGGCTTAAATTTACTCTATTGTCGATAC
130 AGCCTACTCCACTACAACCTCAGAGAGATAAGGCTAATCGCTTAAATCTACTCCATTGTCGATAC
* * * *
105659166 ATGGAGATAATATTTGCCGTCTTCAATCTGCTCCACTACTGCTTAGGGAGATAAGATCTATAACT
195 ATAGAGATAAGATTTGCCATCTTCAATCTGCTCCACTACTGCTTAGGAAGATAAGATCTATAACT
* * * * *
105659231 TGAGTCTGCTCCACTGCAACCTCAGGAAGATGAGGCTAGTGGCTTACATCTGCTCCATTGCCGAT
260 TGAGCCTGCTCCACTACAACCTCAGGAAGATAAGGCTAGTGGCTTAAATCTACTCCATTGCCGAT
* * * * *
105659296 ACATGGAGATAAGATTTGCCGTCTTTGATCTACTCCACTACTGCTTAGGGAGATAAGACCTGTAT
325 ACATAGAGATAAGATTTACCGTCGTTGATCTACTCCACTACTACTTAGGGAGATAAGACATGTAT
105659361 CTTGAG
390 CTTGAG
* *
105659367 CTTGCTCCACTGCAACCTCAGGGAGATAAGGCTAGTGGCTTAAATCTGCTCCATTACTGATATAT
1 CCTGCTCCACTGCAACTTCAGGGAGATAAGGCTAGTGGCTTAAATCTGCTCCATT-CTGATATAT
* * * *
105659432 GGAGATAAGATTTTGCCGTCTTTGGTCTGCTCCACTACTGCTTAGGGAGATAAGACCTGTATCTT
65 GGAGATAAGATTTT-CCGTCTTTGATCTACTCCACTACTGCTTAGGGAGATAAGATCTGTAACTT
* * * *
105659497 GAGCCTACTCCATTGCAACCTCAGGGAGATAAGGCTAATCGCTTAAATCTGCTCCATTG-CTGAT
129 GAGCCTACTCCACTACAACCTCAGAGAGATAAGGCTAATCGCTTAAATCTACTCCATTGTC-GAT
* *** * *
105659561 ATATAGAGATAAGATTTGCCATCTTTGGTCTGCTCCACTACTGCTTAGGAAGATAATA-CATGTA
193 ACATAGAGATAAGATTTGCCATCTTCAATCTGCTCCACTACTGCTTAGGAAGATAAGATC-TATA
* *
105659625 TCTTGAGCCTGCTCCACTACAACCTCA-GAGAGATAAGGCTAGTGGCTTAAATCTACTCCATTGT
257 ACTTGAGCCTGCTCCACTACAACCTCAGGA-AGATAAGGCTAGTGGCTTAAATCTACTCCATTGC
* *
105659689 CGATACATAGAGATAAGATTTACCGTCGTTGGTCTGCTCCACTACTACTTAGGGAGATAAGACAT
321 CGATACATAGAGATAAGATTTACCGTCGTTGATCTACTCCACTACTACTTAGGGAGATAAGACAT
105659754 GTATCTTGAG
386 GTATCTTGAG
*
105659764 CCTGCTCCACTGCAACTTCAGGGAGATAAGGCTAGTGGCTTAAATCTGCTCCATTGTCGATATAT
1 CCTGCTCCACTGCAACTTCAGGGAGATAAGGCTAGTGGCTTAAATCTGCTCCATTCT-GATATAT
* * * * *
105659829 GGAGATAAGATTTTCCTTCTTCGATCTACTCCTCCACTGCTTAGGAAGATAAGATCTGTAA
65 GGAGATAAGATTTTCCGTCTTTGATCTACTCCACTACTGCTTAGGGAGATAAGATCTGTAA
105659890 TTTTCTTCAA
Statistics
Matches: 451, Mismatches: 67, Indels: 10
0.85 0.13 0.02
Matches are distributed among these distances:
396 108 0.24
397 343 0.76
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (395 bp):
CCTGCTCCACTGCAACTTCAGGGAGATAAGGCTAGTGGCTTAAATCTGCTCCATTCTGATATATG
GAGATAAGATTTTCCGTCTTTGATCTACTCCACTACTGCTTAGGGAGATAAGATCTGTAACTTGA
GCCTACTCCACTACAACCTCAGAGAGATAAGGCTAATCGCTTAAATCTACTCCATTGTCGATACA
TAGAGATAAGATTTGCCATCTTCAATCTGCTCCACTACTGCTTAGGAAGATAAGATCTATAACTT
GAGCCTGCTCCACTACAACCTCAGGAAGATAAGGCTAGTGGCTTAAATCTACTCCATTGCCGATA
CATAGAGATAAGATTTACCGTCGTTGATCTACTCCACTACTACTTAGGGAGATAAGACATGTATC
TTGAG
Found at i:105664782 original size:245 final size:245
Alignment explanation
Indices: 105664341--105664834 Score: 871
Period size: 245 Copynumber: 2.0 Consensus size: 245
105664331 TGCAAAAAGA
* *
105664341 AAGTGAGACATTGATTTTGAATTCAATTCCATTAAAAGAACTTTTCTAGAAAACAAATTTCTTTA
1 AAGTGAGACATTGATTCTGAATTCAATTCCATTAAAAGAACTTTTCTAAAAAACAAATTTCTTTA
* * *
105664406 CATGAAACGAATTACATATGTGGCCTTGCCCTCATATTCCAAGCGAAGACACTGATCTCTTTTCT
66 CATGAAACGAATTACACATGCGGCCTTGCCCTCATATTCCAAGCGAAGACACTGATCTCATTTCT
* * *
105664471 TAAGGTCAAATCTCGTAAACTTCCAATAGATGCCTCAACTAGCTCTTTTTTGTTTGATCCGGACC
131 TAAGGTCAAATCTCGTAAACTTCCAATAGATGCCTCAACTAGCTCATTTTTGCTTAATCCGGACC
*
105664536 ACGGCCCGTTGCTCATTTTTCCTCACAATGCTTCGTTAGCTTCTTTAAGG
196 ACGGCCCGTTGCTCATTTTTCCCCACAATGCTTCGTTAGCTTCTTTAAGG
105664586 AAGTGAGACATTGATTCTGAATTCAATTCCATTAAAAGAACTTTTCTAAAAAACAAATTTCTTTA
1 AAGTGAGACATTGATTCTGAATTCAATTCCATTAAAAGAACTTTTCTAAAAAACAAATTTCTTTA
*
105664651 CATGAAACGGATTACACATGCGGCCTTGCCCTCATATTCCAAGCGAAGACACTGATCTCATTTCT
66 CATGAAACGAATTACACATGCGGCCTTGCCCTCATATTCCAAGCGAAGACACTGATCTCATTTCT
* *
105664716 TAAGGTCAAATCTTGTAAACTTCCAATAGATGCCTCAACTAGCTCATTTTTGCTTAATCTGGACC
131 TAAGGTCAAATCTCGTAAACTTCCAATAGATGCCTCAACTAGCTCATTTTTGCTTAATCCGGACC
*
105664781 ACGGCCCGTTGCTCATTTTTCCCCATAATGCTTCGTTAGCTTCTTTAAGG
196 ACGGCCCGTTGCTCATTTTTCCCCACAATGCTTCGTTAGCTTCTTTAAGG
105664831 AAGT
1 AAGT
105664835 TGAGGACTCT
Statistics
Matches: 236, Mismatches: 13, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
245 236 1.00
ACGTcount: A:0.29, C:0.23, G:0.15, T:0.34
Consensus pattern (245 bp):
AAGTGAGACATTGATTCTGAATTCAATTCCATTAAAAGAACTTTTCTAAAAAACAAATTTCTTTA
CATGAAACGAATTACACATGCGGCCTTGCCCTCATATTCCAAGCGAAGACACTGATCTCATTTCT
TAAGGTCAAATCTCGTAAACTTCCAATAGATGCCTCAACTAGCTCATTTTTGCTTAATCCGGACC
ACGGCCCGTTGCTCATTTTTCCCCACAATGCTTCGTTAGCTTCTTTAAGG
Found at i:105666369 original size:177 final size:177
Alignment explanation
Indices: 105666062--105666389 Score: 460
Period size: 177 Copynumber: 1.9 Consensus size: 177
105666052 CAGGTAGCAA
* *
105666062 GAGAGCAGGTTGAAGATACAAGTCTTATCTTTCTGAGGTAGCAAAGAAGCAGACTGAAAATTACA
1 GAGAGCAGGTTGAAGATACAAGTATTATCTTTCTGAGGTAGCAAAGAAACAGACTGAAAATTACA
* ** * *
105666127 GATCTTATCTCCCTAAGCAGTAGTAGAGTAGATCGAAAATGGCGAGTCTTATCTCCGTATATCGG
66 GATATTATCTCCCTAAGCAGTAGTAGAACAAATCGAAAATGGCGAGTCTTATCTCCATATATCGG
*
105666192 CTATGGAGCAAATCTTAGCCACCGGCTTTATCTCTCGGAAACAGCGG
131 CAATGGAGCAAATCTTAGCCACCGGCTTTATCTCTCGGAAACAGCGG
* * *
105666239 GAGAGTAGGTTGAAGATACAAGTATTAT-TTTCCTGAGGTAGCAAAGAAATAGACTGAAAATTAT
1 GAGAGCAGGTTGAAGATACAAGTATTATCTTT-CTGAGGTAGCAAAGAAACAGACTGAAAATTAC
* * * * * *
105666303 AGATATTATCTCCTTAATCAGTAGTGGAACAAATCGAAAATGGCGAGTCTTTTCTCTATGTATCG
65 AGATATTATCTCCCTAAGCAGTAGTAGAACAAATCGAAAATGGCGAGTCTTATCTCCATATATCG
* * *
105666368 GCAATGGGGCAGATTTTAGCCA
130 GCAATGGAGCAAATCTTAGCCA
105666390 TCAACATTTT
Statistics
Matches: 130, Mismatches: 20, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
176 3 0.02
177 127 0.98
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.27
Consensus pattern (177 bp):
GAGAGCAGGTTGAAGATACAAGTATTATCTTTCTGAGGTAGCAAAGAAACAGACTGAAAATTACA
GATATTATCTCCCTAAGCAGTAGTAGAACAAATCGAAAATGGCGAGTCTTATCTCCATATATCGG
CAATGGAGCAAATCTTAGCCACCGGCTTTATCTCTCGGAAACAGCGG
Found at i:105667645 original size:28 final size:29
Alignment explanation
Indices: 105667591--105667660 Score: 83
Period size: 28 Copynumber: 2.5 Consensus size: 29
105667581 TGGGCATTTT
* *
105667591 TATT-ATTATTTTAATAATATTATTATTG
1 TATTCATTATTTTTATAATATTACTATTG
*
105667619 TATTCATTATTTTTAT-ATGTTACTATTG
1 TATTCATTATTTTTATAATATTACTATTG
*
105667647 CATTCATT-TTTTTA
1 TATTCATTATTTTTA
105667661 CTTTTTTTAT
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
27 6 0.16
28 21 0.57
29 10 0.27
ACGTcount: A:0.29, C:0.06, G:0.04, T:0.61
Consensus pattern (29 bp):
TATTCATTATTTTTATAATATTACTATTG
Found at i:105667832 original size:12 final size:11
Alignment explanation
Indices: 105667684--105667775 Score: 51
Period size: 12 Copynumber: 8.0 Consensus size: 11
105667674 TTTCATTAAA
105667684 ATTATTTTTACT
1 ATTATTTTTA-T
*
105667696 ATTATTTTTTT
1 ATTATTTTTAT
* **
105667707 A-AATTATTCCT
1 ATTATT-TTTAT
*
105667718 ATTATTATTAT
1 ATTATTTTTAT
*
105667729 ATTATTATTATT
1 ATTATTTTTA-T
*
105667741 ATTATTATTATT
1 ATTATTTTTA-T
*
105667753 ATTATTATTATT
1 ATTATTTTTA-T
*
105667765 ATTATTATTAT
1 ATTATTTTTAT
105667776 TATCTTCTCC
Statistics
Matches: 69, Mismatches: 8, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
10 3 0.04
11 19 0.28
12 47 0.68
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (11 bp):
ATTATTTTTAT
Found at i:105667872 original size:3 final size:3
Alignment explanation
Indices: 105667717--105667778 Score: 117
Period size: 3 Copynumber: 21.0 Consensus size: 3
105667707 AAATTATTCC
105667717 TAT TAT TAT TA- TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
105667764 TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT
105667779 CTTCTCCCCT
Statistics
Matches: 58, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
2 2 0.03
3 56 0.97
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:105670656 original size:58 final size:55
Alignment explanation
Indices: 105670525--105670666 Score: 157
Period size: 58 Copynumber: 2.5 Consensus size: 55
105670515 TTGATTTTTT
*
105670525 AATT-TATATAATAATAATTATATTAAAAATGTTATTAAATCATATTTTTTTATTA
1 AATTATATTTAATAATAATTATATTAAAAATG-TATTAAATCATATTTTTTTATTA
* * *
105670580 AATTATATTTAATAATAATTATGTTAAAATATG-GTTAAATTATTTATTATTTTTATTA
1 AATTATATTTAATAATAATTATATTAAAA-ATGTATTAAATCA--TATT-TTTTTATTA
105670638 AATTAT-TTTCAATAATAATCT-TATTAAAA
1 AATTATATTT-AATAATAAT-TATATTAAAA
105670667 TTTAATAACA
Statistics
Matches: 75, Mismatches: 5, Indels: 11
0.82 0.05 0.12
Matches are distributed among these distances:
55 11 0.15
56 22 0.29
57 10 0.13
58 31 0.41
59 1 0.01
ACGTcount: A:0.44, C:0.02, G:0.03, T:0.51
Consensus pattern (55 bp):
AATTATATTTAATAATAATTATATTAAAAATGTATTAAATCATATTTTTTTATTA
Found at i:105670856 original size:16 final size:16
Alignment explanation
Indices: 105670835--105670886 Score: 68
Period size: 16 Copynumber: 3.2 Consensus size: 16
105670825 TGAATTACTT
105670835 ATTATAGCTCTATTCC
1 ATTATAGCTCTATTCC
* *
105670851 ATTATAACTCTATTTC
1 ATTATAGCTCTATTCC
* *
105670867 ATTATAGTTCTATTCA
1 ATTATAGCTCTATTCC
105670883 ATTA
1 ATTA
105670887 CAGTCATATT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 30 1.00
ACGTcount: A:0.31, C:0.17, G:0.04, T:0.48
Consensus pattern (16 bp):
ATTATAGCTCTATTCC
Found at i:105673086 original size:32 final size:31
Alignment explanation
Indices: 105673045--105673137 Score: 109
Period size: 31 Copynumber: 3.0 Consensus size: 31
105673035 GATCCTATTC
*
105673045 AAATTAAATTATATATTTTTATAATTTTTAAA
1 AAATTAAATTATA-ATTTTTATAATTATTAAA
* *
105673077 AAATTAAATTA-AAATTTTATTATTATTAAA
1 AAATTAAATTATAATTTTTATAATTATTAAA
* *
105673107 AAAGTTAAAATATAA-TTTTATTATTATTAAA
1 AAA-TTAAATTATAATTTTTATAATTATTAAA
105673138 TTTAAAATTT
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
30 18 0.33
31 24 0.44
32 13 0.24
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (31 bp):
AAATTAAATTATAATTTTTATAATTATTAAA
Found at i:105675998 original size:30 final size:30
Alignment explanation
Indices: 105675964--105676021 Score: 116
Period size: 30 Copynumber: 1.9 Consensus size: 30
105675954 TGTTTTATTG
105675964 TTAATTTTGTTATTATTTTAGAGGCATTCA
1 TTAATTTTGTTATTATTTTAGAGGCATTCA
105675994 TTAATTTTGTTATTATTTTAGAGGCATT
1 TTAATTTTGTTATTATTTTAGAGGCATT
105676022 TGCTTGTTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.26, C:0.05, G:0.14, T:0.55
Consensus pattern (30 bp):
TTAATTTTGTTATTATTTTAGAGGCATTCA
Found at i:105676146 original size:18 final size:18
Alignment explanation
Indices: 105676099--105676147 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
105676089 TTATTGGAAA
*
105676099 ATATTTATTTTGATGTATT
1 ATATATATTTT-ATGTATT
*
105676118 -TAGTATTTTTTATGTATT
1 ATA-TATATTTTATGTATT
105676136 ATATATATTTTA
1 ATATATATTTTA
105676148 AAAATATAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
18 17 0.68
19 8 0.32
ACGTcount: A:0.29, C:0.00, G:0.08, T:0.63
Consensus pattern (18 bp):
ATATATATTTTATGTATT
Found at i:105679059 original size:22 final size:20
Alignment explanation
Indices: 105679022--105679062 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 20
105679012 ATCAAGATTG
*
105679022 AAAAAAATTATCAAATTCAA
1 AAAAAAATTATAAAATTCAA
105679042 AAAAAATATATATAAAATTCA
1 AAAAAA-AT-TATAAAATTCA
105679063 GAAATTAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 6 0.33
21 2 0.11
22 10 0.56
ACGTcount: A:0.66, C:0.07, G:0.00, T:0.27
Consensus pattern (20 bp):
AAAAAAATTATAAAATTCAA
Found at i:105680360 original size:29 final size:29
Alignment explanation
Indices: 105680326--105680385 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
105680316 TATTTTGTTG
105680326 TTATTATTTGGATATTGTATAAAACTTAT
1 TTATTATTTGGATATTGTATAAAACTTAT
105680355 TTATTATTTGGATATTGTATAAAACTTAT
1 TTATTATTTGGATATTGTATAAAACTTAT
105680384 TT
1 TT
105680386 TATTGTTAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.33, C:0.03, G:0.10, T:0.53
Consensus pattern (29 bp):
TTATTATTTGGATATTGTATAAAACTTAT
Found at i:105680422 original size:30 final size:30
Alignment explanation
Indices: 105680388--105680450 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
105680378 ACTTATTTTA
105680388 TTGTTAATTTTGTTATTATTTTAAAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGGCAT
* *
105680418 TTGTTAATTTTTTTATTATTTTAGAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGGCAT
105680448 TTG
1 TTG
105680451 CTTGATAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.24, C:0.03, G:0.14, T:0.59
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGGCAT
Found at i:105681965 original size:5 final size:5
Alignment explanation
Indices: 105681955--105681979 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
105681945 ATTGACCATA
105681955 AAAAT AAAAT AAAAT AAAAT AAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT
105681980 CAAGTGTACC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
AAAAT
Found at i:105690133 original size:24 final size:24
Alignment explanation
Indices: 105690106--105690158 Score: 97
Period size: 24 Copynumber: 2.2 Consensus size: 24
105690096 AGTCCAATAG
105690106 CCCAATAACTAACTAAACCCTAAA
1 CCCAATAACTAACTAAACCCTAAA
*
105690130 CCCAATAACTAATTAAACCCTAAA
1 CCCAATAACTAACTAAACCCTAAA
105690154 CCCAA
1 CCCAA
105690159 AAAAAACCAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.49, C:0.34, G:0.00, T:0.17
Consensus pattern (24 bp):
CCCAATAACTAACTAAACCCTAAA
Found at i:105692593 original size:127 final size:125
Alignment explanation
Indices: 105692317--105692614 Score: 314
Period size: 127 Copynumber: 2.3 Consensus size: 125
105692307 GTAATAGTTG
* * * * *** * *
105692317 ATGTTTGGGAACTCGAGGAATCGTGCTCCAACCGTACTGGGTTTTGATTTTTAGTTTGTCCAAAT
1 ATGTTTGGAAATTCGAGGAATCGTGC-CCTA-CGTGCTGGGTTGCAATTTCTAGTTTGTCAAAAT
*
105692382 AATCAAATATTCCTTGAAATTTCATCCGTACTTTAAAAATTCCTTAAAACGAAGGCAATGTTCG
64 AATCAAATATTCCTTGAAATTTCATCCGTA-TTTAAAAATT-CTTAAAACGAAGGCAATGTTCA
* * *
105692446 ATGTTTGGAAATTTGGGGAATCGTGCCCTATCGTGCTGGGTTGCAATTTCTCGTTTGTTCAAAAT
1 ATGTTTGGAAATTCGAGGAATCGTGCCCTA-CGTGCTGGGTTGCAATTTCTAGTTTG-TCAAAAT
* * **
105692511 AATCAAATATTCCTTTAGAATTTCACTCATGT-TTTCTAAATT-TTAAAAC-AAGGCAATGTTCA
64 AATCAAATATTCCTTGA-AATTTCA-TC-CGTATTTAAAAATTCTTAAAACGAAGGCAATGTTCA
* *
105692573 ATGTTTGGAAATTCGAGGAATCATACCCTACTGTGCTGGGTT
1 ATGTTTGGAAATTCGAGGAATCGTGCCCTAC-GTGCTGGGTT
105692615 TCGATTTTTT
Statistics
Matches: 142, Mismatches: 22, Indels: 12
0.81 0.12 0.07
Matches are distributed among these distances:
126 1 0.01
127 48 0.34
128 30 0.21
129 44 0.31
130 15 0.11
131 2 0.01
132 2 0.01
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.36
Consensus pattern (125 bp):
ATGTTTGGAAATTCGAGGAATCGTGCCCTACGTGCTGGGTTGCAATTTCTAGTTTGTCAAAATAA
TCAAATATTCCTTGAAATTTCATCCGTATTTAAAAATTCTTAAAACGAAGGCAATGTTCA
Found at i:105693731 original size:20 final size:20
Alignment explanation
Indices: 105693706--105693745 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
105693696 AATTCAGGTC
105693706 GACATCGCGACGTGAAGGAG
1 GACATCGCGACGTGAAGGAG
*
105693726 GACATCGCGACTTGAAGGAG
1 GACATCGCGACGTGAAGGAG
105693746 TGCCTCGTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.30, C:0.20, G:0.38, T:0.12
Consensus pattern (20 bp):
GACATCGCGACGTGAAGGAG
Found at i:105694951 original size:27 final size:27
Alignment explanation
Indices: 105694898--105694951 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
105694888 TGGATTCCAA
* * *
105694898 TATAATCAGTAATAAACTACGTGCAAT
1 TATAATCAATAATAAACTACATACAAT
105694925 TATAATCAATAATAAACTACATACAAT
1 TATAATCAATAATAAACTACATACAAT
105694952 CACATACTTC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.50, C:0.15, G:0.06, T:0.30
Consensus pattern (27 bp):
TATAATCAATAATAAACTACATACAAT
Found at i:105699911 original size:8 final size:8
Alignment explanation
Indices: 105699898--105699923 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
105699888 CTTAGCACAG
105699898 GAAAGAGA
1 GAAAGAGA
105699906 GAAAGAGA
1 GAAAGAGA
105699914 GAAAGAGA
1 GAAAGAGA
105699922 GA
1 GA
105699924 GAGTGTGTGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.62, C:0.00, G:0.38, T:0.00
Consensus pattern (8 bp):
GAAAGAGA
Found at i:105700212 original size:16 final size:16
Alignment explanation
Indices: 105700181--105700210 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
105700171 ATTTAATAAT
105700181 TATTTTTTAATATTTA
1 TATTTTTTAATATTTA
105700197 TATTTTTTAA-ATTT
1 TATTTTTTAATATTT
105700211 TAAAATATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (16 bp):
TATTTTTTAATATTTA
Found at i:105700786 original size:2 final size:2
Alignment explanation
Indices: 105700779--105700812 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
105700769 TTCTTGCACC
105700779 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
105700813 TTCTGCAATA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:105707539 original size:1 final size:1
Alignment explanation
Indices: 105707533--105707561 Score: 58
Period size: 1 Copynumber: 29.0 Consensus size: 1
105707523 GCTTTGTTGT
105707533 AAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAA
105707562 GAAGAAGTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 28 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:105715517 original size:3 final size:3
Alignment explanation
Indices: 105715509--105715537 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
105715499 CAAGACAGTA
105715509 AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
105715538 ACCCAAACCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:105716353 original size:20 final size:20
Alignment explanation
Indices: 105716330--105716416 Score: 56
Period size: 20 Copynumber: 4.5 Consensus size: 20
105716320 ATTTAATAAA
105716330 TTTTAATAATTTTTATATAT
1 TTTTAATAATTTTTATATAT
* * ***
105716350 TTTT-ATACTTGTCTA-CCGT
1 TTTTAATAATT-TTTATATAT
*
105716369 TTTT-ATAATATTTAGTA-AT
1 TTTTAATAATTTTTA-TATAT
* *
105716388 TTTTAATAATTTTTAAATTT
1 TTTTAATAATTTTTATATAT
105716408 TTTTAATAA
1 TTTTAATAA
105716417 AAATTACTAC
Statistics
Matches: 49, Mismatches: 13, Indels: 10
0.68 0.18 0.14
Matches are distributed among these distances:
18 3 0.06
19 20 0.41
20 26 0.53
ACGTcount: A:0.32, C:0.05, G:0.03, T:0.60
Consensus pattern (20 bp):
TTTTAATAATTTTTATATAT
Found at i:105716392 original size:10 final size:9
Alignment explanation
Indices: 105716368--105716414 Score: 51
Period size: 10 Copynumber: 5.1 Consensus size: 9
105716358 TTGTCTACCG
105716368 TTTTTATAA
1 TTTTTATAA
*
105716377 TATTTAGTAA
1 TTTTTA-TAA
105716387 TTTTTAATAA
1 TTTTT-ATAA
105716397 TTTTTA-AA
1 TTTTTATAA
*
105716405 TTTTTTTAA
1 TTTTTATAA
105716414 T
1 T
105716415 AAAAATTACT
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
8 7 0.22
9 9 0.28
10 15 0.47
11 1 0.03
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (9 bp):
TTTTTATAA
Found at i:105717131 original size:9 final size:9
Alignment explanation
Indices: 105717049--105717236 Score: 58
Period size: 9 Copynumber: 19.6 Consensus size: 9
105717039 TTTTAATTAT
105717049 TTTTATATAA
1 TTTTATA-AA
105717059 TTTCTA-AAA
1 TTT-TATAAA
105717068 TTTTATAATA
1 TTTTATAA-A
* *
105717078 TTAATATGATA
1 TT-TTAT-AAA
*
105717089 TTTTCATATA
1 TTTT-ATAAA
*
105717099 TTTCATAACA
1 TTTTATAA-A
*
105717109 TATGTATAATA
1 T-TTTATAA-A
105717120 TTTTATAAA
1 TTTTATAAA
*
105717129 TTTAATATATA
1 TTT--TATAAA
*
105717140 TTTT-TTAA
1 TTTTATAAA
105717148 TTTT-TAAA
1 TTTTATAAA
* *
105717156 ATTTATGATA
1 TTTTAT-AAA
*
105717166 TTTAATAAA
1 TTTTATAAA
*
105717175 TTTTATAGA
1 TTTTATAAA
* *
105717184 TTTTCTATA
1 TTTTATAAA
* *
105717193 TTTTCTTAAT
1 TTTT-ATAAA
*
105717203 TTTTAAAAA
1 TTTTATAAA
*
105717212 GTTTATAATA
1 TTTTATAA-A
*
105717222 TTTTAATAAT
1 TTTT-ATAAA
105717232 TTTTA
1 TTTTA
105717237 AGCTTAAATA
Statistics
Matches: 131, Mismatches: 32, Indels: 31
0.68 0.16 0.16
Matches are distributed among these distances:
8 14 0.11
9 45 0.34
10 42 0.32
11 29 0.22
12 1 0.01
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.55
Consensus pattern (9 bp):
TTTTATAAA
Found at i:105717150 original size:28 final size:26
Alignment explanation
Indices: 105717119--105717237 Score: 73
Period size: 27 Copynumber: 4.3 Consensus size: 26
105717109 TATGTATAAT
105717119 ATTTTATAAATTTAATATATATTTTTTA
1 ATTTT-TAAATTT-ATATATATTTTTTA
** *
105717147 ATTTTTAAAATTTATGATAT-TTAATAA
1 ATTTTT-AAATTTAT-ATATATTTTTTA
* *
105717174 ATTTTATAGATTT-TCTATATTTTCTTA
1 ATTTT-TAAATTTATATATATTTT-TTA
*
105717201 ATTTTTAAAAAGTTTATA-ATATTTTAATA
1 ATTTTT--AAA-TTTATATATATTTT-TTA
105717230 ATTTTTAA
1 ATTTTTAA
105717238 GCTTAAATAA
Statistics
Matches: 70, Mismatches: 12, Indels: 19
0.69 0.12 0.19
Matches are distributed among these distances:
25 3 0.04
26 4 0.06
27 26 0.37
28 18 0.26
29 18 0.26
30 1 0.01
ACGTcount: A:0.39, C:0.02, G:0.03, T:0.57
Consensus pattern (26 bp):
ATTTTTAAATTTATATATATTTTTTA
Found at i:105723962 original size:13 final size:13
Alignment explanation
Indices: 105723944--105723969 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
105723934 CTGATTCTCC
105723944 TTCTTTTCTTTTT
1 TTCTTTTCTTTTT
105723957 TTCTTTTCTTTTT
1 TTCTTTTCTTTTT
105723970 CCTTTTACGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (13 bp):
TTCTTTTCTTTTT
Found at i:105727398 original size:40 final size:41
Alignment explanation
Indices: 105727339--105727438 Score: 116
Period size: 40 Copynumber: 2.5 Consensus size: 41
105727329 GAAACTATCT
*
105727339 CAATATCGCACACTTAGTGCCACAAATAGCCGAAGCTATTC
1 CAATATCGCACACTAAGTGCCACAAATAGCCGAAGCTATTC
* * *
105727380 CAAT-TCGCACACTAAGTGCTATATATAGCCGAAGCTATCTC
1 CAATATCGCACACTAAGTGCCACAAATAGCCGAAGCTAT-TC
* *
105727421 GAA-A-CGCACACCAAGTGC
1 CAATATCGCACACTAAGTGC
105727439 AAACATAGCT
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
40 43 0.84
41 8 0.16
ACGTcount: A:0.34, C:0.29, G:0.16, T:0.21
Consensus pattern (41 bp):
CAATATCGCACACTAAGTGCCACAAATAGCCGAAGCTATTC
Found at i:105744065 original size:2 final size:2
Alignment explanation
Indices: 105744058--105744083 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
105744048 ATATTATCAT
105744058 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
105744084 GATCCAAACA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:105752349 original size:16 final size:15
Alignment explanation
Indices: 105752323--105752388 Score: 61
Period size: 14 Copynumber: 4.6 Consensus size: 15
105752313 TTATTTTAGA
105752323 TTAT-TATTCATTTT
1 TTATATATTCATTTT
105752337 TTATATCATTCATTGTT
1 TTATAT-ATTCATT-TT
105752354 TTA-A-ATT-ATTTT
1 TTATATATTCATTTT
*
105752366 ATAT-TATTCATTTT
1 TTATATATTCATTTT
*
105752380 TTATTTATT
1 TTATATATT
105752389 TTTGTTTGTA
Statistics
Matches: 43, Mismatches: 2, Indels: 13
0.74 0.03 0.22
Matches are distributed among these distances:
12 4 0.09
13 6 0.14
14 15 0.35
15 5 0.12
16 8 0.19
17 5 0.12
ACGTcount: A:0.26, C:0.06, G:0.02, T:0.67
Consensus pattern (15 bp):
TTATATATTCATTTT
Found at i:105752387 original size:25 final size:27
Alignment explanation
Indices: 105752335--105752390 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
105752325 ATTATTCATT
105752335 TTTTATATCATTCATTGTTTTAAATTA
1 TTTTATATCATTCATTGTTTTAAATTA
* *
105752362 TTTTATATTATTCATT-TTTT-ATTTA
1 TTTTATATCATTCATTGTTTTAAATTA
105752387 TTTT
1 TTTT
105752391 TGTTTGTATA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
25 8 0.30
26 4 0.15
27 15 0.56
ACGTcount: A:0.25, C:0.05, G:0.02, T:0.68
Consensus pattern (27 bp):
TTTTATATCATTCATTGTTTTAAATTA
Found at i:105754683 original size:26 final size:27
Alignment explanation
Indices: 105754626--105754683 Score: 68
Period size: 26 Copynumber: 2.2 Consensus size: 27
105754616 TATCATTTTG
*
105754626 AATATTAAACATACATAATTAATTATCT
1 AATATTAAACATA-ATAATGAATTATCT
105754654 -ATATCTAAACAT-ATAATGAATTAT-T
1 AATAT-TAAACATAATAATGAATTATCT
105754679 AATAT
1 AATAT
105754684 AATTTATTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
25 1 0.04
26 15 0.56
27 4 0.15
28 7 0.26
ACGTcount: A:0.50, C:0.09, G:0.02, T:0.40
Consensus pattern (27 bp):
AATATTAAACATAATAATGAATTATCT
Found at i:105754746 original size:15 final size:14
Alignment explanation
Indices: 105754726--105754760 Score: 54
Period size: 13 Copynumber: 2.5 Consensus size: 14
105754716 AATTTTATTT
105754726 AATAATAAATTTTAA
1 AATAATAAATTTT-A
105754741 AATAAT-AATTTTA
1 AATAATAAATTTTA
105754754 AATAATA
1 AATAATA
105754761 TTCTTCATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 7 0.37
14 6 0.32
15 6 0.32
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (14 bp):
AATAATAAATTTTA
Found at i:105768193 original size:3 final size:3
Alignment explanation
Indices: 105768181--105768256 Score: 84
Period size: 3 Copynumber: 25.0 Consensus size: 3
105768171 ATATCGTGCA
105768181 TAT T-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAGT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T
* * *
105768226 TCT AAAT CA- TAT TAT TAT TAT TATT TAT TAT
1 TAT -TAT TAT TAT TAT TAT TAT TA-T TAT TAT
105768257 ATGTTATTTT
Statistics
Matches: 63, Mismatches: 5, Indels: 10
0.81 0.06 0.13
Matches are distributed among these distances:
2 3 0.05
3 54 0.86
4 6 0.10
ACGTcount: A:0.33, C:0.03, G:0.01, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:105771654 original size:11 final size:11
Alignment explanation
Indices: 105771632--105771660 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
105771622 CTTTCTTGAT
105771632 AATAAA-ATAA
1 AATAAATATAA
105771642 AATAAATATAA
1 AATAAATATAA
105771653 AATAAATA
1 AATAAATA
105771661 ACATGAATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 6 0.33
11 12 0.67
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (11 bp):
AATAAATATAA
Found at i:105772201 original size:25 final size:26
Alignment explanation
Indices: 105772154--105772202 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
105772144 AATATATAAT
*
105772154 TTTTTTTATAAATTCATTCAAAATTA
1 TTTTTTTATAAATTCATTAAAAATTA
105772180 TTTTTTTATAAATTCA-TAAAAAT
1 TTTTTTTATAAATTCATTAAAAAT
105772203 ATATATATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 6 0.27
26 16 0.73
ACGTcount: A:0.41, C:0.06, G:0.00, T:0.53
Consensus pattern (26 bp):
TTTTTTTATAAATTCATTAAAAATTA
Found at i:105772236 original size:25 final size:24
Alignment explanation
Indices: 105772173--105772241 Score: 57
Period size: 25 Copynumber: 2.8 Consensus size: 24
105772163 AAATTCATTC
* * * *
105772173 AAAATTATTTTTTTATAAATTCAT
1 AAAATTATTTTATTAAAAAATAAT
* *
105772197 AAAAATATATATATTAAAAAATAAGT
1 AAAATTAT-TTTATTAAAAAATAA-T
*
105772223 AAAATTATTTTATTTAAAA
1 AAAATTATTTTATTAAAAA
105772242 TTTTATTTAC
Statistics
Matches: 34, Mismatches: 9, Indels: 3
0.74 0.20 0.07
Matches are distributed among these distances:
24 7 0.21
25 19 0.56
26 8 0.24
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.43
Consensus pattern (24 bp):
AAAATTATTTTATTAAAAAATAAT
Found at i:105774277 original size:19 final size:19
Alignment explanation
Indices: 105774253--105774296 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 19
105774243 GGGACTAAAT
* *
105774253 TGAAAAGTTGTAAAATTTA
1 TGAAAAATTCTAAAATTTA
*
105774272 TGAAAAAATTCTAAATTTTA
1 TG-AAAAATTCTAAAATTTA
105774292 TGAAA
1 TGAAA
105774297 TACATGGGCT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
19 5 0.24
20 16 0.76
ACGTcount: A:0.50, C:0.02, G:0.11, T:0.36
Consensus pattern (19 bp):
TGAAAAATTCTAAAATTTA
Found at i:105774455 original size:10 final size:11
Alignment explanation
Indices: 105774438--105774468 Score: 55
Period size: 10 Copynumber: 2.9 Consensus size: 11
105774428 TTTCCTAAAG
105774438 TATGAATTGAA
1 TATGAATTGAA
105774449 T-TGAATTGAA
1 TATGAATTGAA
105774459 TATGAATTGA
1 TATGAATTGA
105774469 TGTTAAATTC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 10 0.53
11 9 0.47
ACGTcount: A:0.42, C:0.00, G:0.19, T:0.39
Consensus pattern (11 bp):
TATGAATTGAA
Found at i:105775206 original size:25 final size:24
Alignment explanation
Indices: 105775178--105775244 Score: 64
Period size: 27 Copynumber: 2.6 Consensus size: 24
105775168 TTTCCATTAC
105775178 ATGGCTTATATGAGCTTCCTGTTAT
1 ATGGCTTATATGAGCTTCCTGTT-T
*
105775203 ATGGCTTGAGA-GAGGGCTTCCTGTTT
1 ATGGCTT-ATATGA--GCTTCCTGTTT
*
105775229 ATGTGCTTGTATGAGC
1 ATG-GCTTATATGAGC
105775245 ATTTCTGAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 10
0.72 0.06 0.21
Matches are distributed among these distances:
25 11 0.32
26 7 0.21
27 16 0.47
ACGTcount: A:0.18, C:0.15, G:0.28, T:0.39
Consensus pattern (24 bp):
ATGGCTTATATGAGCTTCCTGTTT
Found at i:105777769 original size:25 final size:25
Alignment explanation
Indices: 105777714--105777795 Score: 101
Period size: 25 Copynumber: 3.3 Consensus size: 25
105777704 TCACTACGAC
* * *
105777714 GGCTTTCCAAATGATATGCCAGATA
1 GGCTTTCCAAATGATACGCCATAAA
* * *
105777739 GACTTTCCAAATGATACACCTTAAA
1 GGCTTTCCAAATGATACGCCATAAA
105777764 GGCTTTCCAAATGATACGCCATAAA
1 GGCTTTCCAAATGATACGCCATAAA
*
105777789 GCCTTTC
1 GGCTTTC
105777796 TAGGTAATCT
Statistics
Matches: 47, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
25 47 1.00
ACGTcount: A:0.33, C:0.24, G:0.15, T:0.28
Consensus pattern (25 bp):
GGCTTTCCAAATGATACGCCATAAA
Found at i:105782997 original size:46 final size:46
Alignment explanation
Indices: 105782927--105783100 Score: 174
Period size: 46 Copynumber: 3.8 Consensus size: 46
105782917 TGTAACCTGC
* * *
105782927 CCATAAGCGAACTCGGACTTAACTCAATGAGCTCGAGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGAGCGTTCGCAT
* * * *
105782973 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CTAG-TT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTC-GA-GCGTTCGCAT
* ** *
105783019 ACATTTCGCGAACTCAGACTCAACTCAACGAGTTC-AGACGTTCGCAT
1 CCA-TAAGCGAACTCGGACTCAACTCAACGAGTTCGAG-CGTTCGCAT
* *
105783066 CCATAAGTGAACTTGGACTCAACTCAACGAGTTCG
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCG
105783101 GATGCCCAAA
Statistics
Matches: 100, Mismatches: 21, Indels: 13
0.75 0.16 0.10
Matches are distributed among these distances:
44 1 0.01
45 2 0.02
46 61 0.61
47 34 0.34
48 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGAGCGTTCGCAT
Found at i:105783062 original size:93 final size:93
Alignment explanation
Indices: 105782933--105783106 Score: 287
Period size: 93 Copynumber: 1.9 Consensus size: 93
105782923 CTGCCCATAA
* * *
105782933 GCGAACTCGGACTTAACTCAATGAGCTCGAGCGTTCGCATCCATAAGTGAACTCGGACTCAACTC
1 GCGAACTCAGACTCAACTCAACGAGCTCGAGCGTTCGCATCCATAAGTGAACTCGGACTCAACTC
105782998 AACGAGTTCGGATGCCTAGTTACATTTC
66 AACGAGTTCGGATGCCTAGTTACATTTC
* *
105783026 GCGAACTCAGACTCAACTCAACGAGTTC-AGACGTTCGCATCCATAAGTGAACTTGGACTCAACT
1 GCGAACTCAGACTCAACTCAACGAGCTCGAG-CGTTCGCATCCATAAGTGAACTCGGACTCAACT
105783090 CAACGAGTTCGGATGCC
65 CAACGAGTTCGGATGCC
105783107 CAAATATCCG
Statistics
Matches: 75, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
92 2 0.03
93 73 0.97
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (93 bp):
GCGAACTCAGACTCAACTCAACGAGCTCGAGCGTTCGCATCCATAAGTGAACTCGGACTCAACTC
AACGAGTTCGGATGCCTAGTTACATTTC
Found at i:105787452 original size:25 final size:25
Alignment explanation
Indices: 105787415--105787472 Score: 89
Period size: 25 Copynumber: 2.3 Consensus size: 25
105787405 AATAAGAAAC
105787415 AATTATAAACATTAAACCATTTATAT
1 AATT-TAAACATTAAACCATTTATAT
* *
105787441 AATTTAACCATTAAACCATTTATCT
1 AATTTAAACATTAAACCATTTATAT
105787466 AATTTAA
1 AATTTAA
105787473 TCATGCATAC
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
25 26 0.87
26 4 0.13
ACGTcount: A:0.47, C:0.14, G:0.00, T:0.40
Consensus pattern (25 bp):
AATTTAAACATTAAACCATTTATAT
Found at i:105792511 original size:48 final size:48
Alignment explanation
Indices: 105792426--105792571 Score: 184
Period size: 48 Copynumber: 3.0 Consensus size: 48
105792416 GGTTATGTGT
** *
105792426 GATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCATCGATATGA
1 GATCCCATAAAAGACCATGTCTGGGACATGGCATTGGCATCGATATGA
** * *
105792474 GATCTGATAAAAGACCATGCCTGGGACATGGCATTGGCATCGATATGT
1 GATCCCATAAAAGACCATGTCTGGGACATGGCATTGGCATCGATATGA
** * * *
105792522 GATCCCATGTAAGACCATATCTGGGATATGGCATTGGCATCAATATGA
1 GATCCCATAAAAGACCATGTCTGGGACATGGCATTGGCATCGATATGA
105792570 GA
1 GA
105792572 CATCGTGTAG
Statistics
Matches: 82, Mismatches: 16, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
48 82 1.00
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.26
Consensus pattern (48 bp):
GATCCCATAAAAGACCATGTCTGGGACATGGCATTGGCATCGATATGA
Found at i:105792586 original size:48 final size:47
Alignment explanation
Indices: 105792433--105792594 Score: 159
Period size: 48 Copynumber: 3.4 Consensus size: 47
105792423 TGTGATCCCA
* *
105792433 TGTAAGACCATGTCTGGGACATGGCTTTGGCATCGATATGAG--ATC
1 TGTAAGACCATATCTGGGACATGGCATTGGCATCGATATGAGACATC
** * *
105792478 TGATAAAAGACCATGCCTGGGACATGGCATTGGCATCGATATGTGATC-CC
1 TG-T--AAGACCATATCTGGGACATGGCATTGGCATCGATATGAGA-CATC
* *
105792528 ATGTAAGACCATATCTGGGATATGGCATTGGCATCAATATGAGACATC
1 -TGTAAGACCATATCTGGGACATGGCATTGGCATCGATATGAGACATC
* *
105792576 GTGTAGGACCATAGCTGGG
1 -TGTAAGACCATATCTGGG
105792595 CTATCGGCTT
Statistics
Matches: 96, Mismatches: 13, Indels: 13
0.79 0.11 0.11
Matches are distributed among these distances:
45 2 0.02
46 1 0.01
47 1 0.01
48 88 0.92
50 2 0.02
51 2 0.02
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.26
Consensus pattern (47 bp):
TGTAAGACCATATCTGGGACATGGCATTGGCATCGATATGAGACATC
Found at i:105792629 original size:43 final size:45
Alignment explanation
Indices: 105792423--105792642 Score: 158
Period size: 48 Copynumber: 4.7 Consensus size: 45
105792413 TAAGGTTATG
* * *
105792423 TGTGATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCATCGATA
1 TGTGATCCCATGTAAGACCATATCTGGGATAT-GC--TGGCATCAATA
* ** ** ** * *
105792471 TGAGATCTGATAAAAGACCATGCCTGGGACATGGCATTGGCATCGATA
1 TGTGATCCCATGTAAGACCATATCTGGGATAT-GC--TGGCATCAATA
105792519 TGTGATCCCATGTAAGACCATATCTGGGATATGGCATTGGCATCAATA
1 TGTGATCCCATGTAAGACCATATCTGGGATAT-GC--TGGCATCAATA
* * * * * * *
105792567 TGAGA-CATCGTGTAGGACCATAGCTGGGCTAT-C-GGCTTCAATA
1 TGTGATC-CCATGTAAGACCATATCTGGGATATGCTGGCATCAATA
105792610 TGTGATCCCATGTAAGACCATATCTGGGATATG
1 TGTGATCCCATGTAAGACCATATCTGGGATATG
105792643 GTATTAGCAT
Statistics
Matches: 140, Mismatches: 29, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
43 33 0.24
44 1 0.01
46 1 0.01
47 1 0.01
48 104 0.74
ACGTcount: A:0.27, C:0.20, G:0.26, T:0.27
Consensus pattern (45 bp):
TGTGATCCCATGTAAGACCATATCTGGGATATGCTGGCATCAATA
Found at i:105792643 original size:91 final size:93
Alignment explanation
Indices: 105792423--105792653 Score: 267
Period size: 96 Copynumber: 2.5 Consensus size: 93
105792413 TAAGGTTATG
* * * *
105792423 TGTGATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCATCGATATGAGATCTGATAAAAGA
1 TGTGATCCCATGTAAGACCATATCTGGGATATGGCATTGGCATCAATATGAGATCTGAT-AAAGA
* *
105792488 CCATGCCTGGGACATGGCATTGGCATCGATA
65 CCATGCCTGGGACAT-G-ATCGGCATCAATA
*
105792519 TGTGATCCCATGTAAGACCATATCTGGGATATGGCATTGGCATCAATATGAGACATCGTG-T-AG
1 TGTGATCCCATGTAAGACCATATCTGGGATATGGCATTGGCATCAATATGAG--ATC-TGATAAA
*
105792582 GACCATAG-CTGGG-C-T-ATCGGCTTCAATA
63 GACCAT-GCCTGGGACATGATCGGCATCAATA
* *
105792610 TGTGATCCCATGTAAGACCATATCTGGGATATGGTATTAGCATC
1 TGTGATCCCATGTAAGACCATATCTGGGATATGGCATTGGCATC
105792654 TTACTATGTT
Statistics
Matches: 121, Mismatches: 10, Indels: 13
0.84 0.07 0.09
Matches are distributed among these distances:
91 52 0.43
94 1 0.01
95 1 0.01
96 60 0.50
97 1 0.01
98 4 0.03
99 2 0.02
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.28
Consensus pattern (93 bp):
TGTGATCCCATGTAAGACCATATCTGGGATATGGCATTGGCATCAATATGAGATCTGATAAAGAC
CATGCCTGGGACATGATCGGCATCAATA
Found at i:105798210 original size:2 final size:2
Alignment explanation
Indices: 105798203--105798233 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
105798193 CCACTCCAGG
105798203 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
105798234 AAGATACAAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:105801654 original size:13 final size:13
Alignment explanation
Indices: 105801636--105801660 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
105801626 AATACAGCAA
105801636 AAACATATCAAAG
1 AAACATATCAAAG
105801649 AAACATATCAAA
1 AAACATATCAAA
105801661 ACAAACTATA
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:0.64, C:0.16, G:0.04, T:0.16
Consensus pattern (13 bp):
AAACATATCAAAG
Found at i:105803862 original size:14 final size:14
Alignment explanation
Indices: 105803843--105803872 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
105803833 AGCTCTTAAT
*
105803843 CTGCTCTACTGCAA
1 CTGCTCCACTGCAA
105803857 CTGCTCCACTGCAA
1 CTGCTCCACTGCAA
105803871 CT
1 CT
105803873 TCAGCGAGAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.20, C:0.40, G:0.13, T:0.27
Consensus pattern (14 bp):
CTGCTCCACTGCAA
Found at i:105803965 original size:44 final size:44
Alignment explanation
Indices: 105803857--105804095 Score: 182
Period size: 44 Copynumber: 5.4 Consensus size: 44
105803847 TCTACTGCAA
* * * **
105803857 CTGCTCCACTGCAACTTCAGCGAGATAAGGTTTGCGTATTTTTATT
1 CTGCTCCACTGCAACTTCAGAGAGATAAGGATTGTG-ATTTCGA-T
* * *
105803903 CTGCTCAACTGCAACTTCAGAGAAATAAGGATTGTGGTTTCGAT
1 CTGCTCCACTGCAACTTCAGAGAGATAAGGATTGTGATTTCGAT
*
105803947 CTGCTCCACTGCAACTTCA-AGGAGATGA-GATCTGCT-ATCTTC-AGT
1 CTGCTCCACTGCAACTTCAGA-GAGATAAGGAT-TG-TGAT-TTCGA-T
* * * * *
105803992 CTGCTCCACTGCAACTTTAGGGAGATAA-GACTTGTTATTTCAAC
1 CTGCTCCACTGCAACTTCAGAGAGATAAGGA-TTGTGATTTCGAT
* ** * * **
105804036 CCGCTTTACTGCAACTTCAAAGAGATAAGGTTTGTGGCTTCGAT
1 CTGCTCCACTGCAACTTCAGAGAGATAAGGATTGTGATTTCGAT
105804080 CTGCTCCACTGCAACT
1 CTGCTCCACTGCAACT
105804096 GCTCCACTGT
Statistics
Matches: 152, Mismatches: 31, Indels: 22
0.74 0.15 0.11
Matches are distributed among these distances:
43 4 0.03
44 75 0.49
45 41 0.27
46 32 0.21
ACGTcount: A:0.25, C:0.23, G:0.20, T:0.31
Consensus pattern (44 bp):
CTGCTCCACTGCAACTTCAGAGAGATAAGGATTGTGATTTCGAT
Found at i:105804099 original size:14 final size:14
Alignment explanation
Indices: 105804080--105804109 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
105804070 TGGCTTCGAT
105804080 CTGCTCCACTGCAA
1 CTGCTCCACTGCAA
*
105804094 CTGCTCCACTGTAA
1 CTGCTCCACTGCAA
105804108 CT
1 CT
105804110 TCAGGGAGAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.20, C:0.40, G:0.13, T:0.27
Consensus pattern (14 bp):
CTGCTCCACTGCAA
Found at i:105804133 original size:147 final size:147
Alignment explanation
Indices: 105803947--105804218 Score: 456
Period size: 147 Copynumber: 1.9 Consensus size: 147
105803937 TGGTTTCGAT
* *
105803947 CTGCTCCACTGCAACTTCAAGGAGATGAGATCTGCTATCTTCAGTCTGCTCCACTGCAACTTTAG
1 CTGCTCCACTGCAACTTCAAGGAGATAAGATCTGCTATCTTCAGTCTGCTCCACTGCAACTTCAG
*
105804012 GGAGATAAGACTTGTTA-TTTCAACCCGCTTTACTGCAACTTCAAAGAGATAAGGTTTGTGGCTT
66 GGAGATAAGACTTGTTACTTT-AACCCGCTCTACTGCAACTTCAAAGAGATAAGGTTTGTGGCTT
105804076 CGATCTGCTCCACTGCAA
130 CGATCTGCTCCACTGCAA
* * *
105804094 CTGCTCCACTGTAACTTCAGGGAGATAAGATCTGCTATCTTTAGTCTGCTCCACTGCAACTTCAG
1 CTGCTCCACTGCAACTTCAAGGAGATAAGATCTGCTATCTTCAGTCTGCTCCACTGCAACTTCAG
* *
105804159 GGAGATAAGACTTGTTACTTTAACCCGCTCTACTGCAACTTTAGAGAGATAAGGTTTGTG
66 GGAGATAAGACTTGTTACTTTAACCCGCTCTACTGCAACTTCAAAGAGATAAGGTTTGTG
105804219 TATTTTTATC
Statistics
Matches: 116, Mismatches: 8, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
147 113 0.97
148 3 0.03
ACGTcount: A:0.25, C:0.24, G:0.20, T:0.31
Consensus pattern (147 bp):
CTGCTCCACTGCAACTTCAAGGAGATAAGATCTGCTATCTTCAGTCTGCTCCACTGCAACTTCAG
GGAGATAAGACTTGTTACTTTAACCCGCTCTACTGCAACTTCAAAGAGATAAGGTTTGTGGCTTC
GATCTGCTCCACTGCAA
Found at i:105804196 original size:44 final size:44
Alignment explanation
Indices: 105804094--105804265 Score: 159
Period size: 45 Copynumber: 3.8 Consensus size: 44
105804084 TCCACTGCAA
* * * **
105804094 CTGCTCCACTGTAACTTCAGGGAGATAAGATCTGCTATCTTTAGT
1 CTGCTCCACTGCAACTTCAGAGAGATAAGAT-TGTTATCTTTAAC
*
105804139 CTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTTA-CTTTAAC
1 CTGCTCCACTGCAACTTCAGAGAGATAAGA-TTGTTATCTTTAAC
* * * * * *
105804183 CCGCTCTACTGCAACTTTAGAGAGATAAGGTTTGTGTATTTTTATC
1 CTGCTCCACTGCAACTTCAGAGAGATAA-GATTGT-TATCTTTAAC
* *
105804229 CTGTTCTACTGCAACTTCAGAGAGATAAGGATT-TTAT
1 CTGCTCCACTGCAACTTCAGAGAGATAA-GATTGTTAT
105804266 GATGACTTAA
Statistics
Matches: 108, Mismatches: 15, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
44 36 0.33
45 37 0.34
46 35 0.32
ACGTcount: A:0.26, C:0.20, G:0.19, T:0.34
Consensus pattern (44 bp):
CTGCTCCACTGCAACTTCAGAGAGATAAGATTGTTATCTTTAAC
Found at i:105812779 original size:19 final size:19
Alignment explanation
Indices: 105812755--105812795 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
105812745 TTATGACCTT
*
105812755 TAATGCATATG-ATGTAATG
1 TAATGCAAATGCATG-AATG
105812774 TAATGCAAATGCATGAATG
1 TAATGCAAATGCATGAATG
105812793 TAA
1 TAA
105812796 AAGAGGCATC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 17 0.85
20 3 0.15
ACGTcount: A:0.41, C:0.07, G:0.20, T:0.32
Consensus pattern (19 bp):
TAATGCAAATGCATGAATG
Found at i:105816466 original size:13 final size:13
Alignment explanation
Indices: 105816448--105816472 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
105816438 AATACATCAA
105816448 AAACATATCAAAG
1 AAACATATCAAAG
105816461 AAACATATCAAA
1 AAACATATCAAA
105816473 ACAAACAACA
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:0.64, C:0.16, G:0.04, T:0.16
Consensus pattern (13 bp):
AAACATATCAAAG
Found at i:105816927 original size:2 final size:2
Alignment explanation
Indices: 105816920--105816946 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
105816910 TAAGGTTTAA
105816920 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
105816947 AAAGTAGATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:105822058 original size:19 final size:19
Alignment explanation
Indices: 105822034--105822088 Score: 101
Period size: 19 Copynumber: 2.8 Consensus size: 19
105822024 ATAACAAAGA
105822034 GTGGTTGGTTGATTTCCAT
1 GTGGTTGGTTGATTTCCAT
105822053 GTGGTTGGTTGATTTCCAT
1 GTGGTTGGTTGATTTCCAT
105822072 GTGGTTGGTTGAATTTC
1 GTGGTTGGTTG-ATTTC
105822089 GAATTAAGAT
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
19 30 0.86
20 5 0.14
ACGTcount: A:0.11, C:0.09, G:0.33, T:0.47
Consensus pattern (19 bp):
GTGGTTGGTTGATTTCCAT
Found at i:105825258 original size:14 final size:14
Alignment explanation
Indices: 105825239--105825284 Score: 74
Period size: 14 Copynumber: 3.1 Consensus size: 14
105825229 AAAACGGTTG
105825239 TAACAGTTAGTAGT
1 TAACAGTTAGTAGT
105825253 TAACAGATTGAGTAGT
1 TAACAG-TT-AGTAGT
105825269 TAACAGTTAGTAGT
1 TAACAGTTAGTAGT
105825283 TA
1 TA
105825285 GTTGATGTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
14 14 0.47
15 4 0.13
16 12 0.40
ACGTcount: A:0.37, C:0.07, G:0.22, T:0.35
Consensus pattern (14 bp):
TAACAGTTAGTAGT
Found at i:105827276 original size:21 final size:21
Alignment explanation
Indices: 105827237--105827277 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
105827227 CACTTGACAT
* *
105827237 AGGGGCACACGCTCATGTGAA
1 AGGGGCACACACCCATGTGAA
*
105827258 AGGGGCACACACCCGTGTGA
1 AGGGGCACACACCCATGTGA
105827278 CCAACTTAAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.27, C:0.27, G:0.34, T:0.12
Consensus pattern (21 bp):
AGGGGCACACACCCATGTGAA
Found at i:105828214 original size:47 final size:48
Alignment explanation
Indices: 105828163--105828409 Score: 194
Period size: 46 Copynumber: 5.3 Consensus size: 48
105828153 TAGACACAGG
*
105828163 CTTACACTGGCTCAT-ATCTC-AAGTC-GATGCCATGTCCCAAACATGGT
1 CTTACACTGGCTCATCATCTCGAAGTCTGATG-CATGTCCCAGACAT-GT
* *
105828210 CTTACACTGACT-ATCATCTCGTAG-CTGATGCATGTCCCAGACATGT
1 CTTACACTGGCTCATCATCTCGAAGTCTGATGCATGTCCCAGACATGT
* * * * **
105828256 CTTACACTGGATTA-CGTCTCG-AGGCCAATGCATGTCCCAGACATGT
1 CTTACACTGGCTCATCATCTCGAAGTCTGATGCATGTCCCAGACATGT
* * * * *
105828302 CTTGCACTAGC-CCTCGTCTC-AATTCTGATGTCATGTCCCAGACATGGT
1 CTTACACTGGCTCATCATCTCGAAGTCTGATG-CATGTCCCAGACAT-GT
* * * *
105828350 CTTACACTGGCTC-TCATAAT-G-TGGCCGATGCATGTCCCAGACATGT
1 CTTACACTGGCTCATCAT-CTCGAAGTCTGATGCATGTCCCAGACATGT
*
105828396 CTTACACTAGCTCA
1 CTTACACTGGCTCA
105828410 CACACGAATG
Statistics
Matches: 161, Mismatches: 26, Indels: 26
0.76 0.12 0.12
Matches are distributed among these distances:
45 2 0.01
46 73 0.45
47 59 0.37
48 25 0.16
49 2 0.01
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.29
Consensus pattern (48 bp):
CTTACACTGGCTCATCATCTCGAAGTCTGATGCATGTCCCAGACATGT
Found at i:105828276 original size:46 final size:46
Alignment explanation
Indices: 105828138--105828403 Score: 170
Period size: 47 Copynumber: 5.7 Consensus size: 46
105828128 AAGGTACGGT
* * * * *
105828138 GCCGATGCTATGTCCTAGACACAGGCTTACACTGG-CTCATATC-TCAA
1 GCCGATGC-ATGTCCCAGACA-TGTCTTACACTGGACTCATCTCGT-AG
* *
105828185 GTCGATGCCATGTCCCAAACATGGTCTTACACT-GACTATCATCTCGTA-
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGAC--TCATCTCGTAG
* * *
105828233 GCTGATGCATGTCCCAGACATGTCTTACACTGGATTACGTCTCG-AG
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGACT-CATCTCGTAG
* * ** * * *
105828279 GCCAATGCATGTCCCAGACATGTCTTGCACTAGCCCTCGTCTC-AAT
1 GCCGATGCATGTCCCAGACATGTCTTACACT-GGACTCATCTCGTAG
* * * *
105828325 TCTGATGTCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAT-GT-G
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGG-ACTCAT-CTCGTAG
105828373 GCCGATGCATGTCCCAGACATGTCTTACACT
1 GCCGATGCATGTCCCAGACATGTCTTACACT
105828404 AGCTCACACA
Statistics
Matches: 173, Mismatches: 30, Indels: 33
0.73 0.13 0.14
Matches are distributed among these distances:
45 2 0.01
46 66 0.38
47 72 0.42
48 24 0.14
49 8 0.05
50 1 0.01
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (46 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGGACTCATCTCGTAG
Found at i:105828387 original size:94 final size:92
Alignment explanation
Indices: 105828234--105828406 Score: 242
Period size: 94 Copynumber: 1.9 Consensus size: 92
105828224 CATCTCGTAG
* *
105828234 CTGATGCATGTCCCAGACATGTCTTACACTGGATTACGTCTCGAGGCCAATGCATGTCCCAGACA
1 CTGATGCATGTCCCAGACATGTCTTACACTGGATTACATATCGAGGCCAATGCATGTCCCAGACA
*
105828299 TGTCTTGCACTAGCCCTCGTCTCAATT
66 TGTCTTACACTAGCCCTCGTCTCAATT
* * *
105828326 CTGATGTCATGTCCCAGACATGGTCTTACACTGGCTCT-CATAAT-GTGGCCGATGCATGTCCCA
1 CTGATG-CATGTCCCAGACAT-GTCTTACACTGGAT-TACAT-ATCGAGGCCAATGCATGTCCCA
105828389 GACATGTCTTACACTAGC
62 GACATGTCTTACACTAGC
105828407 TCACACACGA
Statistics
Matches: 71, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
92 6 0.08
93 14 0.20
94 49 0.69
95 2 0.03
ACGTcount: A:0.22, C:0.29, G:0.20, T:0.28
Consensus pattern (92 bp):
CTGATGCATGTCCCAGACATGTCTTACACTGGATTACATATCGAGGCCAATGCATGTCCCAGACA
TGTCTTACACTAGCCCTCGTCTCAATT
Found at i:105833394 original size:7 final size:7
Alignment explanation
Indices: 105833382--105833412 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
105833372 CAGACAAAAT
105833382 TTTAGGG
1 TTTAGGG
105833389 TTTAGGG
1 TTTAGGG
105833396 TTTAGGG
1 TTTAGGG
105833403 TTTAGGG
1 TTTAGGG
105833410 TTT
1 TTT
105833413 TACCCAGACA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.13, C:0.00, G:0.39, T:0.48
Consensus pattern (7 bp):
TTTAGGG
Found at i:105833603 original size:26 final size:24
Alignment explanation
Indices: 105833573--105833640 Score: 70
Period size: 22 Copynumber: 2.8 Consensus size: 24
105833563 AAATGAAAAA
*
105833573 ATTTAAAAATATAATAAATTAAATCT
1 ATTTAAAAACATAA-AAA-TAAATCT
105833599 ATTTAAAAACATAAAAATAAA--T
1 ATTTAAAAACATAAAAATAAATCT
*
105833621 A-TTAAAACAAATAAAAATAA
1 ATTTAAAA-ACATAAAAATAA
105833641 TACTAAAACA
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
21 6 0.15
22 13 0.33
24 4 0.10
25 3 0.08
26 13 0.33
ACGTcount: A:0.66, C:0.04, G:0.00, T:0.29
Consensus pattern (24 bp):
ATTTAAAAACATAAAAATAAATCT
Found at i:105833634 original size:22 final size:21
Alignment explanation
Indices: 105833601--105833651 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 21
105833591 TTAAATCTAT
*
105833601 TTAAAA-ACATAAAAATAAATA
1 TTAAAACAAATAAAAAT-AATA
105833622 TTAAAACAAATAAAAATAATA
1 TTAAAACAAATAAAAATAATA
*
105833643 CTAAAACAA
1 TTAAAACAA
105833652 TTCTTAAAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
21 18 0.67
22 9 0.33
ACGTcount: A:0.71, C:0.08, G:0.00, T:0.22
Consensus pattern (21 bp):
TTAAAACAAATAAAAATAATA
Found at i:105833728 original size:15 final size:16
Alignment explanation
Indices: 105833698--105833730 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
105833688 AAATGGTTAT
105833698 ATTAAAAATTTAAAATA
1 ATTAAAAA-TTAAAATA
105833715 ATTAAAAA-TAAAATA
1 ATTAAAAATTAAAATA
105833730 A
1 A
105833731 AAAAATATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
17 8 0.50
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (16 bp):
ATTAAAAATTAAAATA
Found at i:105834675 original size:6 final size:6
Alignment explanation
Indices: 105834637--105834661 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
105834627 AAATGTATAA
105834637 TAATTT TAATTT TAATTT TAATTT T
1 TAATTT TAATTT TAATTT TAATTT T
105834662 TAATATTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (6 bp):
TAATTT
Found at i:105835303 original size:15 final size:14
Alignment explanation
Indices: 105835267--105835326 Score: 84
Period size: 14 Copynumber: 4.2 Consensus size: 14
105835257 GGTAAAATAT
*
105835267 TTTCCGGAAAATGA
1 TTTCTGGAAAATGA
*
105835281 TTTTTGGAAAATGA
1 TTTCTGGAAAATGA
*
105835295 TTTCCTGGAAAATAA
1 TTT-CTGGAAAATGA
105835310 TTTCTGGAAAATGA
1 TTTCTGGAAAATGA
105835324 TTT
1 TTT
105835327 ACTTTTCTGG
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
14 28 0.70
15 12 0.30
ACGTcount: A:0.35, C:0.08, G:0.18, T:0.38
Consensus pattern (14 bp):
TTTCTGGAAAATGA
Found at i:105835306 original size:29 final size:28
Alignment explanation
Indices: 105835267--105835326 Score: 93
Period size: 29 Copynumber: 2.1 Consensus size: 28
105835257 GGTAAAATAT
* *
105835267 TTTCCGGAAAATGATTTTTGGAAAATGA
1 TTTCCGGAAAATAATTTCTGGAAAATGA
105835295 TTTCCTGGAAAATAATTTCTGGAAAATGA
1 TTTCC-GGAAAATAATTTCTGGAAAATGA
105835324 TTT
1 TTT
105835327 ACTTTTCTGG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
28 5 0.17
29 24 0.83
ACGTcount: A:0.35, C:0.08, G:0.18, T:0.38
Consensus pattern (28 bp):
TTTCCGGAAAATAATTTCTGGAAAATGA
Found at i:105835821 original size:22 final size:22
Alignment explanation
Indices: 105835796--105835881 Score: 79
Period size: 22 Copynumber: 4.0 Consensus size: 22
105835786 ATCCAAGTGT
105835796 ATAACTAATATTACACCACATG
1 ATAACTAATATTACACCACATG
** *
105835818 ATAACTAATATTACAGTACATT
1 ATAACTAATATTACACCACATG
* **
105835840 ATAAC-AACATT-GTCCA-AGTG
1 ATAACTAATATTACACCACA-TG
105835860 CATAACTAATATTACACCACAT
1 -ATAACTAATATTACACCACAT
105835882 TATCAGTATC
Statistics
Matches: 47, Mismatches: 12, Indels: 9
0.69 0.18 0.13
Matches are distributed among these distances:
19 1 0.02
20 2 0.04
21 10 0.21
22 29 0.62
23 4 0.09
24 1 0.02
ACGTcount: A:0.44, C:0.21, G:0.06, T:0.29
Consensus pattern (22 bp):
ATAACTAATATTACACCACATG
Found at i:105836872 original size:32 final size:32
Alignment explanation
Indices: 105836826--105836886 Score: 104
Period size: 32 Copynumber: 1.9 Consensus size: 32
105836816 TGTCAATCAT
105836826 TTCAATATCCAACAAGCTTAAAACATAATAAA
1 TTCAATATCCAACAAGCTTAAAACATAATAAA
* *
105836858 TTCAATATCTAACAAGCTTGAAACATAAT
1 TTCAATATCCAACAAGCTTAAAACATAAT
105836887 CAATATCTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.49, C:0.18, G:0.05, T:0.28
Consensus pattern (32 bp):
TTCAATATCCAACAAGCTTAAAACATAATAAA
Found at i:105836893 original size:27 final size:30
Alignment explanation
Indices: 105836826--105836899 Score: 91
Period size: 32 Copynumber: 2.5 Consensus size: 30
105836816 TGTCAATCAT
*
105836826 TTCAATATCCAACAAGCTTAAAACATAATAAA
1 TTCAATATCTAACAAGCTTAAAAC--AATAAA
*
105836858 TTCAATATCTAACAAGCTTGAAAC-AT-AA
1 TTCAATATCTAACAAGCTTAAAACAATAAA
105836886 -TCAATATCTAACAA
1 TTCAATATCTAACAA
105836900 AATCAAGACA
Statistics
Matches: 40, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
27 14 0.35
28 2 0.05
29 2 0.05
32 22 0.55
ACGTcount: A:0.50, C:0.19, G:0.04, T:0.27
Consensus pattern (30 bp):
TTCAATATCTAACAAGCTTAAAACAATAAA
Found at i:105839235 original size:38 final size:35
Alignment explanation
Indices: 105839176--105839276 Score: 129
Period size: 31 Copynumber: 2.9 Consensus size: 35
105839166 TCAATCATGC
*
105839176 ACTGGGCCGTAGCCCTTTTCATATTTCATATTTCATAAT
1 ACTGGGCCGAAG-CCTTTTCATATTTCATATTT-AT--T
105839215 ACTGGGCCGAAGCCTTTTCATATTTC--A--TATT
1 ACTGGGCCGAAGCCTTTTCATATTTCATATTTATT
105839246 ACTGGGCCGAAGCCTTTTCATATTTCATATT
1 ACTGGGCCGAAGCCTTTTCATATTTCATATT
105839277 ACTGGGCCGC
Statistics
Matches: 57, Mismatches: 1, Indels: 12
0.81 0.01 0.17
Matches are distributed among these distances:
31 27 0.47
33 3 0.05
34 1 0.02
36 1 0.02
38 14 0.25
39 11 0.19
ACGTcount: A:0.23, C:0.23, G:0.15, T:0.40
Consensus pattern (35 bp):
ACTGGGCCGAAGCCTTTTCATATTTCATATTTATT
Found at i:105839237 original size:31 final size:31
Alignment explanation
Indices: 105839199--105839293 Score: 172
Period size: 31 Copynumber: 3.1 Consensus size: 31
105839189 CCTTTTCATA
*
105839199 TTTCATATTTCATAATACTGGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
105839230 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
*
105839261 TTTCATATTTCATATTACTGGGCCGCAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
105839292 TT
1 TT
105839294 ACTGTAAACG
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 62 1.00
ACGTcount: A:0.22, C:0.23, G:0.16, T:0.39
Consensus pattern (31 bp):
TTTCATATTTCATATTACTGGGCCGAAGCCT
Found at i:105839536 original size:24 final size:24
Alignment explanation
Indices: 105839485--105839603 Score: 161
Period size: 24 Copynumber: 5.0 Consensus size: 24
105839475 ACTTTATCAT
*
105839485 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
105839510 ATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTTA
*
105839534 ATAACTGGGGCATAAGCCC-TTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
105839557 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
105839581 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
105839604 TCACTTCCTC
Statistics
Matches: 86, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
23 21 0.24
24 53 0.62
25 12 0.14
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.28
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:105839564 original size:47 final size:47
Alignment explanation
Indices: 105839510--105839602 Score: 159
Period size: 47 Copynumber: 2.0 Consensus size: 47
105839500 GCCTCTTTTA
105839510 ATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAAGCCCTTTG
1 ATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAAGCCCTTTG
* **
105839557 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTT
1 ATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAAGCCCTTT
105839603 TTCACTTCCT
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 43 1.00
ACGTcount: A:0.28, C:0.23, G:0.24, T:0.26
Consensus pattern (47 bp):
ATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAAGCCCTTTG
Found at i:105839679 original size:20 final size:20
Alignment explanation
Indices: 105839654--105839713 Score: 102
Period size: 20 Copynumber: 3.0 Consensus size: 20
105839644 TATGATTACC
105839654 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
*
105839674 TCATGTGCATATCATACATG
1 TCATGTGCATATCATACATA
*
105839694 TCATGTGCATCTCATACATA
1 TCATGTGCATATCATACATA
105839714 CCATATTTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.32, C:0.22, G:0.12, T:0.35
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:105846058 original size:37 final size:34
Alignment explanation
Indices: 105846000--105846116 Score: 147
Period size: 31 Copynumber: 3.5 Consensus size: 34
105845990 TCAATCATGC
*
105846000 ACTGGGCCGTAGCCCTTTTCATATTTCATATTCATAAT
1 ACTGGGCCGAAG-CCTTTTCATATTTCATATT-AT--T
105846038 ACTGGGCCGAAGCCTTTTCATATTTC--A-TATT
1 ACTGGGCCGAAGCCTTTTCATATTTCATATTATT
105846069 ACTGGGCCGAAGCCTTTTCATATTTC--A-TATT
1 ACTGGGCCGAAGCCTTTTCATATTTCATATTATT
105846100 ACTGGGCCGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
105846117 ACTGTAAACG
Statistics
Matches: 78, Mismatches: 1, Indels: 7
0.91 0.01 0.08
Matches are distributed among these distances:
31 49 0.63
33 2 0.03
34 1 0.01
35 1 0.01
37 14 0.18
38 11 0.14
ACGTcount: A:0.22, C:0.24, G:0.17, T:0.37
Consensus pattern (34 bp):
ACTGGGCCGAAGCCTTTTCATATTTCATATTATT
Found at i:105846072 original size:31 final size:31
Alignment explanation
Indices: 105846023--105846116 Score: 172
Period size: 31 Copynumber: 3.1 Consensus size: 31
105846013 CCTTTTCATA
*
105846023 TTTCATA-TTCATAATACTGGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
105846053 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
105846084 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
105846115 TT
1 TT
105846117 ACTGTAAACG
Statistics
Matches: 62, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
30 7 0.11
31 55 0.89
ACGTcount: A:0.23, C:0.22, G:0.16, T:0.38
Consensus pattern (31 bp):
TTTCATATTTCATATTACTGGGCCGAAGCCT
Found at i:105846358 original size:24 final size:24
Alignment explanation
Indices: 105846307--105846425 Score: 170
Period size: 24 Copynumber: 5.0 Consensus size: 24
105846297 GCTTTATCAT
*
105846307 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
105846332 ATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTTA
105846356 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTA
*
105846379 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
105846403 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
105846426 TCACTTCCTC
Statistics
Matches: 87, Mismatches: 5, Indels: 5
0.90 0.05 0.05
Matches are distributed among these distances:
23 23 0.26
24 52 0.60
25 12 0.14
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:105846386 original size:47 final size:48
Alignment explanation
Indices: 105846307--105846425 Score: 170
Period size: 47 Copynumber: 2.5 Consensus size: 48
105846297 GCTTTATCAT
*
105846307 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCAAAAGCCCTTTCA
* **
105846356 ATAACTGGGGCATAAGCCCTTTT-ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCAAAAGCCCTTTCA
105846403 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
105846426 TCACTTCCTC
Statistics
Matches: 65, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
47 44 0.68
48 9 0.14
49 12 0.18
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.29
Consensus pattern (48 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCAAAAGCCCTTTCA
Found at i:105846501 original size:20 final size:20
Alignment explanation
Indices: 105846476--105846535 Score: 111
Period size: 20 Copynumber: 3.0 Consensus size: 20
105846466 TATGATTACC
105846476 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
*
105846496 TCATGTGCATATCATACATG
1 TCATGTGCATATCATACATA
105846516 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
105846536 CCATATTTAT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.33, C:0.20, G:0.12, T:0.35
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:105846506 original size:11 final size:11
Alignment explanation
Indices: 105846476--105846530 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
105846466 TATGATTACC
105846476 TCATGTGCATA
1 TCATGTGCATA
*
105846487 TCA--TACATA
1 TCATGTGCATA
105846496 TCATGTGCATA
1 TCATGTGCATA
* *
105846507 TCA--TACATG
1 TCATGTGCATA
105846516 TCATGTGCATA
1 TCATGTGCATA
105846527 TCAT
1 TCAT
105846531 ACATACCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.36
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:105846610 original size:25 final size:25
Alignment explanation
Indices: 105846578--105846625 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
105846568 ATACATAAAC
* * *
105846578 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
105846603 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
105846626 CATGTATAAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:105853523 original size:38 final size:35
Alignment explanation
Indices: 105853464--105853581 Score: 135
Period size: 31 Copynumber: 3.5 Consensus size: 35
105853454 TCAATCATGC
*
105853464 ACTGGGCCGTAGCCCTTTTCATATTTCATATTTCATAAT
1 ACTGGGCCGAAG-CCTTTTCATATTTCATATTT-AT--T
105853503 ACTGGGCCGAAGCCTTTTCATATTTC--A--TATT
1 ACTGGGCCGAAGCCTTTTCATATTTCATATTTATT
105853534 ACTGGGCCGAAGCCTTTTCATATTTC--A--TATT
1 ACTGGGCCGAAGCCTTTTCATATTTCATATTTATT
105853565 ACTGGGCCGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
105853582 ACTGTAAACG
Statistics
Matches: 78, Mismatches: 1, Indels: 8
0.90 0.01 0.09
Matches are distributed among these distances:
31 49 0.63
33 2 0.03
34 1 0.01
36 1 0.01
38 14 0.18
39 11 0.14
ACGTcount: A:0.22, C:0.24, G:0.17, T:0.37
Consensus pattern (35 bp):
ACTGGGCCGAAGCCTTTTCATATTTCATATTTATT
Found at i:105853525 original size:31 final size:31
Alignment explanation
Indices: 105853487--105853581 Score: 181
Period size: 31 Copynumber: 3.1 Consensus size: 31
105853477 CCTTTTCATA
*
105853487 TTTCATATTTCATAATACTGGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
105853518 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
105853549 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
105853580 TT
1 TT
105853582 ACTGTAAACG
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 63 1.00
ACGTcount: A:0.23, C:0.22, G:0.16, T:0.39
Consensus pattern (31 bp):
TTTCATATTTCATATTACTGGGCCGAAGCCT
Found at i:105853824 original size:24 final size:24
Alignment explanation
Indices: 105853773--105853915 Score: 209
Period size: 24 Copynumber: 6.0 Consensus size: 24
105853763 GCTTTATCAT
*
105853773 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
105853798 ATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTTA
105853822 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTA
*
105853845 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
105853869 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
105853893 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
105853916 TCACTTCCTC
Statistics
Matches: 111, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
23 23 0.21
24 76 0.68
25 12 0.11
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:105853852 original size:47 final size:48
Alignment explanation
Indices: 105853773--105853914 Score: 207
Period size: 47 Copynumber: 3.0 Consensus size: 48
105853763 GCTTTATCAT
* *
105853773 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCCTTTCA
**
105853822 ATAACTGGGGCATAAGCCCTTTT-ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
*
105853869 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTT
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTT
105853915 TTCACTTCCT
Statistics
Matches: 87, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
47 44 0.51
48 31 0.36
49 12 0.14
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.28
Consensus pattern (48 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
Found at i:105853873 original size:71 final size:72
Alignment explanation
Indices: 105853772--105853915 Score: 220
Period size: 71 Copynumber: 2.0 Consensus size: 72
105853762 TGCTTTATCA
*
105853772 TATAACTGGAGGCCTAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
1 TATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
105853837 GCCCTTT
66 GCCCTTT
* * **
105853844 TATAACTGG-GGCATAAGCC-CTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATA
1 TATAACTGGAGGCAT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATA
105853907 AGCCCTTT
65 AGCCCTTT
105853915 T
1 T
105853916 TCACTTCCTC
Statistics
Matches: 66, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
71 53 0.80
72 13 0.20
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.29
Consensus pattern (72 bp):
TATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
GCCCTTT
Found at i:105853991 original size:20 final size:20
Alignment explanation
Indices: 105853966--105854025 Score: 102
Period size: 20 Copynumber: 3.0 Consensus size: 20
105853956 TATGATTACC
105853966 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
*
105853986 TCATGTGCATATCATACATG
1 TCATGTGCATATCATACATA
*
105854006 TCATGTGCATCTCATACATA
1 TCATGTGCATATCATACATA
105854026 CCATATTTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.32, C:0.22, G:0.12, T:0.35
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:105854100 original size:25 final size:25
Alignment explanation
Indices: 105854068--105854115 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
105854058 ATACATAAAC
* * *
105854068 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
105854093 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
105854116 CATGGTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:105856213 original size:2 final size:2
Alignment explanation
Indices: 105856202--105856255 Score: 101
Period size: 2 Copynumber: 27.5 Consensus size: 2
105856192 GAACCTTTAC
105856202 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
105856243 TA TA TA TA TA TA T
1 TA TA TA TA TA TA T
105856256 GGTTTCATTT
Statistics
Matches: 51, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 50 0.98
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:105873245 original size:24 final size:24
Alignment explanation
Indices: 105873218--105873263 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
105873208 GCATAAAATG
*
105873218 GAATACATAGGAATGACTTGAATA
1 GAATACATAGGAATAACTTGAATA
*
105873242 GAATACGTAGGAATAACTTGAA
1 GAATACATAGGAATAACTTGAA
105873264 CATATTTAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.46, C:0.09, G:0.22, T:0.24
Consensus pattern (24 bp):
GAATACATAGGAATAACTTGAATA
Done.