Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006896.1 Hibiscus syriacus cultivar Beakdansim tig00017612_pilon, whole genome shotgun sequence
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: 144751
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
File 1 of 2
Found at i:372 original size:14 final size:14
Alignment explanation
Indices: 353--383 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
343 GCAAAGAAAC
353 AAAAGAAAGAAAAG
1 AAAAGAAAGAAAAG
*
367 AAAAGAAAGAAGAG
1 AAAAGAAAGAAAAG
381 AAA
1 AAA
384 CTTACCGAGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (14 bp):
AAAAGAAAGAAAAG
Found at i:1270 original size:16 final size:16
Alignment explanation
Indices: 1249--1294 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
1239 ATATATAAAA
1249 TAATAATTTATTTTTT
1 TAATAATTTATTTTTT
** *
1265 TAATAATAAATTATTT
1 TAATAATTTATTTTTT
1281 TAAT-ATTTATTTTT
1 TAATAATTTATTTTT
1295 CAATATCGAA
Statistics
Matches: 24, Mismatches: 6, Indels: 1
0.77 0.19 0.03
Matches are distributed among these distances:
15 7 0.29
16 17 0.71
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (16 bp):
TAATAATTTATTTTTT
Found at i:12571 original size:10 final size:10
Alignment explanation
Indices: 12556--12624 Score: 77
Period size: 11 Copynumber: 6.4 Consensus size: 10
12546 ATGCTTGAAG
12556 AAAAAAAGAA
1 AAAAAAAGAA
12566 AAAAAAAGAAA
1 AAAAAAAG-AA
12577 AAAAAAGAGAA
1 AAAAAA-AGAA
12588 AAAAAAAGAGA
1 AAAAAAAGA-A
12599 AAAAAAA-AA
1 AAAAAAAGAA
12608 GAGAAAAAAGAA
1 -A-AAAAAAGAA
12620 GAAAA
1 -AAAA
12625 GGGGGGGGTC
Statistics
Matches: 53, Mismatches: 0, Indels: 11
0.83 0.00 0.17
Matches are distributed among these distances:
9 1 0.02
10 13 0.25
11 33 0.62
12 6 0.11
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (10 bp):
AAAAAAAGAA
Found at i:12580 original size:13 final size:13
Alignment explanation
Indices: 12553--12616 Score: 74
Period size: 14 Copynumber: 4.7 Consensus size: 13
12543 ATTATGCTTG
12553 AAGAAAAAAAGAAA
1 AAGAAAAAAA-AAA
*
12567 AAAAAAGAAAAAAA
1 AAGAAA-AAAAAAA
12581 AAGAGAAAAAAAAA
1 AAGA-AAAAAAAAA
*
12595 GAGAAAAAAAAAA
1 AAGAAAAAAAAAA
*
12608 GAGAAAAAA
1 AAGAAAAAA
12617 GAAGAAAAGG
Statistics
Matches: 45, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
13 18 0.40
14 21 0.47
15 6 0.13
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (13 bp):
AAGAAAAAAAAAA
Found at i:12587 original size:22 final size:22
Alignment explanation
Indices: 12556--12624 Score: 95
Period size: 25 Copynumber: 3.0 Consensus size: 22
12546 ATGCTTGAAG
12556 AAAAAA-AGAAAAAAAAAGAAA
1 AAAAAAGAGAAAAAAAAAGAAA
12577 AAAAAAGAGAAAAAAAAAGAGAAAA
1 AAAAAAGAG-AAAAAAAA-AG-AAA
*
12602 AAAAAAGAGAAAAAAGAAGAAA
1 AAAAAAGAGAAAAAAAAAGAAA
12624 A
1 A
12625 GGGGGGGGTC
Statistics
Matches: 43, Mismatches: 1, Indels: 7
0.84 0.02 0.14
Matches are distributed among these distances:
21 6 0.14
22 6 0.14
23 10 0.23
24 9 0.21
25 12 0.28
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (22 bp):
AAAAAAGAGAAAAAAAAAGAAA
Found at i:12616 original size:1 final size:1
Alignment explanation
Indices: 12556--12607 Score: 50
Period size: 1 Copynumber: 52.0 Consensus size: 1
12546 ATGCTTGAAG
* * * * * *
12556 AAAAAAAGAAAAAAAAAGAAAAAAAAAGAGAAAAAAAAAGAGAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
12608 GAGAAAAAAG
Statistics
Matches: 39, Mismatches: 12, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
1 39 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (1 bp):
A
Found at i:12621 original size:12 final size:12
Alignment explanation
Indices: 12556--12621 Score: 93
Period size: 12 Copynumber: 5.7 Consensus size: 12
12546 ATGCTTGAAG
12556 AAAAAA-AG-AA
1 AAAAAAGAGAAA
12566 AAAAAA-AGAAA
1 AAAAAAGAGAAA
12577 AAAAAAGAGAAA
1 AAAAAAGAGAAA
12589 AAAAAAGAGAAAA
1 AAAAAAGAG-AAA
12602 AAAAAAGAGAAA
1 AAAAAAGAGAAA
*
12614 AAAGAAGA
1 AAAAAAGA
12622 AAAGGGGGGG
Statistics
Matches: 52, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
10 8 0.15
11 8 0.15
12 24 0.46
13 12 0.23
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (12 bp):
AAAAAAGAGAAA
Found at i:13917 original size:83 final size:83
Alignment explanation
Indices: 13769--14161 Score: 628
Period size: 83 Copynumber: 4.7 Consensus size: 83
13759 ACTGGAACAA
* * *
13769 ATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATTTGGTTTGGCAGAACC
1 ATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACC
13834 AATCATTGAAATTGAAAG
66 AATCATTGAAATTGAAAG
*
13852 ATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGCTTGGTAAAACC
1 ATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACC
13917 AATCATTG-AATTGGAAAG
66 AATCATTGAAATT-GAAAG
*
13935 ATGAATGTGCCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAAC
1 ATGAATGTGCTC-ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAAC
*
14000 CAATCATTGAATTTGAAAG
65 CAATCATTGAAATTGAAAG
*
14019 ATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTAGTTAAAA-
1 ATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTT-GGTAAAAC
* * * *
14083 CAGTTATTGAATTTGGAAG
65 CAATCATTGAAATTGAAAG
* *
14102 ATGAATTTGCTCATAGCATCTTCTGGAAGTGTGCTTTGAGTTATCTGATCTGGTTTGGTA
1 ATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTA
14162 TGAACCCCAA
Statistics
Matches: 291, Mismatches: 15, Indels: 9
0.92 0.05 0.03
Matches are distributed among these distances:
82 7 0.02
83 199 0.68
84 82 0.28
85 3 0.01
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.37
Consensus pattern (83 bp):
ATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACC
AATCATTGAAATTGAAAG
Found at i:14057 original size:167 final size:166
Alignment explanation
Indices: 13769--14161 Score: 646
Period size: 167 Copynumber: 2.4 Consensus size: 166
13759 ACTGGAACAA
* * *
13769 ATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATTTGGTTTGGCAGAACC
1 ATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACC
13834 AATCATTGAAATTGAAAGATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTG
66 AATCATTGAAATTGAAAGATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTG
13899 ATCTGGCTT-GGTAAAACCAATCATTGAA-TTGGAAAG
131 ATCTGGCTTAGGTAAAA-CAATCATTGAATTTGG-AAG
*
13935 ATGAATGTGCCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAAC
1 ATGAATGTGCTC-ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAAC
*
14000 CAATCATTGAATTTGAAAGATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCT
65 CAATCATTGAAATTGAAAGATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCT
* * * *
14065 GATCTGGTTTAGTTAAAACAGTTATTGAATTTGGAAG
130 GATCTGGCTTAGGTAAAACAATCATTGAATTTGGAAG
* *
14102 ATGAATTTGCTCATAGCATCTTCTGGAAGTGTGCTTTGAGTTATCTGATCTGGTTTGGTA
1 ATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTA
14162 TGAACCCCAA
Statistics
Matches: 212, Mismatches: 12, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
166 58 0.27
167 144 0.68
168 10 0.05
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.37
Consensus pattern (166 bp):
ATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACC
AATCATTGAAATTGAAAGATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTG
ATCTGGCTTAGGTAAAACAATCATTGAATTTGGAAG
Found at i:15197 original size:113 final size:113
Alignment explanation
Indices: 14999--15775 Score: 1239
Period size: 113 Copynumber: 6.9 Consensus size: 113
14989 ATTTAAATTC
* * **
14999 ATCACTTGATGGATCAGCTTTTCCAG-AGGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
1 ATCACTTGATGGATTATCTTTTCCAGTTCG-AGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
*
15063 TGAAGAAGTTCATAATGAGAAGAATTGGTTCAACCTTTTGCTCAAATCT
65 TGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCT
15112 ATCACTTGATGGATTATCTTTTCCAGTTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAT
1 ATCACTTGATGGATTATCTTTTCCAGTTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAT
*
15177 GAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTTCTCAAATCT
66 GAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCT
15225 ATCACTTGATGGATTATCTTTTCCAGTTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAT
1 ATCACTTGATGGATTATCTTTTCCAGTTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAT
15290 GAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCT
66 GAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCT
* * ** *
15338 ATCACTTGATGGATCAGCTTTTCCAG-AGGAAGTTTATAATGAGAAGAACTCATCTGAAGAAGGA
1 ATCACTTGATGGATTATCTTTTCCAGTTCG-AGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
*
15402 TGAAGAAGTTCATAATGAGAATAATTTGTTCAACCTTTTGCTCAAATCT
65 TGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCT
*
15451 ATCACTTGATGGATTATCTTTTCCAGTTCAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAT
1 ATCACTTGATGGATTATCTTTTCCAGTTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAT
15516 GAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCT
66 GAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCT
15564 ATCACTTGATGGATTATCTTTTCCAGTTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAT
1 ATCACTTGATGGATTATCTTTTCCAGTTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAT
*
15629 GAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCC
66 GAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCT
* * * * *
15677 ATCACTTGATGGGTCAGT-TTTCCCAG--AGAAGTTCATAATGAGAAGAACTCATC---AGGA-G
1 ATCACTTGATGGATTA-TCTTTTCCAGTTCG-AGTTCATAATGAGAAGAACTCATCTGAAGAAGG
* * ** *
15735 AAGAAGAAGTTCATAATAAGAAGAGCTTATTCAACCTTTTG
64 ATGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTG
15776 AATGACTCTA
Statistics
Matches: 627, Mismatches: 32, Indels: 15
0.93 0.05 0.02
Matches are distributed among these distances:
108 37 0.06
109 3 0.00
111 1 0.00
112 25 0.04
113 559 0.89
114 2 0.00
ACGTcount: A:0.35, C:0.15, G:0.19, T:0.31
Consensus pattern (113 bp):
ATCACTTGATGGATTATCTTTTCCAGTTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAT
GAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCT
Found at i:15619 original size:339 final size:339
Alignment explanation
Indices: 14993--15775 Score: 1389
Period size: 339 Copynumber: 2.3 Consensus size: 339
14983 GCAAATATTT
*
14993 AAATTCATCACTTGATGGATCAGCTTTTCCAGAGGAAGTTCATAATGAGAAGAACTCATCTGAAG
1 AAATCCATCACTTGATGGATCAGCTTTTCCAGAGGAAGTTCATAATGAGAAGAACTCATCTGAAG
*
15058 AAGGATGAAGAAGTTCATAATGAGAAGAATTGGTTCAACCTTTTGCTCAAATCTATCACTTGATG
66 AAGGATGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCTATCACTTGATG
*
15123 GATTATCTTTTCCAGTTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGATGAAGAAGTTCA
131 GATTATCTTTTCCAGTTCAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGATGAAGAAGTTCA
*
15188 TAATGAGAAGAATTTGTTCAACCTTTTTCTCAAATCTATCACTTGATGGATTATCTTTTCCAGTT
196 TAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCTATCACTTGATGGATTATCTTTTCCAGTT
15253 CGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGATGAAGAAGTTCATAATGAGAAGAATTTGT
261 CGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGATGAAGAAGTTCATAATGAGAAGAATTTGT
15318 TCAACCTTTTGCTC
326 TCAACCTTTTGCTC
* *
15332 AAATCTATCACTTGATGGATCAGCTTTTCCAGAGGAAGTTTATAATGAGAAGAACTCATCTGAAG
1 AAATCCATCACTTGATGGATCAGCTTTTCCAGAGGAAGTTCATAATGAGAAGAACTCATCTGAAG
*
15397 AAGGATGAAGAAGTTCATAATGAGAATAATTTGTTCAACCTTTTGCTCAAATCTATCACTTGATG
66 AAGGATGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCTATCACTTGATG
15462 GATTATCTTTTCCAGTTCAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGATGAAGAAGTTCA
131 GATTATCTTTTCCAGTTCAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGATGAAGAAGTTCA
15527 TAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCTATCACTTGATGGATTATCTTTTCCAGTT
196 TAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCTATCACTTGATGGATTATCTTTTCCAGTT
15592 CGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGATGAAGAAGTTCATAATGAGAAGAATTTGT
261 CGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGATGAAGAAGTTCATAATGAGAAGAATTTGT
15657 TCAACCTTTTGCTC
326 TCAACCTTTTGCTC
*
15671 AAATCCATCACTTGATGGGTCAG-TTTTCCCAGA-GAAGTTCATAATGAGAAGAACTCATC---A
1 AAATCCATCACTTGATGGATCAGCTTTT-CCAGAGGAAGTTCATAATGAGAAGAACTCATCTGAA
* * * ** *
15731 GGA-GAAGAAGAAGTTCATAATAAGAAGAGCTTATTCAACCTTTTG
65 GAAGGATGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTG
15776 AATGACTCTA
Statistics
Matches: 426, Mismatches: 17, Indels: 7
0.95 0.04 0.02
Matches are distributed among these distances:
334 36 0.08
335 3 0.01
338 29 0.07
339 358 0.84
ACGTcount: A:0.35, C:0.15, G:0.19, T:0.31
Consensus pattern (339 bp):
AAATCCATCACTTGATGGATCAGCTTTTCCAGAGGAAGTTCATAATGAGAAGAACTCATCTGAAG
AAGGATGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCTATCACTTGATG
GATTATCTTTTCCAGTTCAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGATGAAGAAGTTCA
TAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCTATCACTTGATGGATTATCTTTTCCAGTT
CGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGATGAAGAAGTTCATAATGAGAAGAATTTGT
TCAACCTTTTGCTC
Found at i:15757 original size:17 final size:17
Alignment explanation
Indices: 15703--15758 Score: 51
Period size: 17 Copynumber: 3.2 Consensus size: 17
15693 GTTTTCCCAG
*
15703 AGAAGTTCATAATGAGA
1 AGAAGTTCATAATAAGA
* *
15720 AGAA-CTCATCAGGAGAAGA
1 AGAAGTTCAT-A--ATAAGA
15739 AGAAGTTCATAATAAGA
1 AGAAGTTCATAATAAGA
15756 AGA
1 AGA
15759 GCTTATTCAA
Statistics
Matches: 30, Mismatches: 5, Indels: 8
0.70 0.12 0.19
Matches are distributed among these distances:
16 4 0.13
17 13 0.43
19 9 0.30
20 4 0.13
ACGTcount: A:0.50, C:0.09, G:0.23, T:0.18
Consensus pattern (17 bp):
AGAAGTTCATAATAAGA
Found at i:16020 original size:3 final size:3
Alignment explanation
Indices: 16012--16089 Score: 111
Period size: 3 Copynumber: 26.0 Consensus size: 3
16002 ATTGATTTAT
* * * * *
16012 TTA TTA TTA TTA TAA TAA TAA TAA TTA TTA TTA TTA TTA TTA TTA TAA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
16060 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
16090 AATATATTAA
Statistics
Matches: 71, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 71 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:16097 original size:12 final size:10
Alignment explanation
Indices: 16008--16099 Score: 79
Period size: 9 Copynumber: 9.7 Consensus size: 10
15998 CCATATTGAT
*
16008 TTATTTATTA
1 TTATTAATTA
*
16018 TTATTATAATA
1 TTATTA-ATTA
* *
16029 ATAATAATTA
1 TTATTAATTA
16039 TTATT-ATTA
1 TTATTAATTA
16048 TTATT-ATTA
1 TTATTAATTA
*
16057 TAATT-ATTA
1 TTATTAATTA
16066 TTATT-ATTA
1 TTATTAATTA
16075 TTATT-ATTA
1 TTATTAATTA
*
16084 TTATTAAATA
1 TTATTAATTA
16094 -TATTAA
1 TTATTAA
16100 ATATATATAT
Statistics
Matches: 70, Mismatches: 10, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
9 49 0.70
10 14 0.20
11 7 0.10
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (10 bp):
TTATTAATTA
Found at i:16513 original size:15 final size:15
Alignment explanation
Indices: 16493--16534 Score: 59
Period size: 15 Copynumber: 2.8 Consensus size: 15
16483 ACAACGCAGC
16493 AAAGAAACAG-AAAAG
1 AAAGAAA-AGAAAAAG
16508 AAAGAAAAGAAAAAG
1 AAAGAAAAGAAAAAG
*
16523 AAAGAAGAGAAA
1 AAAGAAAAGAAA
16535 CTTACCGAGG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
14 2 0.08
15 23 0.92
ACGTcount: A:0.76, C:0.02, G:0.21, T:0.00
Consensus pattern (15 bp):
AAAGAAAAGAAAAAG
Found at i:16518 original size:20 final size:20
Alignment explanation
Indices: 16493--16534 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
16483 ACAACGCAGC
*
16493 AAAGAAACAGAAAAGAA-AGA
1 AAAGAAAAAG-AAAGAAGAGA
16513 AAAGAAAAAGAAAGAAGAGA
1 AAAGAAAAAGAAAGAAGAGA
16533 AA
1 AA
16535 CTTACCGAGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 6 0.30
20 14 0.70
ACGTcount: A:0.76, C:0.02, G:0.21, T:0.00
Consensus pattern (20 bp):
AAAGAAAAAGAAAGAAGAGA
Found at i:17440 original size:16 final size:16
Alignment explanation
Indices: 17419--17464 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
17409 ATATAATAAA
17419 TAATAATTTATTTTTT
1 TAATAATTTATTTTTT
** *
17435 TAATAATAAATTATTT
1 TAATAATTTATTTTTT
17451 TAAT-ATTTATTTTT
1 TAATAATTTATTTTT
17465 CAATATCGAA
Statistics
Matches: 24, Mismatches: 6, Indels: 1
0.77 0.19 0.03
Matches are distributed among these distances:
15 7 0.29
16 17 0.71
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (16 bp):
TAATAATTTATTTTTT
Found at i:18294 original size:124 final size:124
Alignment explanation
Indices: 18041--18383 Score: 433
Period size: 124 Copynumber: 2.7 Consensus size: 124
18031 TTGAATGAAG
* * * * * *
18041 ATGGAAACTCTTTGATCTTGTTTCAAGTTTCTTATGGCTCCTAATTGGATTGATCGATGAAGTCG
1 ATGGAAACTCTTTGATCTTGTTTCAAG-TTCTTATGGCTGCTATTTAGACTGATCGTTGATGTCG
* * *
18106 GATCATAACTTTGAGCA-T--TTTAGTTGGTTTAGTTGTCTTGACCATGTTTAAATAGGT
65 GATCATAACTTTGAGCATTAGTTTAGTTAGTTTAGTTGTCTTGACCATGGTTAAATAGAT
18163 ATGGAAACTCTTTGATCTTGTTTCAAGTTCTTATGGCTGCTATTTAGACTGATCGTTGATGTCGG
1 ATGGAAACTCTTTGATCTTGTTTCAAGTTCTTATGGCTGCTATTTAGACTGATCGTTGATGTCGG
* *
18228 ATCATAACTTTGAGCATTAGTTTAGTTAGTTTAGTTTTCTTGACCATGGTTGAATAGAT
66 ATCATAACTTTGAGCATTAGTTTAGTTAGTTTAGTTGTCTTGACCATGGTTAAATAGAT
* * ** *
18287 ATGGAAACTCTTTGTTCTTGTTTCAAGTTATTCATGGGTGGCTGCTATTTAGACTGATTATTGTT
1 ATGGAAACTCTTTGATCTTGTTTCAAGTTCTT-A----TGGCTGCTATTTAGACTGATCGTTGAT
* *
18352 GTCGGATCATAA-TTTCCAGCATTAGTCTAGTT
61 GTCGGATCATAACTTT-GAGCATTAGTTTAGTT
18384 TGTTGTTCAT
Statistics
Matches: 194, Mismatches: 18, Indels: 11
0.87 0.08 0.05
Matches are distributed among these distances:
121 48 0.25
122 28 0.14
124 64 0.33
125 1 0.01
128 3 0.02
129 50 0.26
ACGTcount: A:0.23, C:0.13, G:0.21, T:0.43
Consensus pattern (124 bp):
ATGGAAACTCTTTGATCTTGTTTCAAGTTCTTATGGCTGCTATTTAGACTGATCGTTGATGTCGG
ATCATAACTTTGAGCATTAGTTTAGTTAGTTTAGTTGTCTTGACCATGGTTAAATAGAT
Found at i:22973 original size:20 final size:20
Alignment explanation
Indices: 22948--23403 Score: 218
Period size: 20 Copynumber: 22.4 Consensus size: 20
22938 GATTTTCCAG
**
22948 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGAATCCGAA
* **
22968 AATCGCAATGCGAA-CATATA
1 AATCGCAACGCGAATCCGA-A
* ** *
22988 AATCGCAACGCGATTCTTAC
1 AATCGCAACGCGAATCCGAA
* * * * *
23008 TATCGCAATGAGTATTCGTAAA
1 AATCGCAACGCGAATCCG-A-A
* * *
23030 AATCACAACGCGTATCCGTA
1 AATCGCAACGCGAATCCGAA
*
23050 AATCGCAACGAC-AATACGTAA
1 AATCGCAACG-CGAATCCG-AA
* *
23071 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGAATCCGAA
* * *
23091 AATCGCAACGAGAATACGTA
1 AATCGCAACGCGAATCCGAA
* * * *
23111 AATCGCAATGCGATTCTGAC
1 AATCGCAACGCGAATCCGAA
* * *
23131 TATCGCAACGAGTATCCGTAA
1 AATCGCAACGCGAATCCG-AA
* *
23152 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGAATCCGAA
* **
23172 AATCACAACGAC-AATATGTAA
1 AATCGCAACG-CGAATCCG-AA
* * *
23193 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGAATCCGAA
* *
23213 AATCGCAACGAGAATACGTAA
1 AATCGCAACGCGAATCCG-AA
* *
23234 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGAATCCGAA
* *
23254 AATCGCAACGAGAATACGTAA
1 AATCGCAACGCGAATCCG-AA
* * *
23275 AATCGCAACGCGATTCTGAT
1 AATCGCAACGCGAATCCGAA
* * **
23295 TATCGCAAC-CAGAATACGTT
1 AATCGCAACGC-GAATCCGAA
* * *
23315 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGAATCCGAA
** *
23335 AATCGCAACGATAATCCGTA
1 AATCGCAACGCGAATCCGAA
** *
23355 AATCGCAACGATAATCCGTA
1 AATCGCAACGCGAATCCGAA
* * *
23375 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGAATCCGAA
23395 AATCGCAAC
1 AATCGCAAC
23404 ACTTAAATTT
Statistics
Matches: 328, Mismatches: 93, Indels: 30
0.73 0.21 0.07
Matches are distributed among these distances:
19 2 0.01
20 232 0.71
21 81 0.25
22 13 0.04
ACGTcount: A:0.38, C:0.24, G:0.18, T:0.20
Consensus pattern (20 bp):
AATCGCAACGCGAATCCGAA
Found at i:23083 original size:41 final size:41
Alignment explanation
Indices: 22987--23403 Score: 442
Period size: 41 Copynumber: 10.2 Consensus size: 41
22977 GCGAACATAT
* * * * * *
22987 AAATCGCAACGCG-ATTCTTACTATCGCAATGAGTATTCGTAA
1 AAATCGCAACGCGTATCCGTA-AATCGCAACGAGAATACGT-A
* *
23029 AAATCACAACGCGTATCCGTAAATCGCAACGACAATACGTA
1 AAATCGCAACGCGTATCCGTAAATCGCAACGAGAATACGTA
23070 AAATCGCAACGCGTATCCGTAAATCGCAACGAGAATACGT-
1 AAATCGCAACGCGTATCCGTAAATCGCAACGAGAATACGTA
* * * * *
23110 AAATCGCAATGCG-ATTC-TGACTATCGCAACGAGTATCCGTA
1 AAATCGCAACGCGTATCCGT-A-AATCGCAACGAGAATACGTA
* * *
23151 AAATCGCAACGCGTATCCGTAAATCACAACGACAATATGTA
1 AAATCGCAACGCGTATCCGTAAATCGCAACGAGAATACGTA
*
23192 AAATCGCAATGCGTATCCGTAAATCGCAACGAGAATACGTA
1 AAATCGCAACGCGTATCCGTAAATCGCAACGAGAATACGTA
23233 AAATCGCAACGCGTATCCGTAAATCGCAACGAGAATACGTA
1 AAATCGCAACGCGTATCCGTAAATCGCAACGAGAATACGTA
* * *
23274 AAATCGCAACGCG-ATTC-TGATTATCGCAACCAGAATACGT-
1 AAATCGCAACGCGTATCCGT-A-AATCGCAACGAGAATACGTA
* * * * * *
23314 TAATCGCAACGAGAATCTGTAAATCGCAACGATAATCCGT-
1 AAATCGCAACGCGTATCCGTAAATCGCAACGAGAATACGTA
*
23354 AAATCGCAACG-ATAATCCGTAAATCGCAACGAGAAT-CTGT-
1 AAATCGCAACGCGT-ATCCGTAAATCGCAACGAGAATAC-GTA
23394 AAATCGCAAC
1 AAATCGCAAC
23404 ACTTAAATTT
Statistics
Matches: 319, Mismatches: 44, Indels: 26
0.82 0.11 0.07
Matches are distributed among these distances:
38 1 0.00
39 6 0.02
40 100 0.31
41 175 0.55
42 31 0.10
43 6 0.02
ACGTcount: A:0.38, C:0.24, G:0.18, T:0.21
Consensus pattern (41 bp):
AAATCGCAACGCGTATCCGTAAATCGCAACGAGAATACGTA
Found at i:23208 original size:163 final size:162
Alignment explanation
Indices: 23028--23403 Score: 528
Period size: 163 Copynumber: 2.3 Consensus size: 162
23018 AGTATTCGTA
* *
23028 AAAATCACAACGCGTATCCGTAAATCGCAACGACAATACGTAAAATCGCAACGCGTATCCGTAAA
1 AAAATCGCAA-GCGTATCCGTAAATCGCAACGAGAATACGTAAAATCGCAACGCGTATCCGTAAA
* * * *
23093 TCGCAACGAGAATACGT-AAATCGCAATGCGATTCTGACTATCGCAACGAGTATCCGTAAAATCG
65 TCGCAACGAGAATACGTAAAATCGCAACGCGATTCTGACTATCGCAACCAGAATACGT-AAATCG
* * *
23157 CAACGCGTATCCGTAAATCACAACGACAATATGT
129 CAACGAGAATCCGTAAATCACAACGACAATACGT
23191 AAAATCGCAATGCGTATCCGTAAATCGCAACGAGAATACGTAAAATCGCAACGCGTATCCGTAAA
1 AAAATCGCAA-GCGTATCCGTAAATCGCAACGAGAATACGTAAAATCGCAACGCGTATCCGTAAA
* *
23256 TCGCAACGAGAATACGTAAAATCGCAACGCGATTCTGATTATCGCAACCAGAATACGTTAATCGC
65 TCGCAACGAGAATACGTAAAATCGCAACGCGATTCTGACTATCGCAACCAGAATACGTAAATCGC
* * * *
23321 AACGAGAATCTGTAAATCGCAACGATAATCCGT
130 AACGAGAATCCGTAAATCACAACGACAATACGT
23354 -AAATCGCAA-CGATAATCCGTAAATCGCAACGAGAAT-CTGT-AAATCGCAAC
1 AAAATCGCAAGCG-T-ATCCGTAAATCGCAACGAGAATAC-GTAAAATCGCAAC
23404 ACTTAAATTT
Statistics
Matches: 193, Mismatches: 16, Indels: 10
0.88 0.07 0.05
Matches are distributed among these distances:
160 2 0.01
161 12 0.06
162 33 0.17
163 111 0.58
164 35 0.18
ACGTcount: A:0.39, C:0.24, G:0.18, T:0.20
Consensus pattern (162 bp):
AAAATCGCAAGCGTATCCGTAAATCGCAACGAGAATACGTAAAATCGCAACGCGTATCCGTAAAT
CGCAACGAGAATACGTAAAATCGCAACGCGATTCTGACTATCGCAACCAGAATACGTAAATCGCA
ACGAGAATCCGTAAATCACAACGACAATACGT
Found at i:26634 original size:19 final size:19
Alignment explanation
Indices: 26599--26740 Score: 134
Period size: 19 Copynumber: 8.2 Consensus size: 19
26589 TCATTTGACT
*
26599 ATCGCAACGCGGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
26619 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
26638 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
26652 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
26671 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
26685 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
26704 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
26718 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
26737 ATCG
1 ATCG
26741 TAACGAGAGA
Statistics
Matches: 100, Mismatches: 7, Indels: 31
0.72 0.05 0.22
Matches are distributed among these distances:
14 30 0.30
15 3 0.03
16 6 0.06
17 6 0.06
18 3 0.03
19 43 0.43
20 9 0.09
ACGTcount: A:0.45, C:0.18, G:0.24, T:0.13
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:26656 original size:14 final size:14
Alignment explanation
Indices: 26637--26756 Score: 69
Period size: 14 Copynumber: 7.5 Consensus size: 14
26627 GCGAAATGAA
26637 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
26651 AATCGCAATGCGAAATGAA
1 AATCGCAA--CG--A-GAG
26670 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
26684 AATCGCAATGCGAAATGAA
1 AATCGCAA--CG--A-GAG
26703 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
26717 AATCGCAATGCGAAATGAA
1 AATCGCAA--CG--A-GAG
*
26736 AATCGTAACGAGAG
1 AATCGCAACGAGAG
26750 AATCGCA
1 AATCGCA
26757 CTCGTTGCGA
Statistics
Matches: 83, Mismatches: 8, Indels: 30
0.69 0.07 0.25
Matches are distributed among these distances:
14 36 0.43
15 3 0.04
16 6 0.07
17 6 0.07
18 3 0.04
19 29 0.35
ACGTcount: A:0.45, C:0.18, G:0.24, T:0.12
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:26660 original size:33 final size:33
Alignment explanation
Indices: 26618--26756 Score: 269
Period size: 33 Copynumber: 4.2 Consensus size: 33
26608 CGGAAATGAA
26618 AATCGCAATGCGAAATGAAAATCGCAACGAGAG
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAG
26651 AATCGCAATGCGAAATGAAAATCGCAACGAGAG
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAG
26684 AATCGCAATGCGAAATGAAAATCGCAACGAGAG
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAG
*
26717 AATCGCAATGCGAAATGAAAATCGTAACGAGAG
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAG
26750 AATCGCA
1 AATCGCA
26757 CTCGTTGCGA
Statistics
Matches: 105, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
33 105 1.00
ACGTcount: A:0.45, C:0.18, G:0.24, T:0.13
Consensus pattern (33 bp):
AATCGCAATGCGAAATGAAAATCGCAACGAGAG
Found at i:26989 original size:14 final size:14
Alignment explanation
Indices: 26966--26998 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
26956 TATACTATTG
26966 AATCAACTTTTACA
1 AATCAACTTTTACA
*
26980 AATCATCTTTTAC-
1 AATCAACTTTTACA
26993 AATCAA
1 AATCAA
26999 TTAAACAATC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
13 5 0.29
14 12 0.71
ACGTcount: A:0.42, C:0.21, G:0.00, T:0.36
Consensus pattern (14 bp):
AATCAACTTTTACA
Found at i:27023 original size:83 final size:82
Alignment explanation
Indices: 26896--27057 Score: 272
Period size: 83 Copynumber: 2.0 Consensus size: 82
26886 CAATTAAACT
26896 AATCAACTTTTACAAATCAATTAAACAATCAAAAAATAAGCAATAATTCTTATTTCCTCATATAC
1 AATCAACTTTTACAAATCAATTAAACAATCAAAAAATAAGCAATAATTC-TATTTCCTCATATAC
26961 TATTGAATCAACTTTTACA
65 TATTGAAT-AACTTTTACA
* * *
26980 AATCATCTTTTAC-AATCAATTAAACAATCAAAAAATATGCAATAATTCTATTTCCTCATCTACT
1 AATCAACTTTTACAAATCAATTAAACAATCAAAAAATAAGCAATAATTCTATTTCCTCATATACT
27044 ATTGAATAACTTTT
66 ATTGAATAACTTTT
27058 GCAGTCATAC
Statistics
Matches: 75, Mismatches: 3, Indels: 3
0.93 0.04 0.04
Matches are distributed among these distances:
81 7 0.09
82 22 0.29
83 34 0.45
84 12 0.16
ACGTcount: A:0.43, C:0.18, G:0.02, T:0.36
Consensus pattern (82 bp):
AATCAACTTTTACAAATCAATTAAACAATCAAAAAATAAGCAATAATTCTATTTCCTCATATACT
ATTGAATAACTTTTACA
Found at i:28432 original size:42 final size:41
Alignment explanation
Indices: 28347--28468 Score: 111
Period size: 42 Copynumber: 2.9 Consensus size: 41
28337 GTGAATCGGG
* * * *
28347 CTCTTGAATGGTGGGA-GGGACCTCTTCAATGATGACAGTGGC
1 CTCTTGAACGGTGGGAGGGGA-CTC-TCGAGGATGACAGAGGC
*
28389 CTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGAGGC
1 CTCTTGAACGGTGGGAGGGGACTCTCGAGG-ATGACAGAGGC
* * * * *
28431 CTCTTCAACGATAGGAGTGGACTCTTGAGGGATGACAG
1 CTCTTGAACGGTGGGAGGGGACTCTCGA-GGATGACAG
28469 GCAAGTCGGG
Statistics
Matches: 66, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
41 4 0.06
42 56 0.85
43 6 0.09
ACGTcount: A:0.24, C:0.18, G:0.35, T:0.23
Consensus pattern (41 bp):
CTCTTGAACGGTGGGAGGGGACTCTCGAGGATGACAGAGGC
Found at i:28928 original size:33 final size:33
Alignment explanation
Indices: 28886--28993 Score: 144
Period size: 33 Copynumber: 3.3 Consensus size: 33
28876 AAAAATGACT
* *
28886 ATCGCAACGAGAGAATCGCAACGAGAAATGAAA
1 ATCGCAACGACAGAATCGCAACGCGAAATGAAA
* *
28919 ATCGTAACGATAGAATCGCAACGCGAAATGAAA
1 ATCGCAACGACAGAATCGCAACGCGAAATGAAA
* **
28952 ATCGCAACGACAAAATCGCAACGCGAAACCAAA
1 ATCGCAACGACAGAATCGCAACGCGAAATGAAA
*
28985 ATGGCAACG
1 ATCGCAACG
28994 CGATTATAGT
Statistics
Matches: 66, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 66 1.00
ACGTcount: A:0.46, C:0.22, G:0.21, T:0.10
Consensus pattern (33 bp):
ATCGCAACGACAGAATCGCAACGCGAAATGAAA
Found at i:28956 original size:19 final size:19
Alignment explanation
Indices: 28932--28996 Score: 68
Period size: 19 Copynumber: 3.7 Consensus size: 19
28922 GTAACGATAG
*
28932 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATCAA
28951 AATCGCAA--CG--A-CAA
1 AATCGCAACGCGAAATCAA
*
28965 AATCGCAACGCGAAACCAA
1 AATCGCAACGCGAAATCAA
*
28984 AATGGCAACGCGA
1 AATCGCAACGCGA
28997 TTATAGTTTC
Statistics
Matches: 39, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
14 10 0.26
15 1 0.03
16 2 0.05
17 2 0.05
18 1 0.03
19 23 0.59
ACGTcount: A:0.46, C:0.26, G:0.20, T:0.08
Consensus pattern (19 bp):
AATCGCAACGCGAAATCAA
Found at i:29045 original size:33 final size:33
Alignment explanation
Indices: 29003--29112 Score: 175
Period size: 33 Copynumber: 3.3 Consensus size: 33
28993 GCGATTATAG
* * *
29003 TTTCACGTTGCGATTTTGTCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTCTATCGTTGCGATTTTCA
29036 TTTCGCGTTGCGATTCTATCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTCTATCGTTGCGATTTTCA
* *
29069 TTTCTCGTTGCGATTCTCTCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTCTATCGTTGCGATTTTCA
29102 TTTCGCGTTGC
1 TTTCGCGTTGC
29113 AATAGTCATT
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 71 1.00
ACGTcount: A:0.10, C:0.22, G:0.21, T:0.47
Consensus pattern (33 bp):
TTTCGCGTTGCGATTCTATCGTTGCGATTTTCA
Found at i:29046 original size:19 final size:19
Alignment explanation
Indices: 29022--29155 Score: 90
Period size: 19 Copynumber: 7.4 Consensus size: 19
29012 GCGATTTTGT
29022 CGTTGCGATTTTCATTTCG
1 CGTTGCGATTTTCATTTCG
*
29041 CGTTGCGA--TTC-TAT--
1 CGTTGCGATTTTCATTTCG
*
29055 CGTTGCGATTTTCATTTCT
1 CGTTGCGATTTTCATTTCG
*
29074 CGTTGCGA--TTC---TCT
1 CGTTGCGATTTTCATTTCG
29088 CGTTGCGATTTTCATTTCG
1 CGTTGCGATTTTCATTTCG
* ** *
29107 CGTTGCAATAGTCATTTTTCA
1 CGTTGCGATTTTCA--TTTCG
*
29128 CGTTGCGATTTTAAGTTTCG
1 CGTTGCGATTTTCA-TTTCG
*
29148 TGTTGCGA
1 CGTTGCGA
29156 AAGTAAACTA
Statistics
Matches: 89, Mismatches: 14, Indels: 23
0.71 0.11 0.18
Matches are distributed among these distances:
14 19 0.21
16 8 0.09
17 8 0.09
19 29 0.33
20 11 0.12
21 14 0.16
ACGTcount: A:0.13, C:0.20, G:0.21, T:0.46
Consensus pattern (19 bp):
CGTTGCGATTTTCATTTCG
Found at i:29060 original size:14 final size:14
Alignment explanation
Indices: 29041--29097 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
29031 TTTCATTTCG
*
29041 CGTTGCGATTCTAT
1 CGTTGCGATTCTCT
29055 CGTTGCGATTTTCATTTCT
1 CGTTGCGA--TTC---TCT
29074 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
29088 CGTTGCGATT
1 CGTTGCGATT
29098 TTCATTTCGC
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 21 0.57
16 3 0.08
17 3 0.08
19 10 0.27
ACGTcount: A:0.11, C:0.23, G:0.21, T:0.46
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:29441 original size:94 final size:92
Alignment explanation
Indices: 29274--29457 Score: 296
Period size: 94 Copynumber: 2.0 Consensus size: 92
29264 AGTTTAGTTT
* *
29274 AACCAAAAGACAAAACAAAGACAAATAATATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAA
1 AACCAAAAGACAAAACAAAGACAAATAATACTTCACAGTGTTAAAGAATAAACAGTTTAGCAGAA
29339 TTGACAGCAACCGAATAAATTTACTTC
66 TTGACAGCAACCGAATAAATTTACTTC
* *
29366 AACCAAAAGACAAAACAAAAGACAAATACTAACTTCACAGTTTTAAAGAATAAACAGTTTAGCAG
1 AACCAAAAGACAAAAC-AAAGACAAATAAT-ACTTCACAGTGTTAAAGAATAAACAGTTTAGCAG
* *
29431 TATTGGCAGCAACCGAATAAATTTACT
64 AATTGACAGCAACCGAATAAATTTACT
29458 AAGCAATCTA
Statistics
Matches: 84, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
92 16 0.19
93 12 0.14
94 56 0.67
ACGTcount: A:0.49, C:0.17, G:0.12, T:0.22
Consensus pattern (92 bp):
AACCAAAAGACAAAACAAAGACAAATAATACTTCACAGTGTTAAAGAATAAACAGTTTAGCAGAA
TTGACAGCAACCGAATAAATTTACTTC
Found at i:31137 original size:33 final size:33
Alignment explanation
Indices: 31100--31183 Score: 132
Period size: 33 Copynumber: 2.5 Consensus size: 33
31090 TTTTTTGGTT
* *
31100 GAAATGAAAATCGCAACGAGAGAATCGAAATGC
1 GAAATGAAAATCGCAACGAGAGAATAGAAACGC
* *
31133 GAAATGAAAATCGTAACGAGAGAATAGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATAGAAACGC
31166 GAAATGAAAATCGCAACG
1 GAAATGAAAATCGCAACG
31184 CGAAATGAAA
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 46 1.00
ACGTcount: A:0.49, C:0.15, G:0.24, T:0.12
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATAGAAACGC
Found at i:31601 original size:20 final size:20
Alignment explanation
Indices: 31576--31726 Score: 155
Period size: 20 Copynumber: 7.4 Consensus size: 20
31566 CTTTAAAAAT
*
31576 CGCGTTGTGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
31596 CGCGTTGCGATTTTACGGATA
1 CGCGTTGCGA-TTTACGGATA
* *
31617 CTCGTTGCGA--TA-GTCATAA
1 CGCGTTGCGATTTACG-GAT-A
* *
31636 TCGCGTTGCGATTTACGTATT
1 -CGCGTTGCGATTTACGGATA
*
31657 CTCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
31677 CGCATTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
31697 CGCGTTGCGATTTTTACGGATA
1 CGCGTTGCGA--TTTACGGATA
*
31719 CTCGTTGC
1 CGCGTTGC
31727 AATAGTAAGA
Statistics
Matches: 109, Mismatches: 13, Indels: 16
0.79 0.09 0.12
Matches are distributed among these distances:
17 1 0.01
18 4 0.04
19 1 0.01
20 62 0.57
21 19 0.17
22 21 0.19
23 1 0.01
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.35
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:31668 original size:61 final size:60
Alignment explanation
Indices: 31573--31687 Score: 167
Period size: 61 Copynumber: 1.9 Consensus size: 60
31563 GCGCTTTAAA
* * *
31573 AATCGCGTTGTGATTTACGGATACGCGTTGCGATTTTACGGATACTCGTTGCGATAGTCAT
1 AATCGCGTTGCGATTTACGGATACGCGTTGCGA-TTTACGGATACGCATTGCGATAGTCAT
* * *
31634 AATCGCGTTGCGATTTACGTATTCTCGTTGCGATTTACGGATACGCATTGCGAT
1 AATCGCGTTGCGATTTACGGATACGCGTTGCGATTTACGGATACGCATTGCGAT
31688 TTACGGATAC
Statistics
Matches: 48, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
60 19 0.40
61 29 0.60
ACGTcount: A:0.21, C:0.19, G:0.25, T:0.35
Consensus pattern (60 bp):
AATCGCGTTGCGATTTACGGATACGCGTTGCGATTTACGGATACGCATTGCGATAGTCAT
Found at i:31761 original size:20 final size:20
Alignment explanation
Indices: 31738--31790 Score: 81
Period size: 20 Copynumber: 2.6 Consensus size: 20
31728 ATAGTAAGAA
*
31738 TCGCGTTGCGATTTAT-ATGT
1 TCGCGTTGCGATTT-TCATAT
31758 TCGCGTTGCGATTTTCATAT
1 TCGCGTTGCGATTTTCATAT
31778 TCGCGTTGCGATT
1 TCGCGTTGCGATT
31791 CTGGAAAATC
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 1 0.03
20 30 0.97
ACGTcount: A:0.13, C:0.19, G:0.25, T:0.43
Consensus pattern (20 bp):
TCGCGTTGCGATTTTCATAT
Found at i:31787 original size:102 final size:101
Alignment explanation
Indices: 31575--31790 Score: 306
Period size: 102 Copynumber: 2.1 Consensus size: 101
31565 GCTTTAAAAA
* * * *
31575 TCGCGTTGTGATTTACGGATACGCGTTGCGATTTTACGGATACTCGTTGCGATAGTCATAATCGC
1 TCGCGTTGCGATTTACGGATACGCGTTGCGATTTTACGGATACTCGTTGCAATAGTAAGAATCGC
* * *
31640 GTTGCGATTTACGTATTCTCGTTGCGATTTACGGAT
66 GTTGCGATTTACATATTCGCGTTGCGATTTACAGAT
* *
31676 ACGCATTGCGATTTACGGATACGCGTTGCGATTTTTACGGATACTCGTTGCAATAGTAAGAATCG
1 TCGCGTTGCGATTTACGGATACGCGTTGCGA-TTTTACGGATACTCGTTGCAATAGTAAGAATCG
* * * *
31741 CGTTGCGATTTATATGTTCGCGTTGCGATTTTCATAT
65 CGTTGCGATTTACATATTCGCGTTGCGATTTACAGAT
31778 TCGCGTTGCGATT
1 TCGCGTTGCGATT
31791 CTGGAAAATC
Statistics
Matches: 99, Mismatches: 15, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
101 28 0.28
102 71 0.72
ACGTcount: A:0.20, C:0.19, G:0.25, T:0.37
Consensus pattern (101 bp):
TCGCGTTGCGATTTACGGATACGCGTTGCGATTTTACGGATACTCGTTGCAATAGTAAGAATCGC
GTTGCGATTTACATATTCGCGTTGCGATTTACAGAT
Found at i:32809 original size:37 final size:37
Alignment explanation
Indices: 32697--32815 Score: 150
Period size: 37 Copynumber: 3.1 Consensus size: 37
32687 CCTTATTGAA
* *
32697 TTTACTGAACTTTAATCTCTTTCGATCGAGTCTTCTC
1 TTTATTGAACTTTATTCTCTTTCGATCGAGTCTTCTC
*
32734 TTTATTGAA-TTTAATAGTAACCTCTTTCGATCGGGTCTTCTC
1 TTTATTGAACTTT-AT--T---CTCTTTCGATCGAGTCTTCTC
32776 TTTATTGAACTTTATTCTCTTTCGATCGAGTCTTCTC
1 TTTATTGAACTTTATTCTCTTTCGATCGAGTCTTCTC
32813 TTT
1 TTT
32816 TATTATTTAC
Statistics
Matches: 71, Mismatches: 4, Indels: 14
0.80 0.04 0.16
Matches are distributed among these distances:
36 3 0.04
37 32 0.45
39 1 0.01
40 1 0.01
42 31 0.44
43 3 0.04
ACGTcount: A:0.18, C:0.21, G:0.12, T:0.49
Consensus pattern (37 bp):
TTTATTGAACTTTATTCTCTTTCGATCGAGTCTTCTC
Found at i:39711 original size:13 final size:13
Alignment explanation
Indices: 39678--39712 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
39668 GTCATAACCC
39678 GACCCGACCTGTT
1 GACCCGACCTGTT
* *
39691 TACACGACCTGTT
1 GACCCGACCTGTT
39704 GACCCGACC
1 GACCCGACC
39713 CGACCCGTTG
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.20, C:0.40, G:0.20, T:0.20
Consensus pattern (13 bp):
GACCCGACCTGTT
Found at i:39716 original size:18 final size:18
Alignment explanation
Indices: 39695--39731 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
39685 CCTGTTTACA
*
39695 CGACCTGTTGACCCGACC
1 CGACCCGTTGACCCGACC
39713 CGACCCGTTGACCCGACC
1 CGACCCGTTGACCCGACC
39731 C
1 C
39732 TTTGACCGGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.16, C:0.49, G:0.22, T:0.14
Consensus pattern (18 bp):
CGACCCGTTGACCCGACC
Found at i:39725 original size:13 final size:13
Alignment explanation
Indices: 39709--39738 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
39699 CTGTTGACCC
39709 GACCCGACCCGTT
1 GACCCGACCCGTT
*
39722 GACCCGACCCTTT
1 GACCCGACCCGTT
39735 GACC
1 GACC
39739 GGCGTTGACC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.17, C:0.47, G:0.20, T:0.17
Consensus pattern (13 bp):
GACCCGACCCGTT
Found at i:39730 original size:31 final size:31
Alignment explanation
Indices: 39674--39738 Score: 87
Period size: 31 Copynumber: 2.1 Consensus size: 31
39664 ACCGGTCATA
* *
39674 ACCCGACCCGACCTGTTTACACGA-CCTGTTG
1 ACCCGACCCGACCCGTTGACACGACCCT-TTG
*
39705 ACCCGACCCGACCCGTTGACCCGACCCTTTG
1 ACCCGACCCGACCCGTTGACACGACCCTTTG
39736 ACC
1 ACC
39739 GGCGTTGACC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
31 27 0.90
32 3 0.10
ACGTcount: A:0.18, C:0.45, G:0.18, T:0.18
Consensus pattern (31 bp):
ACCCGACCCGACCCGTTGACACGACCCTTTG
Found at i:42244 original size:48 final size:48
Alignment explanation
Indices: 42188--42292 Score: 124
Period size: 48 Copynumber: 2.2 Consensus size: 48
42178 AAATATTTTA
*
42188 TCTGATTTCCGA-CTTGAATTCTGTTATGATA-CATTACCTGAATTCTGT
1 TCTGATTTCCGATC-TGAATTCTGTTATGATATC-TGACCTGAATTCTGT
* * * *
42236 TCTGATTTCTGATCTGGATTCTGTTCTGATATCTGATCTGAATTCTGT
1 TCTGATTTCCGATCTGAATTCTGTTATGATATCTGACCTGAATTCTGT
*
42284 TTTGATTTC
1 TCTGATTTC
42293 TGATATCTCC
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
48 47 0.96
49 2 0.04
ACGTcount: A:0.19, C:0.17, G:0.16, T:0.48
Consensus pattern (48 bp):
TCTGATTTCCGATCTGAATTCTGTTATGATATCTGACCTGAATTCTGT
Found at i:42245 original size:12 final size:12
Alignment explanation
Indices: 42225--42294 Score: 70
Period size: 12 Copynumber: 5.8 Consensus size: 12
42215 GATACATTAC
*
42225 CTGAATTCTGTT
1 CTGATTTCTGTT
*
42237 CTGATTTCTGAT
1 CTGATTTCTGTT
42249 CTGGA-TTCTGTT
1 CT-GATTTCTGTT
* *
42261 CTGATATCTGAT
1 CTGATTTCTGTT
*
42273 CTGAATTCTGTT
1 CTGATTTCTGTT
*
42285 TTGATTTCTG
1 CTGATTTCTG
42295 ATATCTCCGT
Statistics
Matches: 46, Mismatches: 10, Indels: 4
0.77 0.17 0.07
Matches are distributed among these distances:
11 2 0.04
12 42 0.91
13 2 0.04
ACGTcount: A:0.16, C:0.16, G:0.19, T:0.50
Consensus pattern (12 bp):
CTGATTTCTGTT
Found at i:42256 original size:24 final size:24
Alignment explanation
Indices: 42225--42296 Score: 117
Period size: 24 Copynumber: 3.0 Consensus size: 24
42215 GATACATTAC
42225 CTGAATTCTGTTCTGATTTCTGAT
1 CTGAATTCTGTTCTGATTTCTGAT
* *
42249 CTGGATTCTGTTCTGATATCTGAT
1 CTGAATTCTGTTCTGATTTCTGAT
*
42273 CTGAATTCTGTTTTGATTTCTGAT
1 CTGAATTCTGTTCTGATTTCTGAT
42297 ATCTCCGTTT
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 43 1.00
ACGTcount: A:0.17, C:0.15, G:0.18, T:0.50
Consensus pattern (24 bp):
CTGAATTCTGTTCTGATTTCTGAT
Found at i:45729 original size:24 final size:24
Alignment explanation
Indices: 45683--45729 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
45673 TTTTGGTTCG
*
45683 AACAATGCAGAAAAATTTAAACAT
1 AACAATGCAGAAAAATTCAAACAT
* *
45707 AACAATGCATAAAAATTCGAACA
1 AACAATGCAGAAAAATTCAAACA
45730 GTATAGATTC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.57, C:0.15, G:0.09, T:0.19
Consensus pattern (24 bp):
AACAATGCAGAAAAATTCAAACAT
Found at i:46695 original size:13 final size:13
Alignment explanation
Indices: 46648--46700 Score: 54
Period size: 13 Copynumber: 3.9 Consensus size: 13
46638 TTTTTCTTTT
46648 TTTAGGAATTATTA
1 TTTA-GAATTATTA
* *
46662 TTTAAAACTATCT-
1 TTTAGAATTAT-TA
46675 TTTAAGAATTATTA
1 TTT-AGAATTATTA
46689 TTTAGAATTATT
1 TTTAGAATTATT
46701 TCTTATTTAT
Statistics
Matches: 32, Mismatches: 4, Indels: 7
0.74 0.09 0.16
Matches are distributed among these distances:
13 18 0.56
14 14 0.44
ACGTcount: A:0.38, C:0.04, G:0.08, T:0.51
Consensus pattern (13 bp):
TTTAGAATTATTA
Found at i:48608 original size:24 final size:24
Alignment explanation
Indices: 48581--48628 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
48571 AAAAATGCAT
48581 GGTTAGGCTGTTAAGTAAATCTGA
1 GGTTAGGCTGTTAAGTAAATCTGA
48605 GGTTAGGCTGTTAAGTAAATCTGA
1 GGTTAGGCTGTTAAGTAAATCTGA
48629 CCAATCAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.29, C:0.08, G:0.29, T:0.33
Consensus pattern (24 bp):
GGTTAGGCTGTTAAGTAAATCTGA
Found at i:52395 original size:116 final size:116
Alignment explanation
Indices: 52164--52393 Score: 390
Period size: 116 Copynumber: 2.0 Consensus size: 116
52154 AGTTGGTTTC
* * * *
52164 TAACAAGTAAGATAAGTCAACTTTTTTTATTCATGTTTTCAATCTTACAATTATATTCTTACTTT
1 TAACAAGTAAGATAAGTAAACTTTATTTATTAATGTTTTCAATCTTACAATTAGATTCTTACTTT
*
52229 TATATTATTCTTAAACTTTCTATTATTTTTATTATAAATCTAATATTTTTA
66 TATATTACTCTTAAACTTTCTATTATTTTTATTATAAATCTAATATTTTTA
52280 TAACAAGTAAGATAAGTAAACTTTATTTATTAATGTTTTCAATCTTACAATTAGATTCTTACTTT
1 TAACAAGTAAGATAAGTAAACTTTATTTATTAATGTTTTCAATCTTACAATTAGATTCTTACTTT
* *
52345 TATATTCCTCTTAAACTTTTTATTA-TTTTATTATAAATCTAATATTTTT
66 TATATTACTCTTAAACTTTCTATTATTTTTATTATAAATCTAATATTTTT
52394 TAATAAATTA
Statistics
Matches: 107, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
115 24 0.22
116 83 0.78
ACGTcount: A:0.33, C:0.11, G:0.04, T:0.52
Consensus pattern (116 bp):
TAACAAGTAAGATAAGTAAACTTTATTTATTAATGTTTTCAATCTTACAATTAGATTCTTACTTT
TATATTACTCTTAAACTTTCTATTATTTTTATTATAAATCTAATATTTTTA
Found at i:52522 original size:32 final size:32
Alignment explanation
Indices: 52475--52606 Score: 95
Period size: 32 Copynumber: 4.1 Consensus size: 32
52465 ATTTCAATCT
*
52475 GTTCGAGTTGGTTTCGGGTCGGGTTAAATTCA
1 GTTCGAGTTGCTTTCGGGTCGGGTTAAATTCA
* * * *
52507 GTTCGGGTTGCTTTCGGATTGGGTTAAAATTCG
1 GTTCGAGTTGCTTTCGGGTCGGGTT-AAATTCA
* * * ** * * *
52540 GTTTGGGTTTCTTT-TAGTACGGATTAATTTCG
1 GTTCGAGTTGCTTTCGGGT-CGGGTTAAATTCA
* * *
52572 GTTTGAGTTGCTTTCGGTTCGGGTTAATTTCA
1 GTTCGAGTTGCTTTCGGGTCGGGTTAAATTCA
52604 GTT
1 GTT
52607 TCAGTTTTGG
Statistics
Matches: 77, Mismatches: 20, Indels: 6
0.75 0.19 0.06
Matches are distributed among these distances:
32 54 0.70
33 23 0.30
ACGTcount: A:0.14, C:0.11, G:0.30, T:0.44
Consensus pattern (32 bp):
GTTCGAGTTGCTTTCGGGTCGGGTTAAATTCA
Found at i:52602 original size:16 final size:16
Alignment explanation
Indices: 52486--52602 Score: 56
Period size: 16 Copynumber: 7.2 Consensus size: 16
52476 TTCGAGTTGG
*
52486 TTTCGGGTCGGGTTAA
1 TTTCGGTTCGGGTTAA
* * **
52502 ATTCAGTTCGGGTTGC
1 TTTCGGTTCGGGTTAA
52518 TTTCGGATT-GGGTTAAA
1 TTTCGG-TTCGGGTT-AA
* * **
52535 ATTCGGTTTGGGTTTC
1 TTTCGGTTCGGGTTAA
** * *
52551 TTTTAGTACGGATTAA
1 TTTCGGTTCGGGTTAA
* * **
52567 TTTCGGTTTGAGTTGC
1 TTTCGGTTCGGGTTAA
52583 TTTCGGTTCGGGTTAA
1 TTTCGGTTCGGGTTAA
52599 TTTC
1 TTTC
52603 AGTTTCAGTT
Statistics
Matches: 66, Mismatches: 32, Indels: 6
0.63 0.31 0.06
Matches are distributed among these distances:
16 54 0.82
17 12 0.18
ACGTcount: A:0.15, C:0.12, G:0.29, T:0.44
Consensus pattern (16 bp):
TTTCGGTTCGGGTTAA
Found at i:53715 original size:25 final size:23
Alignment explanation
Indices: 53663--53708 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 23
53653 ATATACTATA
*
53663 TATAAACTATATAATATGTAAAC
1 TATATACTATATAATATGTAAAC
53686 TATATACTATATAAACTATGTAA
1 TATATACTATAT-AA-TATGTAA
53709 TTTATATTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 11 0.55
24 2 0.10
25 7 0.35
ACGTcount: A:0.50, C:0.09, G:0.04, T:0.37
Consensus pattern (23 bp):
TATATACTATATAATATGTAAAC
Found at i:53964 original size:2 final size:2
Alignment explanation
Indices: 53637--53948 Score: 81
Period size: 2 Copynumber: 157.0 Consensus size: 2
53627 TTAAAACAAT
*
53637 TA TA -A TA TA TA TA TA TA TA TA CTA TA TA TA AA CTA TA TA -A TA
1 TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA -TA TA TA TA TA
* * * * * *
53679 TG TA AA CTA TA TA CTA TA TA AA CTA TG TA -A TT TA TA TT TA TGA
1 TA TA TA -TA TA TA -TA TA TA TA -TA TA TA TA TA TA TA TA TA T-A
* * *
53722 -A CTA TA TA TA AA T- TA TA TA TGA -A CA -A TA TA TA AA CTA TA
1 TA -TA TA TA TA TA TA TA TA TA T-A TA TA TA TA TA TA TA -TA TA
* * * *
53761 TA AA TA AA T- TA TA TA GTT TA TA TA TA TA TA CTA TT TA TGA -A
1 TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA -TA TA TA T-A TA
* * * *
53802 T- TA TA TA TA GA CTA TA TA GTT TA T- TA -A TA GA AA CTA TA TA
1 TA TA TA TA TA TA -TA TA TA -TA TA TA TA TA TA TA TA -TA TA TA
* * * * * *
53842 -A TT TT TA TA TT TA TA CTA TA TA TA TA TA TA AA AA CTA TA CA -A
1 TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA -TA TA TA TA
*
53884 TT TA T- TA -A TGA -A T- TA TA TA TA -A T- TA TA TA TA -A CTA TA
1 TA TA TA TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA
53921 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
53949 CATAGTTTAC
Statistics
Matches: 228, Mismatches: 42, Indels: 80
0.65 0.12 0.23
Matches are distributed among these distances:
1 21 0.09
2 184 0.81
3 23 0.10
ACGTcount: A:0.48, C:0.05, G:0.03, T:0.44
Consensus pattern (2 bp):
TA
Found at i:53977 original size:13 final size:13
Alignment explanation
Indices: 53907--53993 Score: 63
Period size: 13 Copynumber: 6.8 Consensus size: 13
53897 TATATATAAT
53907 TATATAT-AACTA
1 TATATATAAACTA
53919 TATATATATATA-TA
1 TATATATA-A-ACTA
*
53933 TATATATATA-TA
1 TATATATAAACTA
* ***
53945 TATACATAGTTTA
1 TATATATAAACTA
* *
53958 CATATATGAACTA
1 TATATATAAACTA
53971 TATATATAAACTA
1 TATATATAAACTA
*
53984 TATAAATAAA
1 TATATATAAA
53994 TTCAAAGTAT
Statistics
Matches: 58, Mismatches: 13, Indels: 7
0.74 0.17 0.09
Matches are distributed among these distances:
12 17 0.29
13 29 0.50
14 11 0.19
15 1 0.02
ACGTcount: A:0.51, C:0.06, G:0.02, T:0.41
Consensus pattern (13 bp):
TATATATAAACTA
Found at i:54026 original size:20 final size:19
Alignment explanation
Indices: 54001--54147 Score: 81
Period size: 20 Copynumber: 7.6 Consensus size: 19
53991 AAATTCAAAG
54001 TATATACTATAGTTTATATT
1 TATATACTATAGTTTATA-T
*
54021 TATATACTATA-TACTATAT
1 TATATACTATAGT-TTATAT
54040 GTATGAATACTATATGTTTATA-
1 -TAT--ATACTATA-GTTTATAT
*
54062 T-T-T-GTATAGTTTATAT
1 TATATACTATAGTTTATAT
* * * * *
54078 TATAAATTCAAAGTATATAC
1 TATATACT-ATAGTTTATAT
* *
54098 TATATATTTTAGTTTATAGT
1 TATATACTATAGTTTATA-T
54118 T-TATACTATAGTTTATATT
1 TATATACTATAGTTTATA-T
*
54137 TATATAATATA
1 TATATACTATA
54148 TACTATAGTT
Statistics
Matches: 97, Mismatches: 17, Indels: 26
0.69 0.12 0.19
Matches are distributed among these distances:
15 7 0.07
16 5 0.05
17 2 0.02
19 26 0.27
20 43 0.44
21 1 0.01
22 8 0.08
23 4 0.04
24 1 0.01
ACGTcount: A:0.37, C:0.05, G:0.07, T:0.51
Consensus pattern (19 bp):
TATATACTATAGTTTATAT
Found at i:54033 original size:27 final size:27
Alignment explanation
Indices: 53999--54162 Score: 102
Period size: 27 Copynumber: 5.8 Consensus size: 27
53989 ATAAATTCAA
53999 AGTATATACTATAGTTTATATTTATAT
1 AGTATATACTATAGTTTATATTTATAT
* * *
54026 ACTATATACTATA-TGTATGA-ATACTAT
1 AGTATATACTATAGTTTAT-ATTTA-TAT
** *
54053 ATGTTTATATTTGTATAGTTTATATTATAAATTCAA
1 A-G--TATA-TACTATAGTTTATATT-T--A-T-AT
* *
54089 AGTATATACTATA-TATTTTAGTT-TAT
1 AGTATATACTATAGT-TTATATTTATAT
*
54115 AGTTTATACTATAGTTTATATTTATAT
1 AGTATATACTATAGTTTATATTTATAT
*
54142 AATATATACTATAGTTTATAT
1 AGTATATACTATAGTTTATAT
54163 ATATGTGTGT
Statistics
Matches: 102, Mismatches: 20, Indels: 30
0.67 0.13 0.20
Matches are distributed among these distances:
26 25 0.25
27 41 0.40
30 4 0.04
31 8 0.08
32 14 0.14
33 5 0.05
35 3 0.03
36 2 0.02
ACGTcount: A:0.37, C:0.05, G:0.07, T:0.51
Consensus pattern (27 bp):
AGTATATACTATAGTTTATATTTATAT
Found at i:54122 original size:19 final size:18
Alignment explanation
Indices: 54066--54141 Score: 62
Period size: 19 Copynumber: 4.0 Consensus size: 18
54056 TTTATATTTG
*
54066 TATAGTTTATATTATAAAT
1 TATAGTTTATATT-TATAT
* * *
54085 TCAAAGTATATACTATATAT
1 T-ATAGTTTATA-TTTATAT
* *
54105 TTTAGTTTATAGTTTATAC
1 TATAGTTTATA-TTTATAT
54124 TATAGTTTATATTTATAT
1 TATAGTTTATATTTATAT
54142 AATATATACT
Statistics
Matches: 43, Mismatches: 12, Indels: 5
0.72 0.20 0.08
Matches are distributed among these distances:
18 6 0.14
19 23 0.53
20 13 0.30
21 1 0.02
ACGTcount: A:0.37, C:0.04, G:0.07, T:0.53
Consensus pattern (18 bp):
TATAGTTTATATTTATAT
Found at i:54276 original size:15 final size:15
Alignment explanation
Indices: 54229--54281 Score: 58
Period size: 15 Copynumber: 3.7 Consensus size: 15
54219 AAGTATATAC
*
54229 TATAGTTTGTATTTA
1 TATAGTTTATATTTA
* *
54244 TATA--CTATATGT-
1 TATAGTTTATATTTA
54256 TATAGTTTATATTTA
1 TATAGTTTATATTTA
54271 TATAGTTTATA
1 TATAGTTTATA
54282 CTATACGAAT
Statistics
Matches: 30, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
12 4 0.13
13 5 0.17
14 6 0.20
15 15 0.50
ACGTcount: A:0.32, C:0.02, G:0.09, T:0.57
Consensus pattern (15 bp):
TATAGTTTATATTTA
Found at i:54286 original size:27 final size:27
Alignment explanation
Indices: 54222--54286 Score: 85
Period size: 27 Copynumber: 2.4 Consensus size: 27
54212 AAATTCAAAG
*
54222 TATATACTATAGTTTGTATTTATATAC
1 TATATACTATAGTTTATATTTATATAC
** *
54249 TATATGTTATAGTTTATATTTATATAG
1 TATATACTATAGTTTATATTTATATAC
*
54276 TTTATACTATA
1 TATATACTATA
54287 CGAATTCAAA
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.34, C:0.05, G:0.08, T:0.54
Consensus pattern (27 bp):
TATATACTATAGTTTATATTTATATAC
Found at i:54842 original size:102 final size:101
Alignment explanation
Indices: 54691--55075 Score: 341
Period size: 102 Copynumber: 3.8 Consensus size: 101
54681 TCCTTCTATT
* * * * * *
54691 TTTTTTCGATCAAACACCCCAAATTCAACCCGTAATCATCCATGATCATCTCCAAAACCCTCATT
1 TTTTTTCGATCAAACACCCAAAACTCAACCCTTATTCATCTATGTTCATC-CCAAAACCCTCATT
* * * *
54756 TAATCTTTACAAATACCAAAACCCAAGATAAAACTTA
65 TGATCCTTACAAACACCAAAACCCAAGATAAAACCTA
* *
54793 TTTTTTCGATCAAACACCCAAAACTCAACCCTTGTTCATATATGTTCATCCCCAAAACCCTCATT
1 TTTTTTCGATCAAACACCCAAAACTCAACCCTTATTCATCTATGTTCAT-CCCAAAACCCTCATT
* * * *
54858 CGATCCTTACAAACACCAAAACACAATATCAAACCTA
65 TGATCCTTACAAACACCAAAACCCAAGATAAAACCTA
* * * * *
54895 -TTTTTCTGATCAAACACTCAAACCCTCAACCATTATT-ATTCTATGTTCATCCCCAAACCCTTA
1 TTTTTTC-GATCAAACACCCAAA-ACTCAACCCTTATTCA-TCTATGTTCATCCCAAAACCCTCA
* * ** *
54958 TTTGATCCTTACAAACACCCAAACCC--GATACCCAGTCTG
63 TTTGATCCTTACAAACACCAAAACCCAAGATA--AAACCTA
* * * * * * *
54997 TTTTTTCGATCAAA-ACCCAATACCCAAACATTGTTCATCTGA-GTTCATACTCAAAACCCTCGT
1 TTTTTTCGATCAAACACCCAAAACTCAACCCTTATTCATCT-ATGTTCAT-CCCAAAACCCTCAT
*
55060 TTGATCCTTTCAAACA
64 TTGATCCTTACAAACA
55076 ACTAATCCCA
Statistics
Matches: 230, Mismatches: 43, Indels: 21
0.78 0.15 0.07
Matches are distributed among these distances:
100 21 0.09
101 38 0.17
102 143 0.62
103 28 0.12
ACGTcount: A:0.35, C:0.31, G:0.05, T:0.29
Consensus pattern (101 bp):
TTTTTTCGATCAAACACCCAAAACTCAACCCTTATTCATCTATGTTCATCCCAAAACCCTCATTT
GATCCTTACAAACACCAAAACCCAAGATAAAACCTA
Found at i:55294 original size:35 final size:35
Alignment explanation
Indices: 55231--55297 Score: 89
Period size: 35 Copynumber: 1.9 Consensus size: 35
55221 TCATATTCGT
*
55231 TAACCCTAAATCTAACTAAAATTATTCATCTTATC
1 TAACCCTAAATCTAACTAAAACTATTCATCTTATC
* * * *
55266 TAACCTTAAATCTAACTGAGACTCTTCATCTT
1 TAACCCTAAATCTAACTAAAACTATTCATCTT
55298 CTTCTGTCTC
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
35 27 1.00
ACGTcount: A:0.36, C:0.24, G:0.03, T:0.37
Consensus pattern (35 bp):
TAACCCTAAATCTAACTAAAACTATTCATCTTATC
Found at i:57245 original size:37 final size:33
Alignment explanation
Indices: 57197--57278 Score: 92
Period size: 37 Copynumber: 2.3 Consensus size: 33
57187 TAGAATTTCA
*
57197 TTTTCAAATTTATTTATTTTATTTTAATTTATTAT
1 TTTTCAAATTTAATTATTTTATTTT-ATTTATT-T
* *
57232 GTTTTCATAATTTAATTATTTTGTTTTCTTTATTT
1 -TTTTCA-AATTTAATTATTTTATTTTATTTATTT
57267 TTTTCAGAATTT
1 TTTTCA-AATTT
57279 TGATGTCAAT
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
34 11 0.27
35 1 0.02
36 12 0.29
37 17 0.41
ACGTcount: A:0.24, C:0.05, G:0.04, T:0.67
Consensus pattern (33 bp):
TTTTCAAATTTAATTATTTTATTTTATTTATTT
Found at i:57266 original size:22 final size:23
Alignment explanation
Indices: 57214--57266 Score: 63
Period size: 22 Copynumber: 2.3 Consensus size: 23
57204 ATTTATTTAT
57214 TTTATTTTAATTTATTATGTTTTC
1 TTTA-TTTAATTTATTATGTTTTC
* * *
57238 ATAATTTAA-TTATTTTGTTTTC
1 TTTATTTAATTTATTATGTTTTC
57260 TTTATTT
1 TTTATTT
57267 TTTTCAGAAT
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
22 17 0.71
23 5 0.21
24 2 0.08
ACGTcount: A:0.23, C:0.04, G:0.04, T:0.70
Consensus pattern (23 bp):
TTTATTTAATTTATTATGTTTTC
Found at i:58099 original size:20 final size:21
Alignment explanation
Indices: 58054--58099 Score: 51
Period size: 20 Copynumber: 2.3 Consensus size: 21
58044 ATTGATGCAA
58054 TGTTG-TTTACTGTTGCTTGC
1 TGTTGTTTTACTGTTGCTTGC
** *
58074 AATTGTTTTA-TGTTGCTTGT
1 TGTTGTTTTACTGTTGCTTGC
58094 TGTTGT
1 TGTTGT
58100 CTTGTAAATT
Statistics
Matches: 20, Mismatches: 5, Indels: 2
0.74 0.19 0.07
Matches are distributed among these distances:
20 16 0.80
21 4 0.20
ACGTcount: A:0.09, C:0.09, G:0.24, T:0.59
Consensus pattern (21 bp):
TGTTGTTTTACTGTTGCTTGC
Found at i:58444 original size:24 final size:24
Alignment explanation
Indices: 58393--58445 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
58383 ATTTTATGTT
* * *
58393 ATTCAAATTTTCAATCTCCATGAT
1 ATTCAAATTTTCAATATCAATGAA
58417 ATTCAAATTTTCAATATCAA-GTAA
1 ATTCAAATTTTCAATATCAATG-AA
58441 ATTCA
1 ATTCA
58446 TCTTTTTTGT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 1 0.04
24 24 0.96
ACGTcount: A:0.40, C:0.17, G:0.04, T:0.40
Consensus pattern (24 bp):
ATTCAAATTTTCAATATCAATGAA
Found at i:58801 original size:16 final size:16
Alignment explanation
Indices: 58782--58834 Score: 61
Period size: 16 Copynumber: 3.3 Consensus size: 16
58772 AGTAATTTAT
58782 AAGTCAGGTAAATATC
1 AAGTCAGGTAAATATC
*
58798 AAGTTAGGTAAATATC
1 AAGTCAGGTAAATATC
* * * *
58814 AAATCAGTTTAATAAC
1 AAGTCAGGTAAATATC
58830 AAGTC
1 AAGTC
58835 GGATTATTTA
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
16 30 1.00
ACGTcount: A:0.45, C:0.11, G:0.15, T:0.28
Consensus pattern (16 bp):
AAGTCAGGTAAATATC
Found at i:60623 original size:31 final size:31
Alignment explanation
Indices: 60585--60648 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
60575 CTAAAAATAC
60585 TTTAAATACTTAATATGAACGAATGATATAA
1 TTTAAATACTTAATATGAACGAATGATATAA
*
60616 TTTAAATATTTAATATGAACGAATGATATAA
1 TTTAAATACTTAATATGAACGAATGATATAA
60647 TT
1 TT
60649 CACATGGTTA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.47, C:0.05, G:0.09, T:0.39
Consensus pattern (31 bp):
TTTAAATACTTAATATGAACGAATGATATAA
Found at i:60647 original size:18 final size:18
Alignment explanation
Indices: 60595--60647 Score: 53
Period size: 18 Copynumber: 3.2 Consensus size: 18
60585 TTTAAATACT
60595 TAATATGAACGAATGATA
1 TAATATGAACGAATGATA
* *
60613 TAAT-T-TA--AAT-ATT
1 TAATATGAACGAATGATA
60626 TAATATGAACGAATGATA
1 TAATATGAACGAATGATA
60644 TAAT
1 TAAT
60648 TCACATGGTT
Statistics
Matches: 26, Mismatches: 4, Indels: 10
0.65 0.10 0.25
Matches are distributed among these distances:
13 6 0.23
14 4 0.15
15 1 0.04
16 1 0.04
17 4 0.15
18 10 0.38
ACGTcount: A:0.49, C:0.04, G:0.11, T:0.36
Consensus pattern (18 bp):
TAATATGAACGAATGATA
Found at i:61128 original size:22 final size:22
Alignment explanation
Indices: 61103--61144 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
61093 ATTTGAGGTA
61103 ATGA-TTTTAGGGTTTAAGATTT
1 ATGAGTTTT-GGGTTTAAGATTT
*
61125 ATGAGTTTTGGGTTTGAGAT
1 ATGAGTTTTGGGTTTAAGAT
61145 AAAACGATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.24, C:0.00, G:0.29, T:0.48
Consensus pattern (22 bp):
ATGAGTTTTGGGTTTAAGATTT
Found at i:65731 original size:20 final size:20
Alignment explanation
Indices: 65706--65758 Score: 97
Period size: 20 Copynumber: 2.6 Consensus size: 20
65696 CTATCACAAA
*
65706 TTCGCGTTGCGATTTTCTAT
1 TTCGCGTTGCGATTTTCCAT
65726 TTCGCGTTGCGATTTTCCAT
1 TTCGCGTTGCGATTTTCCAT
65746 TTCGCGTTGCGAT
1 TTCGCGTTGCGAT
65759 AGTTAAAAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.09, C:0.23, G:0.23, T:0.45
Consensus pattern (20 bp):
TTCGCGTTGCGATTTTCCAT
Found at i:65773 original size:21 final size:21
Alignment explanation
Indices: 65747--65820 Score: 93
Period size: 21 Copynumber: 3.7 Consensus size: 21
65737 ATTTTCCATT
*
65747 TCGCGTTGCGATAGTTAAAAA
1 TCGCGTTGCGATAGTTGAAAA
65768 TCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGATAGTTGAAAA
**
65789 TCGC----AAATAGTTGAAAA
1 TCGCGTTGCGATAGTTGAAAA
65806 TCGCGTTGCGATAGT
1 TCGCGTTGCGATAGT
65821 CTACAGTTGT
Statistics
Matches: 44, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
17 15 0.34
21 29 0.66
ACGTcount: A:0.31, C:0.15, G:0.26, T:0.28
Consensus pattern (21 bp):
TCGCGTTGCGATAGTTGAAAA
Found at i:65835 original size:22 final size:22
Alignment explanation
Indices: 65809--65876 Score: 79
Period size: 22 Copynumber: 3.2 Consensus size: 22
65799 TTGAAAATCG
65809 CGTTGCGATAGTCTACAGTTGT
1 CGTTGCGATAGTCTACAGTTGT
* * **
65831 CGTTGCGAT--TTTCCAAAT-T
1 CGTTGCGATAGTCTACAGTTGT
65850 CGTTGCGATAGTCTACAGTTGT
1 CGTTGCGATAGTCTACAGTTGT
65872 CGTTG
1 CGTTG
65877 TGATTTTCCA
Statistics
Matches: 35, Mismatches: 8, Indels: 6
0.71 0.16 0.12
Matches are distributed among these distances:
19 10 0.29
20 5 0.14
21 5 0.14
22 15 0.43
ACGTcount: A:0.18, C:0.19, G:0.25, T:0.38
Consensus pattern (22 bp):
CGTTGCGATAGTCTACAGTTGT
Found at i:65858 original size:41 final size:41
Alignment explanation
Indices: 65809--65902 Score: 170
Period size: 41 Copynumber: 2.3 Consensus size: 41
65799 TTGAAAATCG
65809 CGTTGCGATAGTCTACAGTTGTCGTTGCGATTTTCCAAATT
1 CGTTGCGATAGTCTACAGTTGTCGTTGCGATTTTCCAAATT
*
65850 CGTTGCGATAGTCTACAGTTGTCGTTGTGATTTTCCAAATT
1 CGTTGCGATAGTCTACAGTTGTCGTTGCGATTTTCCAAATT
*
65891 CGTTGTGATAGT
1 CGTTGCGATAGT
65903 TAAAAAAAAA
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.19, C:0.17, G:0.23, T:0.40
Consensus pattern (41 bp):
CGTTGCGATAGTCTACAGTTGTCGTTGCGATTTTCCAAATT
Found at i:65899 original size:19 final size:19
Alignment explanation
Indices: 65830--65895 Score: 60
Period size: 19 Copynumber: 3.3 Consensus size: 19
65820 TCTACAGTTG
65830 TCGTTGCGATTTTCCAAAT
1 TCGTTGCGATTTTCCAAAT
* * **
65849 TCGTTGCGATAGTCTACAGTT
1 TCGTTGCGAT--TTTCCAAAT
*
65870 GTCGTTGTGATTTTCCAAAT
1 -TCGTTGCGATTTTCCAAAT
65890 TCGTTG
1 TCGTTG
65896 TGATAGTTAA
Statistics
Matches: 35, Mismatches: 9, Indels: 6
0.70 0.18 0.12
Matches are distributed among these distances:
19 16 0.46
20 5 0.14
21 5 0.14
22 9 0.26
ACGTcount: A:0.18, C:0.18, G:0.21, T:0.42
Consensus pattern (19 bp):
TCGTTGCGATTTTCCAAAT
Found at i:66605 original size:13 final size:13
Alignment explanation
Indices: 66587--66615 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
66577 TAACTACCGC
66587 AACGACAACTGTA
1 AACGACAACTGTA
66600 AACGACAACTGTA
1 AACGACAACTGTA
66613 AAC
1 AAC
66616 TAGCACACCG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.48, C:0.24, G:0.14, T:0.14
Consensus pattern (13 bp):
AACGACAACTGTA
Found at i:66663 original size:20 final size:20
Alignment explanation
Indices: 66638--66772 Score: 144
Period size: 20 Copynumber: 6.6 Consensus size: 20
66628 ATTGTAGACT
*
66638 ATCGCAACGCGAAATAAAAA
1 ATCGCAACGCGAAATGAAAA
66658 ATCGCAACGCGAAATGAAAA
1 ATCGCAACGCGAAATGAAAA
** * **
66678 ATCGCAACGCGATTTTTCAACT
1 ATCGCAACGCGA--AATGAAAA
66700 ATCGCAACGCGAAATGAAAA
1 ATCGCAACGCGAAATGAAAA
** * **
66720 ATCGCAACGCGATTTTCAACT
1 ATCGCAACGCGA-AATGAAAA
66741 ATCGCAACGCGAAATGAAAA
1 ATCGCAACGCGAAATGAAAA
66761 ATCGCAACGCGA
1 ATCGCAACGCGA
66773 TTTTCAACTA
Statistics
Matches: 91, Mismatches: 21, Indels: 6
0.77 0.18 0.05
Matches are distributed among these distances:
20 61 0.67
21 15 0.16
22 15 0.16
ACGTcount: A:0.42, C:0.24, G:0.18, T:0.16
Consensus pattern (20 bp):
ATCGCAACGCGAAATGAAAA
Found at i:66746 original size:21 final size:21
Alignment explanation
Indices: 66678--66793 Score: 119
Period size: 20 Copynumber: 5.6 Consensus size: 21
66668 GAAATGAAAA
66678 ATCGCAACGCGATTTTTCAACT
1 ATCGCAACGCGA-TTTTCAACT
** * **
66700 ATCGCAACGCGA-AATGAAAA
1 ATCGCAACGCGATTTTCAACT
66720 ATCGCAACGCGATTTTCAACT
1 ATCGCAACGCGATTTTCAACT
** * **
66741 ATCGCAACGCGA-AATGAAAA
1 ATCGCAACGCGATTTTCAACT
66761 ATCGCAACGCGATTTTCAACT
1 ATCGCAACGCGATTTTCAACT
66782 ATCGCAACGCGA
1 ATCGCAACGCGA
66794 AATGCAACGC
Statistics
Matches: 72, Mismatches: 20, Indels: 5
0.74 0.21 0.05
Matches are distributed among these distances:
20 30 0.42
21 30 0.42
22 12 0.17
ACGTcount: A:0.36, C:0.26, G:0.17, T:0.21
Consensus pattern (21 bp):
ATCGCAACGCGATTTTCAACT
Found at i:66748 original size:41 final size:41
Alignment explanation
Indices: 66658--66797 Score: 271
Period size: 41 Copynumber: 3.4 Consensus size: 41
66648 GAAATAAAAA
66658 ATCGCAACGCGAAATGAAAAATCGCAACGCGATTTTTCAACT
1 ATCGCAACGCGAAATGAAAAATCGCAACGCGA-TTTTCAACT
66700 ATCGCAACGCGAAATGAAAAATCGCAACGCGATTTTCAACT
1 ATCGCAACGCGAAATGAAAAATCGCAACGCGATTTTCAACT
66741 ATCGCAACGCGAAATGAAAAATCGCAACGCGATTTTCAACT
1 ATCGCAACGCGAAATGAAAAATCGCAACGCGATTTTCAACT
66782 ATCGCAACGCGAAATG
1 ATCGCAACGCGAAATG
66798 CAACGCAAAT
Statistics
Matches: 98, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
41 66 0.67
42 32 0.33
ACGTcount: A:0.39, C:0.24, G:0.18, T:0.19
Consensus pattern (41 bp):
ATCGCAACGCGAAATGAAAAATCGCAACGCGATTTTCAACT
Found at i:71273 original size:25 final size:24
Alignment explanation
Indices: 71219--71273 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 24
71209 AAAATCACCA
71219 ATTTTTTAAAATAAAAGTCATAATT
1 ATTTTTTAAAATAAAAG-CATAATT
*
71244 ATTTTTTAAAAATAATA-CATAATT
1 ATTTTTT-AAAATAAAAGCATAATT
*
71268 GTTTTT
1 ATTTTT
71274 ACGAAAAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
24 12 0.44
25 7 0.26
26 8 0.30
ACGTcount: A:0.44, C:0.04, G:0.04, T:0.49
Consensus pattern (24 bp):
ATTTTTTAAAATAAAAGCATAATT
Found at i:74060 original size:90 final size:90
Alignment explanation
Indices: 73966--74135 Score: 263
Period size: 90 Copynumber: 1.9 Consensus size: 90
73956 CCAACCCGAG
*
73966 CTTGAATTTTTTTT-TAAAAAAACTCAA-TCCAATCGAATCAGATCGAATCGGATCGAAACCCGT
1 CTTGAATTTTTTTTAT-AAAAAACTCAACT-CAATCGAATCAGATCGAATCAGATCGAAACCCGT
* *
74029 CGAGTTCGGATCTCATGCGCATCCCTA
64 CAAGTTCAGATCTCATGCGCATCCCTA
* *
74056 CTTGAATTTTTTTTATAAAAAATTTAACTCAATCGAATCAGATCGAATCAGATCGAAACCCGTCA
1 CTTGAATTTTTTTTATAAAAAACTCAACTCAATCGAATCAGATCGAATCAGATCGAAACCCGTCA
74121 AGTTCAGATCTCATG
66 AGTTCAGATCTCATG
74136 TATCCCTACT
Statistics
Matches: 73, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
90 71 0.97
91 2 0.03
ACGTcount: A:0.34, C:0.22, G:0.14, T:0.31
Consensus pattern (90 bp):
CTTGAATTTTTTTTATAAAAAACTCAACTCAATCGAATCAGATCGAATCAGATCGAAACCCGTCA
AGTTCAGATCTCATGCGCATCCCTA
Found at i:74102 original size:10 final size:10
Alignment explanation
Indices: 74087--74112 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
74077 ATTTAACTCA
74087 ATCGAATCAG
1 ATCGAATCAG
74097 ATCGAATCAG
1 ATCGAATCAG
74107 ATCGAA
1 ATCGAA
74113 ACCCGTCAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.42, C:0.19, G:0.19, T:0.19
Consensus pattern (10 bp):
ATCGAATCAG
Found at i:74160 original size:90 final size:89
Alignment explanation
Indices: 73995--74163 Score: 241
Period size: 90 Copynumber: 1.9 Consensus size: 89
73985 AAACTCAATC
* * * *
73995 CAATCGAATCAGATCGAATCGGATCGAAACCCGTCGAGTTCGGATCTCATGCGCATCCCTACTTG
1 CAATCGAATCAGATCGAATCAGATCGAAACCCGTCAAGTTCAGATCTCAT-CGCATCCCTACTTA
* *
74060 AATTTTTTTTATAAAAAATTTAACT
65 AAATTGTTTTATAAAAAATTTAACT
*
74085 CAATCGAATCAGATCGAATCAGATCGAAACCCGTCAAGTTCAGATCTCAT-GTATCCCTACTTAA
1 CAATCGAATCAGATCGAATCAGATCGAAACCCGTCAAGTTCAGATCTCATCGCATCCCTACTTAA
74149 CACATTGTTTTATAA
66 -A-ATTGTTTTATAA
74164 TTCAATAATA
Statistics
Matches: 70, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
88 12 0.17
89 1 0.01
90 57 0.81
ACGTcount: A:0.33, C:0.23, G:0.14, T:0.30
Consensus pattern (89 bp):
CAATCGAATCAGATCGAATCAGATCGAAACCCGTCAAGTTCAGATCTCATCGCATCCCTACTTAA
AATTGTTTTATAAAAAATTTAACT
Found at i:76361 original size:30 final size:30
Alignment explanation
Indices: 76326--76387 Score: 97
Period size: 30 Copynumber: 2.1 Consensus size: 30
76316 ATAAAACTCG
*
76326 AATTTAAATTTAAATTTCTCTTAATTCCAA
1 AATTTAAATTTAAATTTCTCTGAATTCCAA
* *
76356 AATTTAAATTTAAGTTTCTCTGAATTTCAA
1 AATTTAAATTTAAATTTCTCTGAATTCCAA
76386 AA
1 AA
76388 ACCAAAATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.40, C:0.11, G:0.03, T:0.45
Consensus pattern (30 bp):
AATTTAAATTTAAATTTCTCTGAATTCCAA
Found at i:78334 original size:29 final size:30
Alignment explanation
Indices: 78293--78349 Score: 89
Period size: 29 Copynumber: 1.9 Consensus size: 30
78283 ATACATTCAA
* *
78293 GTAATCTTTTATTCAT-TTAACCAAACATT
1 GTAATCTTATATTCATGTTAAACAAACATT
78322 GTAATCTTATATTCATGTTAAACAAACA
1 GTAATCTTATATTCATGTTAAACAAACA
78350 AAACACAACA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 15 0.60
30 10 0.40
ACGTcount: A:0.39, C:0.16, G:0.05, T:0.40
Consensus pattern (30 bp):
GTAATCTTATATTCATGTTAAACAAACATT
Found at i:81183 original size:31 final size:31
Alignment explanation
Indices: 81145--81329 Score: 318
Period size: 31 Copynumber: 6.0 Consensus size: 31
81135 CCCGAAGGAC
* * *
81145 CAGTCCATA-GATTCCGAAGAACCTAGGTAAT
1 CAGTCCATATG-TCCCGAAGAACATAGGTAAA
*
81176 CAGTCCATATGTCCCGAAGGACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
81207 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
81238 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
81269 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
81300 CAGTCCATATGTCCCGAAGAACATAGGTAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAA
81330 CCCTCGACCC
Statistics
Matches: 148, Mismatches: 5, Indels: 2
0.95 0.03 0.01
Matches are distributed among these distances:
31 147 0.99
32 1 0.01
ACGTcount: A:0.37, C:0.23, G:0.20, T:0.20
Consensus pattern (31 bp):
CAGTCCATATGTCCCGAAGAACATAGGTAAA
Found at i:82115 original size:21 final size:21
Alignment explanation
Indices: 82091--82135 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
82081 AATTCTGTCG
* *
82091 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
82112 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
82133 TTG
1 TTG
82136 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:85075 original size:31 final size:30
Alignment explanation
Indices: 85004--85121 Score: 138
Period size: 31 Copynumber: 4.0 Consensus size: 30
84994 CCCGAAGGAC
* * *
85004 CAGTCCATA-GATTCCGAAGAACCTAGGTAT
1 CAGTCCATATG-TCCCGAAGAACATAGGTAA
*
85034 CAGTCCATATGTCCCGAAGGACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGT-AA
*
85065 CAGTCTATATGTCCCGAAGAACATAGGT-A
1 CAGTCCATATGTCCCGAAGAACATAGGTAA
85094 -AGTCCATAT-TCCCGAAG-ACATAGGTAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAA
85121 C
1 C
85122 CCTCGACCCT
Statistics
Matches: 77, Mismatches: 7, Indels: 10
0.82 0.07 0.11
Matches are distributed among these distances:
26 8 0.10
27 9 0.12
28 8 0.10
29 1 0.01
30 23 0.30
31 28 0.36
ACGTcount: A:0.35, C:0.23, G:0.20, T:0.22
Consensus pattern (30 bp):
CAGTCCATATGTCCCGAAGAACATAGGTAA
Found at i:85875 original size:21 final size:20
Alignment explanation
Indices: 85851--85894 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
85841 ATTCTGTCGT
* *
85851 TTGAAGGGGTATCGGTTCCCC
1 TTGAA-GGGTACCGATTCCCC
*
85872 TTGAATGGTACCGATTCCCC
1 TTGAAGGGTACCGATTCCCC
85892 TTG
1 TTG
85895 CCCAAAATAC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 15 0.75
21 5 0.25
ACGTcount: A:0.16, C:0.25, G:0.27, T:0.32
Consensus pattern (20 bp):
TTGAAGGGTACCGATTCCCC
Found at i:85966 original size:19 final size:19
Alignment explanation
Indices: 85942--85978 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
85932 TATTTCATTT
85942 AGGGGAATCGATACCCCCC
1 AGGGGAATCGATACCCCCC
85961 AGGGGAATCGATACCCCC
1 AGGGGAATCGATACCCCC
85979 GAACCTTCTG
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:0.27, C:0.35, G:0.27, T:0.11
Consensus pattern (19 bp):
AGGGGAATCGATACCCCCC
Found at i:86024 original size:150 final size:153
Alignment explanation
Indices: 85752--86054 Score: 569
Period size: 151 Copynumber: 2.0 Consensus size: 153
85742 GATGTTAATA
85752 ACTTAAACCGGTGTAATGAATCAATTCTATATTTCATTTAGGGGGAATCGATACCCCCCAGGGAA
1 ACTTAAACCGGTGTAATGAATCAATTCTATATTTCATTTAGGGGGAATCGATACCCCCCAGGGAA
85817 TCGATACCCCCTGAACCTTCTGGAATTCTGTCGTTTGAAGGGGTATCGGTTCCCCTTGAAT-GGT
66 TCGATACCCCCTGAACCTTCTGGAATTCTGTCGTTTGAAGGGGTATCGGTTCCCCTTGAATGGGT
85881 ACCGATTCCCCTTGCCCA-AAAT
131 ACCGATTCCCCTTGCCCAGAAAT
85903 ACTTAAACCGGTGTAATGAATCAATTCTATATTTCATTTA-GGGGAATCGATACCCCCCAGGGGA
1 ACTTAAACCGGTGTAATGAATCAATTCTATATTTCATTTAGGGGGAATCGATACCCCCCA-GGGA
85967 ATCGATACCCCC-GAACCTTCTGGAATTCTGTCGTTTGAAGGGGTATCGGTTCCCCTTGAATGGG
65 ATCGATACCCCCTGAACCTTCTGGAATTCTGTCGTTTGAAGGGGTATCGGTTCCCCTTGAATGGG
86031 TACCGATTCCCCTTGCCCAGAAAT
130 TACCGATTCCCCTTGCCCAGAAAT
86055 CATATTTTCA
Statistics
Matches: 149, Mismatches: 0, Indels: 5
0.97 0.00 0.03
Matches are distributed among these distances:
150 68 0.46
151 77 0.52
152 4 0.03
ACGTcount: A:0.25, C:0.25, G:0.21, T:0.29
Consensus pattern (153 bp):
ACTTAAACCGGTGTAATGAATCAATTCTATATTTCATTTAGGGGGAATCGATACCCCCCAGGGAA
TCGATACCCCCTGAACCTTCTGGAATTCTGTCGTTTGAAGGGGTATCGGTTCCCCTTGAATGGGT
ACCGATTCCCCTTGCCCAGAAAT
Found at i:86031 original size:21 final size:21
Alignment explanation
Indices: 86001--86045 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
85991 ATTCTGTCGT
* *
86001 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
86022 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
86043 TTG
1 TTG
86046 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:89179 original size:21 final size:21
Alignment explanation
Indices: 89138--89179 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
89128 TTGATTTTCC
* *
89138 GAAAAATGAATTACTGGAATT
1 GAAAAATAAATTACTGAAATT
*
89159 GAAAAATAAATTATTGAAATT
1 GAAAAATAAATTACTGAAATT
89180 TGAATTCTGG
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:0.52, C:0.02, G:0.14, T:0.31
Consensus pattern (21 bp):
GAAAAATAAATTACTGAAATT
Found at i:89225 original size:31 final size:29
Alignment explanation
Indices: 89190--89258 Score: 70
Period size: 28 Copynumber: 2.3 Consensus size: 29
89180 TGAATTCTGG
* *
89190 AAAATTATATAAAACGTAATTTA-TTATTTTT
1 AAAATTAT-TAAAA--TAATCTATTTATTATT
89221 AAAA-TATTAAAATAATCTATTTATTATT
1 AAAATTATTAAAATAATCTATTTATTATT
89249 AAATATTATT
1 AAA-ATTATT
89259 TTTATAATTT
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
27 6 0.18
28 10 0.30
29 6 0.18
30 7 0.21
31 4 0.12
ACGTcount: A:0.48, C:0.03, G:0.01, T:0.48
Consensus pattern (29 bp):
AAAATTATTAAAATAATCTATTTATTATT
Found at i:89395 original size:23 final size:23
Alignment explanation
Indices: 89350--89410 Score: 70
Period size: 23 Copynumber: 2.7 Consensus size: 23
89340 TAATAGTGTT
*
89350 ATATATTTTAAAAATATTAATTA
1 ATATATTTTAAATATATTAATTA
* * *
89373 GTATATTTTAAATATCTTTATTA
1 ATATATTTTAAATATATTAATTA
*
89396 AAATA-TTTAAATATA
1 ATATATTTTAAATATA
89411 AATAATATTA
Statistics
Matches: 31, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
22 9 0.29
23 22 0.71
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.49
Consensus pattern (23 bp):
ATATATTTTAAATATATTAATTA
Found at i:89448 original size:26 final size:24
Alignment explanation
Indices: 89402--89464 Score: 74
Period size: 26 Copynumber: 2.5 Consensus size: 24
89392 ATTAAAATAT
* *
89402 TTAAATATAAATAATATTATTCATTA
1 TTAAATATAAA-AAAAATATT-ATTA
89428 TTAAATATATAAAAAAATATTATTA
1 TTAAATATA-AAAAAAATATTATTA
89453 TTAAA-ATAAAAA
1 TTAAATATAAAAA
89465 TATATCTTAT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
23 4 0.12
24 3 0.09
25 9 0.26
26 16 0.47
27 2 0.06
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.40
Consensus pattern (24 bp):
TTAAATATAAAAAAAATATTATTA
Found at i:89452 original size:32 final size:35
Alignment explanation
Indices: 89390--89454 Score: 91
Period size: 32 Copynumber: 1.9 Consensus size: 35
89380 TTAAATATCT
*
89390 TTATTAAAATATTTAAATATAAATAATATTATTCA
1 TTATTAAAATATATAAATATAAATAATATTATTCA
*
89425 TTATT-AAATATATAAA-A-AAATATTATTATT
1 TTATTAAAATATATAAATATAAATAATATTATT
89455 AAAATAAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
32 12 0.43
33 1 0.04
34 10 0.36
35 5 0.18
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (35 bp):
TTATTAAAATATATAAATATAAATAATATTATTCA
Found at i:92965 original size:39 final size:39
Alignment explanation
Indices: 92911--92994 Score: 127
Period size: 39 Copynumber: 2.2 Consensus size: 39
92901 ATAACGAAAA
92911 AAAGAAACAACGACAAAT-GATTTGATGATGATGTTAATC
1 AAAGAAACAACGAC-AATCGATTTGATGATGATGTTAATC
92950 AAAGAAA-AATCGACAATCGATTTGATGATGATGTTAATC
1 AAAGAAACAA-CGACAATCGATTTGATGATGATGTTAATC
*
92989 GAAGAA
1 AAAGAA
92995 GATTTAAGGA
Statistics
Matches: 42, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
38 5 0.12
39 37 0.88
ACGTcount: A:0.46, C:0.10, G:0.19, T:0.25
Consensus pattern (39 bp):
AAAGAAACAACGACAATCGATTTGATGATGATGTTAATC
Found at i:93373 original size:113 final size:113
Alignment explanation
Indices: 93234--93462 Score: 458
Period size: 113 Copynumber: 2.0 Consensus size: 113
93224 TTCTCTTAAT
93234 GTGACTTTCCAATACGGAAATAAATCTAGTATGACATTTTGACCAATGTTTTCTTGTCATTGATT
1 GTGACTTTCCAATACGGAAATAAATCTAGTATGACATTTTGACCAATGTTTTCTTGTCATTGATT
93299 ATTATAGTGTTGATGTGGCAGTTCACGATGCTGATGTGGTACTCTATG
66 ATTATAGTGTTGATGTGGCAGTTCACGATGCTGATGTGGTACTCTATG
93347 GTGACTTTCCAATACGGAAATAAATCTAGTATGACATTTTGACCAATGTTTTCTTGTCATTGATT
1 GTGACTTTCCAATACGGAAATAAATCTAGTATGACATTTTGACCAATGTTTTCTTGTCATTGATT
93412 ATTATAGTGTTGATGTGGCAGTTCACGATGCTGATGTGGTACTCTATG
66 ATTATAGTGTTGATGTGGCAGTTCACGATGCTGATGTGGTACTCTATG
93460 GTG
1 GTG
93463 CTGAAATGGT
Statistics
Matches: 116, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
113 116 1.00
ACGTcount: A:0.25, C:0.14, G:0.22, T:0.39
Consensus pattern (113 bp):
GTGACTTTCCAATACGGAAATAAATCTAGTATGACATTTTGACCAATGTTTTCTTGTCATTGATT
ATTATAGTGTTGATGTGGCAGTTCACGATGCTGATGTGGTACTCTATG
Found at i:95982 original size:22 final size:21
Alignment explanation
Indices: 95954--96013 Score: 93
Period size: 22 Copynumber: 2.7 Consensus size: 21
95944 AATATGTGAA
95954 GGAATTGAAATCTGAAGGAATT
1 GGAATTG-AATCTGAAGGAATT
95976 GGAATTGGAATCTGAAGGAATT
1 GGAATT-GAATCTGAAGGAATT
95998 GGAATCTGAATCTGAA
1 GGAAT-TGAATCTGAA
96014 ACATGTTTAA
Statistics
Matches: 36, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
22 34 0.94
23 2 0.06
ACGTcount: A:0.38, C:0.07, G:0.28, T:0.27
Consensus pattern (21 bp):
GGAATTGAATCTGAAGGAATT
Found at i:95995 original size:16 final size:16
Alignment explanation
Indices: 95976--96007 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
95966 TGAAGGAATT
95976 GGAATTGGAATCTGAA
1 GGAATTGGAATCTGAA
95992 GGAATTGGAATCTGAA
1 GGAATTGGAATCTGAA
96008 TCTGAAACAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.06, G:0.31, T:0.25
Consensus pattern (16 bp):
GGAATTGGAATCTGAA
Found at i:104484 original size:23 final size:21
Alignment explanation
Indices: 104457--104499 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
104447 ATATAAAAAA
104457 TTAT-TTTTTATTAAATATTTT
1 TTATATTTTTATTAAAT-TTTT
*
104478 TTATATTTTTATTTAATTTTT
1 TTATATTTTTATTAAATTTTT
104499 T
1 T
104500 AAATAATTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 9 0.45
22 11 0.55
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (21 bp):
TTATATTTTTATTAAATTTTT
Found at i:105643 original size:121 final size:115
Alignment explanation
Indices: 105474--105845 Score: 424
Period size: 111 Copynumber: 3.3 Consensus size: 115
105464 TCTTGACTGG
* *
105474 TTGCTAGAA-TTGTGTACAATATGTGTGAGCCTAACCCTTTTGATCAATAGTAGATCGAGTCTTA
1 TTGCTAGAACTTGTGTACAATATGTGTAAGCCTAACCCTTCTGATCAATAGTAGATCGAGTCTTA
* * * * *
105538 GCTCACTTGATAGATTCGGGTTATAAAAAAATGGTGGGATTTCTTAATAGA
66 GCTCAATTGATAGATTTGGATTGTAAAAAAATGGT-GGATTTTTTAATAGA
* *
105589 TTGCTAGAAGCCTAAATTTGTGTAC-A-ATGTGTAAGCCTAACCCTTCTGATCAATAGTCGATCA
1 TTGCTAGAA--C-----TTGTGTACAATATGTGTAAGCCTAACCCTTCTGATCAATAGTAGATCG
* *
105652 AGTC-TAGCTCAATTGATAGATTTAGATTGTAAAAAAATGGT-TATTTTTTAATAGA
59 AGTCTTAGCTCAATTGATAGATTTGGATTGTAAAAAAATGGTGGATTTTTTAATAGA
* * * *
105707 TTGCTAGAAC-TGTCTACAATATGTGCAAGTCT-ACCCTTCTGATC-A-AGTTGATCGAGTCTTA
1 TTGCTAGAACTTGTGTACAATATGTGTAAGCCTAACCCTTCTGATCAATAGTAGATCGAGTCTTA
**
105768 GCTCGGTTGATAGATTTGGATTGT-AAAAAATGGTGGATTTTTTTAATAGA
66 GCTCAATTGATAGATTTGGATTGTAAAAAAATGGTGGA-TTTTTTAATAGA
*
105818 TTGCTAGAAC-TGTCTACAATATGTGTAA
1 TTGCTAGAACTTGTGTACAATATGTGTAA
105846 CACCCCCAAC
Statistics
Matches: 223, Mismatches: 21, Indels: 30
0.81 0.08 0.11
Matches are distributed among these distances:
109 21 0.09
110 31 0.14
111 52 0.23
112 10 0.04
115 9 0.04
116 1 0.00
118 21 0.09
120 32 0.14
121 37 0.17
122 1 0.00
123 8 0.04
ACGTcount: A:0.31, C:0.13, G:0.20, T:0.36
Consensus pattern (115 bp):
TTGCTAGAACTTGTGTACAATATGTGTAAGCCTAACCCTTCTGATCAATAGTAGATCGAGTCTTA
GCTCAATTGATAGATTTGGATTGTAAAAAAATGGTGGATTTTTTAATAGA
Found at i:106522 original size:22 final size:22
Alignment explanation
Indices: 106505--106592 Score: 158
Period size: 22 Copynumber: 4.0 Consensus size: 22
106495 CTCGTATAAA
106505 TGCACCGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
106527 TGCACCGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
*
106549 TGCACCGTAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
*
106571 TGCACCGTAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
106593 GATGTCCATA
Statistics
Matches: 65, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
22 65 1.00
ACGTcount: A:0.25, C:0.27, G:0.27, T:0.20
Consensus pattern (22 bp):
TGCACCGAAGTGCCCGTAGAAT
Found at i:106558 original size:13 final size:13
Alignment explanation
Indices: 106518--106580 Score: 61
Period size: 13 Copynumber: 5.5 Consensus size: 13
106508 ACCGAAGTGC
106518 CCGTAGAATTGCA
1 CCGTAGAATTGCA
*
106531 CC---GAAGTGC-
1 CCGTAGAATTGCA
106540 CCGTAGAATTGCA
1 CCGTAGAATTGCA
106553 CCGTAG---TGC-
1 CCGTAGAATTGCA
106562 CCGTAGAATTGCA
1 CCGTAGAATTGCA
106575 CCGTAG
1 CCGTAG
106581 TGCCCGTAGA
Statistics
Matches: 40, Mismatches: 2, Indels: 16
0.69 0.03 0.28
Matches are distributed among these distances:
9 8 0.20
10 9 0.22
12 9 0.22
13 14 0.35
ACGTcount: A:0.25, C:0.27, G:0.27, T:0.21
Consensus pattern (13 bp):
CCGTAGAATTGCA
Found at i:108313 original size:21 final size:21
Alignment explanation
Indices: 108289--108333 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
108279 TCTTGTTCGT
* *
108289 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
108310 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
108331 TTG
1 TTG
108334 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:111434 original size:22 final size:22
Alignment explanation
Indices: 111409--111503 Score: 129
Period size: 22 Copynumber: 4.3 Consensus size: 22
111399 CACCACAGCT
*
111409 CGTATAAATGCACCGAAGTGCC
1 CGTAGAAATGCACCGAAGTGCC
*
111431 CGTAGAATTGCACCGAAGTGCC
1 CGTAGAAATGCACCGAAGTGCC
* *
111453 CGTAGAATTGCACCGTAGTGCC
1 CGTAGAAATGCACCGAAGTGCC
*
111475 CGTA-AAATTGCACCGTAGTGCC
1 CGTAGAAA-TGCACCGAAGTGCC
111497 CGTAGAA
1 CGTAGAA
111504 TGATGTCCAT
Statistics
Matches: 67, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
21 2 0.03
22 63 0.94
23 2 0.03
ACGTcount: A:0.28, C:0.26, G:0.25, T:0.20
Consensus pattern (22 bp):
CGTAGAAATGCACCGAAGTGCC
Found at i:111470 original size:13 final size:13
Alignment explanation
Indices: 111430--111492 Score: 52
Period size: 13 Copynumber: 5.5 Consensus size: 13
111420 ACCGAAGTGC
111430 CCGTAGAATTGCA
1 CCGTAGAATTGCA
*
111443 CC---GAAGTGC-
1 CCGTAGAATTGCA
111452 CCGTAGAATTGCA
1 CCGTAGAATTGCA
111465 CCGTAG---TGC-
1 CCGTAGAATTGCA
*
111474 CCGTAAAATTGCA
1 CCGTAGAATTGCA
111487 CCGTAG
1 CCGTAG
111493 TGCCCGTAGA
Statistics
Matches: 38, Mismatches: 4, Indels: 16
0.66 0.07 0.28
Matches are distributed among these distances:
9 7 0.18
10 9 0.24
12 9 0.24
13 13 0.34
ACGTcount: A:0.27, C:0.27, G:0.25, T:0.21
Consensus pattern (13 bp):
CCGTAGAATTGCA
Found at i:111484 original size:44 final size:44
Alignment explanation
Indices: 111417--111504 Score: 149
Period size: 44 Copynumber: 2.0 Consensus size: 44
111407 CTCGTATAAA
*
111417 TGCACCGAAGTGCCCGTAGAATTGCACCGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAAAATTGCACCGAAGTGCCCGTAGAAT
* *
111461 TGCACCGTAGTGCCCGTAAAATTGCACCGTAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAAAATTGCACCGAAGTGCCCGTAGAAT
111505 GATGTCCATA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.26, C:0.27, G:0.26, T:0.20
Consensus pattern (44 bp):
TGCACCGAAGTGCCCGTAAAATTGCACCGAAGTGCCCGTAGAAT
Found at i:113226 original size:21 final size:21
Alignment explanation
Indices: 113202--113246 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
113192 TCTTGTTCGT
* *
113202 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
113223 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
113244 TTG
1 TTG
113247 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:114146 original size:114 final size:113
Alignment explanation
Indices: 113941--115317 Score: 1766
Period size: 114 Copynumber: 12.2 Consensus size: 113
113931 TTGCAGATGT
113941 TACAATATGTGTAAGCCTAACCCTTCTGATCAATAGTCGATCGAGTCTTAGCTCAGTTGATAGAT
1 TACAATATGTGTAAGCCTAACCCTTCTGATCAATAGTCGATCGAGTCTTAGCTCAGTTGATAGAT
* **
114006 TCGAATAATAAAAAATGGTGGGTTTTCTTAATAGATTGCTAGAATTGTG
66 TCGGATCGT-AAAAATGGTGGGTTTTCTTAATAGATTGCTAGAATTGTG
* * *
114055 TAGAATATGTGTAAGCCTAACTCTTCTGATCAATAGTCGATCGAGTCTTAGCTAAGTTGATAGAT
1 TACAATATGTGTAAGCCTAACCCTTCTGATCAATAGTCGATCGAGTCTTAGCTCAGTTGATAGAT
** * **
114120 TCGGATTATAAAAAATGGTGGATTTTCTTAATAGATTGCTAGAACTAATG
66 TCGGATCGT-AAAAATGGTGGGTTTTCTTAATAGATTGCTAGAA-TTGTG
* * * *
114170 TAGAACATGTGTAAGCCTAACCCTTTTGATCAATAGTCAATCGAGTCTTAGCTCAGTTGATAGAT
1 TACAATATGTGTAAGCCTAACCCTTCTGATCAATAGTCGATCGAGTCTTAGCTCAGTTGATAGAT
* *
114235 TCGGATCGTAAAAATGGTGGGGTTTCTTAATAGATTGCTAGATTTGTG
66 TCGGATCGTAAAAATGGTGGGTTTTCTTAATAGATTGCTAGAATTGTG
*
114283 TACAATATGTGTAAGCCTAACCCTTATGATCAATAGTCGATCGAGTCTTAGCTCAGTTGATAGAT
1 TACAATATGTGTAAGCCTAACCCTTCTGATCAATAGTCGATCGAGTCTTAGCTCAGTTGATAGAT
**
114348 TCGGATTATAAAAAATGGTGGGTTTTCTTAATAGATTGCTAGAATTGTG
66 TCGGATCGT-AAAAATGGTGGGTTTTCTTAATAGATTGCTAGAATTGTG
* *
114397 TACAACATGTGTAAGCCTAACTCTTCTGATCAATAGTCGATCGAGTCTTAGCTCAGTTGATAGAT
1 TACAATATGTGTAAGCCTAACCCTTCTGATCAATAGTCGATCGAGTCTTAGCTCAGTTGATAGAT
* * * **
114462 TCGGGTCGTAAAAATGGT-GGTTTTTTTAATATATTGCTAGAACTAATG
66 TCGGATCGTAAAAATGGTGGGTTTTCTTAATAGATTGCTAGAA-TTGTG
* *
114510 TACAACATGTGTAAGCCTAACCCTTCTGATCAATAGTCAATCGAGTCTTAGCTCAGTTGATAGAT
1 TACAATATGTGTAAGCCTAACCCTTCTGATCAATAGTCGATCGAGTCTTAGCTCAGTTGATAGAT
* * *
114575 TCGGATCGTAAAAATGGTGGGGGTTT-TTAATAGATTGCTAGAACTGTC
66 TCGGATCGTAAAAATGGT-GGGTTTTCTTAATAGATTGCTAGAATTGTG
114623 TACAATATGTGTAAGCCTAACCCTTCTGATCAATAGTCGATCGAGTCTTAGCTCAGTTGATAGAT
1 TACAATATGTGTAAGCCTAACCCTTCTGATCAATAGTCGATCGAGTCTTAGCTCAGTTGATAGAT
**
114688 TCGGATTATAAAAAATGGTGGGTTTTCTTAATAGATTGCTAGAATTGTG
66 TCGGATCGT-AAAAATGGTGGGTTTTCTTAATAGATTGCTAGAATTGTG
* * *
114737 TAGAACATGTGTAAGCCTAACTCTTCTGATCAATAGTCGATCGAGTCTTAGCTCAGTTGATAGAT
1 TACAATATGTGTAAGCCTAACCCTTCTGATCAATAGTCGATCGAGTCTTAGCTCAGTTGATAGAT
* * **
114802 TCAGG-TCGTAAAAATGGT-GGTTTTTTTAATATATTGCTAGAAATAATG
66 TC-GGATCGTAAAAATGGTGGGTTTTCTTAATAGATTGCTAG-AATTGTG
*
114850 TACAATATGTGTAAGCCTAACCCTTCTGATCAATAGTCAATC-ATGTCTTAGCTCAGTTGATAGA
1 TACAATATGTGTAAGCCTAACCCTTCTGATCAATAGTCGATCGA-GTCTTAGCTCAGTTGATAGA
*
114914 TTCGGATCGTAAAAAATGGTGGGGTTTCTTAATAGATTGCTAGAATTGTG
65 TTCGGATCGT-AAAAATGGTGGGTTTTCTTAATAGATTGCTAGAATTGTG
* *
114964 TACAATATGTGTAAACCTAACCCTTCTGATCAATAGTCGATTGAGTCTTAGCTCAGTTGATAGAT
1 TACAATATGTGTAAGCCTAACCCTTCTGATCAATAGTCGATCGAGTCTTAGCTCAGTTGATAGAT
* * * *
115029 TCGGATCGTAAAAATGGTGTGTTTTTTGTAATAGATAGCTAGAACTGTG
66 TCGGATCGTAAAAATGGTGGGTTTTCT-TAATAGATTGCTAGAATTGTG
* * * * * * * * *
115078 TACAATATGTGTAAGCCTAACCATACCGGTCAATAATCGATTGAGTCTTA-ATTAATTGATACG-
1 TACAATATGTGTAAGCCTAACCCTTCTGATCAATAGTCGATCGAGTCTTAGCTCAGTTGATA-GA
* * * * *
115141 TTCGAATTGTAAAAATGGTGGGTTTCTTTTACT-GATTGCTAGAACTGTG
65 TTCGGATCGTAAAAATGGTGGGTTT-TCTTAATAGATTGCTAGAATTGTG
* * * * * * ** *
115190 --C-ACA---GTAAGCCTAACCCTACTGGTTAATAATCGATTGAGTCTTAATTCAATTGATACG-
1 TACAATATGTGTAAGCCTAACCCTTCTGATCAATAGTCGATCGAGTCTTAGCTCAGTTGATA-GA
* * * * * *
115248 TTCGAATTGTAAAAATGGAGAGTTTCCTTAACT-GATTGCTAGAAATGTG
65 TTCGGATCGTAAAAATGGTGGGTTTTCTTAA-TAGATTGCTAGAATTGTG
*
115297 TAC---ATGTGTGAGCCTAACCCT
1 TACAATATGTGTAAGCCTAACCCT
115318 ACAGGTGGAA
Statistics
Matches: 1132, Mismatches: 107, Indels: 52
0.88 0.08 0.04
Matches are distributed among these distances:
106 40 0.04
107 51 0.05
109 3 0.00
110 14 0.01
112 60 0.05
113 367 0.32
114 500 0.44
115 97 0.09
ACGTcount: A:0.30, C:0.15, G:0.21, T:0.34
Consensus pattern (113 bp):
TACAATATGTGTAAGCCTAACCCTTCTGATCAATAGTCGATCGAGTCTTAGCTCAGTTGATAGAT
TCGGATCGTAAAAATGGTGGGTTTTCTTAATAGATTGCTAGAATTGTG
Found at i:114531 original size:227 final size:227
Alignment explanation
Indices: 113941--115317 Score: 1772
Period size: 227 Copynumber: 6.1 Consensus size: 227
113931 TTGCAGATGT
113941 TACAATATGTGTAAGCCTAACCCTTCTGATCAATAGTCGATCGAGTCTTAGCTCAGTTGATAGAT
1 TACAATATGTGTAAGCCTAACCCTTCTGATCAATAGTCGATCGAGTCTTAGCTCAGTTGATAGAT
* ** *
114006 TCGAATAATAAAAAATGGTGGGTTTTCTTAATAGATTGCTAGAATTGTGTAGAATATGTGTAAGC
66 TCGGATCGTAAAAAATGGTGGGTTTTCTTAATAGATTGCTAGAATTGTGTACAATATGTGTAAGC
* * **
114071 CTAACTCTTCTGATCAATAGTCGATCGAGTCTTAGCTAAGTTGATAGATTCGGATTATAAAAAAT
131 CTAACCCTTCTGATCAATAGTCGATCGAGTCTTAGCTCAGTTGATAGATTCGGATCGT-AAAAAT
* **
114136 GGTGGATTTTCTTAATAGATTGCTAGAACTAATG
195 GGTGGGTTTTCTTAATAGATTGCTAGAA-TTGTG
* * * *
114170 TAGAACATGTGTAAGCCTAACCCTTTTGATCAATAGTCAATCGAGTCTTAGCTCAGTTGATAGAT
1 TACAATATGTGTAAGCCTAACCCTTCTGATCAATAGTCGATCGAGTCTTAGCTCAGTTGATAGAT
* *
114235 TCGGATCGT-AAAAATGGTGGGGTTTCTTAATAGATTGCTAGATTTGTGTACAATATGTGTAAGC
66 TCGGATCGTAAAAAATGGTGGGTTTTCTTAATAGATTGCTAGAATTGTGTACAATATGTGTAAGC
* **
114299 CTAACCCTTATGATCAATAGTCGATCGAGTCTTAGCTCAGTTGATAGATTCGGATTATAAAAAAT
131 CTAACCCTTCTGATCAATAGTCGATCGAGTCTTAGCTCAGTTGATAGATTCGGATCGT-AAAAAT
114364 GGTGGGTTTTCTTAATAGATTGCTAGAATTGTG
195 GGTGGGTTTTCTTAATAGATTGCTAGAATTGTG
* *
114397 TACAACATGTGTAAGCCTAACTCTTCTGATCAATAGTCGATCGAGTCTTAGCTCAGTTGATAGAT
1 TACAATATGTGTAAGCCTAACCCTTCTGATCAATAGTCGATCGAGTCTTAGCTCAGTTGATAGAT
* * * ** *
114462 TCGGGTCGT-AAAAATGGT-GGTTTTTTTAATATATTGCTAGAACTAATGTACAACATGTGTAAG
66 TCGGATCGTAAAAAATGGTGGGTTTTCTTAATAGATTGCTAGAA-TTGTGTACAATATGTGTAAG
*
114525 CCTAACCCTTCTGATCAATAGTCAATCGAGTCTTAGCTCAGTTGATAGATTCGGATCGTAAAAAT
130 CCTAACCCTTCTGATCAATAGTCGATCGAGTCTTAGCTCAGTTGATAGATTCGGATCGTAAAAAT
* * *
114590 GGTGGGGGTTT-TTAATAGATTGCTAGAACTGTC
195 GGT-GGGTTTTCTTAATAGATTGCTAGAATTGTG
114623 TACAATATGTGTAAGCCTAACCCTTCTGATCAATAGTCGATCGAGTCTTAGCTCAGTTGATAGAT
1 TACAATATGTGTAAGCCTAACCCTTCTGATCAATAGTCGATCGAGTCTTAGCTCAGTTGATAGAT
** * *
114688 TCGGATTATAAAAAATGGTGGGTTTTCTTAATAGATTGCTAGAATTGTGTAGAACATGTGTAAGC
66 TCGGATCGTAAAAAATGGTGGGTTTTCTTAATAGATTGCTAGAATTGTGTACAATATGTGTAAGC
*
114753 CTAACTCTTCTGATCAATAGTCGATCGAGTCTTAGCTCAGTTGATAGATTCAGG-TCGTAAAAAT
131 CTAACCCTTCTGATCAATAGTCGATCGAGTCTTAGCTCAGTTGATAGATTC-GGATCGTAAAAAT
* * **
114817 GGT-GGTTTTTTTAATATATTGCTAGAAATAATG
195 GGTGGGTTTTCTTAATAGATTGCTAG-AATTGTG
*
114850 TACAATATGTGTAAGCCTAACCCTTCTGATCAATAGTCAATC-ATGTCTTAGCTCAGTTGATAGA
1 TACAATATGTGTAAGCCTAACCCTTCTGATCAATAGTCGATCGA-GTCTTAGCTCAGTTGATAGA
* *
114914 TTCGGATCGTAAAAAATGGTGGGGTTTCTTAATAGATTGCTAGAATTGTGTACAATATGTGTAAA
65 TTCGGATCGTAAAAAATGGTGGGTTTTCTTAATAGATTGCTAGAATTGTGTACAATATGTGTAAG
*
114979 CCTAACCCTTCTGATCAATAGTCGATTGAGTCTTAGCTCAGTTGATAGATTCGGATCGTAAAAAT
130 CCTAACCCTTCTGATCAATAGTCGATCGAGTCTTAGCTCAGTTGATAGATTCGGATCGTAAAAAT
* * * *
115044 GGTGTGTTTTTTGTAATAGATAGCTAGAACTGTG
195 GGTGGGTTTTCT-TAATAGATTGCTAGAATTGTG
* * * * * * * * *
115078 TACAATATGTGTAAGCCTAACCATACCGGTCAATAATCGATTGAGTCTTA-ATTAATTGATACG-
1 TACAATATGTGTAAGCCTAACCCTTCTGATCAATAGTCGATCGAGTCTTAGCTCAGTTGATA-GA
* * * * * *
115141 TTCGAATTGT-AAAAATGGTGGGTTTCTTTTACT-GATTGCTAGAACTGTG--C-ACA---GTAA
65 TTCGGATCGTAAAAAATGGTGGGTTT-TCTTAATAGATTGCTAGAATTGTGTACAATATGTGTAA
* * * * * ** * * *
115198 GCCTAACCCTACTGGTTAATAATCGATTGAGTCTTAATTCAATTGATACG-TTCGAATTGTAAAA
129 GCCTAACCCTTCTGATCAATAGTCGATCGAGTCTTAGCTCAGTTGATA-GATTCGGATCGTAAAA
* * * *
115262 ATGGAGAGTTTCCTTAACT-GATTGCTAGAAATGTG
193 ATGGTGGGTTTTCTTAA-TAGATTGCTAGAATTGTG
*
115297 TAC---ATGTGTGAGCCTAACCCT
1 TACAATATGTGTAAGCCTAACCCT
115318 ACAGGTGGAA
Statistics
Matches: 1029, Mismatches: 103, Indels: 45
0.87 0.09 0.04
Matches are distributed among these distances:
216 16 0.02
219 20 0.02
220 67 0.07
221 1 0.00
223 2 0.00
224 1 0.00
225 5 0.00
226 164 0.16
227 455 0.44
228 218 0.21
229 80 0.08
ACGTcount: A:0.30, C:0.15, G:0.21, T:0.34
Consensus pattern (227 bp):
TACAATATGTGTAAGCCTAACCCTTCTGATCAATAGTCGATCGAGTCTTAGCTCAGTTGATAGAT
TCGGATCGTAAAAAATGGTGGGTTTTCTTAATAGATTGCTAGAATTGTGTACAATATGTGTAAGC
CTAACCCTTCTGATCAATAGTCGATCGAGTCTTAGCTCAGTTGATAGATTCGGATCGTAAAAATG
GTGGGTTTTCTTAATAGATTGCTAGAATTGTG
Found at i:114655 original size:340 final size:340
Alignment explanation
Indices: 113941--115098 Score: 1980
Period size: 340 Copynumber: 3.4 Consensus size: 340
113931 TTGCAGATGT
113941 TACAATATGTGTAAGCCTAACCCTTCTGATCAATAGTCGATCGAGTCTTAGCTCAGTTGATAGAT
1 TACAATATGTGTAAGCCTAACCCTTCTGATCAATAGTCGATCGAGTCTTAGCTCAGTTGATAGAT
* * * *
114006 TCGAATAATAAAAAATGGTGGGTTTTCTTAATAGATTGCTAGAATTGTGTAGAATATGTGTAAGC
66 TCGGATTATAAAAAATGGTGGGTTTTCTTAATAGATTGCTAGAATTGTGTACAACATGTGTAAGC
* * **
114071 CTAACTCTTCTGATCAATAGTCGATCGAGTCTTAGCTAAGTTGATAGATTCGGATTATAAAAAAT
131 CTAACTCTTCTGATCAATAGTCGATCGAGTCTTAGCTCAGTTGATAGATTCGGGTCGT-AAAAAT
* * * *
114136 GGTGGATTTTCTTAATAGATTGCTAGAACTAATGTAGAACATGTGTAAGCCTAACCCTTTTGATC
195 GGTGG-TTTTTTTAATATATTGCTAGAACTAATGTACAACATGTGTAAGCCTAACCCTTCTGATC
114201 AATAGTCAATCGAGTCTTAGCTCAGTTGATAGATTCGGATCGTAAAAATGGTGGGGTTTCTTAAT
259 AATAGTCAATCGAGTCTTAGCTCAGTTGATAGATTCGGATCGTAAAAATGGTGGGGTTTCTTAAT
*
114266 AGATTGCTAGATTTGTG
324 AGATTGCTAGAATTGTG
*
114283 TACAATATGTGTAAGCCTAACCCTTATGATCAATAGTCGATCGAGTCTTAGCTCAGTTGATAGAT
1 TACAATATGTGTAAGCCTAACCCTTCTGATCAATAGTCGATCGAGTCTTAGCTCAGTTGATAGAT
114348 TCGGATTATAAAAAATGGTGGGTTTTCTTAATAGATTGCTAGAATTGTGTACAACATGTGTAAGC
66 TCGGATTATAAAAAATGGTGGGTTTTCTTAATAGATTGCTAGAATTGTGTACAACATGTGTAAGC
114413 CTAACTCTTCTGATCAATAGTCGATCGAGTCTTAGCTCAGTTGATAGATTCGGGTCGTAAAAATG
131 CTAACTCTTCTGATCAATAGTCGATCGAGTCTTAGCTCAGTTGATAGATTCGGGTCGTAAAAATG
114478 GTGGTTTTTTTAATATATTGCTAGAACTAATGTACAACATGTGTAAGCCTAACCCTTCTGATCAA
196 GTGGTTTTTTTAATATATTGCTAGAACTAATGTACAACATGTGTAAGCCTAACCCTTCTGATCAA
114543 TAGTCAATCGAGTCTTAGCTCAGTTGATAGATTCGGATCGTAAAAATGGTGGGGGTTT-TTAATA
261 TAGTCAATCGAGTCTTAGCTCAGTTGATAGATTCGGATCGTAAAAATGGT-GGGGTTTCTTAATA
* *
114607 GATTGCTAGAACTGTC
325 GATTGCTAGAATTGTG
114623 TACAATATGTGTAAGCCTAACCCTTCTGATCAATAGTCGATCGAGTCTTAGCTCAGTTGATAGAT
1 TACAATATGTGTAAGCCTAACCCTTCTGATCAATAGTCGATCGAGTCTTAGCTCAGTTGATAGAT
*
114688 TCGGATTATAAAAAATGGTGGGTTTTCTTAATAGATTGCTAGAATTGTGTAGAACATGTGTAAGC
66 TCGGATTATAAAAAATGGTGGGTTTTCTTAATAGATTGCTAGAATTGTGTACAACATGTGTAAGC
*
114753 CTAACTCTTCTGATCAATAGTCGATCGAGTCTTAGCTCAGTTGATAGATTCAGGTCGTAAAAATG
131 CTAACTCTTCTGATCAATAGTCGATCGAGTCTTAGCTCAGTTGATAGATTCGGGTCGTAAAAATG
* *
114818 GTGGTTTTTTTAATATATTGCTAGAAATAATGTACAATATGTGTAAGCCTAACCCTTCTGATCAA
196 GTGGTTTTTTTAATATATTGCTAGAACTAATGTACAACATGTGTAAGCCTAACCCTTCTGATCAA
114883 TAGTCAATC-ATGTCTTAGCTCAGTTGATAGATTCGGATCGTAAAAAATGGTGGGGTTTCTTAAT
261 TAGTCAATCGA-GTCTTAGCTCAGTTGATAGATTCGGATCGT-AAAAATGGTGGGGTTTCTTAAT
114947 AGATTGCTAGAATTGTG
324 AGATTGCTAGAATTGTG
* *
114964 TACAATATGTGTAAACCTAACCCTTCTGATCAATAGTCGATTGAGTCTTAGCTCAGTTGATAGAT
1 TACAATATGTGTAAGCCTAACCCTTCTGATCAATAGTCGATCGAGTCTTAGCTCAGTTGATAGAT
** * * * * *
115029 TCGGATCGT-AAAAATGGTGTGTTTTTTGTAATAGATAGCTAGAACTGTGTACAATATGTGTAAG
66 TCGGATTATAAAAAATGGTGGGTTTTCT-TAATAGATTGCTAGAATTGTGTACAACATGTGTAAG
115093 CCTAAC
130 CCTAAC
115099 CATACCGGTC
Statistics
Matches: 778, Mismatches: 33, Indels: 11
0.95 0.04 0.01
Matches are distributed among these distances:
339 1 0.00
340 443 0.57
341 155 0.20
342 179 0.23
ACGTcount: A:0.30, C:0.14, G:0.21, T:0.34
Consensus pattern (340 bp):
TACAATATGTGTAAGCCTAACCCTTCTGATCAATAGTCGATCGAGTCTTAGCTCAGTTGATAGAT
TCGGATTATAAAAAATGGTGGGTTTTCTTAATAGATTGCTAGAATTGTGTACAACATGTGTAAGC
CTAACTCTTCTGATCAATAGTCGATCGAGTCTTAGCTCAGTTGATAGATTCGGGTCGTAAAAATG
GTGGTTTTTTTAATATATTGCTAGAACTAATGTACAACATGTGTAAGCCTAACCCTTCTGATCAA
TAGTCAATCGAGTCTTAGCTCAGTTGATAGATTCGGATCGTAAAAATGGTGGGGTTTCTTAATAG
ATTGCTAGAATTGTG
Found at i:115155 original size:340 final size:340
Alignment explanation
Indices: 113941--115317 Score: 1943
Period size: 340 Copynumber: 4.1 Consensus size: 340
113931 TTGCAGATGT
113941 TACAATATGTGTAAGCCTAACCCTTCTGATCAATAGTCGATCGAGTCTTAGCTCAGTTGATAGAT
1 TACAATATGTGTAAGCCTAACCCTTCTGATCAATAGTCGATCGAGTCTTAGCTCAGTTGATAGAT
* * * *
114006 TCGAATAATAAAAAATGGTGGGTTTTCTTAATAGATTGCTAGAATTGTGTAGAATATGTGTAAGC
66 TCGGATTATAAAAAATGGTGGGTTTTCTTAATAGATTGCTAGAATTGTGTACAACATGTGTAAGC
* **
114071 CTAACTCTTCTGATCAATAGTCGATCGAGTCTTAGCT-AAGTTGATAGATTCGGATTATAAAAAA
131 CTAACTCTTCTGATCAATAGTCGATCGAGTCTTAGCTCAA-TTGATAGATTCGAATCGT-AAAAA
* * *
114135 TGGTGGATTTTCTTAATAGATTGCTAGAACTAATGTAGAACATGTGTAAGCCTAACCCTTTTGAT
194 TGGTGG-TTTTTTTAATAGATTGCTAGAACTAATGTACAACATGTGTAAGCCTAACCCTTCTGAT
114200 CAATAGTCAATCGAGTCTTAGCTCAGTTGATAGATTCGGATCGTAAAAATGGTGGGGTTTCTTAA
258 CAATAGTCAATCGAGTCTTAGCTCAGTTGATAGATTCGGATCGTAAAAATGGTGGGGTTTCTTAA
*
114265 TAGATTGCTAGATTTGTG
323 TAGATTGCTAGAATTGTG
*
114283 TACAATATGTGTAAGCCTAACCCTTATGATCAATAGTCGATCGAGTCTTAGCTCAGTTGATAGAT
1 TACAATATGTGTAAGCCTAACCCTTCTGATCAATAGTCGATCGAGTCTTAGCTCAGTTGATAGAT
114348 TCGGATTATAAAAAATGGTGGGTTTTCTTAATAGATTGCTAGAATTGTGTACAACATGTGTAAGC
66 TCGGATTATAAAAAATGGTGGGTTTTCTTAATAGATTGCTAGAATTGTGTACAACATGTGTAAGC
* **
114413 CTAACTCTTCTGATCAATAGTCGATCGAGTCTTAGCTCAGTTGATAGATTCGGGTCGTAAAAATG
131 CTAACTCTTCTGATCAATAGTCGATCGAGTCTTAGCTCAATTGATAGATTCGAATCGTAAAAATG
*
114478 GTGGTTTTTTTAATATATTGCTAGAACTAATGTACAACATGTGTAAGCCTAACCCTTCTGATCAA
196 GTGGTTTTTTTAATAGATTGCTAGAACTAATGTACAACATGTGTAAGCCTAACCCTTCTGATCAA
114543 TAGTCAATCGAGTCTTAGCTCAGTTGATAGATTCGGATCGTAAAAATGGTGGGGGTTT-TTAATA
261 TAGTCAATCGAGTCTTAGCTCAGTTGATAGATTCGGATCGTAAAAATGGT-GGGGTTTCTTAATA
* *
114607 GATTGCTAGAACTGTC
325 GATTGCTAGAATTGTG
114623 TACAATATGTGTAAGCCTAACCCTTCTGATCAATAGTCGATCGAGTCTTAGCTCAGTTGATAGAT
1 TACAATATGTGTAAGCCTAACCCTTCTGATCAATAGTCGATCGAGTCTTAGCTCAGTTGATAGAT
*
114688 TCGGATTATAAAAAATGGTGGGTTTTCTTAATAGATTGCTAGAATTGTGTAGAACATGTGTAAGC
66 TCGGATTATAAAAAATGGTGGGTTTTCTTAATAGATTGCTAGAATTGTGTACAACATGTGTAAGC
* *
114753 CTAACTCTTCTGATCAATAGTCGATCGAGTCTTAGCTCAGTTGATAGATTC-AGGTCGTAAAAAT
131 CTAACTCTTCTGATCAATAGTCGATCGAGTCTTAGCTCAATTGATAGATTCGA-ATCGTAAAAAT
* * *
114817 GGTGGTTTTTTTAATATATTGCTAGAAATAATGTACAATATGTGTAAGCCTAACCCTTCTGATCA
195 GGTGGTTTTTTTAATAGATTGCTAGAACTAATGTACAACATGTGTAAGCCTAACCCTTCTGATCA
114882 ATAGTCAATC-ATGTCTTAGCTCAGTTGATAGATTCGGATCGTAAAAAATGGTGGGGTTTCTTAA
260 ATAGTCAATCGA-GTCTTAGCTCAGTTGATAGATTCGGATCGT-AAAAATGGTGGGGTTTCTTAA
114946 TAGATTGCTAGAATTGTG
323 TAGATTGCTAGAATTGTG
* *
114964 TACAATATGTGTAAACCTAACCCTTCTGATCAATAGTCGATTGAGTCTTAGCTCAGTTGATAGAT
1 TACAATATGTGTAAGCCTAACCCTTCTGATCAATAGTCGATCGAGTCTTAGCTCAGTTGATAGAT
** * * * * *
115029 TCGGATCGT-AAAAATGGTGTGTTTTTTGTAATAGATAGCTAGAACTGTGTACAATATGTGTAAG
66 TCGGATTATAAAAAATGGTGGGTTTTCT-TAATAGATTGCTAGAATTGTGTACAACATGTGTAAG
* * * * * * * *
115093 CCTAAC-CATACCGGTCAATAATCGATTGAGTCTTA-ATTAATTGATACG-TTCGAATTGTAAAA
130 CCTAACTC-TTCTGATCAATAGTCGATCGAGTCTTAGCTCAATTGATA-GATTCGAATCGTAAAA
* * *
115155 ATGGTGGGTTTCTTTTACT-GATTGCTAGAAC---TGTGC-ACA---GTAAGCCTAACCCTACTG
193 ATGGT-GGTTT-TTTTAATAGATTGCTAGAACTAATGTACAACATGTGTAAGCCTAACCCTTCTG
* * * * * ** * * * * *
115212 GTTAATAATCGATTGAGTCTTAATTCAATTGATACG-TTCGAATTGTAAAAATGG-AGAGTTTCC
256 ATCAATAGTCAATCGAGTCTTAGCTCAGTTGATA-GATTCGGATCGTAAAAATGGTGGGGTTT-C
*
115275 TTAACT-GATTGCTAGAAATGTG
319 TTAA-TAGATTGCTAGAATTGTG
*
115297 TAC---ATGTGTGAGCCTAACCCT
1 TACAATATGTGTAAGCCTAACCCT
115318 ACAGGTGGAA
Statistics
Matches: 955, Mismatches: 64, Indels: 44
0.90 0.06 0.04
Matches are distributed among these distances:
330 16 0.02
332 5 0.01
333 31 0.03
334 50 0.05
335 2 0.00
337 2 0.00
338 4 0.00
339 1 0.00
340 466 0.49
341 194 0.20
342 183 0.19
343 1 0.00
ACGTcount: A:0.30, C:0.15, G:0.21, T:0.34
Consensus pattern (340 bp):
TACAATATGTGTAAGCCTAACCCTTCTGATCAATAGTCGATCGAGTCTTAGCTCAGTTGATAGAT
TCGGATTATAAAAAATGGTGGGTTTTCTTAATAGATTGCTAGAATTGTGTACAACATGTGTAAGC
CTAACTCTTCTGATCAATAGTCGATCGAGTCTTAGCTCAATTGATAGATTCGAATCGTAAAAATG
GTGGTTTTTTTAATAGATTGCTAGAACTAATGTACAACATGTGTAAGCCTAACCCTTCTGATCAA
TAGTCAATCGAGTCTTAGCTCAGTTGATAGATTCGGATCGTAAAAATGGTGGGGTTTCTTAATAG
ATTGCTAGAATTGTG
Found at i:115220 original size:106 final size:108
Alignment explanation
Indices: 115087--115319 Score: 344
Period size: 107 Copynumber: 2.2 Consensus size: 108
115077 GTACAATATG
*
115087 TGTAAGCCTAACCATACCGGTCAATAATCGATTGAGTCTTAATT-AATTGATACGTTCGAATTGT
1 TGTAAGCCTAACCCTACCGGTCAATAATCGATTGAGTCTTAATTCAATTGATACGTTCGAATTGT
* * * * *
115151 AAAAATGGTGGGTTTCTTTTACTGATTGCTAGAACTGTGCACA
66 AAAAATGGAGAGTTTCCTTAACTGATTGCTAGAAATGTGCACA
* *
115194 -GTAAGCCTAACCCTACTGGTTAATAATCGATTGAGTCTTAATTCAATTGATACGTTCGAATTGT
1 TGTAAGCCTAACCCTACCGGTCAATAATCGATTGAGTCTTAATTCAATTGATACGTTCGAATTGT
*
115258 AAAAATGGAGAGTTTCCTTAACTGATTGCTAGAAATGTGTACA
66 AAAAATGGAGAGTTTCCTTAACTGATTGCTAGAAATGTGCACA
*
115301 TGTGTGAGCCTAACCCTAC
1 --TGTAAGCCTAACCCTAC
115320 AGGTGGAATG
Statistics
Matches: 112, Mismatches: 10, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
106 40 0.36
107 57 0.51
110 15 0.13
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.33
Consensus pattern (108 bp):
TGTAAGCCTAACCCTACCGGTCAATAATCGATTGAGTCTTAATTCAATTGATACGTTCGAATTGT
AAAAATGGAGAGTTTCCTTAACTGATTGCTAGAAATGTGCACA
Found at i:126650 original size:29 final size:30
Alignment explanation
Indices: 126598--126669 Score: 112
Period size: 29 Copynumber: 2.5 Consensus size: 30
126588 ATTTTAAAAT
* *
126598 TATATTTTATTTTTGTTTTAACTTATTAAA
1 TATATTTTATTTTTGTATAAACTTATTAAA
126628 TATATTTTATTTTT-TATAAACTTATTAAA
1 TATATTTTATTTTTGTATAAACTTATTAAA
126657 TAT-TTTTATTTTT
1 TATATTTTATTTTT
126670 ATTTTAATTA
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
28 10 0.25
29 16 0.40
30 14 0.35
ACGTcount: A:0.31, C:0.03, G:0.01, T:0.65
Consensus pattern (30 bp):
TATATTTTATTTTTGTATAAACTTATTAAA
Found at i:126693 original size:29 final size:29
Alignment explanation
Indices: 126593--126722 Score: 111
Period size: 29 Copynumber: 4.4 Consensus size: 29
126583 CTTAAATTTT
*
126593 AAAATTATATTTTATTTTTGTTTTAACTTA
1 AAAAATATATTTTATTTTT-TTTTAACTTA
** * *
126623 TTAAATATATTTTATTTTTTATAAACTTA
1 AAAAATATATTTTATTTTTTTTTAACTTA
**
126652 TTAAATAT-TTTTATTTTTATTTTAA-TTA
1 AAAAATATATTTTATTTTT-TTTTAACTTA
* * ** *
126680 AAAAATATATTTTATCTTATCATCACTTA
1 AAAAATATATTTTATTTTTTTTTAACTTA
126709 AAAATATATATTTT
1 AAAA-ATATATTTT
126723 TAAATATATT
Statistics
Matches: 82, Mismatches: 14, Indels: 8
0.79 0.13 0.08
Matches are distributed among these distances:
28 22 0.27
29 35 0.43
30 25 0.30
ACGTcount: A:0.38, C:0.05, G:0.01, T:0.57
Consensus pattern (29 bp):
AAAAATATATTTTATTTTTTTTTAACTTA
Found at i:126762 original size:29 final size:29
Alignment explanation
Indices: 126724--126793 Score: 95
Period size: 29 Copynumber: 2.4 Consensus size: 29
126714 ATATATTTTT
* **
126724 AAATATATTTTATTCTTATCTTCACTTAA
1 AAATATATTTTATTCTTATCTTAAAATAA
* *
126753 AAATATATTTTATTTTTATTTTAAAATAA
1 AAATATATTTTATTCTTATCTTAAAATAA
126782 AAATATATTTTA
1 AAATATATTTTA
126794 CCATTATCTA
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 36 1.00
ACGTcount: A:0.41, C:0.06, G:0.00, T:0.53
Consensus pattern (29 bp):
AAATATATTTTATTCTTATCTTAAAATAA
Found at i:127057 original size:31 final size:32
Alignment explanation
Indices: 127022--127105 Score: 79
Period size: 31 Copynumber: 2.7 Consensus size: 32
127012 TTAACTGATG
127022 ATAAAGACAAAATATATATTTTTAT-AG-TAAA
1 ATAAA-ACAAAATATATATTTTTATAAGTTAAA
** *
127053 ATAAAATTAAA-ATATA-TTTAATAAGTTAAA
1 ATAAAACAAAATATATATTTTTATAAGTTAAA
*
127083 ACAAAAACAAAATATA-ATTTTTA
1 A-TAAAACAAAATATATATTTTTA
127106 AAATTTAAGA
Statistics
Matches: 41, Mismatches: 7, Indels: 9
0.72 0.12 0.16
Matches are distributed among these distances:
28 5 0.12
29 7 0.17
30 9 0.22
31 13 0.32
32 7 0.17
ACGTcount: A:0.58, C:0.04, G:0.04, T:0.35
Consensus pattern (32 bp):
ATAAAACAAAATATATATTTTTATAAGTTAAA
Found at i:136585 original size:21 final size:21
Alignment explanation
Indices: 136537--136585 Score: 55
Period size: 24 Copynumber: 2.2 Consensus size: 21
136527 ATAACATGGA
*
136537 TGATCCTACTAGTTGGAATCTGC
1 TGATCCTACTAGTTGGAA--TAC
136560 TGATCCTAACTAGTTGGAA-AC
1 TGATCCT-ACTAGTTGGAATAC
136581 TGATC
1 TGATC
136586 ATTTTTGTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
21 6 0.25
23 7 0.29
24 11 0.46
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.33
Consensus pattern (21 bp):
TGATCCTACTAGTTGGAATAC
Done.