Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A08
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: 119882356
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2655529 characters in sequence are not A, C, G, or T
File 348 of 362
Found at i:115558624 original size:24 final size:23
Alignment explanation
Indices: 115558587--115558631 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 23
115558577 GTTCAACTTT
115558587 AACTTTTATTCAAAA-ATATTTG
1 AACTTTTATTCAAAACATATTTG
115558609 AACTTGTTATATCAAAACATATT
1 AACTT-TTAT-TCAAAACATATT
115558632 ATCAAATAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 5 0.25
23 4 0.20
24 6 0.30
25 5 0.25
ACGTcount: A:0.42, C:0.11, G:0.04, T:0.42
Consensus pattern (23 bp):
AACTTTTATTCAAAACATATTTG
Found at i:115564200 original size:27 final size:27
Alignment explanation
Indices: 115564160--115564318 Score: 166
Period size: 27 Copynumber: 5.9 Consensus size: 27
115564150 AGGAAGTGTC
*
115564160 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
*
115564187 CTGGTGACTCTGCCAC-ATATATCTG-T
1 CTGGTGGCTCTGCCACAAT-TATCTGAT
*
115564213 CCTGGTGGCTATGCCACAATTATCTGAT
1 -CTGGTGGCTCTGCCACAATTATCTGAT
* *
115564241 CTGATGGCTCTGCCAC-ATATATCTGTT
1 CTGGTGGCTCTGCCACAAT-TATCTGAT
*
115564268 CTAGTGGCTCTGCCACAA-TATCTGTAT
1 CTGGTGGCTCTGCCACAATTATCTG-AT
* * *
115564295 CTGGTGACTCCGTCACAA-TATCTG
1 CTGGTGGCTCTGCCACAATTATCTG
115564319 GCAGCCTCGC
Statistics
Matches: 111, Mismatches: 14, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
26 11 0.10
27 96 0.86
28 4 0.04
ACGTcount: A:0.21, C:0.26, G:0.20, T:0.33
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGAT
Found at i:115564238 original size:54 final size:54
Alignment explanation
Indices: 115564156--115564318 Score: 240
Period size: 54 Copynumber: 3.0 Consensus size: 54
115564146 ATGGAGGAAG
115564156 TGTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATC
1 TGTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATC
* *
115564210 TGTCCTGGTGGCTATGCCACAATTATCTGATCTGATGGCTCTGCCACATATATC
1 TGTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATC
* * * * *
115564264 TGTTCTAGTGGCTCTGCCACAA-TATCTGTATCTGGTGACTCCGTCACA-ATATC
1 TGTCCTGGTGGCTATGCCACAATTATCTG-ATCTGGTGACTCTGCCACATATATC
115564317 TG
1 TG
115564319 GCAGCCTCGC
Statistics
Matches: 99, Mismatches: 9, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
53 13 0.13
54 86 0.87
ACGTcount: A:0.20, C:0.26, G:0.20, T:0.34
Consensus pattern (54 bp):
TGTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATC
Found at i:115564312 original size:81 final size:80
Alignment explanation
Indices: 115564164--115564318 Score: 188
Period size: 81 Copynumber: 1.9 Consensus size: 80
115564154 AGTGTCCTGG
* * *
115564164 TGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTGTCCTGGTGGCTATGCCA
1 TGGCTATGCCACAATTATCTGATCTAGTGACTCTGCCACATATATCTGTCCTGGTGACTACGCCA
115564229 CAATTATCTGATCTGA
66 CAA-TATCTGATCTGA
* * * * * *
115564245 TGGCTCTGCCAC-ATATATCTGTTCTAGTGGCTCTGCCACA-ATATCTGTATCTGGTGACTCCGT
1 TGGCTATGCCACAAT-TATCTGATCTAGTGACTCTGCCACATATATCTGT-CCTGGTGACTACGC
115564308 CACAATATCTG
64 CACAATATCTG
115564319 GCAGCCTCGC
Statistics
Matches: 63, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
80 16 0.25
81 47 0.75
ACGTcount: A:0.21, C:0.26, G:0.19, T:0.34
Consensus pattern (80 bp):
TGGCTATGCCACAATTATCTGATCTAGTGACTCTGCCACATATATCTGTCCTGGTGACTACGCCA
CAATATCTGATCTGA
Found at i:115566091 original size:40 final size:40
Alignment explanation
Indices: 115566047--115566269 Score: 353
Period size: 40 Copynumber: 5.6 Consensus size: 40
115566037 GCTACTCGCT
* *
115566047 CAAATGCCTTCGGGACTTAGCCCGG-ATATAGT-AGTTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTCA-CTAGCA
* *
115566087 CAAATGCCTTCGGGACTTAGCCCGG-ATATAGTAACTTGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTCACTAGCA
115566127 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTCACTAGCA
115566167 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTCACTAGCA
*
115566207 CAAATGCCTTCGGGACTTAGCCCAGAATTAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTCACTAGCA
115566247 CAAATGCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGACTTAGCCC
115566270 CGTTATCATC
Statistics
Matches: 176, Mismatches: 5, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
40 173 0.98
41 3 0.02
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.23
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTCACTAGCA
Found at i:115568909 original size:14 final size:16
Alignment explanation
Indices: 115568883--115568916 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
115568873 AAATAAAAAT
115568883 ATAAAATATGACAA-A
1 ATAAAATATGACAATA
115568898 ATAAAA-ATGACAATA
1 ATAAAATATGACAATA
115568913 ATAA
1 ATAA
115568917 TGAAAACAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 7 0.39
15 11 0.61
ACGTcount: A:0.68, C:0.06, G:0.06, T:0.21
Consensus pattern (16 bp):
ATAAAATATGACAATA
Found at i:115568917 original size:3 final size:3
Alignment explanation
Indices: 115568909--115569129 Score: 60
Period size: 3 Copynumber: 73.7 Consensus size: 3
115568899 TAAAAATGAC
* * ** * *
115568909 AAT AAT AAT GAA- AAC AAC AAT AAT AAT AAT GCT AAT AGT AGT AAT
1 AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * ***
115568954 AGT AAT AGT AAA AAGT AAT AAT AAT AAT AAT AGT AAT GGC AAT AAT
1 AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* ** * * *
115569000 AGT AAT AAT -AT GCT AAAT AAT AAT AAG AA- AA- AAC AAT AGT AAT
1 AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * *
115569043 AGT AAT TAC AA- AAGT GAT AAT AAT AA- AAT AGGAT GAT AAT AAT AAT
1 AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT A--AT AAT AAT AAT AAT
* * * * * *
115569089 ACT AAT GAA- ACT AAA AAT AGT AGT AAT AGT AAT AAT AAT AA
1 AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
115569130 GACCGTAATA
Statistics
Matches: 156, Mismatches: 49, Indels: 26
0.68 0.21 0.11
Matches are distributed among these distances:
2 13 0.08
3 133 0.85
4 8 0.05
5 2 0.01
ACGTcount: A:0.58, C:0.04, G:0.11, T:0.27
Consensus pattern (3 bp):
AAT
Found at i:115570413 original size:21 final size:21
Alignment explanation
Indices: 115570387--115570427 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
115570377 TTTGTTAGGT
115570387 TTTTTTCCTGAGAGTGACCCC
1 TTTTTTCCTGAGAGTGACCCC
**
115570408 TTTTTTGGTGAGAGTGACCC
1 TTTTTTCCTGAGAGTGACCC
115570428 TGAGAGTGAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.15, C:0.22, G:0.24, T:0.39
Consensus pattern (21 bp):
TTTTTTCCTGAGAGTGACCCC
Found at i:115570433 original size:12 final size:12
Alignment explanation
Indices: 115570416--115570440 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
115570406 CCTTTTTTGG
115570416 TGAGAGTGACCC
1 TGAGAGTGACCC
115570428 TGAGAGTGACCC
1 TGAGAGTGACCC
115570440 T
1 T
115570441 TTTTTACACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.24, G:0.32, T:0.20
Consensus pattern (12 bp):
TGAGAGTGACCC
Found at i:115571165 original size:16 final size:15
Alignment explanation
Indices: 115571128--115571159 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
115571118 GTGCTCTCAT
115571128 TTTTTC-CTTTTTTC
1 TTTTTCTCTTTTTTC
115571142 TTTTTCTCTTTTTT-
1 TTTTTCTCTTTTTTC
115571156 TTTT
1 TTTT
115571160 GGTCTCGAGG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 10 0.59
15 7 0.41
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (15 bp):
TTTTTCTCTTTTTTC
Found at i:115571739 original size:20 final size:21
Alignment explanation
Indices: 115571714--115571763 Score: 61
Period size: 20 Copynumber: 2.4 Consensus size: 21
115571704 TTCCACGATC
115571714 CTTTTTTGTT-TTTTTTT-TT
1 CTTTTTTGTTGTTTTTTTCTT
115571733 ACTTTTTT-TTGTTTTTTTCTT
1 -CTTTTTTGTTGTTTTTTTCTT
115571754 CTCTTTTTGT
1 CT-TTTTTGT
115571764 GTGTGTGTGT
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
19 2 0.08
20 16 0.62
21 7 0.27
22 1 0.04
ACGTcount: A:0.02, C:0.10, G:0.06, T:0.82
Consensus pattern (21 bp):
CTTTTTTGTTGTTTTTTTCTT
Found at i:115571760 original size:19 final size:17
Alignment explanation
Indices: 115571722--115571763 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 17
115571712 TCCTTTTTTG
115571722 TTTTT-TTTTTTACTTT
1 TTTTTGTTTTTTACTTT
*
115571738 TTTTTGTTTTTTTCTTCT
1 TTTTTGTTTTTTACTT-T
115571756 CTTTTTGT
1 -TTTTTGT
115571764 GTGTGTGTGT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
16 5 0.23
17 9 0.41
18 1 0.05
19 7 0.32
ACGTcount: A:0.02, C:0.10, G:0.05, T:0.83
Consensus pattern (17 bp):
TTTTTGTTTTTTACTTT
Found at i:115571760 original size:21 final size:22
Alignment explanation
Indices: 115571715--115571761 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 22
115571705 TCCACGATCC
*
115571715 TTTTTTGTTTTTTTTTTTACTT
1 TTTTTTGTTTTTTTTTCTACTT
115571737 TTTTTTGTTTTTTTCTTCT-CTT
1 TTTTTTGTTTTTTT-TTCTACTT
115571759 TTT
1 TTT
115571762 GTGTGTGTGT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 20 0.87
23 3 0.13
ACGTcount: A:0.02, C:0.09, G:0.04, T:0.85
Consensus pattern (22 bp):
TTTTTTGTTTTTTTTTCTACTT
Found at i:115575446 original size:2 final size:2
Alignment explanation
Indices: 115575439--115575475 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
115575429 TGAAAATAAA
115575439 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
115575476 AGGCTATAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:115575619 original size:14 final size:16
Alignment explanation
Indices: 115575593--115575626 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
115575583 AAATAAAAAT
115575593 ATAAAATATGACAA-A
1 ATAAAATATGACAATA
115575608 ATAAAA-ATGACAATA
1 ATAAAATATGACAATA
115575623 ATAA
1 ATAA
115575627 TGAAAATAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 7 0.39
15 11 0.61
ACGTcount: A:0.68, C:0.06, G:0.06, T:0.21
Consensus pattern (16 bp):
ATAAAATATGACAATA
Found at i:115575675 original size:21 final size:21
Alignment explanation
Indices: 115575619--115575714 Score: 95
Period size: 21 Copynumber: 4.3 Consensus size: 21
115575609 TAAAAATGAC
115575619 AATAATAATGAA-AATAGTAAT
1 AATAATAAT-AATAATAGTAAT
*
115575640 AATAATAATACTAATAGTAAT
1 AATAATAATAATAATAGTAAT
*
115575661 AATAATAATAATAATAATAAT
1 AATAATAATAATAATAGTAAT
*
115575682 GGCAATAATAGTAATAATATGCTAAAT
1 ---AATAATAATAATAATA-G-T-AAT
115575709 AATAAT
1 AATAAT
115575715 GAGAAAAAAC
Statistics
Matches: 63, Mismatches: 5, Indels: 11
0.80 0.06 0.14
Matches are distributed among these distances:
20 1 0.02
21 37 0.59
24 21 0.33
26 1 0.02
27 3 0.05
ACGTcount: A:0.58, C:0.03, G:0.07, T:0.31
Consensus pattern (21 bp):
AATAATAATAATAATAGTAAT
Found at i:115575714 original size:3 final size:3
Alignment explanation
Indices: 115575619--115575700 Score: 85
Period size: 3 Copynumber: 27.3 Consensus size: 3
115575609 TAAAAATGAC
* * *
115575619 AAT AAT AAT GAA- AAT AGT AAT AAT AAT AAT ACT AAT AGT AAT AAT
1 AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*** *
115575664 AAT AAT AAT AAT AAT AAT GGC AAT AAT AGT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
115575701 TGCTAAATAA
Statistics
Matches: 63, Mismatches: 14, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
2 2 0.03
3 59 0.94
4 2 0.03
ACGTcount: A:0.60, C:0.02, G:0.07, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:115576751 original size:17 final size:18
Alignment explanation
Indices: 115576700--115576851 Score: 211
Period size: 17 Copynumber: 8.5 Consensus size: 18
115576690 TCATATCTTT
*
115576700 TAAGATTGTATATCATATC
1 TAAGATTG-CTATCATATC
*
115576719 TAAGATTGCAATCATATC
1 TAAGATTGCTATCATATC
115576737 TAAGATTG-TATCATATC
1 TAAGATTGCTATCATATC
*
115576754 TAAGATTGCAATCATATC
1 TAAGATTGCTATCATATC
*
115576772 TAAGATT-ATATCATATC
1 TAAGATTGCTATCATATC
*
115576789 TAAGATTGCAATCATATC
1 TAAGATTGCTATCATATC
115576807 TAAGATTG-TATCATATC
1 TAAGATTGCTATCATATC
*
115576824 TAAGATTGCATATCACATC
1 TAAGATTGC-TATCATATC
115576843 TAAGATTGC
1 TAAGATTGC
115576852 ACATCATTGA
Statistics
Matches: 119, Mismatches: 10, Indels: 8
0.87 0.07 0.06
Matches are distributed among these distances:
17 47 0.39
18 47 0.39
19 25 0.21
ACGTcount: A:0.38, C:0.14, G:0.11, T:0.37
Consensus pattern (18 bp):
TAAGATTGCTATCATATC
Found at i:115576755 original size:35 final size:35
Alignment explanation
Indices: 115576700--115576850 Score: 257
Period size: 35 Copynumber: 4.2 Consensus size: 35
115576690 TCATATCTTT
115576700 TAAGATTGTATATCATATCTAAGATTGCAATCATATC
1 TAAGATTG--TATCATATCTAAGATTGCAATCATATC
115576737 TAAGATTGTATCATATCTAAGATTGCAATCATATC
1 TAAGATTGTATCATATCTAAGATTGCAATCATATC
*
115576772 TAAGATTATATCATATCTAAGATTGCAATCATATC
1 TAAGATTGTATCATATCTAAGATTGCAATCATATC
*
115576807 TAAGATTGTATCATATCTAAGATTGCATATCACATC
1 TAAGATTGTATCATATCTAAGATTGCA-ATCATATC
115576843 TAAGATTG
1 TAAGATTG
115576851 CACATCATTG
Statistics
Matches: 110, Mismatches: 3, Indels: 3
0.95 0.03 0.03
Matches are distributed among these distances:
35 87 0.79
36 15 0.14
37 8 0.07
ACGTcount: A:0.38, C:0.14, G:0.11, T:0.37
Consensus pattern (35 bp):
TAAGATTGTATCATATCTAAGATTGCAATCATATC
Found at i:115577915 original size:206 final size:207
Alignment explanation
Indices: 115577256--115578175 Score: 1484
Period size: 207 Copynumber: 4.5 Consensus size: 207
115577246 AAATCTGCTT
* * * *
115577256 CTTCAATTTGTTCCCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAACAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
* * * *
115577321 GCGAAAGCTAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATACTAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
* * * ** * * *
115577386 GGATC-TACTTCAGTCTAATCATCTGAAGGTTAGATCTGCTCTATGTCTGTCCTCCGTCGAATAT
131 GGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAATAT
*
115577450 GGAGACGCTAAA
196 GGAGACGCCAAA
* *
115577462 CTTTGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAATGTAAACAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
115577527 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
*
115577592 GGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATTTGCTATGTGTCTGCCCTCCGTCGAATAT
131 GGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAATAT
*
115577657 GGAGACGCAAAA
196 GGAGACGCCAAA
*
115577669 CTTCGATTTGTTCTCTGACAATACAGAGATGCCGAATCATCTTAGACTTGCTTCAACGTAAACAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
*
115577734 GTGAAAGCCAAATCAGCTATGTCTTCGATTTTTTCCTTGTAAGCACAAGGATGCCAAACCA-CTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
*
115577798 GGATCTTTCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAATAT
131 GGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAATAT
115577863 GGAGACGCCAAA
196 GGAGACGCCAAA
* * *
115577875 CTTCAATTTGTTCTCTAACAATATAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
*
115577940 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCATTGTAAGCACAAGGATGCCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
* * * *
115578005 GGATCTTGCTTAAGTATAAACATCTGAAGACTAGATTTGCTATGTGTCTGCCCTCCGTCGAATAT
131 GGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAATAT
115578070 GGAGACGCCAAA
196 GGAGACGCCAAA
* * * * * *
115578082 CTTCGATTTGTTCTCTGACAATACATAGATGCCAAATCATTTTAGATTTGCTTCATCATAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
115578147 GTGAAAGCCAAATCAGCTATGTCTTCGAT
66 GTGAAAGCCAAATCAGCTATGTCTTCGAT
115578176 CTGCTCTCCG
Statistics
Matches: 665, Mismatches: 47, Indels: 3
0.93 0.07 0.00
Matches are distributed among these distances:
206 322 0.48
207 343 0.52
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.30
Consensus pattern (207 bp):
CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
GGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAATAT
GGAGACGCCAAA
Found at i:115578028 original size:413 final size:413
Alignment explanation
Indices: 115577256--115578175 Score: 1518
Period size: 413 Copynumber: 2.2 Consensus size: 413
115577246 AAATCTGCTT
* * *
115577256 CTTCAATTTGTTCCCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAACAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAACAC
* * *
115577321 GCGAAAGCTAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATACTAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATACCAAACCATCTT
* * ** * *
115577386 GGATCTACTTCAGTCTAATCATCTGAAGGTTAGATCTGCTCTATGTCTGTCCTCCGTCGAATATG
131 GGATCTACTTCAGTATAAACATCTGAAGGCCAGATCTGCTATATGTCTGCCCTCCGTCGAATATG
* ** *
115577451 GAGACGCTAAACTTTGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTC
196 GAGACGCCAAACTTCAATTTGTTCTCTAACAATACAGAGATGCCAAATCATCTTAGACTTGCTTC
* *
115577516 AATGTAAACACGTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGC
261 AACGTAAACACGTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCATTGTAAGCACAAGGATGC
* *
115577581 CAAACCATCTTGGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATTTGCTATGTGTCTGCCCT
326 CAAACCATCTTGGATCTTGCTTAAGTATAAACATCTGAAGACCAGATTTGCTATGTGTCTGCCCT
115577646 CCGTCGAATATGGAGACGCAAAA
391 CCGTCGAATATGGAGACGCAAAA
* *
115577669 CTTCGATTTGTTCTCTGACAATACAGAGATGCCGAATCATCTTAGACTTGCTTCAACGTAAACAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAACAC
* *
115577734 GTGAAAGCCAAATCAGCTATGTCTTCGATTTTTTCCTTGTAAGCACAAGGATGCCAAACCA-CTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATACCAAACCATCTT
* *
115577798 GGATCTTTCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAATAT
131 GGATC-TACTTCAGTATAAACATCTGAAGGCCAGATCTGCTATATGTCTGCCCTCCGTCGAATAT
*
115577863 GGAGACGCCAAACTTCAATTTGTTCTCTAACAATATAGAGATGCCAAATCATCTTAGACTTGCTT
195 GGAGACGCCAAACTTCAATTTGTTCTCTAACAATACAGAGATGCCAAATCATCTTAGACTTGCTT
115577928 CAACGTAAACACGTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCATTGTAAGCACAAGGATG
260 CAACGTAAACACGTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCATTGTAAGCACAAGGATG
*
115577993 CCAAACCATCTTGGATCTTGCTTAAGTATAAACATCTGAAGACTAGATTTGCTATGTGTCTGCCC
325 CCAAACCATCTTGGATCTTGCTTAAGTATAAACATCTGAAGACCAGATTTGCTATGTGTCTGCCC
*
115578058 TCCGTCGAATATGGAGACGCCAAA
390 TCCGTCGAATATGGAGACGCAAAA
* * * * *
115578082 CTTCGATTTGTTCTCTGACAATACATAGATGCCAAATCATTTTAGATTTGCTTCATCATAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAACAC
115578147 GTGAAAGCCAAATCAGCTATGTCTTCGAT
66 GTGAAAGCCAAATCAGCTATGTCTTCGAT
115578176 CTGCTCTCCG
Statistics
Matches: 470, Mismatches: 36, Indels: 2
0.93 0.07 0.00
Matches are distributed among these distances:
412 8 0.02
413 462 0.98
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.30
Consensus pattern (413 bp):
CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAACAC
GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATACCAAACCATCTT
GGATCTACTTCAGTATAAACATCTGAAGGCCAGATCTGCTATATGTCTGCCCTCCGTCGAATATG
GAGACGCCAAACTTCAATTTGTTCTCTAACAATACAGAGATGCCAAATCATCTTAGACTTGCTTC
AACGTAAACACGTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCATTGTAAGCACAAGGATGC
CAAACCATCTTGGATCTTGCTTAAGTATAAACATCTGAAGACCAGATTTGCTATGTGTCTGCCCT
CCGTCGAATATGGAGACGCAAAA
Found at i:115578401 original size:84 final size:82
Alignment explanation
Indices: 115578303--115578503 Score: 230
Period size: 87 Copynumber: 2.4 Consensus size: 82
115578293 GCTATACTTT
* * *
115578303 AACCTGTTACCCTACTGCTTAGGGGGTTAAGGCGCA-TC-T-TCGATCTGCTCCACTGCTGTTTA
1 AACCTGTTACCCTACTGCTTAGGGGATTAAGGCGCAGTCGTCTCGATCTGCTCCACTACTGCTTA
115578365 GGGAGATAAGATCCGTA
66 GGGAGATAAGATCCGTA
* * * *
115578382 ATTTTGACCTGTTACCCTACTGCTTAAGGGATTAAGGCG-AGTCGTCGTTGATCTGTTCCACTAT
1 A-----ACCTGTTACCCTACTGCTTAGGGGATTAAGGCGCAGTCGTC-TCGATCTGCTCCACTAC
* *
115578446 TGCTTAGGGAGATAAGATCTGTG
60 TGCTTAGGGAGATAAGATCCGTA
*
115578469 AACCTGTTACCCTACTGCTTAGGGGATGAAGGCGC
1 AACCTGTTACCCTACTGCTTAGGGGATTAAGGCGC
115578504 TGAATTTTGT
Statistics
Matches: 101, Mismatches: 11, Indels: 16
0.79 0.09 0.12
Matches are distributed among these distances:
79 1 0.01
82 31 0.31
83 1 0.01
84 33 0.33
85 1 0.01
87 34 0.34
ACGTcount: A:0.22, C:0.22, G:0.26, T:0.30
Consensus pattern (82 bp):
AACCTGTTACCCTACTGCTTAGGGGATTAAGGCGCAGTCGTCTCGATCTGCTCCACTACTGCTTA
GGGAGATAAGATCCGTA
Found at i:115579442 original size:1 final size:1
Alignment explanation
Indices: 115579432--115579500 Score: 66
Period size: 1 Copynumber: 69.0 Consensus size: 1
115579422 GGCCTCTCCA
* * * * * * * *
115579432 TTTTTCTTTTTTTCTTTTTTCTTTTTTCTTTTTTTTTATTTTTTTCTTCTTTTTTTTTTCTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
115579497 TTTT
1 TTTT
115579501 GAAATAGAAG
Statistics
Matches: 52, Mismatches: 16, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
1 52 1.00
ACGTcount: A:0.01, C:0.10, G:0.00, T:0.88
Consensus pattern (1 bp):
T
Found at i:115579449 original size:7 final size:7
Alignment explanation
Indices: 115579432--115579497 Score: 77
Period size: 7 Copynumber: 9.7 Consensus size: 7
115579422 GGCCTCTCCA
115579432 TTTTTCTT
1 TTTTTC-T
115579440 TTTTTCT
1 TTTTTCT
115579447 TTTTTCT
1 TTTTTCT
115579454 TTTTTC-
1 TTTTTCT
115579460 TTTTT-T
1 TTTTTCT
*
115579466 TTTAT-T
1 TTTTTCT
115579472 TTTTTCT
1 TTTTTCT
115579479 TCTTTT-T
1 T-TTTTCT
115579486 TTTTTCT
1 TTTTTCT
115579493 TTTTT
1 TTTTT
115579498 TTTGAAATAG
Statistics
Matches: 52, Mismatches: 2, Indels: 9
0.83 0.03 0.14
Matches are distributed among these distances:
6 18 0.35
7 24 0.46
8 10 0.19
ACGTcount: A:0.02, C:0.11, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTTCT
Found at i:115585263 original size:17 final size:18
Alignment explanation
Indices: 115585212--115585370 Score: 216
Period size: 17 Copynumber: 8.8 Consensus size: 18
115585202 TCATATCTTT
*
115585212 TAAGATTGTATATCATATC
1 TAAGATTG-CTATCATATC
*
115585231 TAAGATTGCAATCATATC
1 TAAGATTGCTATCATATC
115585249 TAAGATTG-TATCATATC
1 TAAGATTGCTATCATATC
*
115585266 TAAGATTGCAATCATATC
1 TAAGATTGCTATCATATC
*
115585284 TAAGATT-ATATCATATC
1 TAAGATTGCTATCATATC
*
115585301 TAAGATTGCAATCATATC
1 TAAGATTGCTATCATATC
115585319 TAAGATTG-TATCATATC
1 TAAGATTGCTATCATATC
*
115585336 TAAGATTGCATATCACATC
1 TAAGATTGC-TATCATATC
115585355 TAAGATTGCATATCAT
1 TAAGATTGC-TATCAT
115585371 TGAAGATTAT
Statistics
Matches: 125, Mismatches: 11, Indels: 8
0.87 0.08 0.06
Matches are distributed among these distances:
17 47 0.38
18 47 0.38
19 31 0.25
ACGTcount: A:0.38, C:0.14, G:0.11, T:0.37
Consensus pattern (18 bp):
TAAGATTGCTATCATATC
Found at i:115585267 original size:35 final size:35
Alignment explanation
Indices: 115585212--115585362 Score: 257
Period size: 35 Copynumber: 4.2 Consensus size: 35
115585202 TCATATCTTT
115585212 TAAGATTGTATATCATATCTAAGATTGCAATCATATC
1 TAAGATTG--TATCATATCTAAGATTGCAATCATATC
115585249 TAAGATTGTATCATATCTAAGATTGCAATCATATC
1 TAAGATTGTATCATATCTAAGATTGCAATCATATC
*
115585284 TAAGATTATATCATATCTAAGATTGCAATCATATC
1 TAAGATTGTATCATATCTAAGATTGCAATCATATC
*
115585319 TAAGATTGTATCATATCTAAGATTGCATATCACATC
1 TAAGATTGTATCATATCTAAGATTGCA-ATCATATC
115585355 TAAGATTG
1 TAAGATTG
115585363 CATATCATTG
Statistics
Matches: 110, Mismatches: 3, Indels: 3
0.95 0.03 0.03
Matches are distributed among these distances:
35 87 0.79
36 15 0.14
37 8 0.07
ACGTcount: A:0.38, C:0.14, G:0.11, T:0.37
Consensus pattern (35 bp):
TAAGATTGTATCATATCTAAGATTGCAATCATATC
Found at i:115585707 original size:11 final size:11
Alignment explanation
Indices: 115585688--115585731 Score: 52
Period size: 11 Copynumber: 4.0 Consensus size: 11
115585678 ATATAAATGG
115585688 TAATAATAATA
1 TAATAATAATA
* *
115585699 TATTAATAAGA
1 TAATAATAATA
* *
115585710 AAATAATAATC
1 TAATAATAATA
115585721 TAATAATAATA
1 TAATAATAATA
115585732 ATAGAAATGG
Statistics
Matches: 25, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.34
Consensus pattern (11 bp):
TAATAATAATA
Found at i:115588645 original size:21 final size:21
Alignment explanation
Indices: 115588621--115588663 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 21
115588611 TTACCTTTTC
115588621 TAAAGTTAAAA-GTCAAAACTA
1 TAAAGTTAAAAGGT-AAAACTA
115588642 TAAAGTTAAAAGGTAAAACTA
1 TAAAGTTAAAAGGTAAAACTA
115588663 T
1 T
115588664 GTTGTTTTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 19 0.90
22 2 0.10
ACGTcount: A:0.56, C:0.07, G:0.12, T:0.26
Consensus pattern (21 bp):
TAAAGTTAAAAGGTAAAACTA
Found at i:115593581 original size:6 final size:6
Alignment explanation
Indices: 115593570--115593599 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
115593560 TTTGTGGTAT
115593570 AATATA AATATA AATATA AATATA TAATAT
1 AATATA AATATA AATATA AATATA -AATAT
115593600 TAGTAGAGGT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 18 0.78
7 5 0.22
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (6 bp):
AATATA
Found at i:115593587 original size:12 final size:13
Alignment explanation
Indices: 115593567--115593599 Score: 59
Period size: 12 Copynumber: 2.6 Consensus size: 13
115593557 GCTTTTGTGG
115593567 TATAATATAAATA
1 TATAATATAAATA
115593580 TA-AATATAAATA
1 TATAATATAAATA
115593592 TATAATAT
1 TATAATAT
115593600 TAGTAGAGGT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 12 0.63
13 7 0.37
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (13 bp):
TATAATATAAATA
Found at i:115594972 original size:15 final size:15
Alignment explanation
Indices: 115594930--115594976 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
115594920 TCCCATCATC
115594930 AAGCGAGGAAAAAGA
1 AAGCGAGGAAAAAGA
* **
115594945 AATACGTTG-AAAAGA
1 AA-GCGAGGAAAAAGA
115594960 AAGCGAGGAAAAAGA
1 AAGCGAGGAAAAAGA
115594975 AA
1 AA
115594977 AAGAAAGCTG
Statistics
Matches: 24, Mismatches: 6, Indels: 4
0.71 0.18 0.12
Matches are distributed among these distances:
14 3 0.12
15 18 0.75
16 3 0.12
ACGTcount: A:0.60, C:0.06, G:0.28, T:0.06
Consensus pattern (15 bp):
AAGCGAGGAAAAAGA
Found at i:115597746 original size:28 final size:27
Alignment explanation
Indices: 115597701--115597756 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 27
115597691 TTGTCAATAT
*
115597701 TTATAAACTGTTTGCTAACCAACCTATC
1 TTATAAACTGGTTGCTAACCAACC-ATC
*
115597729 TTATACAACTGGTT-CTAACTAACCATC
1 TTATA-AACTGGTTGCTAACCAACCATC
115597756 T
1 T
115597757 AACTACTTGC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 4 0.16
28 14 0.56
29 7 0.28
ACGTcount: A:0.32, C:0.25, G:0.07, T:0.36
Consensus pattern (27 bp):
TTATAAACTGGTTGCTAACCAACCATC
Found at i:115598754 original size:30 final size:30
Alignment explanation
Indices: 115598720--115598777 Score: 107
Period size: 30 Copynumber: 1.9 Consensus size: 30
115598710 CTGGGCATTT
*
115598720 CCACACGGGCTGGCCATATGCCCATGTGAG
1 CCACACGGGCTGGCCACATGCCCATGTGAG
115598750 CCACACGGGCTGGCCACATGCCCATGTG
1 CCACACGGGCTGGCCACATGCCCATGTG
115598778 CCAGTCCGTA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.19, C:0.36, G:0.29, T:0.16
Consensus pattern (30 bp):
CCACACGGGCTGGCCACATGCCCATGTGAG
Found at i:115600356 original size:22 final size:22
Alignment explanation
Indices: 115600321--115600363 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
115600311 CTGTGATATT
115600321 TACGGTCTTTAGCCATTCTGTC
1 TACGGTCTTTAGCCATTCTGTC
*
115600343 TACGG-CTTTGAGCCGTTCTGT
1 TACGGTCTTT-AGCCATTCTGT
115600364 TGACTTAGTG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.12, C:0.26, G:0.23, T:0.40
Consensus pattern (22 bp):
TACGGTCTTTAGCCATTCTGTC
Found at i:115600552 original size:26 final size:26
Alignment explanation
Indices: 115600523--115600573 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
115600513 TTCTAATACG
115600523 GGCTAGGCCCAACTGTTACTGATATA
1 GGCTAGGCCCAACTGTTACTGATATA
*
115600549 GGCTAGGCCCAATTGTTACTGATAT
1 GGCTAGGCCCAACTGTTACTGATAT
115600574 TGAGAATGGG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.25, C:0.22, G:0.24, T:0.29
Consensus pattern (26 bp):
GGCTAGGCCCAACTGTTACTGATATA
Found at i:115605387 original size:17 final size:17
Alignment explanation
Indices: 115605365--115605419 Score: 60
Period size: 17 Copynumber: 3.2 Consensus size: 17
115605355 AATCTTATTC
115605365 TTATATTTTTAATTTTT
1 TTATATTTTTAATTTTT
*
115605382 TTATA-TTTTAGTTTTT
1 TTATATTTTTAATTTTT
*
115605398 TATATATTTCT-ATTATTT
1 T-TATATTTTTAATT-TTT
115605416 TTAT
1 TTAT
115605420 TTTGTTATTT
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
16 11 0.34
17 14 0.44
18 7 0.22
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.73
Consensus pattern (17 bp):
TTATATTTTTAATTTTT
Found at i:115605411 original size:23 final size:22
Alignment explanation
Indices: 115605385--115605436 Score: 52
Period size: 23 Copynumber: 2.3 Consensus size: 22
115605375 AATTTTTTTA
115605385 TATTTTAGTT-TTTTATATATTTC
1 TATTTT-GTTATTTTAT-TATTTC
* *
115605408 TATTATTTTTATTTTGTTATTTC
1 TATT-TTGTTATTTTATTATTTC
115605431 TATTTT
1 TATTTT
115605437 TTTTCGTATT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
22 2 0.08
23 16 0.64
24 7 0.28
ACGTcount: A:0.19, C:0.04, G:0.04, T:0.73
Consensus pattern (22 bp):
TATTTTGTTATTTTATTATTTC
Found at i:115605446 original size:18 final size:20
Alignment explanation
Indices: 115605411--115605447 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
115605401 ATATTTCTAT
*
115605411 TATTTTTATTTTGTTATTTC
1 TATTTTTATTTCGTTATTTC
115605431 TATTTTT-TTTCG-TATTT
1 TATTTTTATTTCGTTATTT
115605448 TTTTTTACTA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
18 5 0.31
19 4 0.25
20 7 0.44
ACGTcount: A:0.14, C:0.05, G:0.05, T:0.76
Consensus pattern (20 bp):
TATTTTTATTTCGTTATTTC
Found at i:115605515 original size:9 final size:9
Alignment explanation
Indices: 115605503--115605570 Score: 57
Period size: 9 Copynumber: 7.3 Consensus size: 9
115605493 ATTGAGTTTA
115605503 TTATTTTTT
1 TTATTTTTT
115605512 TTATTTTTT
1 TTATTTTTT
* *
115605521 ATCTTTCTTT
1 TTATTT-TTT
115605531 TTAATTTTGTT
1 TT-ATTTT-TT
* *
115605542 TTAGTTGTT
1 TTATTTTTT
115605551 TTA-TTTTT
1 TTATTTTTT
*
115605559 TTATTTTCT
1 TTATTTTTT
115605568 TTA
1 TTA
115605571 ACTTATTTTT
Statistics
Matches: 47, Mismatches: 8, Indels: 8
0.75 0.13 0.13
Matches are distributed among these distances:
8 7 0.15
9 25 0.53
10 8 0.17
11 7 0.15
ACGTcount: A:0.13, C:0.04, G:0.04, T:0.78
Consensus pattern (9 bp):
TTATTTTTT
Found at i:115605601 original size:24 final size:22
Alignment explanation
Indices: 115605552--115605602 Score: 57
Period size: 24 Copynumber: 2.2 Consensus size: 22
115605542 TTAGTTGTTT
* **
115605552 TATTTTTTTATTTTCTTTAACT
1 TATTTTTTTATTATCTTTAAAA
115605574 TATTTTTATTATTATCTTTTAAAA
1 TATTTTT-TTATTATC-TTTAAAA
115605598 TATTT
1 TATTT
115605603 ATGGTTGTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 7 0.29
23 7 0.29
24 10 0.42
ACGTcount: A:0.25, C:0.06, G:0.00, T:0.69
Consensus pattern (22 bp):
TATTTTTTTATTATCTTTAAAA
Found at i:115606547 original size:12 final size:13
Alignment explanation
Indices: 115606530--115606560 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
115606520 CATTGTTCCC
115606530 AAAAAAA-TGAAA
1 AAAAAAAGTGAAA
115606542 AAAAAAAGTGAAA
1 AAAAAAAGTGAAA
115606555 AAAAAA
1 AAAAAA
115606561 TACATTTATG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 7 0.39
13 11 0.61
ACGTcount: A:0.84, C:0.00, G:0.10, T:0.06
Consensus pattern (13 bp):
AAAAAAAGTGAAA
Found at i:115608091 original size:24 final size:24
Alignment explanation
Indices: 115608064--115608110 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
115608054 AGATTTCAAT
115608064 TAATCAACCTAGAGTCAGTTATTG
1 TAATCAACCTAGAGTCAGTTATTG
115608088 TAATCAACCTAGAGTCAGTTATT
1 TAATCAACCTAGAGTCAGTTATT
115608111 TTTACTCTCG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.34, C:0.17, G:0.15, T:0.34
Consensus pattern (24 bp):
TAATCAACCTAGAGTCAGTTATTG
Found at i:115615338 original size:33 final size:32
Alignment explanation
Indices: 115615301--115615401 Score: 124
Period size: 27 Copynumber: 3.2 Consensus size: 32
115615291 TAAAAAGTAA
*
115615301 AATTTTCAAAGAGATTTTATTTTTATTTTTTTT
1 AATTTT-AAAGAGGTTTTATTTTTATTTTTTTT
115615334 AATTTTTAAAGAGGTTTTATTTTTA-TTTTTTT
1 AA-TTTTAAAGAGGTTTTATTTTTATTTTTTTT
115615366 AA----AAAGAGGTTTTATTTTTA-TTTTTTT
1 AATTTTAAAGAGGTTTTATTTTTATTTTTTTT
115615393 AACTTTTAA
1 AA-TTTTAA
115615402 GAATCAAAAT
Statistics
Matches: 61, Mismatches: 1, Indels: 13
0.81 0.01 0.17
Matches are distributed among these distances:
27 27 0.44
32 11 0.18
33 19 0.31
34 4 0.07
ACGTcount: A:0.29, C:0.02, G:0.08, T:0.61
Consensus pattern (32 bp):
AATTTTAAAGAGGTTTTATTTTTATTTTTTTT
Found at i:115620461 original size:14 final size:14
Alignment explanation
Indices: 115620442--115620492 Score: 59
Period size: 14 Copynumber: 3.5 Consensus size: 14
115620432 TTACATCAAA
115620442 ACCCAACTAAACCT
1 ACCCAACTAAACCT
*
115620456 ACCCAAC-AACCCACT
1 ACCCAACTAA-AC-CT
115620471 AACCCAACTAAACCT
1 -ACCCAACTAAACCT
115620486 ACCCAAC
1 ACCCAAC
115620493 AACCCACTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
13 2 0.06
14 15 0.48
15 4 0.13
16 8 0.26
17 2 0.06
ACGTcount: A:0.43, C:0.47, G:0.00, T:0.10
Consensus pattern (14 bp):
ACCCAACTAAACCT
Found at i:115620461 original size:30 final size:30
Alignment explanation
Indices: 115620440--115620507 Score: 118
Period size: 30 Copynumber: 2.3 Consensus size: 30
115620430 AATTACATCA
115620440 AAACCCAACTAAACCTACCCAACAACCCAC
1 AAACCCAACTAAACCTACCCAACAACCCAC
*
115620470 TAACCCAACTAAACCTACCCAACAACCCAC
1 AAACCCAACTAAACCTACCCAACAACCCAC
*
115620500 TAACCCAA
1 AAACCCAA
115620508 AACTAACCTT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 37 1.00
ACGTcount: A:0.46, C:0.46, G:0.00, T:0.09
Consensus pattern (30 bp):
AAACCCAACTAAACCTACCCAACAACCCAC
Found at i:115621738 original size:3 final size:3
Alignment explanation
Indices: 115621730--115621771 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
115621720 TATATTTCTA
115621730 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
115621772 ATAGTAGTGT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:115622279 original size:94 final size:93
Alignment explanation
Indices: 115622135--115622324 Score: 337
Period size: 94 Copynumber: 2.0 Consensus size: 93
115622125 ATATTACTTT
115622135 TATTTTCATTATTATTATTTTTACTTAATACTTATATATATTATATAGTATTATTAATAGTTTTT
1 TATTTTCATTATTATTATTTTTACTTAATACTTATATATATTATATAGTATTATTAATAGTTTTT
115622200 AAAATTATTGTTTTTGTTAATATATTAG
66 AAAATTATTGTTTTTGTTAATATATTAG
*
115622228 TATTTTCATTATTATTA-TTTTACTTAATACTTATATATATATTATATAGTATTATTAATATTTT
1 TATTTTCATTATTATTATTTTTACTTAATAC-T-TATATATATTATATAGTATTATTAATAGTTT
*
115622292 TTAATATTATTGTTTTTGTTAATATATTAG
64 TTAAAATTATTGTTTTTGTTAATATATTAG
115622322 TAT
1 TAT
115622325 GTCATATATG
Statistics
Matches: 93, Mismatches: 2, Indels: 3
0.95 0.02 0.03
Matches are distributed among these distances:
92 13 0.14
93 18 0.19
94 62 0.67
ACGTcount: A:0.33, C:0.03, G:0.05, T:0.59
Consensus pattern (93 bp):
TATTTTCATTATTATTATTTTTACTTAATACTTATATATATTATATAGTATTATTAATAGTTTTT
AAAATTATTGTTTTTGTTAATATATTAG
Found at i:115622299 original size:19 final size:19
Alignment explanation
Indices: 115622183--115622302 Score: 63
Period size: 19 Copynumber: 6.4 Consensus size: 19
115622173 TATTATATAG
*
115622183 TATTATTAATAGTTTTTAA
1 TATTATTAATATTTTTTAA
* *
115622202 AATTATT-GT-TTTTGTTAA
1 TATTATTAATATTTT-TTAA
* * *
115622220 TA-TATTAGTA-TTTTCAT
1 TATTATTAATATTTTTTAA
*
115622237 TATTATT-AT-TTTACTTAA
1 TATTATTAATATTT-TTTAA
* * *
115622255 TACTTATATATATATTATATAG
1 TA-TTAT-TA-ATATTTTTTAA
115622277 TATTATTAATATTTTTTAA
1 TATTATTAATATTTTTTAA
115622296 TATTATT
1 TATTATT
115622303 GTTTTTGTTA
Statistics
Matches: 73, Mismatches: 17, Indels: 22
0.65 0.15 0.20
Matches are distributed among these distances:
17 14 0.19
18 19 0.26
19 25 0.34
20 3 0.04
21 4 0.05
22 6 0.08
23 2 0.03
ACGTcount: A:0.34, C:0.03, G:0.04, T:0.59
Consensus pattern (19 bp):
TATTATTAATATTTTTTAA
Found at i:115622603 original size:23 final size:23
Alignment explanation
Indices: 115622573--115622628 Score: 64
Period size: 21 Copynumber: 2.6 Consensus size: 23
115622563 CTTTATTACA
*
115622573 TATATATTCTTATATATTATGTG
1 TATATATTCTTATATACTATGTG
* *
115622596 TATATATT-TTA-GTACTATGTT
1 TATATATTCTTATATACTATGTG
115622617 TATATA-TCTTAT
1 TATATATTCTTAT
115622629 GTATATATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
20 1 0.04
21 16 0.57
22 3 0.11
23 8 0.29
ACGTcount: A:0.30, C:0.05, G:0.07, T:0.57
Consensus pattern (23 bp):
TATATATTCTTATATACTATGTG
Found at i:115635413 original size:6 final size:6
Alignment explanation
Indices: 115635391--115635437 Score: 60
Period size: 6 Copynumber: 7.8 Consensus size: 6
115635381 AATAAAGTTC
* *
115635391 AAAATAT AAAAA- CAAAAT AAAAAT AAAAAT AAAGAT AAAAAT AAAAA
1 AAAA-AT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAA
115635438 AATAAACACA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
5 4 0.11
6 27 0.77
7 4 0.11
ACGTcount: A:0.81, C:0.02, G:0.02, T:0.15
Consensus pattern (6 bp):
AAAAAT
Found at i:115635432 original size:37 final size:38
Alignment explanation
Indices: 115635362--115635455 Score: 109
Period size: 37 Copynumber: 2.5 Consensus size: 38
115635352 ACTCGATTAG
* * * * *
115635362 AAACAAACATAATAATTAAAATAAAGTTCAAAATATAA
1 AAACAAACATAAAAATAAAAATAAAGATAAAAATAAAA
115635400 AAACAAA-ATAAAAATAAAAATAAAGATAAAAATAAAA
1 AAACAAACATAAAAATAAAAATAAAGATAAAAATAAAA
* * *
115635437 AAATAAACACAAAGATAAA
1 AAACAAACATAAAAATAAA
115635456 TGAACTCAAT
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
37 31 0.66
38 16 0.34
ACGTcount: A:0.73, C:0.06, G:0.03, T:0.17
Consensus pattern (38 bp):
AAACAAACATAAAAATAAAAATAAAGATAAAAATAAAA
Found at i:115635454 original size:20 final size:20
Alignment explanation
Indices: 115635415--115635455 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
115635405 AAATAAAAAT
* *
115635415 AAAAATAAAGATAAAAATAA
1 AAAAATAAACACAAAAATAA
*
115635435 AAAAATAAACACAAAGATAA
1 AAAAATAAACACAAAAATAA
115635455 A
1 A
115635456 TGAACTCAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.78, C:0.05, G:0.05, T:0.12
Consensus pattern (20 bp):
AAAAATAAACACAAAAATAA
Found at i:115637369 original size:13 final size:13
Alignment explanation
Indices: 115637351--115637376 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
115637341 CTGTGCACCT
115637351 TTAGTTTAGATAA
1 TTAGTTTAGATAA
115637364 TTAGTTTAGATAA
1 TTAGTTTAGATAA
115637377 ACAAATTTCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.00, G:0.15, T:0.46
Consensus pattern (13 bp):
TTAGTTTAGATAA
Found at i:115638766 original size:38 final size:38
Alignment explanation
Indices: 115638706--115638786 Score: 128
Period size: 38 Copynumber: 2.2 Consensus size: 38
115638696 ATGAGATGTG
*
115638706 ATTC-AAACGGAGGAGGAATATACACAAATGATCCAAC
1 ATTCAAAACGAAGGAGGAATATACACAAATGATCCAAC
* *
115638743 ATTCAAAACGAAGGATGAGTATACACAAATGATCCAAC
1 ATTCAAAACGAAGGAGGAATATACACAAATGATCCAAC
115638781 ATTCAA
1 ATTCAA
115638787 TCCTAGCACC
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
37 4 0.10
38 36 0.90
ACGTcount: A:0.47, C:0.19, G:0.16, T:0.19
Consensus pattern (38 bp):
ATTCAAAACGAAGGAGGAATATACACAAATGATCCAAC
Found at i:115644543 original size:14 final size:17
Alignment explanation
Indices: 115644509--115644548 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
115644499 AGAAAAACTA
115644509 AGAATAAACAATAATAG
1 AGAATAAACAATAATAG
*
115644526 AGAATAAACAA-AAGAG
1 AGAATAAACAATAATAG
115644542 A-AATAAA
1 AGAATAAA
115644549 ATAAAATAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 6 0.27
16 5 0.23
17 11 0.50
ACGTcount: A:0.70, C:0.05, G:0.12, T:0.12
Consensus pattern (17 bp):
AGAATAAACAATAATAG
Found at i:115644576 original size:13 final size:12
Alignment explanation
Indices: 115644543--115644579 Score: 51
Period size: 10 Copynumber: 3.2 Consensus size: 12
115644533 ACAAAAGAGA
115644543 AATAAAATAA--
1 AATAAAATAATT
115644553 AATAAAATAATT
1 AATAAAATAATT
115644565 AATAATAATAATT
1 AATAA-AATAATT
115644578 AA
1 AA
115644580 AAATGAAGAC
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
10 10 0.42
12 5 0.21
13 9 0.38
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (12 bp):
AATAAAATAATT
Found at i:115644664 original size:23 final size:23
Alignment explanation
Indices: 115644634--115644683 Score: 82
Period size: 23 Copynumber: 2.2 Consensus size: 23
115644624 GGACCGACGG
115644634 TGGTAGTTTCTAGACGATAACGA
1 TGGTAGTTTCTAGACGATAACGA
* *
115644657 TGGTAGTTTCTAGATGATGACGA
1 TGGTAGTTTCTAGACGATAACGA
115644680 TGGT
1 TGGT
115644684 GCGGGACGGC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.26, C:0.10, G:0.30, T:0.34
Consensus pattern (23 bp):
TGGTAGTTTCTAGACGATAACGA
Found at i:115645451 original size:28 final size:28
Alignment explanation
Indices: 115645405--115645470 Score: 114
Period size: 28 Copynumber: 2.4 Consensus size: 28
115645395 ACACAGGCTA
*
115645405 GGACACGGGCGTGTTATGGCCGTGTGAG
1 GGACACGGGCGTGTCATGGCCGTGTGAG
*
115645433 GGATACGGGCGTGTCATGGCCGTGTGAG
1 GGACACGGGCGTGTCATGGCCGTGTGAG
115645461 GGACACGGGC
1 GGACACGGGC
115645471 CATGGACACA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.15, C:0.20, G:0.47, T:0.18
Consensus pattern (28 bp):
GGACACGGGCGTGTCATGGCCGTGTGAG
Found at i:115648891 original size:52 final size:50
Alignment explanation
Indices: 115648810--115648952 Score: 154
Period size: 47 Copynumber: 2.9 Consensus size: 50
115648800 TGAAATGTGA
* * *
115648810 TTTCTGTATAAGACCATAGCTAGGCTATGGCATCAGAGAGATGTGATATATGC
1 TTTCTGTATAAGACCATATCTGGGATATGGCATCAG-G-G-TGTGATATATGC
* *
115648863 TTTC-GTATAAGACCATATCCGGGATATGGCATC--GGTGTGATATGTGC
1 TTTCTGTATAAGACCATATCTGGGATATGGCATCAGGGTGTGATATATGC
* *
115648910 -TACTATATAAGACCATATCTGGGATATGGCATCA--GTGTGATAT
1 TTTCTGTATAAGACCATATCTGGGATATGGCATCAGGGTGTGATAT
115648953 GTGATCCGTG
Statistics
Matches: 80, Mismatches: 8, Indels: 10
0.82 0.08 0.10
Matches are distributed among these distances:
46 2 0.03
47 47 0.59
48 1 0.01
49 1 0.01
52 25 0.31
53 4 0.05
ACGTcount: A:0.29, C:0.15, G:0.24, T:0.31
Consensus pattern (50 bp):
TTTCTGTATAAGACCATATCTGGGATATGGCATCAGGGTGTGATATATGC
Found at i:115657145 original size:30 final size:30
Alignment explanation
Indices: 115657057--115657131 Score: 132
Period size: 30 Copynumber: 2.5 Consensus size: 30
115657047 CACAAGCAGG
*
115657057 ACACATGGGCGTGTGACCAGCCAGTGTGGC
1 ACACACGGGCGTGTGACCAGCCAGTGTGGC
115657087 ACACACGGGCGTGTGACCAGCCAGTGTGGC
1 ACACACGGGCGTGTGACCAGCCAGTGTGGC
*
115657117 TCACACGGGCGTGTG
1 ACACACGGGCGTGTG
115657132 CTTAGCCCGT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 43 1.00
ACGTcount: A:0.19, C:0.28, G:0.37, T:0.16
Consensus pattern (30 bp):
ACACACGGGCGTGTGACCAGCCAGTGTGGC
Found at i:115659334 original size:93 final size:93
Alignment explanation
Indices: 115659222--115659392 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
115659212 GCCCATAAGT
* *
115659222 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
115659287 TGAGTTCGGATGCCTAGTTACATCTCTC
66 CGAGTTCGGATGCCTAGTTACATCTCTC
*
115659315 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
115659380 CGAGTTCGGATGC
66 CGAGTTCGGATGC
115659393 TCAACCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCTC
Found at i:115659389 original size:46 final size:46
Alignment explanation
Indices: 115659214--115659389 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 46
115659204 TGTAACCCGC
* * *
115659214 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
115659260 CCATAAGTGAACTCGGACTCAACTCAATGAGTTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGC-A--T
* ***
115659306 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
115659353 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
115659390 TGCTCAACCA
Statistics
Matches: 109, Mismatches: 14, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
46 68 0.62
47 32 0.29
49 4 0.04
50 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:115666402 original size:46 final size:46
Alignment explanation
Indices: 115666280--115666409 Score: 158
Period size: 46 Copynumber: 2.8 Consensus size: 46
115666270 TGTAACCCGC
115666280 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG-ATGCCTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGAATGCCTAG-T
* *** *
115666326 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGC-A-T
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGTTCGGA-ATGC-CTAGT
115666373 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
115666410 TGCTCAACCA
Statistics
Matches: 71, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
46 33 0.46
47 33 0.46
49 4 0.06
50 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGAATGCCTAGT
Found at i:115666428 original size:46 final size:45
Alignment explanation
Indices: 115666285--115666428 Score: 138
Period size: 46 Copynumber: 3.1 Consensus size: 45
115666275 CCCGCCCATA
115666285 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTA-CATCTCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCC-A---ACCATC-CT
* *
115666334 --CGAACTCGGACTCAACTCAACGAGTTCGGA---CATTCGCATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCA-AC-CATCC-T
115666377 AAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CAACCATCCT
115666424 AGTGA
1 AGTGA
115666429 CATGTCACTT
Statistics
Matches: 81, Mismatches: 4, Indels: 23
0.75 0.04 0.21
Matches are distributed among these distances:
41 1 0.01
42 1 0.01
43 6 0.07
44 1 0.01
46 34 0.42
47 30 0.37
48 5 0.06
49 1 0.01
50 2 0.02
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.23
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCAACCATCCT
Found at i:115668414 original size:46 final size:47
Alignment explanation
Indices: 115668361--115668483 Score: 176
Period size: 48 Copynumber: 2.6 Consensus size: 47
115668351 GGCAGTACTG
* *
115668361 ATATCATGGCCTAAAGCCAAATCAGTGTAACT-CACACAAAGTGCTA
1 ATATCATGGCCCAAAGCCAACTCAGTGTAACTCCACACAAAGTGCTA
* *
115668407 ATATCATGGCCCAAAGCCAACTCAGTGTAACTCGCACCCCAAGTGCTA
1 ATATCATGGCCCAAAGCCAACTCAGTGTAACTC-CACACAAAGTGCTA
* *
115668455 ATATCATGGCCCGAAGCCAACTCAATGTA
1 ATATCATGGCCCAAAGCCAACTCAGTGTA
115668484 TCCCCTAATG
Statistics
Matches: 69, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
46 30 0.43
48 39 0.57
ACGTcount: A:0.35, C:0.28, G:0.16, T:0.20
Consensus pattern (47 bp):
ATATCATGGCCCAAAGCCAACTCAGTGTAACTCCACACAAAGTGCTA
Found at i:115671381 original size:9 final size:9
Alignment explanation
Indices: 115671367--115671396 Score: 60
Period size: 9 Copynumber: 3.3 Consensus size: 9
115671357 GACAGCCACA
115671367 AAGCAAACC
1 AAGCAAACC
115671376 AAGCAAACC
1 AAGCAAACC
115671385 AAGCAAACC
1 AAGCAAACC
115671394 AAG
1 AAG
115671397 GTTTCCTCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.57, C:0.30, G:0.13, T:0.00
Consensus pattern (9 bp):
AAGCAAACC
Found at i:115672408 original size:220 final size:224
Alignment explanation
Indices: 115671995--115672427 Score: 732
Period size: 220 Copynumber: 1.9 Consensus size: 224
115671985 CTGTTGCGGC
115671995 AGGTTATGGTGCTTCGGGAAGCATGTAACTTCTGCCTGCAACTCATTCACGGGACTTCAATTACA
1 AGGTTATGGTGCTTCGGGAAGCATGTAACTTCTGCCTGCAACTCATTCACGGGACTTCAATTACA
115672060 TCTTACTTATAAGTATGAACCATGTTAAGAAGATCTCATATCCCAGTAAACTTAAAAGTCAAAGC
66 --TTACTTATAAGTATGAACCATGTTAAGAAGATCTCATATCCCAGTAAACTTAAAAGTCAAAGC
* *
115672125 CAACTAGTGCTGATATTCACCTATATGCAAATATGAATTACATATTTGGTATATAAGTGTGTTTG
129 CAACTAGTGCTGATATTCACCTATATGCAAATATGAATTACATATTTGGTAGATAACTGTGTTTG
115672190 AAAACAA-T-ATAAAATAAGTAATAAAATAT
194 AAAACAAGTAATAAAATAAGTAATAAAATAT
* * *
115672219 AGGTTGTGGTGTTTC-GGAAGGAGTGTAACTTCTGCCTGCAACTCATTCACGGGACTTCAATTAC
1 AGGTTATGGTGCTTCGGGAAGCA-TGTAACTTCTGCCTGCAACTCATTCACGGGACTTCAATTAC
115672283 A-T-CTTATAAGTATGAACCATGTTAAGAAGATCTCATATCCCAGTAAACTTAAAAGTCAAAGCC
65 ATTACTTATAAGTATGAACCATGTTAAGAAGATCTCATATCCCAGTAAACTTAAAAGTCAAAGCC
* *
115672346 AACTGGTGCTGATATTCACCTATATGCAAATATGAATTGCATATTTGGTAGATAACTGTGTTTGA
130 AACTAGTGCTGATATTCACCTATATGCAAATATGAATTACATATTTGGTAGATAACTGTGTTTGA
*
115672411 AAATAAGTAATAAAATA
195 AAACAAGTAATAAAATA
115672428 TATGATTTCA
Statistics
Matches: 198, Mismatches: 8, Indels: 8
0.93 0.04 0.04
Matches are distributed among these distances:
220 127 0.64
221 2 0.01
222 8 0.04
223 6 0.03
224 55 0.28
ACGTcount: A:0.36, C:0.16, G:0.17, T:0.31
Consensus pattern (224 bp):
AGGTTATGGTGCTTCGGGAAGCATGTAACTTCTGCCTGCAACTCATTCACGGGACTTCAATTACA
TTACTTATAAGTATGAACCATGTTAAGAAGATCTCATATCCCAGTAAACTTAAAAGTCAAAGCCA
ACTAGTGCTGATATTCACCTATATGCAAATATGAATTACATATTTGGTAGATAACTGTGTTTGAA
AACAAGTAATAAAATAAGTAATAAAATAT
Found at i:115672533 original size:13 final size:13
Alignment explanation
Indices: 115672515--115672541 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
115672505 TAAAAGAAAT
115672515 TTAAATAAATAAA
1 TTAAATAAATAAA
115672528 TTAAATAAATAAA
1 TTAAATAAATAAA
115672541 T
1 T
115672542 ACATTATATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (13 bp):
TTAAATAAATAAA
Found at i:115673920 original size:19 final size:19
Alignment explanation
Indices: 115673895--115673946 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
115673885 TTTAAAACGG
115673895 TTTTAACTTGATTGAAA-A
1 TTTTAACTTGATTGAAATA
**
115673913 TGTTTAACTCAATTGAAATTA
1 T-TTTAACTTGATTGAAA-TA
115673934 TTTTAACTTGATT
1 TTTTAACTTGATT
115673947 TTATTATTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
18 1 0.04
19 14 0.52
20 10 0.37
21 2 0.07
ACGTcount: A:0.35, C:0.08, G:0.10, T:0.48
Consensus pattern (19 bp):
TTTTAACTTGATTGAAATA
Found at i:115674001 original size:22 final size:25
Alignment explanation
Indices: 115673973--115674020 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 25
115673963 TTTGTTCAAC
*
115673973 TTTAACTT-TTAT-TCAAAA-ATAT
1 TTTAACTTGCTATATCAAAACATAT
115673995 TTTAACTTGCTATATCAAAACATAT
1 TTTAACTTGCTATATCAAAACATAT
115674020 T
1 T
115674021 ACCAAATAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 8 0.36
23 3 0.14
24 6 0.27
25 5 0.23
ACGTcount: A:0.40, C:0.12, G:0.02, T:0.46
Consensus pattern (25 bp):
TTTAACTTGCTATATCAAAACATAT
Found at i:115676402 original size:9 final size:9
Alignment explanation
Indices: 115676388--115676414 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
115676378 CACACACTAA
115676388 TAATAATAG
1 TAATAATAG
115676397 TAATAATAG
1 TAATAATAG
115676406 TAATAATAG
1 TAATAATAG
115676415 AAAGATATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.56, C:0.00, G:0.11, T:0.33
Consensus pattern (9 bp):
TAATAATAG
Found at i:115676775 original size:23 final size:23
Alignment explanation
Indices: 115676741--115676791 Score: 61
Period size: 25 Copynumber: 2.2 Consensus size: 23
115676731 AACAATATTA
*
115676741 ATAT-TACATAAAG-GTATACCT
1 ATATATACATAAAGAGTATACAT
115676762 ATATATACATTAAAGATGTATACAT
1 ATATATACA-TAAAGA-GTATACAT
115676787 ATATA
1 ATATA
115676792 ATAAAATACT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
21 4 0.16
22 4 0.16
23 5 0.20
25 12 0.48
ACGTcount: A:0.47, C:0.10, G:0.08, T:0.35
Consensus pattern (23 bp):
ATATATACATAAAGAGTATACAT
Found at i:115677406 original size:15 final size:15
Alignment explanation
Indices: 115677368--115677406 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
115677358 ATAATACTTC
*
115677368 ATAAATATATACATA
1 ATAAAAATATACATA
*
115677383 CTAAAAATATACATA
1 ATAAAAATATACATA
*
115677398 ATAATAATA
1 ATAAAAATA
115677407 ATATATACAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.62, C:0.08, G:0.00, T:0.31
Consensus pattern (15 bp):
ATAAAAATATACATA
Found at i:115677479 original size:16 final size:18
Alignment explanation
Indices: 115677450--115677485 Score: 58
Period size: 16 Copynumber: 2.1 Consensus size: 18
115677440 ATAATAACAG
115677450 TAAATATAATATTAATAT
1 TAAATATAATATTAATAT
115677468 TAAATA-AA-ATTAATAT
1 TAAATATAATATTAATAT
115677484 TA
1 TA
115677486 CAAATTTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 10 0.56
17 2 0.11
18 6 0.33
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
TAAATATAATATTAATAT
Found at i:115679227 original size:44 final size:44
Alignment explanation
Indices: 115679179--115679294 Score: 160
Period size: 44 Copynumber: 2.6 Consensus size: 44
115679169 TCCTCTATCA
*
115679179 GCTCCACTGCAACTTCAGGGGGACAAAACTTGCAACTTTGACCT
1 GCTCCACTGCAACTTCAGGGAGACAAAACTTGCAACTTTGACCT
* * * * *
115679223 GCTCCGCTGCAACTTCAGGAAGACAAGACTTGTAACTTTGGCCT
1 GCTCCACTGCAACTTCAGGGAGACAAAACTTGCAACTTTGACCT
* *
115679267 ACTCCACTGCAACTTCAGGGAAACAAAA
1 GCTCCACTGCAACTTCAGGGAGACAAAA
115679295 TCTGGTGTCT
Statistics
Matches: 61, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
44 61 1.00
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (44 bp):
GCTCCACTGCAACTTCAGGGAGACAAAACTTGCAACTTTGACCT
Found at i:115679684 original size:13 final size:13
Alignment explanation
Indices: 115679656--115679690 Score: 52
Period size: 14 Copynumber: 2.6 Consensus size: 13
115679646 TGAGTTGATT
115679656 TTTGAAAACAGAA
1 TTTGAAAACAGAA
*
115679669 TTTGCAAAACAGAT
1 TTTG-AAAACAGAA
115679683 TTTGAAAA
1 TTTGAAAA
115679691 TATCTCGGCA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
13 8 0.40
14 12 0.60
ACGTcount: A:0.49, C:0.09, G:0.14, T:0.29
Consensus pattern (13 bp):
TTTGAAAACAGAA
Found at i:115679736 original size:88 final size:88
Alignment explanation
Indices: 115679364--115679749 Score: 361
Period size: 88 Copynumber: 4.3 Consensus size: 88
115679354 AACTTATTTA
* * * * *
115679364 TCGCAATATG-GATTGACTCTTGAAAACAGACA-TT-AAAAACAGAAATTGAAAATAGCTCAGCG
1 TCGCAATATGAG-TTGATTTTTGAAAACAGA-ATTTGAAAAACAGATATTGAAAATACCTCAGCA
* * * *
115679426 CGTGAGCCAAGGCTCAATTCACCTC
64 TGTGACCCGAGGCTCAACTCACCTC
** *** *
115679451 TCGCAATATGAGTTGGTATTTTTG-AAACTTAATTTGAAAAGTTGATTTTTGAAAATACCTC-GA
1 TCGCAATATGAGTT-G-ATTTTTGAAAACAGAATTTGAAAAACAGA-TATTGAAAATACCTCAG-
*
115679514 CATGTGACCCGAGGCTCAACCCACCTC
62 CATGTGACCCGAGGCTCAACTCACCTC
* * *
115679541 TCGCATTATGAGTTGATTTTTTTGAAAAAAAAAATGTAAATTGAAGAAACAGGA-ATTGAAAATA
1 TCGCAATATGAGTTGA--TTTTTG----AAAACA-G-AATTTGAA-AAACA-GATATTGAAAATA
* *
115679605 CCTCAGCGTGTGAACCGAGGCTCAACTCACCTC
56 CCTCAGCATGTGACCCGAGGCTCAACTCACCTC
* * * *
115679638 TCGCAATATGAGTTGATTTTTGAAAACAGAATTTGCAAAACAGATTTTGAAAATATCTCGGCATG
1 TCGCAATATGAGTTGATTTTTGAAAACAGAATTTGAAAAACAGATATTGAAAATACCTCAGCATG
115679703 TGACCCGAGGCTCAACTCACCTC
66 TGACCCGAGGCTCAACTCACCTC
115679726 TCGCAATATGAGTTGATTTTTGAA
1 TCGCAATATGAGTTGATTTTTGAA
115679750 GAGTAGAAAT
Statistics
Matches: 242, Mismatches: 37, Indels: 39
0.76 0.12 0.12
Matches are distributed among these distances:
87 15 0.06
88 77 0.32
89 19 0.08
90 53 0.22
91 5 0.02
95 9 0.04
97 59 0.24
98 3 0.01
99 2 0.01
ACGTcount: A:0.34, C:0.19, G:0.18, T:0.28
Consensus pattern (88 bp):
TCGCAATATGAGTTGATTTTTGAAAACAGAATTTGAAAAACAGATATTGAAAATACCTCAGCATG
TGACCCGAGGCTCAACTCACCTC
Found at i:115679780 original size:14 final size:14
Alignment explanation
Indices: 115679761--115679790 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
115679751 AGTAGAAATT
115679761 AAACAGAATTCGAA
1 AAACAGAATTCGAA
*
115679775 AAACAGAATTTGAA
1 AAACAGAATTCGAA
115679789 AA
1 AA
115679791 TACCTCGACA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.60, C:0.10, G:0.13, T:0.17
Consensus pattern (14 bp):
AAACAGAATTCGAA
Found at i:115679834 original size:100 final size:100
Alignment explanation
Indices: 115679661--115679846 Score: 309
Period size: 100 Copynumber: 1.9 Consensus size: 100
115679651 TGATTTTTGA
* * * * * *
115679661 AAACAGAATTTGCAAAACAGATTTTGAAAATATCTCGGCATGTGACCCGAGGCTCAACTCACCTC
1 AAACAGAATTCGAAAAACAGAATTTGAAAATACCTCGACATGTGACCCGAGGCTCAACTCACCTA
115679726 TCGCAATATGAGTTGATTTTTGAAGAGTAGAAATT
66 TCGCAATATGAGTTGATTTTTGAAGAGTAGAAATT
*
115679761 AAACAGAATTCGAAAAACAGAATTTGAAAATACCTCGACATGTGACCCGAGGTTCAACTCACCTA
1 AAACAGAATTCGAAAAACAGAATTTGAAAATACCTCGACATGTGACCCGAGGCTCAACTCACCTA
115679826 TCGCAATATGAGTTGATTTTT
66 TCGCAATATGAGTTGATTTTT
115679847 TTGAAACGTA
Statistics
Matches: 79, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
100 79 1.00
ACGTcount: A:0.36, C:0.19, G:0.18, T:0.27
Consensus pattern (100 bp):
AAACAGAATTCGAAAAACAGAATTTGAAAATACCTCGACATGTGACCCGAGGCTCAACTCACCTA
TCGCAATATGAGTTGATTTTTGAAGAGTAGAAATT
Found at i:115680058 original size:73 final size:73
Alignment explanation
Indices: 115679865--115680175 Score: 424
Period size: 73 Copynumber: 4.2 Consensus size: 73
115679855 TAAATTAAAG
* * * * *
115679865 AACAAAAATTGAACATACCTCAGCTTGTCCTGAGGCTCAACTTACCTCTCGCAATATGAGTTGAT
1 AACATAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
***
115679930 TTTTTTGA
66 TTTTGAAA
* * * * *
115679938 AACATAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAATTCACCTCTAGCAATATGAATTG
1 AACATAAATTGAAAATACCTCAGC--GTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
115680003 ATTTTTGAAA
64 ATTTTTGAAA
* * *
115680013 AACATAAGTTGAAAATACCTCAGCATGCCCTGAGGCTCAACTCACCTCCCGCAATATGAGTTGAT
1 AACATAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
115680078 TTTTGAAA
66 TTTTGAAA
*
115680086 AACATAAATTGGAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
1 AACATAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-
115680151 TTTTTTGAAA
65 -TTTTTGAAA
*
115680161 AGCATAAATTGAAAA
1 AACATAAATTGAAAA
115680176 AAAATGAAAA
Statistics
Matches: 208, Mismatches: 26, Indels: 6
0.87 0.11 0.03
Matches are distributed among these distances:
73 124 0.60
75 84 0.40
ACGTcount: A:0.33, C:0.21, G:0.16, T:0.29
Consensus pattern (73 bp):
AACATAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
TTTTGAAA
Found at i:115680156 original size:148 final size:147
Alignment explanation
Indices: 115679865--115680175 Score: 435
Period size: 148 Copynumber: 2.1 Consensus size: 147
115679855 TAAATTAAAG
* * * * * *
115679865 AACAAAAATTGAACATACCTCAGCTTGTCCTGAGGCTCAACTTACCTCTCGCAATATGAGTTGAT
1 AACATAAATTGAAAATACCTCAGCATGCCCTGAGGCTCAACTCACCTCCCGCAATATGAGTTGAT
*** * *
115679930 TTTTTTGAAACATAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAATTCACCTCTAGCAAT
66 TTTTGAAAAACATAAATTGAAAATACCTCAGCG-GTGACCTGAGGCTCAACTCACCTCTAGCAAT
115679995 ATGAATTGATTTTTGAAA
130 ATGAATTGATTTTTGAAA
*
115680013 AACATAAGTTGAAAATACCTCAGCATGCCCTGAGGCTCAACTCACCTCCCGCAATATGAGTTGAT
1 AACATAAATTGAAAATACCTCAGCATGCCCTGAGGCTCAACTCACCTCCCGCAATATGAGTTGAT
* * *
115680078 TTTTGAAAAACATAAATTGGAAATACCTCAGC-GTGCCCTGAGGCTCAACTCACCTCTCGCAATA
66 TTTTGAAAAACATAAATTGAAAATACCTCAGCGGTGACCTGAGGCTCAACTCACCTCTAGCAATA
*
115680142 TGAGTTGATTTTTTTGAAA
131 TGAATTGA--TTTTTGAAA
*
115680161 AGCATAAATTGAAAA
1 AACATAAATTGAAAA
115680176 AAAATGAAAA
Statistics
Matches: 143, Mismatches: 18, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
146 36 0.25
148 107 0.75
ACGTcount: A:0.33, C:0.21, G:0.16, T:0.29
Consensus pattern (147 bp):
AACATAAATTGAAAATACCTCAGCATGCCCTGAGGCTCAACTCACCTCCCGCAATATGAGTTGAT
TTTTGAAAAACATAAATTGAAAATACCTCAGCGGTGACCTGAGGCTCAACTCACCTCTAGCAATA
TGAATTGATTTTTGAAA
Found at i:115681959 original size:93 final size:93
Alignment explanation
Indices: 115681846--115682017 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
115681836 CGCCCATAAG
* *
115681846 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
115681911 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
115681939 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
115682004 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
115682018 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:115682014 original size:46 final size:46
Alignment explanation
Indices: 115681839--115682014 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
115681829 TGTAACCCGC
* * *
115681839 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
115681885 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
115681935 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
115681978 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
115682015 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:115689589 original size:46 final size:46
Alignment explanation
Indices: 115689522--115689615 Score: 170
Period size: 46 Copynumber: 2.0 Consensus size: 46
115689512 GCAGAGGTGT
*
115689522 CCTTATTTCCGAAACATATTTTCTGACTTGTCATTCGTCCTCTTTC
1 CCTTATTTCCGAAACATATTTTCTGACTTGCCATTCGTCCTCTTTC
*
115689568 CCTTATTTTCGAAACATATTTTCTGACTTGCCATTCGTCCTCTTTC
1 CCTTATTTCCGAAACATATTTTCTGACTTGCCATTCGTCCTCTTTC
115689614 CC
1 CC
115689616 CACTGTGGTT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.17, C:0.30, G:0.09, T:0.45
Consensus pattern (46 bp):
CCTTATTTCCGAAACATATTTTCTGACTTGCCATTCGTCCTCTTTC
Found at i:115695221 original size:9 final size:9
Alignment explanation
Indices: 115695207--115695233 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
115695197 CACACACTAA
115695207 TAATAATAG
1 TAATAATAG
115695216 TAATAATAG
1 TAATAATAG
115695225 TAATAATAG
1 TAATAATAG
115695234 AAAGATATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.56, C:0.00, G:0.11, T:0.33
Consensus pattern (9 bp):
TAATAATAG
Found at i:115696191 original size:17 final size:17
Alignment explanation
Indices: 115696171--115696219 Score: 59
Period size: 17 Copynumber: 3.0 Consensus size: 17
115696161 TAATACTTCA
115696171 TAAATATATATACATAC
1 TAAATATATATACATAC
*
115696188 TAAA-A-ATATACATAA
1 TAAATATATATACATAC
115696203 T-AATAATATATACATAC
1 TAAAT-ATATATACATAC
115696220 AAAGTACACT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
14 2 0.07
15 10 0.37
16 2 0.07
17 13 0.48
ACGTcount: A:0.57, C:0.10, G:0.00, T:0.33
Consensus pattern (17 bp):
TAAATATATATACATAC
Found at i:115696198 original size:15 final size:17
Alignment explanation
Indices: 115696176--115696219 Score: 65
Period size: 15 Copynumber: 2.7 Consensus size: 17
115696166 CTTCATAAAT
115696176 ATATATACATACTAA-A
1 ATATATACATACTAATA
*
115696192 A-ATATACATAATAATA
1 ATATATACATACTAATA
115696208 ATATATACATAC
1 ATATATACATAC
115696220 AAAGTACACT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 12 0.50
16 3 0.12
17 9 0.38
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.32
Consensus pattern (17 bp):
ATATATACATACTAATA
Found at i:115696280 original size:16 final size:18
Alignment explanation
Indices: 115696251--115696286 Score: 58
Period size: 16 Copynumber: 2.1 Consensus size: 18
115696241 ATAATAACAG
115696251 TAAATATAATATTAATAT
1 TAAATATAATATTAATAT
115696269 TAAATA-AA-ATTAATAT
1 TAAATATAATATTAATAT
115696285 TA
1 TA
115696287 CAAATTTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 10 0.56
17 2 0.11
18 6 0.33
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
TAAATATAATATTAATAT
Found at i:115698052 original size:14 final size:14
Alignment explanation
Indices: 115698017--115698045 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
115698007 AAAATTTATT
115698017 AAACAAAAGAAAAC
1 AAACAAAAGAAAAC
115698031 AAACAAAAGAAAAC
1 AAACAAAAGAAAAC
115698045 A
1 A
115698046 TATAAAACTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.79, C:0.14, G:0.07, T:0.00
Consensus pattern (14 bp):
AAACAAAAGAAAAC
Found at i:115699039 original size:30 final size:29
Alignment explanation
Indices: 115698996--115699052 Score: 73
Period size: 27 Copynumber: 1.9 Consensus size: 29
115698986 TATTTAATTA
115698996 CTTTTATGACTTATATTTAGAAAATAATATTT
1 CTTTTATGACTTAT-TTTA-AAAA-AATATTT
115699028 CTTTT-TG-CTTATTTTAAAAAAATAT
1 CTTTTATGACTTATTTTAAAAAAATAT
115699053 ATATTTTTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
27 5 0.20
28 4 0.16
29 4 0.16
30 5 0.20
31 2 0.08
32 5 0.20
ACGTcount: A:0.37, C:0.07, G:0.05, T:0.51
Consensus pattern (29 bp):
CTTTTATGACTTATTTTAAAAAAATATTT
Found at i:115714601 original size:6 final size:6
Alignment explanation
Indices: 115714590--115714634 Score: 67
Period size: 6 Copynumber: 7.8 Consensus size: 6
115714580 TCCATTTATG
*
115714590 TTATTT TTATTT TTATTT CTATTT TTA-TT TTA-TT TTATTT TTATT
1 TTATTT TTATTT TTATTT TTATTT TTATTT TTATTT TTATTT TTATT
115714635 ATGTTGCTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
5 10 0.28
6 26 0.72
ACGTcount: A:0.18, C:0.02, G:0.00, T:0.80
Consensus pattern (6 bp):
TTATTT
Found at i:115719338 original size:27 final size:27
Alignment explanation
Indices: 115719298--115719438 Score: 166
Period size: 27 Copynumber: 5.2 Consensus size: 27
115719288 AGGAAGCGTC
*
115719298 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
115719325 CTGGTGGCTCTGCCAC-ATATATCTG-T
1 CTGGTGGCTCTGCCACAAT-TATCTGAT
*
115719351 CCTGGTGGCTATGCCACAATTATCTGAT
1 -CTGGTGGCTCTGCCACAATTATCTGAT
*
115719379 CTGGTGGCTCTGCCAC-ATATATAT-ATT
1 CTGGTGGCTCTGCCACAAT-TATCTGA-T
*
115719406 CTGGTGGCTCTGCCACAA-TATCTGTAC
1 CTGGTGGCTCTGCCACAATTATCTG-AT
115719433 CTGGTG
1 CTGGTG
115719439 ACTTCGTTAC
Statistics
Matches: 99, Mismatches: 6, Indels: 18
0.80 0.05 0.15
Matches are distributed among these distances:
26 10 0.10
27 84 0.85
28 5 0.05
ACGTcount: A:0.19, C:0.25, G:0.23, T:0.33
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGAT
Found at i:115719377 original size:54 final size:54
Alignment explanation
Indices: 115719295--115719438 Score: 227
Period size: 54 Copynumber: 2.7 Consensus size: 54
115719285 TGGAGGAAGC
*
115719295 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATAT
115719349 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATAT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATAT
* * * *
115719403 ATTCTGGTGGCTCTGCCACAA-TATCTGTACCTGGTG
1 GTCCTGGTGGCTATGCCACAATTATCTG-ATCTGGTG
115719439 ACTTCGTTAC
Statistics
Matches: 84, Mismatches: 5, Indels: 2
0.92 0.05 0.02
Matches are distributed among these distances:
53 6 0.07
54 78 0.93
ACGTcount: A:0.19, C:0.25, G:0.23, T:0.33
Consensus pattern (54 bp):
GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATAT
Found at i:115725644 original size:26 final size:26
Alignment explanation
Indices: 115725615--115725722 Score: 164
Period size: 26 Copynumber: 4.2 Consensus size: 26
115725605 TGGTACAAAT
115725615 TGATAAT-GAGTTAGGTAAATGTTCCA
1 TGATAATGGA-TTAGGTAAATGTTCCA
*
115725641 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
*
115725667 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
* *
115725693 TGATAATGGTTTATGTAAATGTTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
115725719 TGAT
1 TGAT
115725723 GGGCATTTCA
Statistics
Matches: 76, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
26 74 0.97
27 2 0.03
ACGTcount: A:0.33, C:0.07, G:0.22, T:0.37
Consensus pattern (26 bp):
TGATAATGGATTAGGTAAATGTTCCA
Found at i:115727354 original size:27 final size:27
Alignment explanation
Indices: 115727314--115727454 Score: 182
Period size: 27 Copynumber: 5.2 Consensus size: 27
115727304 AGGAAGCGTC
*
115727314 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
115727341 CTGGTGGCTCTGCCAC-ATATATCTG-T
1 CTGGTGGCTCTGCCACAAT-TATCTGAT
* *
115727367 CCTGGTGGTTATGCCACAATTATCTGAT
1 -CTGGTGGCTCTGCCACAATTATCTGAT
*
115727395 CTGGTGGCTCTGCCAC-ATATATCTGTT
1 CTGGTGGCTCTGCCACAAT-TATCTGAT
115727422 CTGGTGGCTCTGCCACAA-TATCTGTAT
1 CTGGTGGCTCTGCCACAATTATCTG-AT
115727449 CTGGTG
1 CTGGTG
115727455 ACTTCGTCAC
Statistics
Matches: 100, Mismatches: 7, Indels: 14
0.83 0.06 0.12
Matches are distributed among these distances:
26 11 0.11
27 85 0.85
28 4 0.04
ACGTcount: A:0.18, C:0.24, G:0.23, T:0.35
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGAT
Found at i:115727393 original size:54 final size:54
Alignment explanation
Indices: 115727311--115727454 Score: 245
Period size: 54 Copynumber: 2.7 Consensus size: 54
115727301 TGGAGGAAGC
115727311 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
*
115727365 GTCCTGGTGGTTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
* *
115727419 GTTCTGGTGGCTCTGCCACAA-TATCTGTATCTGGTG
1 GTCCTGGTGGCTATGCCACAATTATCTG-ATCTGGTG
115727455 ACTTCGTCAC
Statistics
Matches: 85, Mismatches: 4, Indels: 2
0.93 0.04 0.02
Matches are distributed among these distances:
53 6 0.07
54 79 0.93
ACGTcount: A:0.17, C:0.24, G:0.24, T:0.35
Consensus pattern (54 bp):
GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
Found at i:115729904 original size:3 final size:3
Alignment explanation
Indices: 115729896--115729948 Score: 106
Period size: 3 Copynumber: 17.7 Consensus size: 3
115729886 AAATGAAATA
115729896 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC
115729944 AAC AA
1 AAC AA
115729949 TAATAATAAT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.68, C:0.32, G:0.00, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:115731574 original size:27 final size:27
Alignment explanation
Indices: 115731544--115731937 Score: 484
Period size: 27 Copynumber: 14.6 Consensus size: 27
115731534 TAGTTTACCG
115731544 AATTACCAAAATACCCCTGGTTTGTAA
1 AATTACCAAAATACCCCTGGTTTGTAA
** * *
115731571 AATTATTAAAATACCCTTGGTTTATAA
1 AATTACCAAAATACCCCTGGTTTGTAA
* *
115731598 AATCACTAAAATACCCCTGGTTTGTAA
1 AATTACCAAAATACCCCTGGTTTGTAA
**
115731625 AATTACCAAAATA-CCCTCGGTTTACAA
1 AATTACCAAAATACCCCT-GGTTTGTAA
115731652 AATTACCAAAATACCCCTGGTTTGTAA
1 AATTACCAAAATACCCCTGGTTTGTAA
* * *
115731679 AATTACTAAAATACCCTTGGTTTATAA
1 AATTACCAAAATACCCCTGGTTTGTAA
*
115731706 AATCACCAAAATACCCCTGGTTTGTAA
1 AATTACCAAAATACCCCTGGTTTGTAA
* ***
115731733 AATTACCAAAATACCCTTGGTTTACCA
1 AATTACCAAAATACCCCTGGTTTGTAA
* * *
115731760 AATTACCAAAATATCTCTAGTTTGTAA
1 AATTACCAAAATACCCCTGGTTTGTAA
* * *
115731787 AATTACTAAAATACCCTTGGTTTATAA
1 AATTACCAAAATACCCCTGGTTTGTAA
*
115731814 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTGGTTTGTAA
*
115731841 AATTACGAAAATACCCCTGGTTTGTAA
1 AATTACCAAAATACCCCTGGTTTGTAA
* * **
115731868 AATTATCAAAATACCCCTAGTTTCAAA
1 AATTACCAAAATACCCCTGGTTTGTAA
* *
115731895 AATTACCAAAATACCCCTGATTTGTGA
1 AATTACCAAAATACCCCTGGTTTGTAA
**
115731922 AATTACTGAAATACCC
1 AATTACCAAAATACCC
115731938 TCAACCTGTA
Statistics
Matches: 307, Mismatches: 58, Indels: 4
0.83 0.16 0.01
Matches are distributed among these distances:
26 4 0.01
27 299 0.97
28 4 0.01
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.31
Consensus pattern (27 bp):
AATTACCAAAATACCCCTGGTTTGTAA
Found at i:115731610 original size:54 final size:54
Alignment explanation
Indices: 115731544--115731937 Score: 536
Period size: 54 Copynumber: 7.3 Consensus size: 54
115731534 TAGTTTACCG
**
115731544 AATTACCAAAATACCCCTGGTTTGTAAAATTATTAAAATACCCTTGGTTTATAA
1 AATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTATAA
* * * *
115731598 AATCACTAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTCGGTTTACAA
1 AATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTATAA
*
115731652 AATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTGGTTTATAA
1 AATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTATAA
* **
115731706 AATCACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTACCA
1 AATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTATAA
* * * *
115731760 AATTACCAAAATATCTCTAGTTTGTAAAATTACTAAAATACCCTTGGTTTATAA
1 AATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTATAA
* * * *
115731814 AATTACCAAAATACCCCTAGTTTGTAAAATTACGAAAATACCCCTGGTTTGTAA
1 AATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTATAA
* * ** * * * *
115731868 AATTATCAAAATACCCCTAGTTTCAAAAATTACCAAAATACCCCTGATTTGTGA
1 AATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTATAA
**
115731922 AATTACTGAAATACCC
1 AATTACCAAAATACCC
115731938 TCAACCTGTA
Statistics
Matches: 304, Mismatches: 36, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
54 304 1.00
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.31
Consensus pattern (54 bp):
AATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTATAA
Found at i:115731990 original size:27 final size:27
Alignment explanation
Indices: 115731544--115732045 Score: 329
Period size: 27 Copynumber: 18.6 Consensus size: 27
115731534 TAGTTTACCG
*
115731544 AATTACCAAAATACCC-CTGGTTTGTAA
1 AATTACCAAAATACCCTC-GATTTGTAA
** * * *
115731571 AATTATTAAAATACCCTTGGTTTATAA
1 AATTACCAAAATACCCTCGATTTGTAA
* * *
115731598 AATCACTAAAATACCC-CTGGTTTGTAA
1 AATTACCAAAATACCCTC-GATTTGTAA
* **
115731625 AATTACCAAAATACCCTCGGTTTACAA
1 AATTACCAAAATACCCTCGATTTGTAA
*
115731652 AATTACCAAAATACCC-CTGGTTTGTAA
1 AATTACCAAAATACCCTC-GATTTGTAA
* * * *
115731679 AATTACTAAAATACCCTTGGTTTATAA
1 AATTACCAAAATACCCTCGATTTGTAA
* *
115731706 AATCACCAAAATACCC-CTGGTTTGTAA
1 AATTACCAAAATACCCTC-GATTTGTAA
* * ***
115731733 AATTACCAAAATACCCTTGGTTTACCA
1 AATTACCAAAATACCCTCGATTTGTAA
* *
115731760 AATTACCAAAATA-TCTCTAGTTTGTAA
1 AATTACCAAAATACCCTCGA-TTTGTAA
* * * *
115731787 AATTACTAAAATACCCTTGGTTTATAA
1 AATTACCAAAATACCCTCGATTTGTAA
*
115731814 AATTACCAAAATACCC-CTAGTTTGTAA
1 AATTACCAAAATACCCTCGA-TTTGTAA
* *
115731841 AATTACGAAAATACCC-CTGGTTTGTAA
1 AATTACCAAAATACCCTC-GATTTGTAA
* * **
115731868 AATTATCAAAATACCC-CTAGTTTCAAA
1 AATTACCAAAATACCCTCGA-TTTGTAA
*
115731895 AATTACCAAAATACCC-CTGATTTGTGA
1 AATTACCAAAATACCCTC-GATTTGTAA
** * **
115731922 AATTACTGAAATACCCTCAACCTGTAA
1 AATTACCAAAATACCCTCGATTTGTAA
*** *
115731949 AATTATTGAAATACCCTCGAATTGTAA
1 AATTACCAAAATACCCTCGATTTGTAA
* * ** *
115731976 AATTACCAAAGTACCCTTGATTTACAG
1 AATTACCAAAATACCCTCGATTTGTAA
**** **
115732003 AATTACCGTTTTACCCTCGATTTACAA
1 AATTACCAAAATACCCTCGATTTGTAA
*
115732030 AATTACCGAAATACCC
1 AATTACCAAAATACCC
115732046 CTGTAGGGTA
Statistics
Matches: 375, Mismatches: 86, Indels: 28
0.77 0.18 0.06
Matches are distributed among these distances:
26 3 0.01
27 367 0.98
28 5 0.01
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.31
Consensus pattern (27 bp):
AATTACCAAAATACCCTCGATTTGTAA
Found at i:115732063 original size:27 final size:27
Alignment explanation
Indices: 115732033--115732247 Score: 263
Period size: 27 Copynumber: 8.0 Consensus size: 27
115732023 TTTACAAAAT
115732033 TACCGAAATACCCCTGTAGGGTAGAAA
1 TACCGAAATACCCCTGTAGGGTAGAAA
*
115732060 TACCGAAATACCCCTGTATGGTAGAAA
1 TACCGAAATACCCCTGTAGGGTAGAAA
* *
115732087 TACTGAAATACCCC-GTAGGGTAGAAT
1 TACCGAAATACCCCTGTAGGGTAGAAA
** * *
115732113 TACTAAAATACCCCTGTAGGGTATAAT
1 TACCGAAATACCCCTGTAGGGTAGAAA
* *
115732140 TACTGAAATACCCTTGTAGGGTAGAAA
1 TACCGAAATACCCCTGTAGGGTAGAAA
*
115732167 TACCGAAATACCCCTGTAGGGTAGAAT
1 TACCGAAATACCCCTGTAGGGTAGAAA
* * * *
115732194 TACTGAAATACTCCTGTAAGGTAGAAT
1 TACCGAAATACCCCTGTAGGGTAGAAA
* * *
115732221 TACCGAGATACCCTTGTGGGGTA-AAA
1 TACCGAAATACCCCTGTAGGGTAGAAA
115732247 T
1 T
115732248 TACCATTTTA
Statistics
Matches: 164, Mismatches: 23, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
26 26 0.16
27 138 0.84
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.25
Consensus pattern (27 bp):
TACCGAAATACCCCTGTAGGGTAGAAA
Found at i:115732148 original size:107 final size:108
Alignment explanation
Indices: 115732028--115732251 Score: 333
Period size: 107 Copynumber: 2.1 Consensus size: 108
115732018 CTCGATTTAC
*
115732028 AAAATTACCGAAATACCCCTGTAGGGTAGAAATACCGAAATACCCCTGTATGGTAGAAATACTGA
1 AAAATTACCGAAATACCCCTGTAGGGTAGAAATACCGAAATACCCCTGTAGGGTAGAAATACTGA
* *
115732093 AATAC-CCCGTAGGGTAGAATTACTAAAATACCCCTGTAGGGT
66 AATACTCCCGTAAGGTAGAATTACCAAAATACCCCTGTAGGGT
* * * *
115732135 ATAATTACTGAAATACCCTTGTAGGGTAGAAATACCGAAATACCCCTGTAGGGTAGAATTACTGA
1 AAAATTACCGAAATACCCCTGTAGGGTAGAAATACCGAAATACCCCTGTAGGGTAGAAATACTGA
* * * * *
115732200 AATACTCCTGTAAGGTAGAATTACCGAGATACCCTTGTGGGGT
66 AATACTCCCGTAAGGTAGAATTACCAAAATACCCCTGTAGGGT
115732243 AAAATTACC
1 AAAATTACC
115732252 ATTTTACCCC
Statistics
Matches: 102, Mismatches: 14, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
107 65 0.64
108 37 0.36
ACGTcount: A:0.36, C:0.19, G:0.20, T:0.25
Consensus pattern (108 bp):
AAAATTACCGAAATACCCCTGTAGGGTAGAAATACCGAAATACCCCTGTAGGGTAGAAATACTGA
AATACTCCCGTAAGGTAGAATTACCAAAATACCCCTGTAGGGT
Found at i:115732262 original size:81 final size:81
Alignment explanation
Indices: 115732038--115732247 Score: 298
Period size: 80 Copynumber: 2.6 Consensus size: 81
115732028 AAAATTACCG
* * * * *
115732038 AAATACCCCTGTAGGGTAGAAATACCGAAATACCCCTGTATGGTAGAAATACTGAAATACCCC-G
1 AAATACCCCTGTAAGGTAGAATTACCGAAATACCCTTGTAGGGTAGAAATACCGAAATACCCCTG
115732102 TAGGGTAGAATTACTA
66 TAGGGTAGAATTACTA
* * *
115732118 AAATACCCCTGTAGGGTATAATTACTGAAATACCCTTGTAGGGTAGAAATACCGAAATACCCCTG
1 AAATACCCCTGTAAGGTAGAATTACCGAAATACCCTTGTAGGGTAGAAATACCGAAATACCCCTG
*
115732183 TAGGGTAGAATTACTG
66 TAGGGTAGAATTACTA
* * *
115732199 AAATACTCCTGTAAGGTAGAATTACCGAGATACCCTTGTGGGGTA-AAAT
1 AAATACCCCTGTAAGGTAGAATTACCGAAATACCCTTGTAGGGTAGAAAT
115732248 TACCATTTTA
Statistics
Matches: 116, Mismatches: 13, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
80 61 0.53
81 55 0.47
ACGTcount: A:0.36, C:0.19, G:0.21, T:0.25
Consensus pattern (81 bp):
AAATACCCCTGTAAGGTAGAATTACCGAAATACCCTTGTAGGGTAGAAATACCGAAATACCCCTG
TAGGGTAGAATTACTA
Found at i:115732613 original size:33 final size:32
Alignment explanation
Indices: 115732564--115732627 Score: 83
Period size: 33 Copynumber: 2.0 Consensus size: 32
115732554 CTCGCTACAA
* *
115732564 TCTGGTGGCTTCGCCACATATATATATATCTGT
1 TCTGGTGGCCTAGCCACA-ATATATATATCTGT
* *
115732597 TCTGGTGGCCTAGCCACAATATCTGTATCTG
1 TCTGGTGGCCTAGCCACAATATATATATCTG
115732628 GTGACTTCGT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
32 11 0.41
33 16 0.59
ACGTcount: A:0.20, C:0.23, G:0.20, T:0.36
Consensus pattern (32 bp):
TCTGGTGGCCTAGCCACAATATATATATCTGT
Found at i:115732641 original size:27 final size:26
Alignment explanation
Indices: 115732589--115732647 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 26
115732579 ACATATATAT
*
115732589 ATATCTGTTCTGGTGGCCTAGCCACA
1 ATATCTGTTCTGGTGACCTAGCCACA
* * *
115732615 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGT-TCTGGTGACCTAGCCACA
115732642 ATATCT
1 ATATCT
115732648 AGCAGCCTCG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.29
27 20 0.71
ACGTcount: A:0.22, C:0.24, G:0.19, T:0.36
Consensus pattern (26 bp):
ATATCTGTTCTGGTGACCTAGCCACA
Found at i:115732776 original size:6 final size:6
Alignment explanation
Indices: 115732767--115732959 Score: 137
Period size: 6 Copynumber: 31.3 Consensus size: 6
115732757 TTGCATTCAC
*
115732767 ATTCTG ATTCTG ATTCTG ATTCTG -TTACCTG ATACTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG
* * **
115732816 -TTACCTA ATTCTG ATTCTG GTTCTG ATTCTG ATTCTG -TTACCTG ATAGTG
1 ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG
* * * *
115732866 ATTCTG ATTCTG -TTACCTA ATTCTG ATTCTG ATTCTA ATTTTA ATTCTG
1 ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG
* * *
115732915 -TCACCTG ATTCTG ATTCTG ATTCTC ATTTTG ATTCT- AGTTCTG AT
1 AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG AT
115732960 AATGTTTCTT
Statistics
Matches: 148, Mismatches: 22, Indels: 34
0.73 0.11 0.17
Matches are distributed among these distances:
5 10 0.07
6 117 0.79
7 14 0.09
8 7 0.05
ACGTcount: A:0.19, C:0.18, G:0.15, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:115732798 original size:25 final size:24
Alignment explanation
Indices: 115732767--115732959 Score: 137
Period size: 25 Copynumber: 7.8 Consensus size: 24
115732757 TTGCATTCAC
115732767 ATTCTGATTCTGATTCTGATTCTG
1 ATTCTGATTCTGATTCTGATTCTG
*
115732791 -TTACCTGATACTGATTCTGATTCTG
1 ATT--CTGATTCTGATTCTGATTCTG
* *
115732816 -TTACCTAATTCTGATTCTGGTTCTG
1 ATT--CTGATTCTGATTCTGATTCTG
**
115732841 ATTCTGATTCTG-TTACCTGATAGTG
1 ATTCTGATTCTGATT--CTGATTCTG
*
115732866 ATTCTGATTCTG-TTACCTAATTCTG
1 ATTCTGATTCTGATT--CTGATTCTG
* * *
115732891 ATTCTGATTCTAATTTTAATTCTG
1 ATTCTGATTCTGATTCTGATTCTG
* *
115732915 -TCACCTGATTCTGATTCTGATTCTC
1 AT--TCTGATTCTGATTCTGATTCTG
*
115732940 ATTTTGATTCT-AGTTCTGAT
1 ATTCTGATTCTGA-TTCTGAT
115732960 AATGTTTCTT
Statistics
Matches: 139, Mismatches: 20, Indels: 20
0.78 0.11 0.11
Matches are distributed among these distances:
23 6 0.04
24 30 0.22
25 98 0.71
26 5 0.04
ACGTcount: A:0.19, C:0.18, G:0.15, T:0.48
Consensus pattern (24 bp):
ATTCTGATTCTGATTCTGATTCTG
Found at i:115732804 original size:19 final size:19
Alignment explanation
Indices: 115732767--115732933 Score: 116
Period size: 19 Copynumber: 8.6 Consensus size: 19
115732757 TTGCATTCAC
115732767 ATTCTGATTCTGATT--CTG
1 ATTCTGATTCTG-TTACCTG
*
115732785 ATTCTG-TTACCTGATA-CTG
1 ATTCTGATT--CTGTTACCTG
*
115732804 ATTCTGATTCTGTTACCTA
1 ATTCTGATTCTGTTACCTG
115732823 ATTCTGATTCTGGTT--CTG
1 ATTCTGATTCT-GTTACCTG
115732841 ATTCTGATTCTGTTACCTGATAGTG
1 ATTCTGATTCTGTTACC------TG
*
115732866 ATTCTGATTCTGTTACCTA
1 ATTCTGATTCTGTTACCTG
*
115732885 ATTCTGATTCTGATT--CTA
1 ATTCTGATTCTG-TTACCTG
* * *
115732903 ATTTTAATTCTGTCACCTG
1 ATTCTGATTCTGTTACCTG
115732922 ATTCTGATTCTG
1 ATTCTGATTCTG
115732934 ATTCTCATTT
Statistics
Matches: 121, Mismatches: 11, Indels: 33
0.73 0.07 0.20
Matches are distributed among these distances:
17 6 0.05
18 38 0.31
19 51 0.42
20 7 0.06
25 19 0.16
ACGTcount: A:0.19, C:0.19, G:0.15, T:0.47
Consensus pattern (19 bp):
ATTCTGATTCTGTTACCTG
Found at i:115732842 original size:37 final size:37
Alignment explanation
Indices: 115732795--115732877 Score: 121
Period size: 37 Copynumber: 2.2 Consensus size: 37
115732785 ATTCTGTTAC
* *
115732795 CTGATACTGATTCTGATTCTGTTACCTAATTCTGATT
1 CTGATTCTGATTCTGATTCTGTTACCTAATACTGATT
* * *
115732832 CTGGTTCTGATTCTGATTCTGTTACCTGATAGTGATT
1 CTGATTCTGATTCTGATTCTGTTACCTAATACTGATT
115732869 CTGATTCTG
1 CTGATTCTG
115732878 TTACCTAATT
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
37 40 1.00
ACGTcount: A:0.18, C:0.18, G:0.18, T:0.46
Consensus pattern (37 bp):
CTGATTCTGATTCTGATTCTGTTACCTAATACTGATT
Found at i:115732868 original size:62 final size:62
Alignment explanation
Indices: 115732767--115732938 Score: 281
Period size: 62 Copynumber: 2.8 Consensus size: 62
115732757 TTGCATTCAC
115732767 ATTCTGATTCTGATTCTGATTCTGTTACCTGATACTGATTCTGATTCTGTTACCTAATTCTG
1 ATTCTGATTCTGATTCTGATTCTGTTACCTGATACTGATTCTGATTCTGTTACCTAATTCTG
* *
115732829 ATTCTGGTTCTGATTCTGATTCTGTTACCTGATAGTGATTCTGATTCTGTTACCTAATTCTG
1 ATTCTGATTCTGATTCTGATTCTGTTACCTGATACTGATTCTGATTCTGTTACCTAATTCTG
* * * * *
115732891 ATTCTGATTCTAATTTTAATTCTGTCACCTGATTCTGATTCTGATTCT
1 ATTCTGATTCTGATTCTGATTCTGTTACCTGATACTGATTCTGATTCT
115732939 CATTTTGATT
Statistics
Matches: 101, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
62 101 1.00
ACGTcount: A:0.19, C:0.19, G:0.15, T:0.48
Consensus pattern (62 bp):
ATTCTGATTCTGATTCTGATTCTGTTACCTGATACTGATTCTGATTCTGTTACCTAATTCTG
Found at i:115732898 original size:37 final size:37
Alignment explanation
Indices: 115732857--115732935 Score: 95
Period size: 37 Copynumber: 2.1 Consensus size: 37
115732847 ATTCTGTTAC
* * * *
115732857 CTGATAGTGATTCTGATTCTGTTACCTAATTCTGATT
1 CTGATACTAATTCTAATTCTGTCACCTAATTCTGATT
* * *
115732894 CTGATTCTAATTTTAATTCTGTCACCTGATTCTGATT
1 CTGATACTAATTCTAATTCTGTCACCTAATTCTGATT
115732931 CTGAT
1 CTGAT
115732936 TCTCATTTTG
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.22, C:0.18, G:0.14, T:0.47
Consensus pattern (37 bp):
CTGATACTAATTCTAATTCTGTCACCTAATTCTGATT
Found at i:115732936 original size:37 final size:37
Alignment explanation
Indices: 115732872--115732950 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
115732862 AGTGATTCTG
*
115732872 ATTCTGTTACCTAATTCTGATTCTGATTCTAATTTTA
1 ATTCTGTCACCTAATTCTGATTCTGATTCTAATTTTA
* * *
115732909 ATTCTGTCACCTGATTCTGATTCTGATTCTCATTTTG
1 ATTCTGTCACCTAATTCTGATTCTGATTCTAATTTTA
115732946 ATTCT
1 ATTCT
115732951 AGTTCTGATA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.20, C:0.19, G:0.10, T:0.51
Consensus pattern (37 bp):
ATTCTGTCACCTAATTCTGATTCTGATTCTAATTTTA
Found at i:115737149 original size:22 final size:20
Alignment explanation
Indices: 115737094--115737150 Score: 53
Period size: 20 Copynumber: 2.8 Consensus size: 20
115737084 AACAATAGTA
115737094 ATAAAGATAAAAAT-ATATAC
1 ATAAA-ATAAAAATAATATAC
** *
115737114 ATAAAATAGTAATAATATAT
1 ATAAAATAAAAATAATATAC
115737134 ATAACTAATAAAAATAA
1 ATAA--AATAAAAATAA
115737151 AAATAAGGAA
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
19 6 0.21
20 14 0.48
22 9 0.31
ACGTcount: A:0.65, C:0.04, G:0.04, T:0.28
Consensus pattern (20 bp):
ATAAAATAAAAATAATATAC
Found at i:115737334 original size:24 final size:22
Alignment explanation
Indices: 115737289--115737354 Score: 66
Period size: 22 Copynumber: 3.0 Consensus size: 22
115737279 TATATAATGG
* *
115737289 TATTAGAA-ATATGCAT-ACAA
1 TATTAAAATATATACATAACAA
115737309 TATTACAAAATATATATC-TAACAA
1 TATT--AAAATATATA-CATAACAA
115737333 TATTAAAATATATACATAACAA
1 TATTAAAATATATACATAACAA
115737355 CAAAAGTATG
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
20 4 0.11
21 1 0.03
22 19 0.50
23 5 0.13
24 9 0.24
ACGTcount: A:0.55, C:0.11, G:0.03, T:0.32
Consensus pattern (22 bp):
TATTAAAATATATACATAACAA
Found at i:115737343 original size:22 final size:23
Alignment explanation
Indices: 115737297--115737354 Score: 68
Period size: 22 Copynumber: 2.6 Consensus size: 23
115737287 GGTATTAGAA
*
115737297 ATATGCAT-ACAATATTACAAAAT
1 ATATACATAACAATATTA-AAAAT
115737320 ATATATC-TAACAATATT-AAAAT
1 ATATA-CATAACAATATTAAAAAT
115737342 ATATACATAACAA
1 ATATACATAACAA
115737355 CAAAAGTATG
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
21 1 0.03
22 16 0.52
23 5 0.16
24 9 0.29
ACGTcount: A:0.55, C:0.12, G:0.02, T:0.31
Consensus pattern (23 bp):
ATATACATAACAATATTAAAAAT
Found at i:115739040 original size:72 final size:72
Alignment explanation
Indices: 115738944--115739087 Score: 202
Period size: 72 Copynumber: 2.0 Consensus size: 72
115738934 GAAACTTAAT
* ** * * *
115738944 TTGAAAAGTAGATTTTGAAAATACCTCA-TCATGTGACCCGAA-GTTCAACTCACCTCTCGCAAT
1 TTGAAAAGCAGAAATTGAAAATACCTCAGT-ACGTGAACC-AAGGCTCAACTCACCTCTCGCAAT
115739007 ATGAGTTGA
64 ATGAGTTGA
115739016 TTGAAAAGCAGAAATTGAAAATACCTCAGTACGTGAACCAAGGCTCAACTCACCTCTCGCAATAT
1 TTGAAAAGCAGAAATTGAAAATACCTCAGTACGTGAACCAAGGCTCAACTCACCTCTCGCAATAT
115739081 GAGTTGA
66 GAGTTGA
115739088 CTTTTGAAAA
Statistics
Matches: 64, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
71 2 0.03
72 61 0.95
73 1 0.02
ACGTcount: A:0.35, C:0.22, G:0.17, T:0.26
Consensus pattern (72 bp):
TTGAAAAGCAGAAATTGAAAATACCTCAGTACGTGAACCAAGGCTCAACTCACCTCTCGCAATAT
GAGTTGA
Found at i:115739127 original size:14 final size:14
Alignment explanation
Indices: 115739110--115739136 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
115739100 AGAAGATAAA
115739110 AACAGAATTTGAAC
1 AACAGAATTTGAAC
115739124 AACAGAATTTGAA
1 AACAGAATTTGAA
115739137 AATACCTCGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.11, G:0.15, T:0.22
Consensus pattern (14 bp):
AACAGAATTTGAAC
Found at i:115739234 original size:174 final size:174
Alignment explanation
Indices: 115738957--115739271 Score: 540
Period size: 174 Copynumber: 1.8 Consensus size: 174
115738947 AAAAGTAGAT
*
115738957 TTTGAAAATACCTCATCATGTGACCCGAAGTTCAACTCACCTCTCGCAATATGAGTTGATTGAAA
1 TTTGAAAATACCTCAGCATGTGACCCGAAGTTCAACTCACCTCTCGCAATATGAGTTGATTGAAA
115739022 AGCAGAAATTGAAAATACCTCAGTACGTGAACCAAGGCTCAACTCACCTCTCGCAATATGAGTTG
66 AGCAGAAATTGAAAATACCTCAGTACGTGAACCAAGGCTCAACTCACCTCTCGCAATATGAGTTG
115739087 ACTTTTGAAAACTAGAAGATAAAAACAGAATTTGAACAACAGAA
131 ACTTTTGAAAACTAGAAGATAAAAACAGAATTTGAACAACAGAA
* * * **
115739131 TTTGAAAATACCTCGGCATGTGACCTGAAGTTCAACTTATTTCTCGCAATATGAGTTGATTGAAA
1 TTTGAAAATACCTCAGCATGTGACCCGAAGTTCAACTCACCTCTCGCAATATGAGTTGATTGAAA
* **
115739196 AGCAGAAATTGAAAATACCTCAGTATGTGAGGCAAGGCTCAACTCACCTCTCGCAATATGAGTTG
66 AGCAGAAATTGAAAATACCTCAGTACGTGAACCAAGGCTCAACTCACCTCTCGCAATATGAGTTG
*
115739261 ATTTTTGAAAA
131 ACTTTTGAAAA
115739272 GCAGAAATTG
Statistics
Matches: 131, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
174 131 1.00
ACGTcount: A:0.37, C:0.19, G:0.17, T:0.27
Consensus pattern (174 bp):
TTTGAAAATACCTCAGCATGTGACCCGAAGTTCAACTCACCTCTCGCAATATGAGTTGATTGAAA
AGCAGAAATTGAAAATACCTCAGTACGTGAACCAAGGCTCAACTCACCTCTCGCAATATGAGTTG
ACTTTTGAAAACTAGAAGATAAAAACAGAATTTGAACAACAGAA
Found at i:115739284 original size:14 final size:14
Alignment explanation
Indices: 115739265--115739297 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
115739255 GAGTTGATTT
115739265 TTGAAAAGCAGAAA
1 TTGAAAAGCAGAAA
*
115739279 TTGAAAAGTAGAAA
1 TTGAAAAGCAGAAA
115739293 TTGAA
1 TTGAA
115739298 GTTACCTCAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.55, C:0.03, G:0.21, T:0.21
Consensus pattern (14 bp):
TTGAAAAGCAGAAA
Found at i:115739598 original size:103 final size:104
Alignment explanation
Indices: 115739376--115739599 Score: 290
Period size: 103 Copynumber: 2.2 Consensus size: 104
115739366 TTTTTTTTGA
* *
115739376 AAAAATATAAGTTGAAAGAACAGAAATTGAAAATACCTCAGCATGCGAGCCAAGGCTCAACCCAC
1 AAAAATATAAATTGAAAGAACAGAAATTGAAAATACCTCAGCATGCGACCCAAGGCTCAACCCAC
*
115739441 TTCTCACAATATGAGTTGAGTTTTTGAAAAGTAAAAATT
66 TTCTCACAATATGAGTTGAGTTTTTGAAAAGCAAAAATT
* * ** * * * * * *
115739480 AAAAACAGAGTTTGAAAG-ACAGAATTTGAAAATACCTCGGTATGTGACCCGAGGCTCAACTCAC
1 AAAAATATAAATTGAAAGAACAGAAATTGAAAATACCTCAGCATGCGACCCAAGGCTCAACCCAC
* *
115739544 TTCTCGCAATATGAGTTGA-TTTTTGAAAAGCAGAAATT
66 TTCTCACAATATGAGTTGAGTTTTTGAAAAGCAAAAATT
115739582 GAAAAATATAAATTGAAA
1 -AAAAATATAAATTGAAA
115739600 TTACCTCAGC
Statistics
Matches: 101, Mismatches: 18, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
102 17 0.17
103 70 0.69
104 14 0.14
ACGTcount: A:0.42, C:0.15, G:0.17, T:0.25
Consensus pattern (104 bp):
AAAAATATAAATTGAAAGAACAGAAATTGAAAATACCTCAGCATGCGACCCAAGGCTCAACCCAC
TTCTCACAATATGAGTTGAGTTTTTGAAAAGCAAAAATT
Done.