Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: 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: 123748673
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5630000 characters in sequence are not A, C, G, or T
File 23 of 373
Found at i:6513434 original size:75 final size:75
Alignment explanation
Indices: 6513311--6513461 Score: 284
Period size: 75 Copynumber: 2.0 Consensus size: 75
6513301 GTGAAGTTTA
6513311 TATATCAAGCTGTGATAGGACTTAGATCCATGGCGGTTGGTTTCGTTCCGGTACCAATTGTACCA
1 TATATCAAGCTGTGATAGGACTTAGATCCATGGCGGTTGGTTTCGTTCCGGTACCAATTGTACCA
6513376 GTTGATATAC
66 GTTGATATAC
* *
6513386 TATATCAAGCTGTGATAGGTCTTAGATCCATGGCGGTTGGTTTCGTTCCGGTACCAGTTGTACCA
1 TATATCAAGCTGTGATAGGACTTAGATCCATGGCGGTTGGTTTCGTTCCGGTACCAATTGTACCA
6513451 GTTGATATAC
66 GTTGATATAC
6513461 T
1 T
6513462 CCGTTTCGAA
Statistics
Matches: 74, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
75 74 1.00
ACGTcount: A:0.23, C:0.19, G:0.25, T:0.34
Consensus pattern (75 bp):
TATATCAAGCTGTGATAGGACTTAGATCCATGGCGGTTGGTTTCGTTCCGGTACCAATTGTACCA
GTTGATATAC
Found at i:6513845 original size:18 final size:19
Alignment explanation
Indices: 6513807--6513843 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
6513797 TAATAAATGA
6513807 ATAAATAAAATTTATTTTT
1 ATAAATAAAATTTATTTTT
6513826 ATAAA-AAAATATTATTTT
1 ATAAATAAAAT-TTATTTT
6513844 ATTTATTATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (19 bp):
ATAAATAAAATTTATTTTT
Found at i:6515165 original size:220 final size:220
Alignment explanation
Indices: 6514853--6515296 Score: 852
Period size: 220 Copynumber: 2.0 Consensus size: 220
6514843 ACTGGGCCTT
6514853 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
1 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
*
6514918 CATATGCAAGCCCATTTGGGGAGACTACTCAATCCACCAACCACTACACTCCACCCATACCAGCC
66 CATATGCAAGCCCATTTGGGGAGACTACTCAACCCACCAACCACTACACTCCACCCATACCAGCC
6514983 ATACACTCCATGTGGGGAATAGCTCAACCCACCCAGCCCAACACTCCACAGTTGCAGCCTTGCTA
131 ATACACTCCATGTGGGGAATAGCTCAACCCACCCAGCCCAACACTCCACAGTTGCAGCCTTGCTA
* *
6515048 CTCAGTTAACAGTAAGTTGAGGCAA
196 CTCAATTAACAGTAAATTGAGGCAA
6515073 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
1 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
6515138 CATATGCAAGCCCATTTGGGGAGACTACTCAACCCACCAACCACTACACTCCACCCATACCAGCC
66 CATATGCAAGCCCATTTGGGGAGACTACTCAACCCACCAACCACTACACTCCACCCATACCAGCC
*
6515203 ATACACTCCATGTGGGGAATAGCTCAACCCACCCAGCCCAACACTCCACAGTTGCAGCCTTGCTG
131 ATACACTCCATGTGGGGAATAGCTCAACCCACCCAGCCCAACACTCCACAGTTGCAGCCTTGCTA
6515268 CTCAATTAACAGTAAATTGAGGCAA
196 CTCAATTAACAGTAAATTGAGGCAA
6515293 AGCC
1 AGCC
6515297 TCCAGTACGT
Statistics
Matches: 220, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
220 220 1.00
ACGTcount: A:0.32, C:0.33, G:0.15, T:0.20
Consensus pattern (220 bp):
AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
CATATGCAAGCCCATTTGGGGAGACTACTCAACCCACCAACCACTACACTCCACCCATACCAGCC
ATACACTCCATGTGGGGAATAGCTCAACCCACCCAGCCCAACACTCCACAGTTGCAGCCTTGCTA
CTCAATTAACAGTAAATTGAGGCAA
Found at i:6515434 original size:26 final size:26
Alignment explanation
Indices: 6515405--6515457 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
6515395 TCAAACATGC
6515405 ATTTAAGTCAATTTAAC-CCTAGGGGT
1 ATTTAAGT-AATTTAACTCCTAGGGGT
** *
6515431 ATTTCGGTAATTTATCTCCTAGGGGT
1 ATTTAAGTAATTTAACTCCTAGGGGT
6515457 A
1 A
6515458 AAACTGTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (26 bp):
ATTTAAGTAATTTAACTCCTAGGGGT
Found at i:6516978 original size:26 final size:26
Alignment explanation
Indices: 6516942--6517049 Score: 198
Period size: 26 Copynumber: 4.2 Consensus size: 26
6516932 TGAAATTCCA
6516942 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
6516968 ATCATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
6516994 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
6517020 GTCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
6517046 ATCA
1 ATCA
6517050 ATTTGTATCA
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 78 1.00
ACGTcount: A:0.35, C:0.27, G:0.07, T:0.31
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:6526700 original size:21 final size:20
Alignment explanation
Indices: 6526655--6526692 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
6526645 TCAGAAACCC
6526655 TAAAAATTAGGTTTTTTGCA
1 TAAAAATTAGGTTTTTTGCA
6526675 TAAAAATTAGGTTTTTTG
1 TAAAAATTAGGTTTTTTG
6526693 GGGTAAAAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.34, C:0.03, G:0.16, T:0.47
Consensus pattern (20 bp):
TAAAAATTAGGTTTTTTGCA
Found at i:6529266 original size:15 final size:15
Alignment explanation
Indices: 6529234--6529276 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 15
6529224 ACTATTAAAA
* *
6529234 AATGATAGTAAGAGT
1 AATGATAATAATAGT
*
6529249 AATGATAATAATATT
1 AATGATAATAATAGT
*
6529264 AATGGTAATAATA
1 AATGATAATAATA
6529277 CAAGTAATAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.51, C:0.00, G:0.16, T:0.33
Consensus pattern (15 bp):
AATGATAATAATAGT
Found at i:6529432 original size:3 final size:3
Alignment explanation
Indices: 6529406--6529477 Score: 110
Period size: 3 Copynumber: 24.3 Consensus size: 3
6529396 AGATAGTGTG
* * *
6529406 ATA ATG ATA AT- ATG ATA GTA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
6529453 ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
6529478 CACAACAAGT
Statistics
Matches: 63, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
2 2 0.03
3 61 0.97
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:6544674 original size:72 final size:71
Alignment explanation
Indices: 6544581--6545064 Score: 455
Period size: 72 Copynumber: 6.8 Consensus size: 71
6544571 AGGAAAATTG
* *
6544581 ACTCATATTGCGAGAGGTGAGTCAAGCCTCAGGTCACGCTGAGGTATTTTAATTCATGTTTTCAA
1 ACTCATATTGCGAGAAGTGAGTTAAGCCTCAGGTCACGCTGAGGTATTTTAATTCATGTTTTC-A
6544646 AAAATCA
65 AAAATCA
* * * * *
6544653 ACTCATATTGTGAGAAATGAGTTGAGCCTCAGGTCACACGCTGAGGTATTTTTAGTTTATG-TTT
1 ACTCATATTGCGAGAAGTGAGTTAAGCCTCAGGT--CACGCTGAGGTA-TTTTAATTCATGTTTT
**
6544717 C-AAAATTG
63 CAAAAATCA
* * *
6544725 ACTCATATTGCGAGAAGTGAGTCAAGCCTCAGGTCACGCTGAGGTATTTTAATTCCTTTTGTTTC
1 ACTCATATTGCGAGAAGTGAGTTAAGCCTCAGGTCACGCTGAGGTATTTTAATT-CATGT-TTTC
6544790 AAAAATCA
64 AAAAATCA
* ** * * * *
6544798 GCTCATATTGCGAGGGGTGAGTTAAGCCTCGGGGCACGCTGAGGTATTTTAGTTTATG-TTT-AG
1 ACTCATATTGCGAGAAGTGAGTTAAGCCTCAGGTCACGCTGAGGTATTTTAATTCATGTTTTCA-
6544861 AAAAT--
65 AAAATCA
* * * *
6544866 ACTCATATTGCGAAAAGTGAGTCAAGCCTCAAGTCACGCTGAGGTATTTTTAATTCCTGTTGTTT
1 ACTCATATTGCGAGAAGTGAGTTAAGCCTCAGGTCACGCTGAGGTA-TTTTAATTCATG-T-TTT
6544931 CAAAAATCA
63 CAAAAATCA
* * * * * * *
6544940 GCTCATATTGCGA-AAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTATG--TTC
1 ACTCATATTGCGAGAA-GTGAGTTAAGCCTCAGGTCACGCTGAGGT-ATTTTAATTCATGTTTTC
*
6545002 CAAAATCA
64 AAAAATCA
* * * * * *
6545010 ACTCACATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAAGTATTTTCAATT
1 ACTCATATTGCGAGAAGTGAGTTAAGCCTCAGGTCACGCTGAGGTATTTT-AATT
6545065 TCTACTTTTC
Statistics
Matches: 335, Mismatches: 58, Indels: 40
0.77 0.13 0.09
Matches are distributed among these distances:
68 38 0.11
69 21 0.06
70 70 0.21
71 1 0.00
72 77 0.23
73 55 0.16
74 62 0.19
75 11 0.03
ACGTcount: A:0.28, C:0.17, G:0.23, T:0.32
Consensus pattern (71 bp):
ACTCATATTGCGAGAAGTGAGTTAAGCCTCAGGTCACGCTGAGGTATTTTAATTCATGTTTTCAA
AAATCA
Found at i:6544946 original size:142 final size:145
Alignment explanation
Indices: 6544574--6545064 Score: 597
Period size: 144 Copynumber: 3.4 Consensus size: 145
6544564 CTTTCCAAGG
* * *
6544574 AAAATTGACTCATATTGCGAGAGGTGAGTCAAGCCTCAGGTCACGCTGAGGTATTTTAATTCATG
1 AAAAATGACTCATATTGCGAGAAGTGAGTCAAGCCTCAGGTCACGCTGAGGTATTTTAATTCCTG
* * **
6544639 -T-TTTCAAAAAATCAACTCATATTGTGAGAAATGAGTTGAGCCTCAGGTCACACGCTGAGGTAT
66 TTGTTTC-AAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCTGAGGTAT
6544702 TTTTAGTTTATGTTTC
130 TTTTAGTTTATGTTTC
* *
6544718 AAAATTGACTCATATTGCGAGAAGTGAGTCAAGCCTCAGGTCACGCTGAGGTATTTTAATTCCTT
1 AAAAATGACTCATATTGCGAGAAGTGAGTCAAGCCTCAGGTCACGCTGAGGTATTTTAATTCCTG
* * **
6544783 TTGTTTCAAAAATCAGCTCATATTGCGAGGGGTGAGTTAAGCCTC-GG-GGCACGCTGAGGTA-T
66 TTGTTTCAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCTGAGGTATT
6544845 TTTAGTTTATGTTT-
131 TTTAGTTTATGTTTC
* *
6544859 AGAAAAT-ACTCATATTGCGAAAAGTGAGTCAAGCCTCAAGTCACGCTGAGGTATTTTTAATTCC
1 A-AAAATGACTCATATTGCGAGAAGTGAGTCAAGCCTCAGGTCACGCTGAGGTA-TTTTAATTCC
* * *
6544923 TGTTGTTTCAAAAATCAGCTCATATTGCGAAAGGTGAGTTGAGCCTCAAG--ACACGTTGAGGTA
64 TGTTGTTTCAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCTGAGGTA
* * *
6544986 ATTTCAATTTATG-TTC
129 TTTTTAGTTTATGTTTC
* * * * ** * * *
6545002 CAAAATCAACTCACATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAAGTATTTTCAATT
1 AAAAAT-GACTCATATTGCGAGAAGTGAGTCAAGCCTCAGGTCACGCTGAGGTATTTT-AATT
6545065 TCTACTTTTC
Statistics
Matches: 304, Mismatches: 33, Indels: 20
0.85 0.09 0.06
Matches are distributed among these distances:
141 45 0.15
142 90 0.30
143 27 0.09
144 105 0.35
145 33 0.11
146 4 0.01
ACGTcount: A:0.29, C:0.17, G:0.23, T:0.32
Consensus pattern (145 bp):
AAAAATGACTCATATTGCGAGAAGTGAGTCAAGCCTCAGGTCACGCTGAGGTATTTTAATTCCTG
TTGTTTCAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCTGAGGTATT
TTTAGTTTATGTTTC
Found at i:6545075 original size:14 final size:14
Alignment explanation
Indices: 6545056--6545090 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
6545046 CGCTGAAGTA
*
6545056 TTTTCAATTTCTAC
1 TTTTCAATTCCTAC
6545070 TTTTCAATTCCTAC
1 TTTTCAATTCCTAC
6545084 TTTTCAA
1 TTTTCAA
6545091 AAAAATCAGC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.23, C:0.23, G:0.00, T:0.54
Consensus pattern (14 bp):
TTTTCAATTCCTAC
Found at i:6545154 original size:89 final size:88
Alignment explanation
Indices: 6545003--6545166 Score: 247
Period size: 89 Copynumber: 1.9 Consensus size: 88
6544993 TTTATGTTCC
* *
6545003 AAAATCAACTCACATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAAGTATTTTCAATTTCT
1 AAAATCAACTCACATTGCGAGAGGTAAGTTGAGCCTCAGGGCACGCTGAAGTATTTTCAATTTCT
6545068 ACTTTTCAATTCCTACTTTTCAAA
66 -CTTTTCAATTCCTACTTTTCAAA
* * * * *
6545092 AAAATCAGCTCATATTGCGGGAGGTAAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCT
1 AAAATCAACTCACATTGCGAGAGGTAAGTTGAGCCTCAGGGCACGCTGAAGTATTTTCAATTTCT
*
6545157 GTTTTCAATT
66 CTTTTCAATT
6545167 TATGTTGTTC
Statistics
Matches: 67, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
88 9 0.13
89 58 0.87
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.34
Consensus pattern (88 bp):
AAAATCAACTCACATTGCGAGAGGTAAGTTGAGCCTCAGGGCACGCTGAAGTATTTTCAATTTCT
CTTTTCAATTCCTACTTTTCAAA
Found at i:6545163 original size:13 final size:13
Alignment explanation
Indices: 6545145--6545178 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
6545135 CGCTGAGGTA
*
6545145 TTTTCAATTTCTG
1 TTTTCAATTTATG
6545158 TTTTCAATTTATG
1 TTTTCAATTTATG
6545171 TTGTTCAA
1 TT-TTCAA
6545179 GAATCAACTC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 14 0.74
14 5 0.26
ACGTcount: A:0.21, C:0.12, G:0.09, T:0.59
Consensus pattern (13 bp):
TTTTCAATTTATG
Found at i:6545362 original size:72 final size:72
Alignment explanation
Indices: 6545235--6545452 Score: 231
Period size: 72 Copynumber: 3.0 Consensus size: 72
6545225 CTTTTTCAAA
* * * * *
6545235 ATCAGCTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTGTG
1 ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACATGCTGAGGTATTTTCAATTTTTGTG
6545300 TTTTAAT
66 TTTTAAT
* * * *
6545307 TTCAACTCATATGGCGAGAGGTGAGTTGAGCCTCAGGACATGCTGAGGTAATTTCAATTTCTGTT
1 ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACATGCTGAGGTATTTTCAATTTTTG-T
*** *
6545372 GTAAAAAA
65 GTTTTAAT
* * * * * *
6545380 ATCAACTCATATTGCGAAAAGTGAGTTGAGCCTCAGTTCACATGCTGAGATATTTTTAGTTTTTG
1 ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG--GACATGCTGAGGTATTTTCAATTTTTG
6545445 T-TTTTAAT
64 TGTTTTAAT
6545453 GTCTGTTTTT
Statistics
Matches: 116, Mismatches: 27, Indels: 5
0.78 0.18 0.03
Matches are distributed among these distances:
72 54 0.47
73 40 0.34
74 1 0.01
75 21 0.18
ACGTcount: A:0.26, C:0.15, G:0.23, T:0.36
Consensus pattern (72 bp):
ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACATGCTGAGGTATTTTCAATTTTTGTG
TTTTAAT
Found at i:6546211 original size:16 final size:16
Alignment explanation
Indices: 6546190--6546221 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
6546180 GCCCAATAAC
*
6546190 CTAAACTACCAGCCCA
1 CTAAACTAACAGCCCA
6546206 CTAAACTAACAGCCCA
1 CTAAACTAACAGCCCA
6546222 TTACACAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.41, C:0.41, G:0.06, T:0.12
Consensus pattern (16 bp):
CTAAACTAACAGCCCA
Found at i:6546737 original size:10 final size:9
Alignment explanation
Indices: 6546719--6546786 Score: 51
Period size: 8 Copynumber: 8.1 Consensus size: 9
6546709 ACAAATACAT
6546719 ATATCAAAAA
1 ATAT-AAAAA
*
6546729 ATATGAAAA
1 ATATAAAAA
6546738 ATATACAAAA
1 ATATA-AAAA
6546748 ATAT----A
1 ATATAAAAA
6546753 ATAT-AAAA
1 ATATAAAAA
*
6546761 ATATAAGAA
1 ATATAAAAA
6546770 ATA-AAAAA
1 ATATAAAAA
6546778 ATA-AAAAA
1 ATATAAAAA
6546786 A
1 A
6546787 AATTAGAGTT
Statistics
Matches: 49, Mismatches: 4, Indels: 12
0.75 0.06 0.18
Matches are distributed among these distances:
5 5 0.10
8 18 0.37
9 14 0.29
10 12 0.24
ACGTcount: A:0.74, C:0.03, G:0.03, T:0.21
Consensus pattern (9 bp):
ATATAAAAA
Found at i:6546765 original size:8 final size:8
Alignment explanation
Indices: 6546725--6546784 Score: 56
Period size: 9 Copynumber: 7.6 Consensus size: 8
6546715 ACATATATCA
6546725 AAAAATAT
1 AAAAATAT
6546733 GAAAAATAT
1 -AAAAATAT
6546742 ACAAAA-AT
1 A-AAAATAT
*
6546750 -ATAATAT
1 AAAAATAT
6546757 AAAAATAT
1 AAAAATAT
6546765 AAGAAATA-
1 AA-AAATAT
6546773 AAAAA-AT
1 AAAAATAT
6546780 AAAAA
1 AAAAA
6546785 AAAATTAGAG
Statistics
Matches: 44, Mismatches: 2, Indels: 12
0.76 0.03 0.21
Matches are distributed among these distances:
6 4 0.09
7 10 0.23
8 13 0.30
9 17 0.39
ACGTcount: A:0.75, C:0.02, G:0.03, T:0.20
Consensus pattern (8 bp):
AAAAATAT
Found at i:6546781 original size:23 final size:24
Alignment explanation
Indices: 6546724--6546784 Score: 63
Period size: 23 Copynumber: 2.5 Consensus size: 24
6546714 TACATATATC
6546724 AAAAAATATGAAAAATATACAAAAAT
1 AAAAAA-AT-AAAAATATACAAAAAT
* * *
6546750 -ATAATATAAAAATATA-AGAAAT
1 AAAAAAATAAAAATATACAAAAAT
6546772 AAAAAAATAAAAA
1 AAAAAAATAAAAA
6546785 AAAATTAGAG
Statistics
Matches: 29, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
22 5 0.17
23 19 0.66
24 2 0.07
25 3 0.10
ACGTcount: A:0.75, C:0.02, G:0.03, T:0.20
Consensus pattern (24 bp):
AAAAAAATAAAAATATACAAAAAT
Found at i:6547429 original size:20 final size:20
Alignment explanation
Indices: 6547395--6547441 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
6547385 ATATTGTTAC
6547395 TATTATTTTTATTAATA-TAT
1 TATTATTTTTATTAA-AGTAT
6547415 TAATTATTTTT-TTAAAGTAT
1 T-ATTATTTTTATTAAAGTAT
6547435 TATTATT
1 TATTATT
6547442 ACTGATGATT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
19 7 0.28
20 9 0.36
21 9 0.36
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (20 bp):
TATTATTTTTATTAAAGTAT
Found at i:6547438 original size:23 final size:21
Alignment explanation
Indices: 6547396--6547441 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
6547386 TATTGTTACT
6547396 ATTATTTTTATTAATATATTA
1 ATTATTTTTATTAATATATTA
6547417 ATTATTTTT-TTAA-AGTATT-
1 ATTATTTTTATTAATA-TATTA
6547436 ATTATT
1 ATTATT
6547442 ACTGATGATT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 7 0.29
20 8 0.33
21 9 0.38
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (21 bp):
ATTATTTTTATTAATATATTA
Found at i:6547504 original size:13 final size:14
Alignment explanation
Indices: 6547480--6547510 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
6547470 ATTATTATCA
6547480 ATATTAATATATGT
1 ATATTAATATATGT
6547494 ATATT-ATATATGT
1 ATATTAATATATGT
6547507 ATAT
1 ATAT
6547511 ATTCATACAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.71
14 5 0.29
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.52
Consensus pattern (14 bp):
ATATTAATATATGT
Found at i:6547607 original size:12 final size:12
Alignment explanation
Indices: 6547592--6547623 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
6547582 TATATTTCAT
*
6547592 TATTATTTTTAA
1 TATTATTATTAA
6547604 TATTATTATTAA
1 TATTATTATTAA
6547616 TATTATTA
1 TATTATTA
6547624 GATGTTATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (12 bp):
TATTATTATTAA
Found at i:6547695 original size:26 final size:24
Alignment explanation
Indices: 6547639--6547758 Score: 89
Period size: 26 Copynumber: 4.7 Consensus size: 24
6547629 TATTTATTCC
* * * *
6547639 TAATATGTATATTATGTAAATGTCT
1 TAATAT-TATATTATATAATTTTTT
*
6547664 TAATATTATATTATATGTATTTTTT
1 TAATATTATATTATAT-AATTTTTT
*
6547689 TATATATGT-TATGTATATAAGTTTTT
1 TA-ATAT-TATAT-TATATAATTTTTT
*
6547715 TAATATTATATTTTATACATATTTTT
1 TAATATTATATTATATA-AT-TTTTT
6547741 TAATATTATTAGTTATAT
1 TAATATTA-TA-TTATAT
6547759 TTTTTATATA
Statistics
Matches: 76, Mismatches: 10, Indels: 15
0.75 0.10 0.15
Matches are distributed among these distances:
24 15 0.20
25 20 0.26
26 28 0.37
27 8 0.11
28 5 0.07
ACGTcount: A:0.34, C:0.02, G:0.07, T:0.57
Consensus pattern (24 bp):
TAATATTATATTATATAATTTTTT
Found at i:6547803 original size:21 final size:20
Alignment explanation
Indices: 6547770--6547812 Score: 59
Period size: 21 Copynumber: 2.1 Consensus size: 20
6547760 TTTTATATAC
6547770 TATTACATGTATACTTCTAA
1 TATTACATGTATACTTCTAA
* *
6547790 TATTATATCGTATATTTCTAA
1 TATTACAT-GTATACTTCTAA
6547811 TA
1 TA
6547813 CCATCATTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.35, C:0.12, G:0.05, T:0.49
Consensus pattern (20 bp):
TATTACATGTATACTTCTAA
Found at i:6550122 original size:43 final size:43
Alignment explanation
Indices: 6550015--6550241 Score: 339
Period size: 43 Copynumber: 5.3 Consensus size: 43
6550005 TTTTTGAAAA
* ** *
6550015 AAACGCCGCTAAAGACCATGACCTTTAGTGGCGC-TTTTAAAA
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTTTCAC
* *
6550057 AAATGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTTTCGC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTTTCAC
*
6550100 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTTTTAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTTTCAC
6550143 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTTTCAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTTTCAC
* * * *
6550186 AAACGCCGCTAAAGATCATAACCTTTAGCGGCACTTTTCTCAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTTTCAC
*
6550229 AAACGCTGCTAAA
1 AAACGCCGCTAAA
6550242 AATAATGATA
Statistics
Matches: 169, Mismatches: 15, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
42 32 0.19
43 137 0.81
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.26
Consensus pattern (43 bp):
AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTTTCAC
Found at i:6552113 original size:4 final size:4
Alignment explanation
Indices: 6552104--6552133 Score: 53
Period size: 4 Copynumber: 7.8 Consensus size: 4
6552094 ATTTTATAGT
6552104 TTTA TTTA TTTA TTTA TTTA TTTA -TTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
6552134 GAAAATAATG
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 3 0.12
4 22 0.88
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:6555607 original size:7 final size:7
Alignment explanation
Indices: 6555597--6555677 Score: 67
Period size: 7 Copynumber: 11.3 Consensus size: 7
6555587 AATTTTTAAG
6555597 TTTTTATT
1 TTTTTA-T
6555605 TTTTTAT
1 TTTTTAT
6555612 TTTTTATT
1 TTTTTA-T
6555620 TTTTTAT
1 TTTTTAT
* *
6555627 TTTTAAA
1 TTTTTAT
*
6555634 TTTTAAT
1 TTTTTAT
*
6555641 TTTTTTT
1 TTTTTAT
6555648 ATTTTTAT
1 -TTTTTAT
6555656 TTTTTGA-
1 TTTTT-AT
*
6555663 -GTTTAT
1 TTTTTAT
6555669 TTTTTAT
1 TTTTTAT
6555676 TT
1 TT
6555678 CGGTTTAATG
Statistics
Matches: 60, Mismatches: 8, Indels: 11
0.76 0.10 0.14
Matches are distributed among these distances:
5 1 0.02
6 3 0.05
7 36 0.60
8 20 0.33
ACGTcount: A:0.17, C:0.00, G:0.02, T:0.80
Consensus pattern (7 bp):
TTTTTAT
Found at i:6555615 original size:23 final size:23
Alignment explanation
Indices: 6555589--6555660 Score: 87
Period size: 23 Copynumber: 3.2 Consensus size: 23
6555579 AAATTTTAAA
6555589 TTTTTAAGTTTTTATT-TTTTTAT
1 TTTTTAA-TTTTTATTATTTTTAT
*
6555612 TTTTT-ATTTTT-TTATTTTTAA
1 TTTTTAATTTTTATTATTTTTAT
* *
6555633 ATTTTAATTTTTTTTATTTTTAT
1 TTTTTAATTTTTATTATTTTTAT
6555656 TTTTT
1 TTTTT
6555661 GAGTTTATTT
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
20 2 0.05
21 15 0.36
22 7 0.17
23 18 0.43
ACGTcount: A:0.18, C:0.00, G:0.01, T:0.81
Consensus pattern (23 bp):
TTTTTAATTTTTATTATTTTTAT
Found at i:6555643 original size:37 final size:37
Alignment explanation
Indices: 6555588--6555660 Score: 112
Period size: 37 Copynumber: 2.0 Consensus size: 37
6555578 TAAATTTTAA
* *
6555588 ATTTTTAAGTTTTTA-TTTTTTTATTTTTTATTTTTTT
1 ATTTTTAAATTTTAATTTTTTTTA-TTTTTATTTTTTT
6555625 ATTTTTAAATTTTAATTTTTTTTATTTTTATTTTTT
1 ATTTTTAAATTTTAATTTTTTTTATTTTTATTTTTT
6555661 GAGTTTATTT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
37 25 0.76
38 8 0.24
ACGTcount: A:0.19, C:0.00, G:0.01, T:0.79
Consensus pattern (37 bp):
ATTTTTAAATTTTAATTTTTTTTATTTTTATTTTTTT
Found at i:6555645 original size:8 final size:8
Alignment explanation
Indices: 6555582--6555645 Score: 55
Period size: 7 Copynumber: 8.5 Consensus size: 8
6555572 AAATATTAAA
*
6555582 TTTTAAAT
1 TTTTAATT
*
6555590 TTTTAAGT
1 TTTTAATT
6555598 TTTT-ATT
1 TTTTAATT
*
6555605 TTTTTATT
1 TTTTAATT
6555613 TTTT-ATT
1 TTTTAATT
*
6555620 TTTTTA-T
1 TTTTAATT
*
6555627 TTTTAA-A
1 TTTTAATT
6555634 TTTTAATT
1 TTTTAATT
6555642 TTTT
1 TTTT
6555646 TTATTTTTAT
Statistics
Matches: 48, Mismatches: 5, Indels: 6
0.81 0.08 0.10
Matches are distributed among these distances:
7 25 0.52
8 23 0.48
ACGTcount: A:0.22, C:0.00, G:0.02, T:0.77
Consensus pattern (8 bp):
TTTTAATT
Found at i:6555645 original size:15 final size:15
Alignment explanation
Indices: 6555582--6555660 Score: 79
Period size: 15 Copynumber: 5.3 Consensus size: 15
6555572 AAATATTAAA
* *
6555582 TTTTAAATTTTTAAGT
1 TTTTATATTTTT-ATT
*
6555598 TTTTATTTTTTTATT
1 TTTTATATTTTTATT
*
6555613 TTTTATTTTTTTA-T
1 TTTTATATTTTTATT
* *
6555627 TTTTAAATTTTAATT
1 TTTTATATTTTTATT
*
6555642 TTTTTTATTTTTATT
1 TTTTATATTTTTATT
6555657 TTTT
1 TTTT
6555661 GAGTTTATTT
Statistics
Matches: 53, Mismatches: 9, Indels: 3
0.82 0.14 0.05
Matches are distributed among these distances:
14 11 0.21
15 32 0.60
16 10 0.19
ACGTcount: A:0.20, C:0.00, G:0.01, T:0.78
Consensus pattern (15 bp):
TTTTATATTTTTATT
Found at i:6555660 original size:8 final size:8
Alignment explanation
Indices: 6555597--6555653 Score: 64
Period size: 8 Copynumber: 7.4 Consensus size: 8
6555587 AATTTTTAAG
6555597 TTTTTATT
1 TTTTTATT
6555605 TTTTTA-T
1 TTTTTATT
6555612 TTTTTATT
1 TTTTTATT
6555620 TTTTTATT
1 TTTTTATT
**
6555628 TTTAAATT
1 TTTTTATT
**
6555636 TTAAT-TT
1 TTTTTATT
6555643 TTTTTATT
1 TTTTTATT
6555651 TTT
1 TTT
6555654 ATTTTTTGAG
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
7 12 0.29
8 29 0.71
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (8 bp):
TTTTTATT
Found at i:6556279 original size:15 final size:15
Alignment explanation
Indices: 6556256--6556306 Score: 50
Period size: 15 Copynumber: 3.5 Consensus size: 15
6556246 ATACCCATGG
*
6556256 CCATTAAACCTTAAA
1 CCATAAAACCTTAAA
*
6556271 CCATAAAACCCTAAA
1 CCATAAAACCTTAAA
* *
6556286 CTAT-AGACCTTAAA
1 CCATAAAACCTTAAA
*
6556300 CCTTAAA
1 CCATAAA
6556307 TATTAAACCG
Statistics
Matches: 27, Mismatches: 8, Indels: 2
0.73 0.22 0.05
Matches are distributed among these distances:
14 10 0.37
15 17 0.63
ACGTcount: A:0.47, C:0.27, G:0.02, T:0.24
Consensus pattern (15 bp):
CCATAAAACCTTAAA
Found at i:6556484 original size:16 final size:17
Alignment explanation
Indices: 6556459--6556492 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
6556449 GAAGTTATAG
*
6556459 TTTAGTGTTT-AGGGTT
1 TTTAGGGTTTAAGGGTT
6556475 TTTAGGGTTTAAGGGTT
1 TTTAGGGTTTAAGGGTT
6556492 T
1 T
6556493 AGTATTTTAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.15, C:0.00, G:0.32, T:0.53
Consensus pattern (17 bp):
TTTAGGGTTTAAGGGTT
Found at i:6556517 original size:53 final size:54
Alignment explanation
Indices: 6556434--6556545 Score: 136
Period size: 53 Copynumber: 2.1 Consensus size: 54
6556424 ATGTTTTTTG
* * * *
6556434 GGGTTTAGGGTTTTAGAAGTTATAGTTTAGTGTTTA-GGGTTTTTAGGGTTTAA
1 GGGTTTAGGATTTTAGAAGTTATAGATTAGTGTTCATGAGTTTTTAGGGTTTAA
* ** * *
6556487 GGGTTTAGTATTTTAGGGGTTATAGATTAGTGTTCATGATTTTTTAGGGTTTAG
1 GGGTTTAGGATTTTAGAAGTTATAGATTAGTGTTCATGAGTTTTTAGGGTTTAA
6556541 GGGTT
1 GGGTT
6556546 ATATGACTTT
Statistics
Matches: 49, Mismatches: 9, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
53 30 0.61
54 19 0.39
ACGTcount: A:0.20, C:0.01, G:0.32, T:0.47
Consensus pattern (54 bp):
GGGTTTAGGATTTTAGAAGTTATAGATTAGTGTTCATGAGTTTTTAGGGTTTAA
Found at i:6556688 original size:81 final size:81
Alignment explanation
Indices: 6556549--6556794 Score: 334
Period size: 81 Copynumber: 3.0 Consensus size: 81
6556539 AGGGGTTATA
6556549 TGACTTTTAGCGGCGTTTTATCAAAAGCGCCGCTATTGCTCTGACTTTTAGCGGCGTTTTACCAA
1 TGACTTTTAGCGGCGTTTTAT-AAAAGCGCCGCTATTGCTCTGACTTTTAGCGGCGTTTTACCAA
*
6556614 AAGCGCCGCTAATGCTC
65 AAGCGCCGCTATTGCTC
* * *
6556631 TGACTTTTAGCGGCGTTTTATAGAAGCGCCGCTATTGCTCCGACTTTTAGCGACGTTTTACCAAA
1 TGACTTTTAGCGGCGTTTTATAAAAGCGCCGCTATTGCTCTGACTTTTAGCGGCGTTTTACCAAA
*
6556696 AGCGCCGCTATTGATC
66 AGCGCCGCTATTGCTC
* * * * * * *
6556712 TG-TTTTTAGCGGCGTTTTAACAAAAAACGCCGCTATTGCTCTG-TTTTTAACGGCGTGTTAACA
1 TGACTTTTAGCGGCGTTTT-A-TAAAAGCGCCGCTATTGCTCTGACTTTTAGCGGCGTTTTACCA
*
6556775 AAAACGCCGCTATTGCTC
64 AAAGCGCCGCTATTGCTC
6556793 TG
1 TG
6556795 TGTTTTACAA
Statistics
Matches: 145, Mismatches: 17, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
80 15 0.10
81 91 0.63
82 39 0.27
ACGTcount: A:0.22, C:0.24, G:0.22, T:0.33
Consensus pattern (81 bp):
TGACTTTTAGCGGCGTTTTATAAAAGCGCCGCTATTGCTCTGACTTTTAGCGGCGTTTTACCAAA
AGCGCCGCTATTGCTC
Found at i:6556783 original size:122 final size:122
Alignment explanation
Indices: 6556550--6556792 Score: 337
Period size: 122 Copynumber: 2.0 Consensus size: 122
6556540 GGGGTTATAT
* * * *
6556550 GACTTTTAGCGGCGTTTTATCAAAAGCGCCGCTATTGCTCTGACTTTTAGCGGCGTTTTACCAAA
1 GACTTTTAGCGACGTTTTACCAAAAGCGCCGCTATTGATCTGACTTTTAGCGGCGTTTTACAAAA
* * * * * *
6556615 AGCGCCGCTAATGCTCTGACTTTTAGCGGCGTTTTATAGAAGCGCCGCTATTGCTCC
66 AACGCCGCTAATGCTCTGACTTTTAACGGCGTTTAACAAAAACGCCGCTATTGCTCC
*
6556672 GACTTTTAGCGACGTTTTACCAAAAGCGCCGCTATTGATCTG-TTTTTAGCGGCGTTTTAACAAA
1 GACTTTTAGCGACGTTTTACCAAAAGCGCCGCTATTGATCTGACTTTTAGCGGCGTTTT-ACAAA
* *
6556736 AAACGCCGCTATTGCTCTG-TTTTTAACGGCGTGTTAACAAAAACGCCGCTATTGCTC
65 AAACGCCGCTAATGCTCTGACTTTTAACGGCGT-TTAACAAAAACGCCGCTATTGCTC
6556793 TGTGTTTTAC
Statistics
Matches: 106, Mismatches: 13, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
121 26 0.25
122 80 0.75
ACGTcount: A:0.22, C:0.24, G:0.21, T:0.32
Consensus pattern (122 bp):
GACTTTTAGCGACGTTTTACCAAAAGCGCCGCTATTGATCTGACTTTTAGCGGCGTTTTACAAAA
AACGCCGCTAATGCTCTGACTTTTAACGGCGTTTAACAAAAACGCCGCTATTGCTCC
Found at i:6556801 original size:41 final size:41
Alignment explanation
Indices: 6556549--6556794 Score: 327
Period size: 41 Copynumber: 6.0 Consensus size: 41
6556539 AGGGGTTATA
*
6556549 TGACTTTTAGCGGCGTTTTATCAAAAGCGCCGCTATTGCTC
1 TGACTTTTAGCGGCGTTTTAACAAAAGCGCCGCTATTGCTC
* *
6556590 TGACTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTC
1 TGACTTTTAGCGGCGTTTTAACAAAAGCGCCGCTATTGCTC
* *
6556631 TGACTTTTAGCGGCGTTTT-ATAGAAGCGCCGCTATTGCTC
1 TGACTTTTAGCGGCGTTTTAACAAAAGCGCCGCTATTGCTC
* * * *
6556671 CGACTTTTAGCGACGTTTTACCAAAAGCGCCGCTATTGATC
1 TGACTTTTAGCGGCGTTTTAACAAAAGCGCCGCTATTGCTC
* *
6556712 TG-TTTTTAGCGGCGTTTTAACAAAAAACGCCGCTATTGCTC
1 TGACTTTTAGCGGCGTTTTAAC-AAAAGCGCCGCTATTGCTC
* * * *
6556753 TG-TTTTTAACGGCGTGTTAACAAAAACGCCGCTATTGCTC
1 TGACTTTTAGCGGCGTTTTAACAAAAGCGCCGCTATTGCTC
6556793 TG
1 TG
6556795 TGTTTTACAA
Statistics
Matches: 183, Mismatches: 20, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
40 71 0.39
41 112 0.61
ACGTcount: A:0.22, C:0.24, G:0.22, T:0.33
Consensus pattern (41 bp):
TGACTTTTAGCGGCGTTTTAACAAAAGCGCCGCTATTGCTC
Found at i:6558728 original size:47 final size:47
Alignment explanation
Indices: 6558672--6558788 Score: 171
Period size: 47 Copynumber: 2.5 Consensus size: 47
6558662 GTTTATCTGT
* ** *
6558672 TCGACCAGTGGTTTATCCACAATGTATTCTAGTCGGCAATCGCCTGC
1 TCGACCAGTGGTTCATCCACAACCTATTCTAGTCGGCAATCGCCTAC
* * *
6558719 TTGACCAGTGGTTCATCCAGAACCTATTCTAGTCGGTAATCGCCTAC
1 TCGACCAGTGGTTCATCCACAACCTATTCTAGTCGGCAATCGCCTAC
6558766 TCGACCAGTGGTTCATCCACAAC
1 TCGACCAGTGGTTCATCCACAAC
6558789 ATACTAGCAA
Statistics
Matches: 61, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
47 61 1.00
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (47 bp):
TCGACCAGTGGTTCATCCACAACCTATTCTAGTCGGCAATCGCCTAC
Found at i:6561095 original size:27 final size:29
Alignment explanation
Indices: 6561070--6561127 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 29
6561060 TTTATTATTT
6561070 TATTATTTTTAAA-AAGTAATAATATTAATA
1 TATTATTTTTAAACAA-TAATAATATT-ATA
*
6561100 TATTATTTTTAAACAATAATAATTTTAT
1 TATTATTTTTAAACAATAATAATATTAT
6561128 TTTGTTGTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
29 2 0.08
30 22 0.85
31 2 0.08
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.50
Consensus pattern (29 bp):
TATTATTTTTAAACAATAATAATATTATA
Found at i:6561665 original size:27 final size:27
Alignment explanation
Indices: 6561609--6561665 Score: 62
Period size: 27 Copynumber: 2.1 Consensus size: 27
6561599 TAGAAAATCT
* *
6561609 TAAAAATACATAAATTTGAAAATTAAA
1 TAAAAATACATAAATTTAAAAAATAAA
* *
6561636 TAAAAATATA-AAATTTTAAAAAATAGA
1 TAAAAATACATAAA-TTTAAAAAATAAA
6561663 TAA
1 TAA
6561666 GTGAGAGAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
26 3 0.12
27 22 0.88
ACGTcount: A:0.65, C:0.02, G:0.04, T:0.30
Consensus pattern (27 bp):
TAAAAATACATAAATTTAAAAAATAAA
Found at i:6565058 original size:162 final size:162
Alignment explanation
Indices: 6564878--6565386 Score: 919
Period size: 162 Copynumber: 3.1 Consensus size: 162
6564868 TTGGGAACAA
* *
6564878 CTCTCTATCTTCAGAGTTTGCAATTGCCGAAGACTATTAGCAACACACATTGGGAAGAGAAATTT
1 CTCTCTATCTTCAGAGTTTGCAATTTCCCAAGACTATTAGCAACACACATTGGGAAGAGAAATTT
6564943 CAAATTATTGCAGTGTGTGACTTGTACTTCCCTTAGGCATTGGAAGCTTATGGTTGATACTTGTG
66 CAAATTATTGCAGTGTGTGACTTGTACTTCCCTTAGGCATTGGAAGCTTATGGTTGATACTTGTG
6565008 AGTCTTGGATTATTTCTTCCATTCCAAAGCAC
131 AGTCTTGGATTATTTCTTCCATTCCAAAGCAC
*
6565040 CTCTCTATCTTAAGAGTTTGCAATTTCCCAAGACTATTAGCAACACACATTGGGAAGAGAAATTT
1 CTCTCTATCTTCAGAGTTTGCAATTTCCCAAGACTATTAGCAACACACATTGGGAAGAGAAATTT
6565105 CAAATTATTGCAGTGTGTGACTTGTACTTCCCTTAGGCATTGGAAGCTTATGGTTGATACTTGTG
66 CAAATTATTGCAGTGTGTGACTTGTACTTCCCTTAGGCATTGGAAGCTTATGGTTGATACTTGTG
6565170 AGTCTTGGATTATTTCTTCCATTCCAAAGCAC
131 AGTCTTGGATTATTTCTTCCATTCCAAAGCAC
* *
6565202 CTCTCTATCTTCAGAGTTTTCAATTTCCCAAGACTATTAGTAACACACATTGGGAAGAGAAATTT
1 CTCTCTATCTTCAGAGTTTGCAATTTCCCAAGACTATTAGCAACACACATTGGGAAGAGAAATTT
* * * * *
6565267 CAATTTATTGCATTTTGTGACTTGTAATTCCCTTAGGCATTGGAAGCTTAAGGTTGATACTTGTG
66 CAAATTATTGCAGTGTGTGACTTGTACTTCCCTTAGGCATTGGAAGCTTATGGTTGATACTTGTG
*
6565332 AGTCTTGAATTATTTCTTCCATTCCAAAGCAC
131 AGTCTTGGATTATTTCTTCCATTCCAAAGCAC
6565364 CTCTCTATCTTCAGAGTTTGCAA
1 CTCTCTATCTTCAGAGTTTGCAA
6565387 ATTGGGCACA
Statistics
Matches: 334, Mismatches: 13, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
162 334 1.00
ACGTcount: A:0.27, C:0.19, G:0.18, T:0.36
Consensus pattern (162 bp):
CTCTCTATCTTCAGAGTTTGCAATTTCCCAAGACTATTAGCAACACACATTGGGAAGAGAAATTT
CAAATTATTGCAGTGTGTGACTTGTACTTCCCTTAGGCATTGGAAGCTTATGGTTGATACTTGTG
AGTCTTGGATTATTTCTTCCATTCCAAAGCAC
Found at i:6575691 original size:20 final size:19
Alignment explanation
Indices: 6575662--6575704 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
6575652 TTACAAAAAT
6575662 AATT-AAAATAAATTTCAAA
1 AATTCAAAAT-AATTTCAAA
* *
6575681 AATTCAAAATATTTTTAAA
1 AATTCAAAATAATTTCAAA
6575700 AATTC
1 AATTC
6575705 CAATTTTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 16 0.76
20 5 0.24
ACGTcount: A:0.56, C:0.07, G:0.00, T:0.37
Consensus pattern (19 bp):
AATTCAAAATAATTTCAAA
Found at i:6577465 original size:41 final size:41
Alignment explanation
Indices: 6577384--6577465 Score: 96
Period size: 41 Copynumber: 2.0 Consensus size: 41
6577374 TTGTTGCCAG
* *
6577384 AAAAACGCTTCCAGCTGAAAGCGCTTTCTACCAAATTAACT
1 AAAAACGCTTCCAGCTGAAAGCGCTTTCCACCAAAATAACT
* *
6577425 AAAAACGCTTCTAGCT-AGAAGCG-TTTCCCCCAACAATAACT
1 AAAAACGCTTCCAGCTGA-AAGCGCTTTCCACCAA-AATAACT
6577466 CCAATGACTA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
40 9 0.26
41 26 0.74
ACGTcount: A:0.37, C:0.28, G:0.12, T:0.23
Consensus pattern (41 bp):
AAAAACGCTTCCAGCTGAAAGCGCTTTCCACCAAAATAACT
Found at i:6583178 original size:46 final size:46
Alignment explanation
Indices: 6583013--6583185 Score: 172
Period size: 46 Copynumber: 3.7 Consensus size: 46
6583003 AACCCGCCCC
* * * *
6583013 TAAGTGAACTCGAACTCAACTCAACGAGCTCCGG-CGTTCGTATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAG-TTCGGACATTCGAATCCA
* ** * *
6583059 TAAGTGAACTCAGACTCAACTCAACGAGTTCGGA-AGCCTAATTACA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGAA-TCCA
* * *
6583105 TCTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 --TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGAATCCA
*
6583152 TAGGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
6583186 TGCTCAACCA
Statistics
Matches: 101, Mismatches: 20, Indels: 12
0.76 0.15 0.09
Matches are distributed among these distances:
45 7 0.07
46 58 0.57
47 31 0.31
48 5 0.05
ACGTcount: A:0.31, C:0.28, G:0.20, T:0.21
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGAATCCA
Found at i:6583642 original size:30 final size:30
Alignment explanation
Indices: 6583608--6583667 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
6583598 ATTTAATACG
6583608 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
6583638 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
6583668 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:6586159 original size:23 final size:24
Alignment explanation
Indices: 6586133--6586178 Score: 58
Period size: 25 Copynumber: 1.9 Consensus size: 24
6586123 CTTCGCTGTC
*
6586133 TCAA-ATTCAAGTCTTTTGTGACA
1 TCAAGATTCAAGACTTTTGTGACA
*
6586156 TCAAGTATTTAAGACTTTTGTGA
1 TCAAG-ATTCAAGACTTTTGTGA
6586179 TCGGTATATA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 4 0.21
25 15 0.79
ACGTcount: A:0.30, C:0.13, G:0.15, T:0.41
Consensus pattern (24 bp):
TCAAGATTCAAGACTTTTGTGACA
Found at i:6589736 original size:46 final size:46
Alignment explanation
Indices: 6589669--6589841 Score: 176
Period size: 46 Copynumber: 3.7 Consensus size: 46
6589659 AACCCGCCCC
6589669 TAAGTGAACTCGGACTCAACTCAACGAGCTCCGG-CGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAG-TCCGGACGTTCGCATCCA
* * *
6589715 TAAGTGAACTCGGACTCAACTCAACGGGTTCGGATGCCTAGTT-ACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTCCGGA---C--GTTCGCATCCA
* * * *
6589763 TCAG-GAACTCTGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTCCGGACGTTCGCATCCA
* *
6589808 TAGGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTCCGGA
6589842 TGCTCAACCA
Statistics
Matches: 106, Mismatches: 11, Indels: 20
0.77 0.08 0.15
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 6 0.06
46 55 0.52
47 27 0.25
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTCCGGACGTTCGCATCCA
Found at i:6589787 original size:93 final size:93
Alignment explanation
Indices: 6589674--6589844 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
6589664 GCCCCTAAGT
*
6589674 GAACTCGGACTCAACTCAACGAGCTCCGG-CGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAG-TCCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
6589738 ACGGGTTCGGATGCCTAGTTACATCTCAG
65 ACGAGTTCGGATGCCTAGTTACATCTCAG
* * *
6589767 GAACTCTGACTCAACTCAACGAGTTCGGACATTCGCATCCATAGGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGTCCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
6589832 CGAGTTCGGATGC
66 CGAGTTCGGATGC
6589845 TCAACCATCC
Statistics
Matches: 72, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
92 4 0.06
93 68 0.94
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGTCCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAG
Found at i:6590298 original size:30 final size:30
Alignment explanation
Indices: 6590264--6590323 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
6590254 ATTTAATACG
6590264 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
6590294 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
6590324 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:6592594 original size:29 final size:29
Alignment explanation
Indices: 6592554--6592616 Score: 74
Period size: 29 Copynumber: 2.1 Consensus size: 29
6592544 GGTTTTTTTT
* * *
6592554 ATTTATAAAATT-CTAAAAATATATAGAAA
1 ATTTAAAAAATTAATAAAAATAGATA-AAA
6592583 ATTTAAAAAATTAAATAAAAATAGATAAAA
1 ATTTAAAAAATT-AATAAAAATAGATAAAA
6592613 ATTT
1 ATTT
6592617 TAAACATAGA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
29 11 0.38
30 7 0.24
31 11 0.38
ACGTcount: A:0.62, C:0.02, G:0.03, T:0.33
Consensus pattern (29 bp):
ATTTAAAAAATTAATAAAAATAGATAAAA
Found at i:6593666 original size:13 final size:14
Alignment explanation
Indices: 6593638--6593670 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
6593628 TTTCCGTGAA
*
6593638 ATTTATTCATAAAT
1 ATTTATTCAGAAAT
6593652 ATTTATT-AGAAAT
1 ATTTATTCAGAAAT
6593665 ATTTAT
1 ATTTAT
6593671 GAATTATAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 11 0.61
14 7 0.39
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.52
Consensus pattern (14 bp):
ATTTATTCAGAAAT
Found at i:6596968 original size:26 final size:26
Alignment explanation
Indices: 6596939--6597046 Score: 166
Period size: 26 Copynumber: 4.2 Consensus size: 26
6596929 TGGTACAAAT
6596939 TGATAAT-GAGTTAGGTAAATGTTCCA
1 TGATAATGGA-TTAGGTAAATGTTCCA
*
6596965 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
6596991 TGATAATGTG-TTAGGTAAATGTTCCA
1 TGATAATG-GATTAGGTAAATGTTCCA
*
6597017 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
6597043 TGAT
1 TGAT
6597047 GGGAATTTCA
Statistics
Matches: 77, Mismatches: 2, Indels: 6
0.91 0.02 0.07
Matches are distributed among these distances:
25 1 0.01
26 73 0.95
27 3 0.04
ACGTcount: A:0.33, C:0.07, G:0.22, T:0.37
Consensus pattern (26 bp):
TGATAATGGATTAGGTAAATGTTCCA
Found at i:6597004 original size:52 final size:52
Alignment explanation
Indices: 6596939--6597046 Score: 189
Period size: 52 Copynumber: 2.1 Consensus size: 52
6596929 TGGTACAAAT
6596939 TGATAATGAGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
1 TGATAATGAGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
* * *
6596991 TGATAATGTGTTAGGTAAATGTTCCATGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGAGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
6597043 TGAT
1 TGAT
6597047 GGGAATTTCA
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 53 1.00
ACGTcount: A:0.33, C:0.07, G:0.22, T:0.37
Consensus pattern (52 bp):
TGATAATGAGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
Found at i:6598681 original size:27 final size:27
Alignment explanation
Indices: 6598641--6598799 Score: 182
Period size: 27 Copynumber: 5.9 Consensus size: 27
6598631 AGGAAGCGTC
* *
6598641 CTGGTGGCTATGCCACAATTATCTAAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
*
6598668 CTGGTGGCTCTGCCAC-ATATATCTGTT
1 CTGGTGGCTCTGCCACAAT-TATCTGAT
* *
6598695 CTGGTGGCTATGCCACGATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
*
6598722 CTGGTGGCTCTGCCAC-ATATATCTGTT
1 CTGGTGGCTCTGCCACAAT-TATCTGAT
6598749 CTGGTGGCTCTGCCACAA-TATCTGTAT
1 CTGGTGGCTCTGCCACAATTATCTG-AT
* * *
6598776 CTGGTGACTTTGTCACAA-TATCTG
1 CTGGTGGCTCTGCCACAATTATCTG
6598800 GCAGCCTCGC
Statistics
Matches: 116, Mismatches: 11, Indels: 10
0.85 0.08 0.07
Matches are distributed among these distances:
26 10 0.09
27 103 0.89
28 3 0.03
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.35
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGAT
Found at i:6598724 original size:54 final size:53
Alignment explanation
Indices: 6598641--6598799 Score: 230
Period size: 54 Copynumber: 3.0 Consensus size: 53
6598631 AGGAAGCGTC
*
6598641 CTGGTGGCTATGCCACAATTATCTAATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCAC-ATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
6598695 CTGGTGGCTATGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCAC-ATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
* * * * *
6598749 CTGGTGGCTCTGCCACAATATCTGTATCTGGTGACTTTGTCACA-ATATCTG
1 CTGGTGGCTATGCCACATTATCTG-ATCTGGTGGCTCTGCCACATATATCTG
6598800 GCAGCCTCGC
Statistics
Matches: 97, Mismatches: 7, Indels: 3
0.91 0.07 0.03
Matches are distributed among these distances:
53 14 0.14
54 83 0.86
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.35
Consensus pattern (53 bp):
CTGGTGGCTATGCCACATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
Found at i:6602106 original size:162 final size:162
Alignment explanation
Indices: 6601832--6602420 Score: 914
Period size: 162 Copynumber: 3.6 Consensus size: 162
6601822 AGTAGACATT
* ** * * *
6601832 TGTATGCCACTTGTG-GATCTTGGATTATATCTTCCAA-TTGCGAGCAACTCTTCATCTTCAAAG
1 TGTATGGCACTTGTGAG-TCTTGGATTATGCCTTCCAAGCT-CCAGCAACTCTTTATCTTCAAAG
* * * *
6601895 TATGTAATTGCCCAAGGCTATTAGCAGCTGACAGTGGGAAAAGATACTTTAAATTATTGCATTTT
64 TATGCAATTGCCCAAGGCTATTAGCAACAGACAGTGGGAAGAGATACTTTAAATTATTGCATTTT
6601960 TCAACTTCTATTTCCCTTAAACTTTGGAGGCTTA
129 TCAACTTCTATTTCCCTTAAACTTTGGAGGCTTA
* * *
6601994 TGTATGGCACTTGTGACTCTTGAATTATGCCTTCCAAGCTCTAGCAACTCTTTATCTTCAAAGTA
1 TGTATGGCACTTGTGAGTCTTGGATTATGCCTTCCAAGCTCCAGCAACTCTTTATCTTCAAAGTA
* *
6602059 TGCAATTGCCCAAGGCTATTAGCAACAGATAGTAGGAAGAGATACTTTAAATTACTT-CATTTTT
66 TGCAATTGCCCAAGGCTATTAGCAACAGACAGTGGGAAGAGATACTTTAAATTA-TTGCATTTTT
*
6602123 CAAATTCTATTTCCCTTAAACTTTGGAGGCTTA
130 CAACTTCTATTTCCCTTAAACTTTGGAGGCTTA
*
6602156 TGTATGGCACTTGTGAGTCTTGGATTATGCCTTCCAAGCTCCAGCAACTCATTATCTTCAAAGTA
1 TGTATGGCACTTGTGAGTCTTGGATTATGCCTTCCAAGCTCCAGCAACTCTTTATCTTCAAAGTA
* * *
6602221 TGCAATTGCCTAAGGCTATTAGCAACAGACAGTGGGAAGAGATACTTTAAATTATCGCATTTTTT
66 TGCAATTGCCCAAGGCTATTAGCAACAGACAGTGGGAAGAGATACTTTAAATTATTGCATTTTTC
6602286 AACTTCTATTTCCCTTAAACTTTGGAGGCTTA
131 AACTTCTATTTCCCTTAAACTTTGGAGGCTTA
* *
6602318 TGTATGGCACTTGTGAGTCTTGGATTATGCCTTTCAAGCTCCGGCAACTCTTTATCTTCAAAGTA
1 TGTATGGCACTTGTGAGTCTTGGATTATGCCTTCCAAGCTCCAGCAACTCTTTATCTTCAAAGTA
* *
6602383 TGCAATTGTCCAAGGCTATTAGCAACAGGCAGTGGGAA
66 TGCAATTGCCCAAGGCTATTAGCAACAGACAGTGGGAA
6602421 CTTCTATTTC
Statistics
Matches: 392, Mismatches: 31, Indels: 8
0.91 0.07 0.02
Matches are distributed among these distances:
161 1 0.00
162 388 0.99
163 3 0.01
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.35
Consensus pattern (162 bp):
TGTATGGCACTTGTGAGTCTTGGATTATGCCTTCCAAGCTCCAGCAACTCTTTATCTTCAAAGTA
TGCAATTGCCCAAGGCTATTAGCAACAGACAGTGGGAAGAGATACTTTAAATTATTGCATTTTTC
AACTTCTATTTCCCTTAAACTTTGGAGGCTTA
Found at i:6602540 original size:132 final size:133
Alignment explanation
Indices: 6602286--6602540 Score: 451
Period size: 132 Copynumber: 1.9 Consensus size: 133
6602276 CGCATTTTTT
*
6602286 AACTTCTATTTCCCTTAAACTTTGGAGGCTTATGTATGGCACTTGTGAGTCTTGGATTATGCCTT
1 AACTTCTATTTCCCTTAAACTTTGGAGGCTTATGTATGGCACTTATGAGTCTTGGATTATGCCTT
* * *
6602351 TCAAGCTCCGGCAACTCTTTATCTTCAAAGTATGCAATTGTCCAAGGCTATTAGCAACAGGCAGT
66 CCAAACTCCGACAACTCTTTATCTTCAAAGTATGCAATTGTCCAAGGCTATTAGCAACAGGCAGT
6602416 GGG
131 GGG
6602419 AACTTCTATTTCCCTT-AACTTTGGAGGCTTATGTATGGCACTTATGAGTCTTGGATTATGCCTT
1 AACTTCTATTTCCCTTAAACTTTGGAGGCTTATGTATGGCACTTATGAGTCTTGGATTATGCCTT
6602483 CCAAACTCCGACAACTCTTTATCTTCAAAGTATGCAATTG-CTCAAGGCTATTAGCAAC
66 CCAAACTCCGACAACTCTTTATCTTCAAAGTATGCAATTGTC-CAAGGCTATTAGCAAC
6602541 TAGAAAGATA
Statistics
Matches: 117, Mismatches: 4, Indels: 3
0.94 0.03 0.02
Matches are distributed among these distances:
131 1 0.01
132 100 0.85
133 16 0.14
ACGTcount: A:0.25, C:0.22, G:0.18, T:0.35
Consensus pattern (133 bp):
AACTTCTATTTCCCTTAAACTTTGGAGGCTTATGTATGGCACTTATGAGTCTTGGATTATGCCTT
CCAAACTCCGACAACTCTTTATCTTCAAAGTATGCAATTGTCCAAGGCTATTAGCAACAGGCAGT
GGG
Found at i:6605108 original size:16 final size:16
Alignment explanation
Indices: 6605087--6605118 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
6605077 AAGTCTTAAA
6605087 TGGTTGGCTCCTTGAC
1 TGGTTGGCTCCTTGAC
6605103 TGGTTGGCTCCTTGAC
1 TGGTTGGCTCCTTGAC
6605119 AGTGGTTGCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.06, C:0.25, G:0.31, T:0.38
Consensus pattern (16 bp):
TGGTTGGCTCCTTGAC
Found at i:6606145 original size:19 final size:19
Alignment explanation
Indices: 6606121--6606254 Score: 213
Period size: 19 Copynumber: 7.2 Consensus size: 19
6606111 AATCTTTAAG
6606121 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
6606140 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
6606159 GATA--CAATCTTAGATAT
1 GATATGCAATCTTAGATAT
6606176 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
6606195 GATACGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
6606214 GATA--CAATCTTAGATAT
1 GATATGCAATCTTAGATAT
6606231 GATATGCAATCTTGAAGATAT
1 GATATGCAATCTT--AGATAT
6606252 GAT
1 GAT
6606255 CTTGTAATCT
Statistics
Matches: 108, Mismatches: 1, Indels: 10
0.91 0.01 0.08
Matches are distributed among these distances:
17 34 0.31
19 65 0.60
21 9 0.08
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.35
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:6606152 original size:36 final size:38
Alignment explanation
Indices: 6606121--6606254 Score: 213
Period size: 36 Copynumber: 3.6 Consensus size: 38
6606111 AATCTTTAAG
6606121 GATATGCAATCTTAGATATGATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATATGATATGCAATCTTAGATAT
6606159 GATA--CAATCTTAGATATGATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATATGATATGCAATCTTAGATAT
*
6606195 GATACGCAATCTTAGATATGATA--CAATCTTAGATAT
1 GATATGCAATCTTAGATATGATATGCAATCTTAGATAT
6606231 GATATGCAATCTTGAAGATATGAT
1 GATATGCAATCTT--AGATATGAT
6606255 CTTGTAATCT
Statistics
Matches: 91, Mismatches: 1, Indels: 8
0.91 0.01 0.08
Matches are distributed among these distances:
36 61 0.67
38 30 0.33
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.35
Consensus pattern (38 bp):
GATATGCAATCTTAGATATGATATGCAATCTTAGATAT
Found at i:6606184 original size:55 final size:55
Alignment explanation
Indices: 6606121--6606254 Score: 241
Period size: 55 Copynumber: 2.4 Consensus size: 55
6606111 AATCTTTAAG
*
6606121 GATATGCAATCTTAGATATGATATGCAATCTTAGATATGATACAATCTTAGATAT
1 GATATGCAATCTTAGATATGATACGCAATCTTAGATATGATACAATCTTAGATAT
6606176 GATATGCAATCTTAGATATGATACGCAATCTTAGATATGATACAATCTTAGATAT
1 GATATGCAATCTTAGATATGATACGCAATCTTAGATATGATACAATCTTAGATAT
6606231 GATATGCAATCTTGAAGATATGAT
1 GATATGCAATCTT--AGATATGAT
6606255 CTTGTAATCT
Statistics
Matches: 76, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
55 67 0.88
57 9 0.12
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.35
Consensus pattern (55 bp):
GATATGCAATCTTAGATATGATACGCAATCTTAGATATGATACAATCTTAGATAT
Found at i:6612578 original size:7 final size:7
Alignment explanation
Indices: 6612566--6612631 Score: 52
Period size: 7 Copynumber: 9.7 Consensus size: 7
6612556 CTATTTCAAA
6612566 AAAAAAG
1 AAAAAAG
6612573 AAAAAAG
1 AAAAAAG
6612580 --AAAAG
1 AAAAAAG
6612585 -AAAAAG
1 AAAAAAG
6612591 AAAAAA-
1 AAAAAAG
* *
6612597 ATAATAAT
1 A-AAAAAG
6612605 AAAAATA-
1 AAAAA-AG
6612612 AAAAAGAG
1 AAAAA-AG
6612620 AAAAAAG
1 AAAAAAG
6612627 AAAAA
1 AAAAA
6612632 TGGAGAGGCC
Statistics
Matches: 50, Mismatches: 3, Indels: 12
0.77 0.05 0.18
Matches are distributed among these distances:
5 5 0.10
6 6 0.12
7 32 0.64
8 7 0.14
ACGTcount: A:0.83, C:0.00, G:0.11, T:0.06
Consensus pattern (7 bp):
AAAAAAG
Found at i:6612588 original size:11 final size:12
Alignment explanation
Indices: 6612563--6612630 Score: 56
Period size: 11 Copynumber: 5.8 Consensus size: 12
6612553 CTTCTATTTC
6612563 AAAAA-AAAAGA
1 AAAAAGAAAAGA
6612574 AAAAAGAAAAG-
1 AAAAAGAAAAGA
6612585 AAAAAGAAAA-A
1 AAAAAGAAAAGA
* *
6612596 AATAATAATAA-A
1 AAAAAGAA-AAGA
6612608 AATAAA-AAAGAGA
1 AA-AAAGAAA-AGA
6612621 AAAAAGAAAA
1 AAAAAGAAAA
6612631 ATGGAGAGGC
Statistics
Matches: 47, Mismatches: 3, Indels: 13
0.75 0.05 0.21
Matches are distributed among these distances:
11 22 0.47
12 17 0.36
13 8 0.17
ACGTcount: A:0.84, C:0.00, G:0.10, T:0.06
Consensus pattern (12 bp):
AAAAAGAAAAGA
Found at i:6614493 original size:44 final size:44
Alignment explanation
Indices: 6614346--6614494 Score: 124
Period size: 44 Copynumber: 3.4 Consensus size: 44
6614336 CAAGTTGAGA
* * *
6614346 ATAGCAGATTTGGAATCCCTGTGTTTATAGGGAACAAATCAAAG
1 ATAGCAGATTTGGCATCCCTGTGTTTATAGGGAACAAGTCGAAG
* * * * ** * *
6614390 ATAGCAGATCTGACATTCCTATACTTACAGTGAA-ACAGATCGAAG
1 ATAGCAGATTTGGCATCCCTGTGTTTATAGGGAACA-AG-TCGAAG
** *
6614435 ATTTCAGCA--TGGCATCCCTGTGTTTATAGGGAACAAGTTGAAG
1 ATAGCAG-ATTTGGCATCCCTGTGTTTATAGGGAACAAGTCGAAG
6614478 ATAGCAGATTTGGCATC
1 ATAGCAGATTTGGCATC
6614495 TTTGTATTGG
Statistics
Matches: 76, Mismatches: 23, Indels: 12
0.68 0.21 0.11
Matches are distributed among these distances:
42 1 0.01
43 11 0.14
44 52 0.68
45 11 0.14
46 1 0.01
ACGTcount: A:0.34, C:0.17, G:0.22, T:0.28
Consensus pattern (44 bp):
ATAGCAGATTTGGCATCCCTGTGTTTATAGGGAACAAGTCGAAG
Found at i:6614522 original size:44 final size:44
Alignment explanation
Indices: 6614474--6614581 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
6614464 GGAACAAGTT
* * * *
6614474 GAAGATAGCAGATTTGGCATCTTTGTATTGGCGGAGAGCAGATC
1 GAAGATAGCAGATTTGGCATCTCTGTATTGGCAGAGAGCAAACC
*
6614518 GAAGATAACAGATTTGGCATCTCTGTATTGGCAGAGAGCAAACC
1 GAAGATAGCAGATTTGGCATCTCTGTATTGGCAGAGAGCAAACC
*
6614562 GAAGACATAGCTGATTTGGC
1 GAAG--ATAGCAGATTTGGC
6614582 TTTCACGTGT
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 43 0.78
46 12 0.22
ACGTcount: A:0.31, C:0.16, G:0.29, T:0.25
Consensus pattern (44 bp):
GAAGATAGCAGATTTGGCATCTCTGTATTGGCAGAGAGCAAACC
Found at i:6615015 original size:204 final size:205
Alignment explanation
Indices: 6614553--6615268 Score: 1139
Period size: 204 Copynumber: 3.5 Consensus size: 205
6614543 TATTGGCAGA
* * *
6614553 GAGCAAACCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGAT
1 GAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTACGTTGAAGCAAATCTAAGATGAT
* * * * *
6614618 TTGGCATCTCTGTATTGTCAGAGAACAAATCAAAGTTTGGCGTCTCCATATTCGACGGAGAGCAG
66 TTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCCA-CTTCGACGGAGGGCAG
* *** * *
6614683 ACATATAGCAGATCTGGCCTTCAGATGTTTATACT-AAAGCAAGATCCAAGATGATTTGGCATCC
130 ACACATAGCAGATCCAACCTTCAGATGTTTATACTGAAA--TAGATCCAAGATGGTTTGGCATCC
6614747 TTGTGCTTACAAG
193 TTGTGCTTACAAG
* *
6614760 GAGCAAATCGAAGACATAGCTGATCTGGCTTTCACGTGCTTACATTGAAGCAAATCTAAGATGAT
1 GAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTACGTTGAAGCAAATCTAAGATGAT
*
6614825 TTGGCATCTCTGTATTGTCAAAGAACAAATCGAAGTCTGGCATCTCCACTTCGACGGAGGGCAGA
66 TTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCCACTTCGACGGAGGGCAGA
6614890 CACATAGCAGATCCAACCTTCAGATGTTTATACTGAAATAGATCCAAGATGGTTTGGCATCCTTG
131 CACATAGCAGATCCAACCTTCAGATGTTTATACTGAAATAGATCCAAGATGGTTTGGCATCCTTG
6614955 TGCTT-CAAG
196 TGCTTACAAG
* *
6614964 GAGCAAATCGAAGACATAGCTAATTTGGCTTTTACGTGCTTACGTTGAAGCAAATCTAAGATGAT
1 GAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTACGTTGAAGCAAATCTAAGATGAT
*
6615029 TTGGTATCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCCACTTCGACGGAGGGCAGA
66 TTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCCACTTCGACGGAGGGCAGA
* * *
6615094 CACATAGTAGATCCAACCTTCAGATGTTTATACTGAAGTAGATCCAAAATGGTTTGGCATCCTTG
131 CACATAGCAGATCCAACCTTCAGATGTTTATACTGAAATAGATCCAAGATGGTTTGGCATCCTTG
* *
6615159 TGTTTATAAG
196 TGCTTACAAG
* *
6615169 GAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTACGTTAAAGCAAGTCTAAGATGAT
1 GAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTACGTTGAAGCAAATCTAAGATGAT
*
6615234 TTGGCATCTCTATATTGTCAGAGAACAAATCGAAG
66 TTGGCATCTCTGTATTGTCAGAGAACAAATCGAAG
6615269 AAGCAAATTT
Statistics
Matches: 473, Mismatches: 34, Indels: 6
0.92 0.07 0.01
Matches are distributed among these distances:
204 194 0.41
205 127 0.27
206 45 0.10
207 107 0.23
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (205 bp):
GAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTACGTTGAAGCAAATCTAAGATGAT
TTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCCACTTCGACGGAGGGCAGA
CACATAGCAGATCCAACCTTCAGATGTTTATACTGAAATAGATCCAAGATGGTTTGGCATCCTTG
TGCTTACAAG
Found at i:6615669 original size:19 final size:19
Alignment explanation
Indices: 6615645--6615780 Score: 231
Period size: 19 Copynumber: 7.2 Consensus size: 19
6615635 AATCTTTAAG
6615645 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
6615664 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
6615683 GATA--CAATCTTAGATAT
1 GATATGCAATCTTAGATAT
6615700 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
6615719 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
6615738 GATACGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
6615757 GATATGCAATCTTGAAGATAT
1 GATATGCAATCTT--AGATAT
6615778 GAT
1 GAT
6615781 CTTGTAATCT
Statistics
Matches: 111, Mismatches: 2, Indels: 6
0.93 0.02 0.05
Matches are distributed among these distances:
17 17 0.15
19 85 0.77
21 9 0.08
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.35
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:6615708 original size:55 final size:56
Alignment explanation
Indices: 6615645--6615780 Score: 238
Period size: 55 Copynumber: 2.4 Consensus size: 56
6615635 AATCTTTAAG
6615645 GATATGCAATCTTAGATATGATATGCAATCTTAGATATGATA-CAATCTTAGATAT
1 GATATGCAATCTTAGATATGATATGCAATCTTAGATATGATACCAATCTTAGATAT
6615700 GATATGCAATCTTAGATATGATATGCAATCTTAGATATGATACGCAATCTTAGATAT
1 GATATGCAATCTTAGATATGATATGCAATCTTAGATATGATAC-CAATCTTAGATAT
6615757 GATATGCAATCTTGAAGATATGAT
1 GATATGCAATCTT--AGATATGAT
6615781 CTTGTAATCT
Statistics
Matches: 77, Mismatches: 0, Indels: 4
0.95 0.00 0.05
Matches are distributed among these distances:
55 42 0.55
57 26 0.34
59 9 0.12
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.35
Consensus pattern (56 bp):
GATATGCAATCTTAGATATGATATGCAATCTTAGATATGATACCAATCTTAGATAT
Found at i:6619409 original size:7 final size:7
Alignment explanation
Indices: 6619397--6619422 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
6619387 AAATAGTATT
6619397 TAATATA
1 TAATATA
6619404 TAATATA
1 TAATATA
6619411 TAATATA
1 TAATATA
6619418 TAATA
1 TAATA
6619423 ACAAGAATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (7 bp):
TAATATA
Found at i:6619639 original size:15 final size:14
Alignment explanation
Indices: 6619610--6619643 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
6619600 CAAATTTTAA
*
6619610 ATAATATATATAAT
1 ATAATATAAATAAT
6619624 ATAATCATAAATAAT
1 ATAAT-ATAAATAAT
6619639 ATAAT
1 ATAAT
6619644 TGGTAATATG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.28
15 13 0.72
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (14 bp):
ATAATATAAATAAT
Found at i:6619746 original size:14 final size:13
Alignment explanation
Indices: 6619692--6619747 Score: 53
Period size: 12 Copynumber: 4.3 Consensus size: 13
6619682 CAAGTAAAAC
6619692 ATAATAAATATTAT
1 ATAATAAATA-TAT
6619706 ATAATAAA-ATAT
1 ATAATAAATATAT
***
6619718 ATGGGAAATA-AT
1 ATAATAAATATAT
6619730 ATAATAAATATAGT
1 ATAATAAATATA-T
6619744 ATAA
1 ATAA
6619748 AATAATGAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 6
0.73 0.13 0.13
Matches are distributed among these distances:
12 17 0.52
13 3 0.09
14 13 0.39
ACGTcount: A:0.59, C:0.00, G:0.07, T:0.34
Consensus pattern (13 bp):
ATAATAAATATAT
Found at i:6619824 original size:23 final size:23
Alignment explanation
Indices: 6619723--6619825 Score: 81
Period size: 23 Copynumber: 4.4 Consensus size: 23
6619713 AATATATGGG
*
6619723 AAATAAT-ATAATAAATATAGTATA
1 AAATAATAATAATATATATA-TA-A
* *
6619747 AAATAATGAA-AATTTATATGTAA
1 AAATAAT-AATAATATATATATAA
*
6619770 AAATAATATGTATAA-ATAAATA-AA
1 AAATAATA---ATAATATATATATAA
6619794 AAAT-ATAATAATATATATATAA
1 AAATAATAATAATATATATATAA
6619816 AAATAATAAT
1 AAATAATAAT
6619826 TATGAGAGAA
Statistics
Matches: 63, Mismatches: 7, Indels: 19
0.71 0.08 0.21
Matches are distributed among these distances:
20 4 0.06
21 6 0.10
22 7 0.11
23 16 0.25
24 15 0.24
25 12 0.19
26 3 0.05
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (23 bp):
AAATAATAATAATATATATATAA
Found at i:6622951 original size:182 final size:182
Alignment explanation
Indices: 6622644--6623009 Score: 707
Period size: 182 Copynumber: 2.0 Consensus size: 182
6622634 ACAAAATCAT
*
6622644 CAGATTTTCCTTCCATATGCTCTATTTTTCTTTGCTTGCTAAATTCTGTTTCTATTCAAAGCTTG
1 CAGATTTTCCTTCCATATGCTCCATTTTTCTTTGCTTGCTAAATTCTGTTTCTATTCAAAGCTTG
6622709 AATTTCAAGCATTTTTTTTCTATATTCTTCATCCGGGTACATTACATTGTTGTTAAAGTCCAGAT
66 AATTTCAAGCATTTTTTTTCTATATTCTTCATCCGGGTACATTACATTGTTGTTAAAGTCCAGAT
6622774 TGAAGTTCTTACTTCATCCGGATAAAGTGTGTCTAACACCAACAAACTTAAA
131 TGAAGTTCTTACTTCATCCGGATAAAGTGTGTCTAACACCAACAAACTTAAA
6622826 CAGATTTTCCTTCCATATGCTCCATTTTTCTTTGCTTGCTAAATTCTGTTTCTATTCAAAGCTTG
1 CAGATTTTCCTTCCATATGCTCCATTTTTCTTTGCTTGCTAAATTCTGTTTCTATTCAAAGCTTG
6622891 AATTTCAAGCATTTTTTTTCT-TCATTCTTCATCCGGGTACATTACATTGTTGTTAAAGTCCAGA
66 AATTTCAAGCATTTTTTTTCTAT-ATTCTTCATCCGGGTACATTACATTGTTGTTAAAGTCCAGA
6622955 TTGAAGTTCTTACTTCATCCGGATAAAGTGTGTCTAACACCAACAAACTTAAA
130 TTGAAGTTCTTACTTCATCCGGATAAAGTGTGTCTAACACCAACAAACTTAAA
6623008 CA
1 CA
6623010 CATCTAGAGA
Statistics
Matches: 182, Mismatches: 1, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
181 1 0.01
182 181 0.99
ACGTcount: A:0.26, C:0.20, G:0.12, T:0.41
Consensus pattern (182 bp):
CAGATTTTCCTTCCATATGCTCCATTTTTCTTTGCTTGCTAAATTCTGTTTCTATTCAAAGCTTG
AATTTCAAGCATTTTTTTTCTATATTCTTCATCCGGGTACATTACATTGTTGTTAAAGTCCAGAT
TGAAGTTCTTACTTCATCCGGATAAAGTGTGTCTAACACCAACAAACTTAAA
Found at i:6631370 original size:61 final size:64
Alignment explanation
Indices: 6631262--6631380 Score: 163
Period size: 61 Copynumber: 1.9 Consensus size: 64
6631252 AATTGACAAT
* * * **
6631262 GATTAAATTGCTCCAATTTCTTTTTAGAGATAGACTAATTTGTTCAAATTCAAAATTGTAAAGG
1 GATTAAATTACTCCAATTTCTTTCTAGAGAGAGACTAATTTACTCAAATTCAAAATTGTAAAGG
*
6631326 GATTAAATTACTCCAATTT-TTTCTA-A-AGAGACTAATTTACTCAAATTCATAATTG
1 GATTAAATTACTCCAATTTCTTTCTAGAGAGAGACTAATTTACTCAAATTCAAAATTG
6631381 AGAGAGATTG
Statistics
Matches: 49, Mismatches: 6, Indels: 3
0.84 0.10 0.05
Matches are distributed among these distances:
61 25 0.51
62 1 0.02
63 5 0.10
64 18 0.37
ACGTcount: A:0.37, C:0.13, G:0.11, T:0.39
Consensus pattern (64 bp):
GATTAAATTACTCCAATTTCTTTCTAGAGAGAGACTAATTTACTCAAATTCAAAATTGTAAAGG
Found at i:6631923 original size:6 final size:6
Alignment explanation
Indices: 6631912--6631936 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
6631902 ACGGTTGGGT
6631912 TTTTTC TTTTTC TTTTTC TTTTTC T
1 TTTTTC TTTTTC TTTTTC TTTTTC T
6631937 GAGTAAAAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTTTC
Found at i:6631998 original size:3 final size:3
Alignment explanation
Indices: 6631990--6632015 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
6631980 AAGAAAGGGA
6631990 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
6632016 AGAACAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:6635542 original size:24 final size:25
Alignment explanation
Indices: 6635500--6635546 Score: 78
Period size: 24 Copynumber: 1.9 Consensus size: 25
6635490 AAATAATAAG
6635500 TAAAATATAAGAAATATATACATGA
1 TAAAATATAAGAAATATATACATGA
*
6635525 TAAAATATTA-AAATATATACAT
1 TAAAATATAAGAAATATATACAT
6635547 AATATATATT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 12 0.57
25 9 0.43
ACGTcount: A:0.60, C:0.04, G:0.04, T:0.32
Consensus pattern (25 bp):
TAAAATATAAGAAATATATACATGA
Found at i:6635839 original size:24 final size:23
Alignment explanation
Indices: 6635802--6635848 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 23
6635792 TGTGTACATA
*
6635802 ATAATAGGGATGAAAAGTATATAC
1 ATAATAGCGATGAAAA-TATATAC
*
6635826 ATAATAGCGTTGAAAATATATAC
1 ATAATAGCGATGAAAATATATAC
6635849 TTAAGATAGT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 7 0.33
24 14 0.67
ACGTcount: A:0.49, C:0.06, G:0.17, T:0.28
Consensus pattern (23 bp):
ATAATAGCGATGAAAATATATAC
Found at i:6636842 original size:7 final size:7
Alignment explanation
Indices: 6636830--6636859 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
6636820 AATCTCCAAA
6636830 ATTTTTT
1 ATTTTTT
6636837 ATTTTTT
1 ATTTTTT
*
6636844 ATTGTTT
1 ATTTTTT
6636851 ATTTTTT
1 ATTTTTT
6636858 AT
1 AT
6636860 GATATATATT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.17, C:0.00, G:0.03, T:0.80
Consensus pattern (7 bp):
ATTTTTT
Found at i:6641399 original size:37 final size:37
Alignment explanation
Indices: 6641349--6641422 Score: 148
Period size: 37 Copynumber: 2.0 Consensus size: 37
6641339 TATTTTTCAG
6641349 CAATTAAGGATGAAAACTAAGTTAGTATAACAAATAA
1 CAATTAAGGATGAAAACTAAGTTAGTATAACAAATAA
6641386 CAATTAAGGATGAAAACTAAGTTAGTATAACAAATAA
1 CAATTAAGGATGAAAACTAAGTTAGTATAACAAATAA
6641423 ATGTGGTAGG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.54, C:0.08, G:0.14, T:0.24
Consensus pattern (37 bp):
CAATTAAGGATGAAAACTAAGTTAGTATAACAAATAA
Found at i:6644196 original size:21 final size:21
Alignment explanation
Indices: 6644170--6644214 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
6644160 ACAATGATTA
6644170 ATCTTCAATTGAAAAATCACT
1 ATCTTCAATTGAAAAATCACT
6644191 ATCTTCAATTGAAAAATCACT
1 ATCTTCAATTGAAAAATCACT
6644212 ATC
1 ATC
6644215 ATATTCCTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.42, C:0.20, G:0.04, T:0.33
Consensus pattern (21 bp):
ATCTTCAATTGAAAAATCACT
Found at i:6646632 original size:162 final size:162
Alignment explanation
Indices: 6646270--6647086 Score: 1303
Period size: 162 Copynumber: 5.0 Consensus size: 162
6646260 TTGGGAACAT
* * *
6646270 CTCTCTATCTTCAGGGTTCGCAATTGCCCAAGACTATTAGCAACACACATTGGGAAAAGAAATTT
1 CTCTCTATCTTCAGGGTTTGCAATTTCCCAAGACTATTAGCAACACACATTGGGAAGAGAAATTT
* * *
6646335 CAATTTATTGCTTTCTCTGACTTGTACTTCCATTAGGCATTGGAAA-CTTATGGTTGATAATACT
66 CAATTTATTGCATTCTGTGACTTGTACTTCCCTTAGGCATT-GAAAGCTTATGGTTG---ATACT
*
6646399 TGTGAGTCTTGAATTATTTCTTCCATTCCAAAGCAC
127 TGTGAGTCTTGGATTATTTCTTCCATTCCAAAGCAC
*
6646435 CTCTCTATCTTCAGGGTTTGCAATTTCCCAAGACTATTAGCAACACACATTGGGAACAGAAATTT
1 CTCTCTATCTTCAGGGTTTGCAATTTCCCAAGACTATTAGCAACACACATTGGGAAGAGAAATTT
* * * *
6646500 CAAATCATTACATTCTGTGACTTGTACTTCCCTTAGACATTGAAAGCTTATGGTTGATACTTGTG
66 CAATTTATTGCATTCTGTGACTTGTACTTCCCTTAGGCATTGAAAGCTTATGGTTGATACTTGTG
6646565 AGTCTTGGATTATTTCTTCCATTCCAAAGCAC
131 AGTCTTGGATTATTTCTTCCATTCCAAAGCAC
* *
6646597 CTCTCTATCTTTAGGGTTTGCAATTTCCTAAGACTATTAGCAACACACATTGGGAAGAGAAATTT
1 CTCTCTATCTTCAGGGTTTGCAATTTCCCAAGACTATTAGCAACACACATTGGGAAGAGAAATTT
* * * * *
6646662 CAAATCATTACATTCTGTGACTTGTACTTCCCTTAGGCATTGAAAGCTTGTGGTTGATACTTGCG
66 CAATTTATTGCATTCTGTGACTTGTACTTCCCTTAGGCATTGAAAGCTTATGGTTGATACTTGTG
6646727 AGTCTTGGATTATTTCTTCCATTCCAAAGCAC
131 AGTCTTGGATTATTTCTTCCATTCCAAAGCAC
* *
6646759 CTCTCTATCTTCAGAGTTTGCAATTTCCCAAGGCTATTAGCAACACACATTGGGAAGAGAAATTT
1 CTCTCTATCTTCAGGGTTTGCAATTTCCCAAGACTATTAGCAACACACATTGGGAAGAGAAATTT
* * *
6646824 CAATTTTTTGCATTCTTTGACTTGTACTTCCATTAGGCATTGAAAGCTTATGGTTGATACTTGTG
66 CAATTTATTGCATTCTGTGACTTGTACTTCCCTTAGGCATTGAAAGCTTATGGTTGATACTTGTG
* * * *
6646889 AGTCTTGGGTTATTTTTTCCATTCCAAAGAAT
131 AGTCTTGGATTATTTCTTCCATTCCAAAGCAC
* *
6646921 CTCTCTATTTTCAGAGTTTGCAATTTCCCAAGACTATTAGCAACACACATTGGGAAGAGAAATTT
1 CTCTCTATCTTCAGGGTTTGCAATTTCCCAAGACTATTAGCAACACACATTGGGAAGAGAAATTT
* *
6646986 CAATTTATTGCATTCTGTGACTTGTAATTCCCTTAGGCATTGGAAGCTTATGGTTGATACTTGTG
66 CAATTTATTGCATTCTGTGACTTGTACTTCCCTTAGGCATTGAAAGCTTATGGTTGATACTTGTG
6647051 AGTCTTGGATTATTTCTTCCATTCCAAAGCAC
131 AGTCTTGGATTATTTCTTCCATTCCAAAGCAC
6647083 CTCT
1 CTCT
6647087 TTACAAACGA
Statistics
Matches: 607, Mismatches: 44, Indels: 5
0.93 0.07 0.01
Matches are distributed among these distances:
162 497 0.82
164 4 0.01
165 106 0.17
ACGTcount: A:0.27, C:0.20, G:0.17, T:0.37
Consensus pattern (162 bp):
CTCTCTATCTTCAGGGTTTGCAATTTCCCAAGACTATTAGCAACACACATTGGGAAGAGAAATTT
CAATTTATTGCATTCTGTGACTTGTACTTCCCTTAGGCATTGAAAGCTTATGGTTGATACTTGTG
AGTCTTGGATTATTTCTTCCATTCCAAAGCAC
Found at i:6649198 original size:165 final size:162
Alignment explanation
Indices: 6648954--6649465 Score: 801
Period size: 162 Copynumber: 3.1 Consensus size: 162
6648944 TTGGGAACAG
*
6648954 CTCTCTATCTTCATAGTTTGCAATTTCCCAAGACTATTAGCAACACACATTGGGAAGAGAAATTT
1 CTCTCTATCTTCAGAGTTTGCAATTTCCCAAGACTATTAGCAACACACATTGGGAAGAGAAATTT
*
6649019 CAAATTATTGCATTCTGTGACTTGTACTTCCATTAGGCATTGGAAGCTTATGGTTGATAATACTT
66 CAATTTATTGCATTCTGTGACTTGTACTTCCATTAGGCATTGGAAGCTTATGGTTG---ATACTT
* *
6649084 GTGAGTTTTGGATTATTTCTTCCATTCCAAAGCAC
128 GTGAGTCTTGGATTATTTCTTCCATTCCAAAGCAT
* * * * * *
6649119 CTCTCTATATTCAAAGTTTGCAATTTCCCAAGGCTATTAGCATCA-AGCATGGGGAAGAGAATTT
1 CTCTCTATCTTCAGAGTTTGCAATTTCCCAAGACTATTAGCAACACA-CATTGGGAAGAGAAATT
* * *
6649183 TCAATTTATTGCATTCTTTGACTTGTACTTCCATTAGGCATTGAAAGCTTATGATTGATACTTGT
65 TCAATTTATTGCATTCTGTGACTTGTACTTCCATTAGGCATTGGAAGCTTATGGTTGATACTTGT
*
6649248 GAGTCTTGGATTATTTCTTCCATTCCAAAACAT
130 GAGTCTTGGATTATTTCTTCCATTCCAAAGCAT
6649281 CTCTCTATCTTCAGAGTTTGCAATTTCCCAAGACTATTAGCAACACACATTGGGAAGAGAAATTT
1 CTCTCTATCTTCAGAGTTTGCAATTTCCCAAGACTATTAGCAACACACATTGGGAAGAGAAATTT
* * * *
6649346 CAATTTATTGTATTCTGTGACTTGTAATTCCCTTAGGCTTTGGAAGCTTATGGTTGATACTTGTG
66 CAATTTATTGCATTCTGTGACTTGTACTTCCATTAGGCATTGGAAGCTTATGGTTGATACTTGTG
* *
6649411 AGTCTTGAATTATTTCTTCTATTCCAAAGCAT
131 AGTCTTGGATTATTTCTTCCATTCCAAAGCAT
6649443 CTCTCTATCTTCAGAGTTTGCAA
1 CTCTCTATCTTCAGAGTTTGCAA
6649466 ATTGGGCGCA
Statistics
Matches: 316, Mismatches: 29, Indels: 7
0.90 0.08 0.02
Matches are distributed among these distances:
162 205 0.65
163 1 0.00
164 1 0.00
165 109 0.34
ACGTcount: A:0.27, C:0.19, G:0.16, T:0.38
Consensus pattern (162 bp):
CTCTCTATCTTCAGAGTTTGCAATTTCCCAAGACTATTAGCAACACACATTGGGAAGAGAAATTT
CAATTTATTGCATTCTGTGACTTGTACTTCCATTAGGCATTGGAAGCTTATGGTTGATACTTGTG
AGTCTTGGATTATTTCTTCCATTCCAAAGCAT
Found at i:6655858 original size:8 final size:8
Alignment explanation
Indices: 6655845--6655870 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
6655835 GTTAATAAAT
6655845 AATAAACA
1 AATAAACA
6655853 AATAAACA
1 AATAAACA
6655861 AATAAACA
1 AATAAACA
6655869 AA
1 AA
6655871 CAATAATAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.77, C:0.12, G:0.00, T:0.12
Consensus pattern (8 bp):
AATAAACA
Found at i:6656408 original size:17 final size:16
Alignment explanation
Indices: 6656386--6656427 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
6656376 ATAATAAAAT
6656386 ATAATTTTATTATTTAA
1 ATAATTTTATT-TTTAA
*
6656403 ATAATTTATATTTTTAC
1 ATAATTT-TATTTTTAA
6656420 A-AATTTTA
1 ATAATTTTA
6656428 AAGGATTAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
15 2 0.09
16 5 0.22
17 12 0.52
18 4 0.17
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.57
Consensus pattern (16 bp):
ATAATTTTATTTTTAA
Found at i:6656439 original size:81 final size:81
Alignment explanation
Indices: 6656347--6656511 Score: 194
Period size: 82 Copynumber: 2.0 Consensus size: 81
6656337 AAATTCTTTA
** *
6656347 AAAGGTTAAATT-AAATTATAA-T-TTTT-ATGATAATAAAATATAATTTTATTATTTAAATAAT
1 AAAGGTTAAATTAAAATT-TAATTATTTTAAAAATAAAAAAATATAATTTTATT-TTT-AATAAT
* * *
6656408 TTATATTTTTACAAATTTT
63 TTAAAATTTTAAAAATTTT
* *
6656427 AAAGGATTAAATTAAAATTTAATTATTTTAAAAATAAAAAAATATATTTTTATTTTTATTAATTT
1 AAAGG-TTAAATTAAAATTTAATTATTTTAAAAATAAAAAAATATAATTTTATTTTTAATAATTT
6656492 AAAATTTTAAAAATTTT
65 AAAATTTTAAAAATTTT
6656509 AAA
1 AAA
6656512 ACAACTAAAT
Statistics
Matches: 72, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
80 5 0.07
81 10 0.14
82 30 0.42
83 7 0.10
84 20 0.28
ACGTcount: A:0.48, C:0.01, G:0.03, T:0.48
Consensus pattern (81 bp):
AAAGGTTAAATTAAAATTTAATTATTTTAAAAATAAAAAAATATAATTTTATTTTTAATAATTTA
AAATTTTAAAAATTTT
Found at i:6658541 original size:148 final size:148
Alignment explanation
Indices: 6658345--6658631 Score: 477
Period size: 148 Copynumber: 1.9 Consensus size: 148
6658335 TTAACAACAC
*
6658345 ACATTGGGAAGAGATATTTCAAATTATTGCAGCCTGTAACTTGTACTTCCCTTAGGCATTGAAAG
1 ACATTGGGAAGAGATATTTCAAATTATTGCAGCCTGTAACTTGTACTTCCCTTAAGCATTGAAAG
* *
6658410 CTTATGTTTGATACTTGAGA-GTCTTGGATTATTTCTTTCAATCCAAAGCACCTCTCTATCTTCA
66 CTTATGATTGATACTTGA-ATGTCTTGGATTATTTCTTCCAATCCAAAGCACCTCTCTATCTTCA
6658474 GAGTTTGTAATTGCCAAAG
130 GAGTTTGTAATTGCCAAAG
**
6658493 ACATTGGGAAGAGATATTTCAAATTATTGCATTCTGTAACTTGTACTTCCCTTAAGCATTGAAAG
1 ACATTGGGAAGAGATATTTCAAATTATTGCAGCCTGTAACTTGTACTTCCCTTAAGCATTGAAAG
* * *
6658558 TTTATGATTGATATTTGAATGTCTTGGATTATTTCTTCCAATCCAAAGCACCTCTCTATCTTTAG
66 CTTATGATTGATACTTGAATGTCTTGGATTATTTCTTCCAATCCAAAGCACCTCTCTATCTTCAG
*
6658623 CGTTTGTAA
131 AGTTTGTAA
6658632 ATTGAGCGCA
Statistics
Matches: 129, Mismatches: 9, Indels: 2
0.92 0.06 0.01
Matches are distributed among these distances:
147 1 0.01
148 128 0.99
ACGTcount: A:0.28, C:0.17, G:0.16, T:0.38
Consensus pattern (148 bp):
ACATTGGGAAGAGATATTTCAAATTATTGCAGCCTGTAACTTGTACTTCCCTTAAGCATTGAAAG
CTTATGATTGATACTTGAATGTCTTGGATTATTTCTTCCAATCCAAAGCACCTCTCTATCTTCAG
AGTTTGTAATTGCCAAAG
Found at i:6660153 original size:165 final size:162
Alignment explanation
Indices: 6659785--6660186 Score: 498
Period size: 165 Copynumber: 2.5 Consensus size: 162
6659775 CATATGTATA
* ** * *
6659785 GCACTTGTAGGTCTTAGATTACATCTTCCAATTGCAAGCAACTCTTTATTTTCAAAGTATGCAAT
1 GCACTTGTAGGTCTTGGATTATGTCTTCCAATTGCGAGCAACTCTTTATCTTCAAAGTATGCAAT
* ** * * * * * * * * *
6659850 TGCCCAAGGGTGTTAGTAGCAGATAGTGGGAAGAGATATTTTAATTTATCACATTTTTTAACCTT
66 TGTCCAAGACTGTTAGCAACAAACAGTGGAAAAAGATACTTTAAATTATCACATTTTTCAACCTT
* *
6659915 TACTTCCCTTAAACTTTGGAGGCTTATGTATG
131 TACTTCCCATAAACTTTGGAGGCTTATATATG
** * * *
6659947 GCACTTGCGGGTCTTGGATTATGTTTTCCAATTGAGAGCAACTTTTTATCTTCAAAGTATGCAAT
1 GCACTTGTAGGTCTTGGATTATGTCTTCCAATTGCGAGCAACTCTTTATCTTCAAAGTATGCAAT
* * *
6660012 TGTCCAAGACTATTTAGCAACAAACAGTGGAAAAAGATACTTTAAATTATCGCATTTTTCAACTT
66 TGTCCAAGACT-GTTAGCAACAAACAGTGGAAAAAGATACTTTAAATTATCACATTTTTCAACCT
6660077 TTACTTCCCATAAACTTTGGAGGCTTACGTATATG
130 TTACTTCCCATAAACTTTGGAGGCTTA--TATATG
* **
6660112 GCACTTGTAGGCCTTGGATTATGTCTTCCAATTGCGAGCAACTCTTTATCCCCAAAGTATGCAAT
1 GCACTTGTAGGTCTTGGATTATGTCTTCCAATTGCGAGCAACTCTTTATCTTCAAAGTATGCAAT
*
6660177 TGTCTAAGAC
66 TGTCCAAGAC
6660187 CAAAAAATCA
Statistics
Matches: 201, Mismatches: 36, Indels: 3
0.84 0.15 0.01
Matches are distributed among these distances:
162 63 0.31
163 67 0.33
165 71 0.35
ACGTcount: A:0.28, C:0.18, G:0.17, T:0.36
Consensus pattern (162 bp):
GCACTTGTAGGTCTTGGATTATGTCTTCCAATTGCGAGCAACTCTTTATCTTCAAAGTATGCAAT
TGTCCAAGACTGTTAGCAACAAACAGTGGAAAAAGATACTTTAAATTATCACATTTTTCAACCTT
TACTTCCCATAAACTTTGGAGGCTTATATATG
Found at i:6661276 original size:26 final size:27
Alignment explanation
Indices: 6661228--6661289 Score: 67
Period size: 26 Copynumber: 2.3 Consensus size: 27
6661218 ATATATAATA
*
6661228 ATAATAATATAAAAAGTAGATAA-AAT
1 ATAATAATATAAAAAGTAAATAAGAAT
*
6661254 ATAATGATATAAAAA-TAAAATAAGAAT
1 ATAATAATATAAAAAGT-AAATAAGAAT
6661281 A-AAGTAATA
1 ATAA-TAATA
6661290 GGTAATAATA
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
25 1 0.03
26 21 0.70
27 8 0.27
ACGTcount: A:0.66, C:0.00, G:0.08, T:0.26
Consensus pattern (27 bp):
ATAATAATATAAAAAGTAAATAAGAAT
Found at i:6661283 original size:32 final size:35
Alignment explanation
Indices: 6661192--6661301 Score: 86
Period size: 34 Copynumber: 3.1 Consensus size: 35
6661182 AGTGTAAAAG
*
6661192 AAAAATATGACAAGTAAGACTAAAATATATATAATAAT
1 AAAAATAT-A-AA-TAAGAATAAAATATATATAATAAT
* *
6661230 AATAATATAAA-AAGTAGATAAAATATA-ATGAT-AT
1 AAAAATATAAATAAG-A-ATAAAATATATATAATAAT
*
6661264 AAAAATA-AAATAAGAATAAAGTA-ATAGGTAATAAT
1 AAAAATATAAATAAGAATAAAATATATA--TAATAAT
6661299 AAA
1 AAA
6661302 TACAATAACA
Statistics
Matches: 59, Mismatches: 6, Indels: 17
0.72 0.07 0.21
Matches are distributed among these distances:
31 1 0.02
32 8 0.14
33 4 0.07
34 17 0.29
35 10 0.17
36 11 0.19
37 1 0.02
38 7 0.12
ACGTcount: A:0.64, C:0.02, G:0.09, T:0.25
Consensus pattern (35 bp):
AAAAATATAAATAAGAATAAAATATATATAATAAT
Found at i:6662397 original size:13 final size:13
Alignment explanation
Indices: 6662381--6662406 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
6662371 TTTATTTGGT
6662381 TTATTGGGTTTTG
1 TTATTGGGTTTTG
6662394 TTATTGGGTTTTG
1 TTATTGGGTTTTG
6662407 GGGGTGGCCC
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:0.08, C:0.00, G:0.31, T:0.62
Consensus pattern (13 bp):
TTATTGGGTTTTG
Found at i:6663228 original size:73 final size:71
Alignment explanation
Indices: 6663137--6663316 Score: 249
Period size: 73 Copynumber: 2.5 Consensus size: 71
6663127 ATTAAAAGGT
* * *
6663137 TCAACCCACCTCTCGCAATATGAGTTGATTTTTGAAAAC-AGAAATTGAAAATACCTCGGCAGTG
1 TCAACTCACCTCTCGCAATATGAGTTGA-TTTTGAAAACAAAAAATTGAAAATACCTCAGC-GTG
6663201 ACCCGAGGC
64 -CCCGAGGC
** *
6663210 TCAACTCACCTCTCGCAATATGAGTTGAAATTAAAACACAAAAAATTGAAAATACCTCAGCGTGC
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTGAAA-ACAAAAAATTGAAAATACCTCAGCGTGC
6663275 CCGAGGC
65 CCGAGGC
6663282 TCAACTCA-C-CTCGCAATATGAGTTGATTTTGAAAA
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAA
6663317 AGTAGAAATT
Statistics
Matches: 96, Mismatches: 9, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
69 1 0.01
70 22 0.23
71 1 0.01
72 21 0.22
73 32 0.33
74 19 0.20
ACGTcount: A:0.36, C:0.24, G:0.17, T:0.24
Consensus pattern (71 bp):
TCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAACAAAAAATTGAAAATACCTCAGCGTGCC
CGAGGC
Found at i:6663256 original size:127 final size:128
Alignment explanation
Indices: 6663021--6663261 Score: 326
Period size: 127 Copynumber: 1.9 Consensus size: 128
6663011 AACTCACTTT
* * ** * *
6663021 TCGCAATATGAGTTGATTTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTTCTGAGGTTCA
1 TCGCAATATGAGTTGA-TTTTTTGAAAACAGAAATTGAAAATACCTCAGCGTGACCCGAGGCTCA
** ** *
6663086 ACTCACCTCTCGCAATATGAGTTGATTTTGAAAAAGTAGAAATT-AAAAGGTTCAACCCACCTC
65 ACTCACCTCTCGCAATATGAGTTGAAATTGAAAAACAAAAAATTGAAAAGGTTCAACCCACCTC
*
6663149 TCGCAATATGAGTTGA-TTTTTGAAAACAGAAATTGAAAATACCTCGGCAGTGACCCGAGGCTCA
1 TCGCAATATGAGTTGATTTTTTGAAAACAGAAATTGAAAATACCTCAGC-GTGACCCGAGGCTCA
6663213 ACTCACCTCTCGCAATATGAGTTGAAATT-AAAACACAAAAAATTGAAAA
65 ACTCACCTCTCGCAATATGAGTTGAAATTGAAAA-ACAAAAAATTGAAAA
6663262 TACCTCAGCG
Statistics
Matches: 98, Mismatches: 12, Indels: 6
0.84 0.10 0.05
Matches are distributed among these distances:
126 33 0.34
127 45 0.46
128 20 0.20
ACGTcount: A:0.37, C:0.19, G:0.17, T:0.28
Consensus pattern (128 bp):
TCGCAATATGAGTTGATTTTTTGAAAACAGAAATTGAAAATACCTCAGCGTGACCCGAGGCTCAA
CTCACCTCTCGCAATATGAGTTGAAATTGAAAAACAAAAAATTGAAAAGGTTCAACCCACCTC
Found at i:6663420 original size:69 final size:69
Alignment explanation
Indices: 6663334--6663730 Score: 446
Period size: 69 Copynumber: 5.6 Consensus size: 69
6663324 ATTAAAAGGT
*
6663334 TCAACCCACCTCTCGCAATATGAGTTGATTTTTGAAAAAGAAATTGAAAATACCTC-GCGTGTCC
1 TCAACTCACCTCTCGCAATATGAGTTGA-TTTTGAAAAAGAAATTGAAAATACCTCAGCGTGTCC
6663398 GAGGC
65 GAGGC
* **
6663403 TCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAAACAAAATTGAAAATTGAAATACCTCAAT
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAAA-GAAATTG---A---AAATACCTCAGC
*
6663468 GTGTCTTGAGGC
59 GTGTC-CGAGGC
*
6663480 TCAACTCA-TTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTG-AAATACCTCA-CGTGTC
1 TCAACTCACCTCTCGCAATATGAGTTG-ATTTTGAAAA-AGAAATTGAAAATACCTCAGCGTGTC
*
6663542 TGAGGC
64 CGAGGC
** *
6663548 TCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACA-AAATTGAAATTACCTCAGCGTGTC
1 TCAACTCACCTCTCGCAATATGAGTTG-ATTTTGAAAA-AGAAATTGAAAATACCTCAGCGTGTC
6663612 CTGAGGC
64 C-GAGGC
* * *
6663619 TCAACTCA-TTCTCGCAATATGAGTTGATTTTTTTTGACAACAGAAATTGAAATTACCTCAGCGT
1 TCAACTCACCTCTCGCAATATGAGTTGA----TTTTGA-AAAAGAAATTGAAAATACCTCAGCGT
6663683 GTCCTGAGGC
61 GTCC-GAGGC
*
6663693 TCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAA
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAAA
6663731 CAAAAATTAA
Statistics
Matches: 292, Mismatches: 14, Indels: 43
0.84 0.04 0.12
Matches are distributed among these distances:
68 30 0.10
69 79 0.27
70 37 0.13
71 19 0.07
72 1 0.00
73 7 0.02
74 41 0.14
75 26 0.09
76 22 0.08
77 29 0.10
78 1 0.00
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.30
Consensus pattern (69 bp):
TCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAAAGAAATTGAAAATACCTCAGCGTGTCCG
AGGC
Found at i:6663447 original size:121 final size:125
Alignment explanation
Indices: 6663210--6663452 Score: 354
Period size: 124 Copynumber: 2.0 Consensus size: 125
6663200 GACCCGAGGC
*
6663210 TCAACTCACCTCTCGCAATATGAGTTGAAATTAAAACACAAAAAATTGAAAATACCTCAGCGTGC
1 TCAACCCACCTCTCGCAATATGAGTTGAAATTAAAACACAAAAAATTGAAAATACCTCAGCGTGC
*
6663275 CCGAGGCTCAACTCACCTCGCAATATGAGTTGATTTTGAAAAAGTAGAAATT-AAAAGGT
66 CCGAGGCTCAACTCACCTCGCAATATGAGTTGATTTTGAAAAAGCAGAAATTGAAAAGGT
** ** * *
6663334 TCAACCCACCTCTCGCAATATGAGTTGATTTTTGAA-A-AAGAAATTGAAAATACCTC-GCGTGT
1 TCAACCCACCTCTCGCAATATGAGTTGAAATTAAAACACAAAAAATTGAAAATACCTCAGCGTGC
6663396 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAAA-CA-AAATTGAAAA
66 CCGAGGCTCAACTCA-C-CTCGCAATATGAGTTGATTTTGAAAAAGCAGAAATTGAAAA
6663453 TTGAAATACC
Statistics
Matches: 108, Mismatches: 8, Indels: 8
0.87 0.06 0.06
Matches are distributed among these distances:
121 25 0.23
122 24 0.22
123 28 0.26
124 31 0.29
ACGTcount: A:0.38, C:0.21, G:0.16, T:0.26
Consensus pattern (125 bp):
TCAACCCACCTCTCGCAATATGAGTTGAAATTAAAACACAAAAAATTGAAAATACCTCAGCGTGC
CCGAGGCTCAACTCACCTCGCAATATGAGTTGATTTTGAAAAAGCAGAAATTGAAAAGGT
Found at i:6663690 original size:145 final size:143
Alignment explanation
Indices: 6663344--6663735 Score: 557
Period size: 145 Copynumber: 2.7 Consensus size: 143
6663334 TCAACCCACC
*
6663344 TCTCGCAATATGAGTTGATTTTTGAAAAAGAAATTGAAAATACCTC-GCGTGTCC-GAGGCTCAA
1 TCTCGCAATATGAGTTGATTTTTGAAACAGAAATTG-AAATACCTCAGCGTGTCCTGAGGCTCAA
*
6663407 CTCACCTCTCGCAATATGAGTTGATTTTGAAAAACAAAATTGAAAATTGAAATACCTCAATGTGT
65 CTCACCTCTCGCAATATGAGTTGATTTTGAAAAACAAAATTGAAAATT---ATACCTCAACGTGT
*
6663472 CTTGAGGCTCAACTCAT
127 CCTGAGGCTCAACTCAT
*
6663489 TCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATACCTCA-CGTGT-CTGAGGCTCAA
1 TCTCGCAATATGAGTTGATTTTTG-AAACAGAAATTGAAATACCTCAGCGTGTCCTGAGGCTCAA
** *
6663552 CTCATTTCTCGCAATATGAGTTGAATTTTG-AAAACAAAATTG-AAA-T-TACCTCAGCGTGTCC
65 CTCACCTCTCGCAATATGAGTTG-ATTTTGAAAAACAAAATTGAAAATTATACCTCAACGTGTCC
6663613 TGAGGCTCAACTCAT
129 TGAGGCTCAACTCAT
6663628 TCTCGCAATATGAGTTGATTTTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGC
1 TCTCGCAATATGAGTTGA---TTTTTGA-AACAGAAATTGAAA-TACCTCAGCGTGTCCTGAGGC
*
6663693 TCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACAAAA
61 TCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAAACAAAA
6663736 ATTAAAAGGC
Statistics
Matches: 224, Mismatches: 11, Indels: 24
0.86 0.04 0.09
Matches are distributed among these distances:
139 45 0.20
141 1 0.00
142 19 0.08
143 8 0.04
144 15 0.07
145 119 0.53
146 17 0.08
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.30
Consensus pattern (143 bp):
TCTCGCAATATGAGTTGATTTTTGAAACAGAAATTGAAATACCTCAGCGTGTCCTGAGGCTCAAC
TCACCTCTCGCAATATGAGTTGATTTTGAAAAACAAAATTGAAAATTATACCTCAACGTGTCCTG
AGGCTCAACTCAT
Found at i:6663903 original size:70 final size:69
Alignment explanation
Indices: 6663742--6663915 Score: 219
Period size: 70 Copynumber: 2.5 Consensus size: 69
6663732 AAAAATTAAA
* * * * *
6663742 AGGCTTAACTCACTTCTCGCAATATGAG-TCAATTTAAAACATAAACTAAAAATACCTCGCGTGC
1 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTAAAACAAAAACTAAAAATACCTCACGTGC
6663806 CCCG
66 CCCG
*
6663810 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTGAAAA-AAAAATTAAAAATACCTCAACGT
1 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTT-AAAACAAAAACTAAAAATACCTC-ACGT
* **
6663874 GTCTTG
64 GCCCCG
6663880 AGGCTCAACTCA-TCTCTCGCAATATGAGTTGATTTT
1 AGGCTCAACTCACT-TCTCGCAATATGAGTTGATTTT
6663916 CCTTGGAAAG
Statistics
Matches: 93, Mismatches: 9, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
68 27 0.29
69 22 0.24
70 44 0.47
ACGTcount: A:0.34, C:0.22, G:0.14, T:0.29
Consensus pattern (69 bp):
AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTAAAACAAAAACTAAAAATACCTCACGTGC
CCCG
Found at i:6663904 original size:191 final size:195
Alignment explanation
Indices: 6663004--6663915 Score: 803
Period size: 197 Copynumber: 4.6 Consensus size: 195
6662994 CATGTGAACT
* * * * *
6663004 GAGGCTCAACTCACTTTTCGCAATATGAGTTGATTTTTTTGACAACAGAAATTGAAATTACCTCA
1 GAGGCTCAACTCA-TTCTCGCAATATGAGTTGA--TTTTTGACAAAAAAAATTAAAAATACCTCA
* * * * * *
6663069 GCGTGTTCTGAGGTTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAAAGTAGAAATTAAAA
63 ACGTGTCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAA-CAAAAATTAAAA
* * * * * * * *
6663134 GGTTCAACCCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAAATACCTCGGCAG
127 GGCTCAACTCACTTCTCGCAATATGAGTTCAATTTTGAAAACA-AAACTAAAAATACCTCAGC-G
*
6663199 TGACCC
190 TGCCCC
* * *** * * *
6663205 GAGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTAAAACACAAAAAATTGAAAATACCTCAG
1 GAGGCTCAACTCA-TTCTCGCAATATGAGTTG-ATTTTTGACAAAAAAAATTAAAAATACCTCAA
* * *
6663270 CGTG-CCCGAGGCTCAACTCACCTC--GCAATATGAGTTGATTTTGAAAAAGTAGAAATTAAAAG
64 CGTGTCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAA-CAAAAATTAAAAG
* * * * * * *
6663332 GTTCAACCCACCTCTCGCAATATGAGTTGATTTTTGAAAA-AGAAATTGAAAATACCTC-GCGTG
128 GCTCAACTCACTTCTCGCAATATGAGTTCAATTTTGAAAACA-AAACTAAAAATACCTCAGCGTG
*
6663395 -TCC
192 CCCC
*
6663398 GAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTGA-AAAACAAAATTGAAAATTGAAATA
1 GAGGCTCAACTCA-TTCTCGCAATATGAGTTGATTTTTGACAAAA-AAAATT---AA---AAATA
* * * * *
6663461 CCTCAATGTGTCTTGAGGCTCAACTCA-TTCTCGCAATATGAGTTGAATTTTG-AAAACAGAAAT
58 CCTCAACGTGTCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTG-ATTTTGAAAAACAAAAAT
* *
6663524 TGAAATACCTCACGTGTCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAA
122 T---A-A----A--------AGGCTCAACTCACTTCTCGCAATATGAGTTCAATTTTGAAAACAA
* * * * *
6663589 AATTGAAATTACCTCAGCGTGTCCT
171 AACTAAAAATACCTCAGCGTGCCCC
* * * *
6663614 GAGGCTCAACTCATTCTCGCAATATGAGTTGATTTTTTTTGACAACAGAAATTGAAATTACCTCA
1 GAGGCTCAACTCATTCTCGCAATATGAGTTGA---TTTTTGACAAAAAAAATTAAAAATACCTCA
*
6663679 GCGTGTCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAG
63 ACGTGTCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAG
*
6663744 GCTTAACTCACTTCTCGCAATATGAG-TCAA-TTT-AAAACATAAACTAAAAATACCTC-GCGTG
128 GCTCAACTCACTTCTCGCAATATGAGTTCAATTTTGAAAACA-AAACTAAAAATACCTCAGCGTG
6663805 CCCC
192 CCCC
6663809 GAGGCTCAACTCACTTCTCGCAATATGAGTTGA-TTTTGA-AAAAAAAATTAAAAATACCTCAAC
1 GAGGCTCAACTCA-TTCTCGCAATATGAGTTGATTTTTGACAAAAAAAATTAAAAATACCTCAAC
* * *
6663872 GTGTCTTGAGGCTCAACTCATCTCTCGCAATATGAGTTGATTTT
65 GTGTCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTT
6663916 CCTTGGAAAG
Statistics
Matches: 611, Mismatches: 60, Indels: 90
0.80 0.08 0.12
Matches are distributed among these distances:
190 3 0.00
191 69 0.11
192 7 0.01
193 34 0.06
194 4 0.01
195 28 0.05
196 53 0.09
197 96 0.16
198 47 0.08
199 34 0.06
200 33 0.05
201 31 0.05
202 2 0.00
206 2 0.00
210 1 0.00
211 1 0.00
213 34 0.06
214 79 0.13
215 24 0.04
216 15 0.02
219 11 0.02
220 3 0.00
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.29
Consensus pattern (195 bp):
GAGGCTCAACTCATTCTCGCAATATGAGTTGATTTTTGACAAAAAAAATTAAAAATACCTCAACG
TGTCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCT
CAACTCACTTCTCGCAATATGAGTTCAATTTTGAAAACAAAACTAAAAATACCTCAGCGTGCCCC
Found at i:6677095 original size:15 final size:16
Alignment explanation
Indices: 6677075--6677110 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
6677065 GGTAAAAAAA
*
6677075 TTTATTT-TTTTATTT
1 TTTATTTCTTGTATTT
6677090 TTTATTTCTTGTATTT
1 TTTATTTCTTGTATTT
6677106 TTTAT
1 TTTAT
6677111 ATCATACTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.14, C:0.03, G:0.03, T:0.81
Consensus pattern (16 bp):
TTTATTTCTTGTATTT
Found at i:6678712 original size:21 final size:21
Alignment explanation
Indices: 6678688--6678746 Score: 54
Period size: 21 Copynumber: 3.0 Consensus size: 21
6678678 ATTGTATTTA
6678688 ATTTATATAAAAATAAAAAAT
1 ATTTATATAAAAATAAAAAAT
* * *
6678709 ATTTCA-ATAATAATATAAATT
1 ATTT-ATATAAAAATAAAAAAT
6678730 ATTT-T-TAAAAA-AAAAAA
1 ATTTATATAAAAATAAAAAA
6678747 GAACGAATTT
Statistics
Matches: 30, Mismatches: 6, Indels: 7
0.70 0.14 0.16
Matches are distributed among these distances:
18 4 0.13
19 5 0.17
21 20 0.67
22 1 0.03
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.36
Consensus pattern (21 bp):
ATTTATATAAAAATAAAAAAT
Found at i:6679321 original size:21 final size:21
Alignment explanation
Indices: 6679295--6679335 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
6679285 GAGTTTTTAG
*
6679295 AAAAATTTTAGAATTTTATGA
1 AAAAATTTAAGAATTTTATGA
6679316 AAAAATTTAAGAATTTTATG
1 AAAAATTTAAGAATTTTATG
6679336 TCTTTTTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.49, C:0.00, G:0.10, T:0.41
Consensus pattern (21 bp):
AAAAATTTAAGAATTTTATGA
Found at i:6679521 original size:19 final size:20
Alignment explanation
Indices: 6679483--6679523 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
6679473 AACAAACACA
* *
6679483 TTTTTTAAATATTATGAAAT
1 TTTTTTAAAAAATATGAAAT
6679503 TTTTTTAAAAAATAT-AAAT
1 TTTTTTAAAAAATATGAAAT
6679522 TT
1 TT
6679524 CAAAATTAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 6 0.32
20 13 0.68
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (20 bp):
TTTTTTAAAAAATATGAAAT
Found at i:6679587 original size:17 final size:18
Alignment explanation
Indices: 6679567--6679609 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
6679557 TTTTTTCGAG
*
6679567 ATTTTTTGTTTTCAAG-A
1 ATTTTTTATTTTCAAGTA
* *
6679584 ATTTTTAATTTTTAAGTA
1 ATTTTTTATTTTCAAGTA
6679602 ATTTTTTA
1 ATTTTTTA
6679610 CCACGTGGCA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 13 0.62
18 8 0.38
ACGTcount: A:0.28, C:0.02, G:0.07, T:0.63
Consensus pattern (18 bp):
ATTTTTTATTTTCAAGTA
Found at i:6685931 original size:91 final size:90
Alignment explanation
Indices: 6685756--6685964 Score: 244
Period size: 90 Copynumber: 2.3 Consensus size: 90
6685746 GCAGTTTATT
* * * *
6685756 TGCAAACACTGGTGGTTTATCCACAAATTTATTGGCAGCTTTTATCTGCAAACTGTTGTGCATTC
1 TGCAAACACTTGTGGCTTATCCACAAATTTACTGACAGCTTTTATCTGCAAACTGTTGTGCATTC
* * *
6685821 ACAACCTACTGGTAACGTATTAACC
66 ACAACCTAATAGCAACGTATTAACC
* * *
6685846 TGCAAACACTTGTGGCTTATCCACAACTTTTACTGACAGCTTTTATTTGCAAACTTGTTGTGTAT
1 TGCAAACACTTGTGGCTTATCCACAA-ATTTACTGACAGCTTTTATCTGCAAAC-TGTTGTGCAT
*
6685911 TCACAA-CTAATAGCAGCGTATTAACC
64 TCACAACCTAATAGCAACGTATTAACC
* * *
6685937 TAC-AACACTTATTG-TTCATCCACAAATT
1 TGCAAACACTTGTGGCTT-ATCCACAAATT
6685965 AGAGTGTCCA
Statistics
Matches: 101, Mismatches: 15, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
89 4 0.04
90 41 0.41
91 41 0.41
92 15 0.15
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.34
Consensus pattern (90 bp):
TGCAAACACTTGTGGCTTATCCACAAATTTACTGACAGCTTTTATCTGCAAACTGTTGTGCATTC
ACAACCTAATAGCAACGTATTAACC
Found at i:6690149 original size:29 final size:30
Alignment explanation
Indices: 6690130--6690185 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 30
6690120 TCAATATTTT
*
6690130 AAATTCAATA-TAAT-AAAAATATAATATTA
1 AAATTAAATATTAATGAAAAATA-AATATTA
6690159 AAATTAAATATTAATGAAAAATAAATA
1 AAATTAAATATTAATGAAAAATAAATA
6690186 CATAATTAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
29 9 0.38
30 8 0.33
31 7 0.29
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (30 bp):
AAATTAAATATTAATGAAAAATAAATATTA
Found at i:6690289 original size:33 final size:33
Alignment explanation
Indices: 6690244--6690309 Score: 107
Period size: 33 Copynumber: 2.0 Consensus size: 33
6690234 ACTAGAACTA
6690244 TATGATTCGTTTT-CTTCAACAAAGTCATAATAG
1 TATGATTCGTTTTCCTT-AACAAAGTCATAATAG
*
6690277 TATGATTTGTTTTCCTTAACAAAGTCATAATAG
1 TATGATTCGTTTTCCTTAACAAAGTCATAATAG
6690310 GATTTAAAAG
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
33 28 0.90
34 3 0.10
ACGTcount: A:0.33, C:0.14, G:0.12, T:0.41
Consensus pattern (33 bp):
TATGATTCGTTTTCCTTAACAAAGTCATAATAG
Found at i:6690736 original size:33 final size:33
Alignment explanation
Indices: 6690694--6690770 Score: 127
Period size: 33 Copynumber: 2.3 Consensus size: 33
6690684 TTCCCTCACC
6690694 TATCTTCGATGTGCAAAAGAATTTCAAGCAAAT
1 TATCTTCGATGTGCAAAAGAATTTCAAGCAAAT
*
6690727 TATCTTCGATGTGCAAAAGAGTTTCAAGCAAAT
1 TATCTTCGATGTGCAAAAGAATTTCAAGCAAAT
* *
6690760 TAACCTCGATG
1 TATCTTCGATG
6690771 ATACAATGAA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 41 1.00
ACGTcount: A:0.36, C:0.17, G:0.17, T:0.30
Consensus pattern (33 bp):
TATCTTCGATGTGCAAAAGAATTTCAAGCAAAT
Found at i:6701294 original size:39 final size:39
Alignment explanation
Indices: 6701216--6701292 Score: 140
Period size: 39 Copynumber: 2.0 Consensus size: 39
6701206 ATACAATTCT
6701216 ATGGGTGAGATTTAATTTATTATATATATATTTAGAAAA
1 ATGGGTGAGATTTAATTTATTATATATATATTTAGAAAA
6701255 ATGGGTGAGATTTAATTTA-T-TATATATATTTAGAAAA
1 ATGGGTGAGATTTAATTTATTATATATATATTTAGAAAA
6701292 A
1 A
6701293 AAACCTGATA
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
37 18 0.47
38 1 0.03
39 19 0.50
ACGTcount: A:0.42, C:0.00, G:0.16, T:0.43
Consensus pattern (39 bp):
ATGGGTGAGATTTAATTTATTATATATATATTTAGAAAA
Found at i:6711774 original size:30 final size:30
Alignment explanation
Indices: 6711738--6711857 Score: 143
Period size: 30 Copynumber: 4.0 Consensus size: 30
6711728 CCACTACTGT
*
6711738 CGCCTTGTCCTCCACCATGTCCGCCACTAC
1 CGCCTTGTCCTCCACCATGTCCACCACTAC
* * *
6711768 CACCTTGTCCGCCACCATATCCACCACTAC
1 CGCCTTGTCCTCCACCATGTCCACCACTAC
* *
6711798 CGCCATGTCCTCCGCCACTG-CCACCACTAC
1 CGCCTTGTCCTCCACCA-TGTCCACCACTAC
* * *
6711828 CGCCTTTTCCTCCACCATGCCCTCCACTAC
1 CGCCTTGTCCTCCACCATGTCCACCACTAC
6711858 TGCCACCACT
Statistics
Matches: 75, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
29 2 0.03
30 72 0.96
31 1 0.01
ACGTcount: A:0.17, C:0.52, G:0.10, T:0.22
Consensus pattern (30 bp):
CGCCTTGTCCTCCACCATGTCCACCACTAC
Found at i:6711852 original size:42 final size:42
Alignment explanation
Indices: 6711800--6711884 Score: 116
Period size: 42 Copynumber: 2.0 Consensus size: 42
6711790 ACCACTACCG
* * * * *
6711800 CCATGTCCTCCGCCACTGCCACCACTACCGCCTTTTCCTCCA
1 CCATGCCCTCCACCACTGCCACCACTACCACCGTGTCCTCCA
*
6711842 CCATGCCCTCCACTACTGCCACCACTACCACCGTGTCCTCCA
1 CCATGCCCTCCACCACTGCCACCACTACCACCGTGTCCTCCA
6711884 C
1 C
6711885 TGCCGCCACC
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.16, C:0.53, G:0.09, T:0.21
Consensus pattern (42 bp):
CCATGCCCTCCACCACTGCCACCACTACCACCGTGTCCTCCA
Found at i:6711864 original size:72 final size:72
Alignment explanation
Indices: 6711788--6711929 Score: 203
Period size: 72 Copynumber: 2.0 Consensus size: 72
6711778 GCCACCATAT
* * * * *
6711788 CCACCACTACCGCCATGTCCTCCGCCACTGCCACCACTACCGCCTTTTCCTCCACCATGCCCTCC
1 CCACCACTACCACCATGTCCTCCACCACCGCCACCACTACCGCCTTGTCCTCCACCATGCCCACC
6711853 ACTACTG
66 ACTACTG
* ** *
6711860 CCACCACTACCACCGTGTCCTCCACTGCCGCCACCACTACCGCCTTGTCCTCCACCATGTCCACC
1 CCACCACTACCACCATGTCCTCCACCACCGCCACCACTACCGCCTTGTCCTCCACCATGCCCACC
6711925 ACTAC
66 ACTAC
6711930 CACCACTTTG
Statistics
Matches: 61, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
72 61 1.00
ACGTcount: A:0.18, C:0.53, G:0.10, T:0.20
Consensus pattern (72 bp):
CCACCACTACCACCATGTCCTCCACCACCGCCACCACTACCGCCTTGTCCTCCACCATGCCCACC
ACTACTG
Found at i:6711873 original size:30 final size:30
Alignment explanation
Indices: 6711839--6711967 Score: 118
Period size: 30 Copynumber: 4.2 Consensus size: 30
6711829 GCCTTTTCCT
*
6711839 CCACCATGCCCTCCACTACTGCCACCACTA
1 CCACCATGTCCTCCACTACTGCCACCACTA
* * *
6711869 CCACCGTGTCCTCCACTGCCGCCACCACTA
1 CCACCATGTCCTCCACTACTGCCACCACTA
* * *
6711899 CCGCCTTGTCCTCCACCA-TGTCCACCACTA
1 CCACCATGTCCTCCACTACTG-CCACCACTA
* *
6711929 CCACCACTTTGTCCTCCACTA-TATCCACCACTG
1 CCACCA---TGTCCTCCACTACT-GCCACCACTA
6711962 CCACCA
1 CCACCA
6711968 CCGCCGTGTC
Statistics
Matches: 80, Mismatches: 14, Indels: 7
0.79 0.14 0.07
Matches are distributed among these distances:
29 1 0.01
30 53 0.66
33 26 0.32
ACGTcount: A:0.20, C:0.51, G:0.09, T:0.20
Consensus pattern (30 bp):
CCACCATGTCCTCCACTACTGCCACCACTA
Found at i:6711946 original size:33 final size:33
Alignment explanation
Indices: 6711904--6711968 Score: 103
Period size: 33 Copynumber: 2.0 Consensus size: 33
6711894 CACTACCGCC
*
6711904 TTGTCCTCCACCATGTCCACCACTACCACCACT
1 TTGTCCTCCACCATATCCACCACTACCACCACT
* *
6711937 TTGTCCTCCACTATATCCACCACTGCCACCAC
1 TTGTCCTCCACCATATCCACCACTACCACCAC
6711969 CGCCGTGTCC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.22, C:0.48, G:0.06, T:0.25
Consensus pattern (33 bp):
TTGTCCTCCACCATATCCACCACTACCACCACT
Found at i:6712084 original size:72 final size:72
Alignment explanation
Indices: 6711869--6712676 Score: 303
Period size: 72 Copynumber: 11.4 Consensus size: 72
6711859 GCCACCACTA
* * * * *
6711869 CCACCGTGTCCTCCACTGCCGCCACCACTACCGCCTTGTCCTCCACCA-TGTCCACCACTACCAC
1 CCACCATGTCCACCACTGCCGCCACCACTACCGCCATGTCCTCCACCACCG-CCACCACTACC-T
6711933 CACTTTGTCCT
64 C-CTTT-TCCT
* * * ** **
6711944 CCACTATATCCACCACT---GCCA-C-C-ACCGCCGTGTCCTCTGCTGCCGCCACCACTACCTCC
1 CCACCATGTCCACCACTGCCGCCACCACTACCGCCATGTCCTCCACCACCGCCACCACTACCT-C
*
6712003 CTGTT-CT
65 CTTTTCCT
* * * * *
6712010 CCACCATGTCCACCACTGCCTCTACCACTACCGCCATGTCCTCCGCCACCGCCATCACTGCCTCC
1 CCACCATGTCCACCACTGCCGCCACCACTACCGCCATGTCCTCCACCACCGCCACCACTACCTCC
6712075 TTTTCCT
66 TTTTCCT
* * * * * ** * *
6712082 CCACCATGCCCTCCACTACCGCCACCACTACCACCATGTCCTCTACTGCCACCACCACTACCACC
1 CCACCATGTCCACCACTGCCGCCACCACTACCGCCATGTCCTCCACCACCGCCACCACTACCTCC
*
6712147 TTGTCCT
66 TTTTCCT
* * * * * * *
6712154 CCACCATGTCCACCACTACCACTACCTTGCCCT-CCACCATAT--T-CACCACTG---CCACTAC
1 CCACCATGTCCACCACTGCCGCCA-C---CACTACCGCCATGTCCTCCACCACCGCCACCACTAC
*
6712212 CTCCTTGTCCACCACT
62 CTCCTT-T---TC-CT
* * * ** * * * * *
6712228 ACCGCCATGTCCTCCGCCACCACCACCACTACCACCTTTTCCTCCACCA-TGCC-CGC-C-A-CT
1 -CCACCATGTCCACCACTGCCGCCACCACTACCGCCATGTCCTCCACCACCGCCAC-CACTACCT
* *
6712288 AC---T--A
64 CCTTTTCCT
* * * * **
6712292 CCGCCATGTCCTCCACTGCCGCCACCACTACCTCCGTGTCCTCCACCACTACCACCACTACCACC
1 CCACCATGTCCACCACTGCCGCCACCACTACCGCCATGTCCTCCACCACCGCCACCACT---ACC
* * * *
6712357 ACCCTGTCTT
63 TCCTTTTCCT
* * * *
6712367 CCACCATATCCACCA------CCACCACTGCCGCCATGTCCTCC-CTCGCCGCCACCAGTACCTC
1 CCACCATGTCCACCACTGCCGCCACCACTACCGCCATGTCCTCCAC-CACCGCCACCACTACCTC
* *
6712425 CCTGTCCT
65 CTTTTCCT
* * * * * ** * * * *
6712433 CCACCATGCCCACCACTGCCTCCACCACTGCCTCCCTGTCCTCTGCCACCACCACTACTGCTTCC
1 CCACCATGTCCACCACTGCCGCCACCACTACCGCCATGTCCTCCACCACCGCCACCACTACCTCC
*
6712498 TTGTCCT
66 TTTTCCT
* * * * * * *
6712505 CCACCATGCCCACCACTACCTCCACCACTACCGCCATGTCCTCCGCCACCACCAGCACTGCCTCC
1 CCACCATGTCCACCACTGCCGCCACCACTACCGCCATGTCCTCCACCACCGCCACCACTACCTCC
* **
6712570 CTGCCCT
66 TTTTCCT
* * * * * * **** *
6712577 CCACTATGTCTACCACTACCGCCACCGCTACCACCATGACCTCCGTTGCCACCACCACTACCTCC
1 CCACCATGTCCACCACTGCCGCCACCACTACCGCCATGTCCTCCACCACCGCCACCACTACCTCC
*
6712642 TTGTCCT
66 TTTTCCT
* * *
6712649 CCACCATGCCCGCCACTACCGCCACCAC
1 CCACCATGTCCACCACTGCCGCCACCAC
6712677 CACTACCACC
Statistics
Matches: 559, Mismatches: 127, Indels: 97
0.71 0.16 0.12
Matches are distributed among these distances:
63 41 0.07
64 4 0.01
65 2 0.00
66 41 0.07
67 1 0.00
68 4 0.01
69 70 0.13
70 5 0.01
71 10 0.02
72 303 0.54
73 5 0.01
74 9 0.02
75 58 0.10
76 5 0.01
77 1 0.00
ACGTcount: A:0.18, C:0.52, G:0.09, T:0.20
Consensus pattern (72 bp):
CCACCATGTCCACCACTGCCGCCACCACTACCGCCATGTCCTCCACCACCGCCACCACTACCTCC
TTTTCCT
Found at i:6712117 original size:30 final size:30
Alignment explanation
Indices: 6712082--6712175 Score: 109
Period size: 30 Copynumber: 3.1 Consensus size: 30
6712072 TCCTTTTCCT
*
6712082 CCACCATGCCCTCCACTACCGCCACCACTA
1 CCACCATGTCCTCCACTACCGCCACCACTA
* * *
6712112 CCACCATGTCCTCTACTGCCACCACCACTA
1 CCACCATGTCCTCCACTACCGCCACCACTA
* * *
6712142 CCACCTTGTCCTCCACCA-TGTCCACCACTA
1 CCACCATGTCCTCCACTACCG-CCACCACTA
6712172 CCAC
1 CCAC
6712176 TACCTTGCCC
Statistics
Matches: 53, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
30 53 1.00
ACGTcount: A:0.22, C:0.53, G:0.06, T:0.18
Consensus pattern (30 bp):
CCACCATGTCCTCCACTACCGCCACCACTA
Found at i:6712181 original size:33 final size:33
Alignment explanation
Indices: 6712130--6712213 Score: 105
Period size: 33 Copynumber: 2.5 Consensus size: 33
6712120 TCCTCTACTG
* * * * *
6712130 CCACCACCACTACCACCTTGTCCTCCACCATGT
1 CCACCACTACCACTACCTTGCCCTCCACCATAT
6712163 CCACCACTACCACTACCTTGCCCTCCACCATAT
1 CCACCACTACCACTACCTTGCCCTCCACCATAT
* *
6712196 TCACCACTGCCACTACCT
1 CCACCACTACCACTACCT
6712214 CCTTGTCCAC
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
33 44 1.00
ACGTcount: A:0.23, C:0.51, G:0.05, T:0.21
Consensus pattern (33 bp):
CCACCACTACCACTACCTTGCCCTCCACCATAT
Found at i:6712238 original size:18 final size:18
Alignment explanation
Indices: 6712205--6712239 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
6712195 TTCACCACTG
* *
6712205 CCACTACCTCCTTGTCCA
1 CCACTACCGCCATGTCCA
6712223 CCACTACCGCCATGTCC
1 CCACTACCGCCATGTCC
6712240 TCCGCCACCA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.17, C:0.51, G:0.09, T:0.23
Consensus pattern (18 bp):
CCACTACCGCCATGTCCA
Found at i:6712299 original size:63 final size:63
Alignment explanation
Indices: 6712220--6712339 Score: 168
Period size: 63 Copynumber: 1.9 Consensus size: 63
6712210 ACCTCCTTGT
* * *
6712220 CCACCACTACCGCCATGTCCTCCGCCACCACCACCACTACCACCTTTTCCTCCACCATGCCCG
1 CCACCACTACCGCCATGTCCTCCACCACCACCACCACTACCACCGTGTCCTCCACCATGCCCG
* ** * *
6712283 CCACTACTACCGCCATGTCCTCCACTGCCGCCACCACTACCTCCGTGTCCTCCACCA
1 CCACCACTACCGCCATGTCCTCCACCACCACCACCACTACCACCGTGTCCTCCACCA
6712340 CTACCACCAC
Statistics
Matches: 49, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
63 49 1.00
ACGTcount: A:0.18, C:0.54, G:0.09, T:0.18
Consensus pattern (63 bp):
CCACCACTACCGCCATGTCCTCCACCACCACCACCACTACCACCGTGTCCTCCACCATGCCCG
Found at i:6712304 original size:33 final size:32
Alignment explanation
Indices: 6712220--6712448 Score: 148
Period size: 30 Copynumber: 7.1 Consensus size: 32
6712210 ACCTCCTTGT
*
6712220 CCACCACTACCGCCATGTCCTCCGCCA--CCA
1 CCACCACTACCGCCATGTCCTCCACCATCCCA
* * * *
6712250 CCACCACTACCACCTTTTCCTCCACCATGCCCG
1 CCACCACTACCGCCATGTCCTCCACCAT-CCCA
* * *
6712283 CCACTACTACCGCCATGTCCTCCA-C-TGCCG
1 CCACCACTACCGCCATGTCCTCCACCATCCCA
* * *
6712313 CCACCACTACCTCCGTGTCCTCCACCACTACCA
1 CCACCACTACCGCCATGTCCTCCACCA-TCCCA
* * * * *
6712346 CCACTACCACCACCCTGTCTTCCACCATATCCACCA
1 CCACCACTACCGCCATGTCCTCCACC--AT-C-CCA
* *
6712382 CCACCACTGCCGCCATGTCCT-C-CC-TCGCCG
1 CCACCACTACCGCCATGTCCTCCACCATC-CCA
* * *
6712412 CCACCAGTACCTCCCTGTCCTCCACCATGCCCA
1 CCACCACTACCGCCATGTCCTCCACCAT-CCCA
6712445 CCAC
1 CCAC
6712449 TGCCTCCACC
Statistics
Matches: 151, Mismatches: 34, Indels: 25
0.72 0.16 0.12
Matches are distributed among these distances:
30 67 0.44
31 4 0.03
32 3 0.02
33 53 0.35
34 4 0.03
35 2 0.01
36 18 0.12
ACGTcount: A:0.19, C:0.55, G:0.09, T:0.18
Consensus pattern (32 bp):
CCACCACTACCGCCATGTCCTCCACCATCCCA
Done.