Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr8
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: 56894857
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1173888 characters in sequence are not A, C, G, or T
File 29 of 185
Found at i:8559933 original size:31 final size:31
Alignment explanation
Indices: 8559898--8559960 Score: 108
Period size: 31 Copynumber: 2.0 Consensus size: 31
8559888 TTCTTCAAAC
* *
8559898 CTTTGAGCCCTTTCTTTTATTTCTTTTATTT
1 CTTTGAACCCTTTCTTTTATTTCTTTAATTT
8559929 CTTTGAACCCTTTCTTTTATTTCTTTAATTT
1 CTTTGAACCCTTTCTTTTATTTCTTTAATTT
8559960 C
1 C
8559961 AAATTTTGTA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.13, C:0.21, G:0.05, T:0.62
Consensus pattern (31 bp):
CTTTGAACCCTTTCTTTTATTTCTTTAATTT
Found at i:8563363 original size:240 final size:240
Alignment explanation
Indices: 8562940--8563424 Score: 853
Period size: 240 Copynumber: 2.0 Consensus size: 240
8562930 TCAGTTGAAC
* *
8562940 CTTTTCCATTCTCTTTTCACTCAATTTTATTTCTATTAGAATCAAAATCAAGGGTTGTACATGCC
1 CTTTTCCATTCTCTTTTCACTCAATTTTATTACTATTAGAAACAAAATCAAGGGTTGTACATGCC
* * *
8563005 TCACTTTATTCCTGAGGCGATTAATCGCTCGTGGATGCCCCAATTTATGAATGTTCGAATTTAAA
66 TCACCTTATTCCTGAGGCGATTAATCACTCGTGGATGCCCCAATTTATGAATGTTCGAACTTAAA
* *
8563070 ATTTTTATTGTTCCCGGTCAGCCTACTCGCCAGCAGCCGTTGATCTCTCATTAATTTTAATCAGT
131 ATTTTCATTGTTCCCGGTCAGCCTACTCGCCAACAGCCGTTGATCTCTCATTAATTTTAATCAGT
*
8563135 GAACCAGTACCAGACTTAGTTGATTGTCTTTCATTTGTTCTGTCT
196 GAACCAGTACCAGACTTAGTTGATTGTCTTTCATTTGTCCTGTCT
*
8563180 CTTTTCCATTCTCTTTTCACTCAATTTTATTACTATTAGAAACAAAATCTAGGGTTGTACATGCC
1 CTTTTCCATTCTCTTTTCACTCAATTTTATTACTATTAGAAACAAAATCAAGGGTTGTACATGCC
*
8563245 TCACCTTATTCCTGAGGCGATTAATCACTCGTGGATGCCCCGATTTATGAATGTTCGAACTTAAA
66 TCACCTTATTCCTGAGGCGATTAATCACTCGTGGATGCCCCAATTTATGAATGTTCGAACTTAAA
* * *
8563310 ATTTTCATTGTTCCCGGTCGGCCTACTGGCCAACGGCCGTTGATCTCTCATTAATTTTAATCAGT
131 ATTTTCATTGTTCCCGGTCAGCCTACTCGCCAACAGCCGTTGATCTCTCATTAATTTTAATCAGT
8563375 GAACCAGTACCAGACTTAGTTGATTGTCTTTCATTTGTCCTGTCT
196 GAACCAGTACCAGACTTAGTTGATTGTCTTTCATTTGTCCTGTCT
8563420 CTTTT
1 CTTTT
8563425 TTCCATCACA
Statistics
Matches: 232, Mismatches: 13, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
240 232 1.00
ACGTcount: A:0.23, C:0.23, G:0.15, T:0.39
Consensus pattern (240 bp):
CTTTTCCATTCTCTTTTCACTCAATTTTATTACTATTAGAAACAAAATCAAGGGTTGTACATGCC
TCACCTTATTCCTGAGGCGATTAATCACTCGTGGATGCCCCAATTTATGAATGTTCGAACTTAAA
ATTTTCATTGTTCCCGGTCAGCCTACTCGCCAACAGCCGTTGATCTCTCATTAATTTTAATCAGT
GAACCAGTACCAGACTTAGTTGATTGTCTTTCATTTGTCCTGTCT
Found at i:8568410 original size:19 final size:19
Alignment explanation
Indices: 8568386--8568432 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
8568376 TTTACGCCTT
*
8568386 TTTGCATT-CATTTCATGCA
1 TTTGCATTACATTACAT-CA
8568405 TTTGCATTACATTACATCA
1 TTTGCATTACATTACATCA
*
8568424 TATGCATTA
1 TTTGCATTA
8568433 AAGTCCACCA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.28, C:0.19, G:0.09, T:0.45
Consensus pattern (19 bp):
TTTGCATTACATTACATCA
Found at i:8576277 original size:50 final size:45
Alignment explanation
Indices: 8576157--8576285 Score: 123
Period size: 45 Copynumber: 2.8 Consensus size: 45
8576147 AAAGAGAAGG
* ** * *
8576157 GACCAAGGTGAAAACCCGTAAAGGGCGCTTTAAGTCCTAGAAAGA
1 GACCAAGGCGAAAACCCACAAAGGGCGCTTTGAGTCCTAAAAAGA
* * *
8576202 GACCAAGGTGAAAACCCGCGAAGGGCGCTTTGAGTCCTAAAAAAAAGA
1 GACCAAGGCGAAAACCCACAAAGGGCGCTTTGAGTCCT---AAAAAGA
* *
8576250 GAGGCCAAGGCGAAAACTCACAAAGGGCGCATTGAG
1 GA--CCAAGGCGAAAACCCACAAAGGGCGCTTTGAG
8576286 ACTAAAGGGG
Statistics
Matches: 70, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
45 35 0.50
48 8 0.11
50 27 0.39
ACGTcount: A:0.38, C:0.21, G:0.29, T:0.12
Consensus pattern (45 bp):
GACCAAGGCGAAAACCCACAAAGGGCGCTTTGAGTCCTAAAAAGA
Found at i:8577872 original size:143 final size:143
Alignment explanation
Indices: 8577721--8578032 Score: 405
Period size: 143 Copynumber: 2.2 Consensus size: 143
8577711 AGTTACAAGT
* * * * ** *
8577721 CTTATCTCCCTGAAGTTCCAGTGGAGCAGACTGAAGATAGCGAATCTTACTTCCCTGGCGTTGCA
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGACAACGAATCTTACTTCCCTAACGTTACA
* *
8577786 GTGGAACAGATTAAAGCTACAAATTATGTCA-GATCTTATCTTTCTGAAGTTACAGTGGAGCATA
66 GTGGAACAGATTAAAGCTACAAATTATG-CAGGATCTTATCTTTCTGAAGTTACA-TGAAGCAGA
8577850 TTGAAGCCACCAA-C
129 TTGAAGCCACCAATC
* * * *
8577864 CTTATCTCCCTAAAGTTGCAGCGGAGCAGACTAAAGACAACGAATCTTATTTCTCTAACGTTACA
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGACAACGAATCTTACTTCCCTAACGTTACA
* * * **
8577929 GTGGAATAGATTAAAGCTACAAATTATGGAGGATCTTATCTTTCTGAATTTGTATGAAGCAGATT
66 GTGGAACAGATTAAAGCTACAAATTATGCAGGATCTTATCTTTCTGAAGTTACATGAAGCAGATT
8577994 GAAGCCACCAATC
131 GAAGCCACCAATC
* *
8578007 C-TATCTCCTTGAAGTTGTAGTGGAGC
1 CTTATCTCCCTGAAGTTGCAGTGGAGC
8578033 GAATTAAAAC
Statistics
Matches: 145, Mismatches: 22, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
142 42 0.29
143 103 0.71
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.29
Consensus pattern (143 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGACAACGAATCTTACTTCCCTAACGTTACA
GTGGAACAGATTAAAGCTACAAATTATGCAGGATCTTATCTTTCTGAAGTTACATGAAGCAGATT
GAAGCCACCAATC
Found at i:8578206 original size:45 final size:45
Alignment explanation
Indices: 8578155--8578259 Score: 133
Period size: 45 Copynumber: 2.3 Consensus size: 45
8578145 CATATCTCAC
* *
8578155 TGAAGTTGCAGTGGAGTAAACT-AAGGATAG-AGAATCTCATTTCCT
1 TGAAGTTGCAGTGGAGCAAACTGAA-GATAGCA-AATCTCATTTCCA
* *
8578200 TGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAATCTTATTTCCA
1 TGAAGTTGCAGTGGAGCAAACTGAAGATAGCAAATCTCATTTCCA
*
8578245 TGAAGTTACAGTGGA
1 TGAAGTTGCAGTGGA
8578260 ATAGATTGAA
Statistics
Matches: 53, Mismatches: 5, Indels: 4
0.85 0.08 0.06
Matches are distributed among these distances:
45 50 0.94
46 3 0.06
ACGTcount: A:0.33, C:0.13, G:0.26, T:0.28
Consensus pattern (45 bp):
TGAAGTTGCAGTGGAGCAAACTGAAGATAGCAAATCTCATTTCCA
Found at i:8579666 original size:23 final size:23
Alignment explanation
Indices: 8579623--8579666 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
8579613 TATTTATTTC
*
8579623 ATTTATATATTATTATATATTGT
1 ATTTATATATTATTAGATATTGT
* *
8579646 ATTTGTATATTATTAGGTATT
1 ATTTATATATTATTAGATATT
8579667 ATTATATTAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.32, C:0.00, G:0.09, T:0.59
Consensus pattern (23 bp):
ATTTATATATTATTAGATATTGT
Found at i:8579672 original size:18 final size:16
Alignment explanation
Indices: 8579630--8579698 Score: 61
Period size: 17 Copynumber: 4.2 Consensus size: 16
8579620 TTCATTTATA
8579630 TATTATTATA-TATTG
1 TATTATTATATTATTG
8579645 TATT-TGTATATTATTAGG
1 TATTAT-TATATTATT--G
*
8579663 TATTATTATATTAATG
1 TATTATTATATTATTG
* *
8579679 TATTTATTTTTTTATTG
1 TA-TTATTATATTATTG
8579696 TAT
1 TAT
8579699 CCTGCATTTC
Statistics
Matches: 44, Mismatches: 4, Indels: 11
0.75 0.07 0.19
Matches are distributed among these distances:
14 1 0.02
15 8 0.18
16 8 0.18
17 13 0.30
18 13 0.30
19 1 0.02
ACGTcount: A:0.29, C:0.00, G:0.09, T:0.62
Consensus pattern (16 bp):
TATTATTATATTATTG
Found at i:8579862 original size:26 final size:27
Alignment explanation
Indices: 8579826--8579877 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 27
8579816 TTTGTTGTTT
8579826 TATATTCGTTG-TTATTATTATTATTTC
1 TATATTCGTTGTTTATT-TTATTATTTC
8579853 TATATT-GTTGTTTATTTTATTATTT
1 TATATTCGTTGTTTATTTTATTATTT
8579878 GATTGCTAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
26 13 0.54
27 11 0.46
ACGTcount: A:0.21, C:0.04, G:0.08, T:0.67
Consensus pattern (27 bp):
TATATTCGTTGTTTATTTTATTATTTC
Found at i:8586516 original size:19 final size:19
Alignment explanation
Indices: 8586492--8586529 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
8586482 ATTACTAAAA
8586492 CCCTTTCTCTATAGTATTT
1 CCCTTTCTCTATAGTATTT
8586511 CCCTTTCTCTATAGTATTT
1 CCCTTTCTCTATAGTATTT
8586530 TAATATTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.16, C:0.26, G:0.05, T:0.53
Consensus pattern (19 bp):
CCCTTTCTCTATAGTATTT
Found at i:8586807 original size:72 final size:72
Alignment explanation
Indices: 8586718--8586868 Score: 277
Period size: 72 Copynumber: 2.1 Consensus size: 72
8586708 TATATTGAAA
* *
8586718 TCTTG-ATGTTCTTACCTTGCTCTATTGATTTCAATCTTTAACTTGATTTTCCCTCTCCTTCAGC
1 TCTTGAATGTTCTTACCTTGCTCTATTGATTTCAATCTTTAACTTGATTTCCCCTCTCCTTCAAC
8586782 CTCTATT
66 CTCTATT
8586789 TCTTGAATGTTCTTACCTTGCTCTATTGATTTCAATCTTTAACTTGATTTCCCCTCTCCTTCAAC
1 TCTTGAATGTTCTTACCTTGCTCTATTGATTTCAATCTTTAACTTGATTTCCCCTCTCCTTCAAC
8586854 CTCTATT
66 CTCTATT
8586861 TCTTGAAT
1 TCTTGAAT
8586869 CTAACTTGAT
Statistics
Matches: 77, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
71 5 0.06
72 72 0.94
ACGTcount: A:0.17, C:0.26, G:0.08, T:0.48
Consensus pattern (72 bp):
TCTTGAATGTTCTTACCTTGCTCTATTGATTTCAATCTTTAACTTGATTTCCCCTCTCCTTCAAC
CTCTATT
Found at i:8587733 original size:50 final size:50
Alignment explanation
Indices: 8587654--8587791 Score: 161
Period size: 50 Copynumber: 2.8 Consensus size: 50
8587644 TTTCTTGTAT
* * *
8587654 TGCCAATGTCATATCCCAGATATGATCTTACATGGGA-ATTCTCATATCGG
1 TGCCAATGTCATGTCCCAGACATGGTCTTACATGGGACATT-TCATATCGG
* * ** * *
8587704 TGCCCATGTCATGTCCTAGACATGGTCTTACGGGGGACCTTTCATCTCGG
1 TGCCAATGTCATGTCCCAGACATGGTCTTACATGGGACATTTCATATCGG
**
8587754 TGCCAATACCATGTCCCAGACATGGTCTTACATGGGAC
1 TGCCAATGTCATGTCCCAGACATGGTCTTACATGGGAC
8587792 CTATCATAGT
Statistics
Matches: 72, Mismatches: 15, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
50 70 0.97
51 2 0.03
ACGTcount: A:0.23, C:0.26, G:0.22, T:0.29
Consensus pattern (50 bp):
TGCCAATGTCATGTCCCAGACATGGTCTTACATGGGACATTTCATATCGG
Found at i:8601812 original size:2 final size:2
Alignment explanation
Indices: 8601805--8601848 Score: 79
Period size: 2 Copynumber: 22.0 Consensus size: 2
8601795 GTTAGTTCTA
*
8601805 TG TG TG TG TG TA TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
8601847 TG
1 TG
8601849 AGAGTTGTGA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.02, C:0.00, G:0.48, T:0.50
Consensus pattern (2 bp):
TG
Found at i:8602648 original size:48 final size:48
Alignment explanation
Indices: 8602577--8602673 Score: 158
Period size: 48 Copynumber: 2.0 Consensus size: 48
8602567 AAGGAAGGAT
* *
8602577 TTGAAAAGAGTAAGTTAATATGACTTTGTATGTGATGTATATTATGTA
1 TTGAAAAGAGTAAATTAATATGACTTTGTATGTGATATATATTATGTA
* *
8602625 TTGAAAAGAGTAAATTAATATGACTTTGTATGTGTTATATGTTATGTA
1 TTGAAAAGAGTAAATTAATATGACTTTGTATGTGATATATATTATGTA
8602673 T
1 T
8602674 AATTGCTTCT
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 45 1.00
ACGTcount: A:0.35, C:0.02, G:0.20, T:0.43
Consensus pattern (48 bp):
TTGAAAAGAGTAAATTAATATGACTTTGTATGTGATATATATTATGTA
Found at i:8606053 original size:5 final size:5
Alignment explanation
Indices: 8606018--8606066 Score: 50
Period size: 5 Copynumber: 10.2 Consensus size: 5
8606008 TTCTCTATTC
* *
8606018 TGCTT TGCTC TGCTT TG-TT TTC-T T-CTCT TGCTT TGCTT TGCTT TGCTT
1 TGCTT TGCTT TGCTT TGCTT TGCTT TGCT-T TGCTT TGCTT TGCTT TGCTT
8606066 T
1 T
8606067 TTTTTTCTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
3 1 0.03
4 5 0.14
5 29 0.78
6 2 0.05
ACGTcount: A:0.00, C:0.22, G:0.16, T:0.61
Consensus pattern (5 bp):
TGCTT
Found at i:8610471 original size:11 final size:12
Alignment explanation
Indices: 8610447--8610498 Score: 72
Period size: 11 Copynumber: 4.4 Consensus size: 12
8610437 GTTTTTTACT
8610447 AAAATAATACAAA
1 AAAAT-ATACAAA
8610460 AAAATATA-AAA
1 AAAATATACAAA
8610471 AAAATAT-CAAA
1 AAAATATACAAA
*
8610482 ATAATATACAAA
1 AAAATATACAAA
8610494 AAAAT
1 AAAAT
8610499 TTATTTACCA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
11 19 0.54
12 11 0.31
13 5 0.14
ACGTcount: A:0.75, C:0.06, G:0.00, T:0.19
Consensus pattern (12 bp):
AAAATATACAAA
Found at i:8610592 original size:27 final size:27
Alignment explanation
Indices: 8610554--8610612 Score: 82
Period size: 27 Copynumber: 2.2 Consensus size: 27
8610544 ATGGAATGGG
* *
8610554 GGCACCAGTGGTGCCTTTCTCATTGGC
1 GGCACCAGTGGTGCCATTCCCATTGGC
* *
8610581 GGCACCGGTGGTGCCATTCCCATTGGT
1 GGCACCAGTGGTGCCATTCCCATTGGC
8610608 GGCAC
1 GGCAC
8610613 AGGACTAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.12, C:0.31, G:0.32, T:0.25
Consensus pattern (27 bp):
GGCACCAGTGGTGCCATTCCCATTGGC
Found at i:8611817 original size:19 final size:21
Alignment explanation
Indices: 8611775--8611824 Score: 59
Period size: 19 Copynumber: 2.4 Consensus size: 21
8611765 TTGATAAATA
8611775 ATTTTTTATATATTATTTTAGT
1 ATTTTTT-TATATTATTTTAGT
*
8611797 ATTTTTTTAT-TTCTTTT-GT
1 ATTTTTTTATATTATTTTAGT
*
8611816 ATTATTTTA
1 ATTTTTTTA
8611825 GTAAAAAACC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
19 10 0.38
20 6 0.23
21 3 0.12
22 7 0.27
ACGTcount: A:0.22, C:0.02, G:0.04, T:0.72
Consensus pattern (21 bp):
ATTTTTTTATATTATTTTAGT
Found at i:8613492 original size:20 final size:21
Alignment explanation
Indices: 8613455--8613494 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
8613445 AAATACCCCC
8613455 CTTTTTATGTGTAATTTGCCT
1 CTTTTTATGTGTAATTTGCCT
* *
8613476 CTTTTTTTG-GTATTTTGCC
1 CTTTTTATGTGTAATTTGCC
8613495 CCTAATAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.10, C:0.15, G:0.15, T:0.60
Consensus pattern (21 bp):
CTTTTTATGTGTAATTTGCCT
Found at i:8618523 original size:54 final size:54
Alignment explanation
Indices: 8618447--8618566 Score: 161
Period size: 54 Copynumber: 2.2 Consensus size: 54
8618437 CAGCTCTTTG
* * *
8618447 ACTTGAGTCGCACGGGCTTGTGTTAGGCCATGTGCT-AGACCATGTAACTCTCTA
1 ACTTGAGTCACACAGGCATGTGTTAGGCCATGT-CTCAGACCATGTAACTCTCTA
* * * *
8618501 ACTTGAGTCACACAGGCATGTGTTAGGTCATGTTTCAGCCCGTGTAACTCTCTA
1 ACTTGAGTCACACAGGCATGTGTTAGGCCATGTCTCAGACCATGTAACTCTCTA
8618555 ACTTGAGTCACA
1 ACTTGAGTCACA
8618567 TGGCCATGTG
Statistics
Matches: 58, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
53 1 0.02
54 57 0.98
ACGTcount: A:0.23, C:0.24, G:0.23, T:0.30
Consensus pattern (54 bp):
ACTTGAGTCACACAGGCATGTGTTAGGCCATGTCTCAGACCATGTAACTCTCTA
Found at i:8621238 original size:20 final size:20
Alignment explanation
Indices: 8621206--8621246 Score: 66
Period size: 19 Copynumber: 2.0 Consensus size: 20
8621196 AATTTAGATT
8621206 TTATTTTTTGTT-AATTTGG
1 TTATTTTTTGTTAAATTTGG
8621225 TTATTTTTTAGTTAAATTTGG
1 TTATTTTTT-GTTAAATTTGG
8621246 T
1 T
8621247 CATTAACCTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 9 0.45
20 3 0.15
21 8 0.40
ACGTcount: A:0.20, C:0.00, G:0.15, T:0.66
Consensus pattern (20 bp):
TTATTTTTTGTTAAATTTGG
Found at i:8621717 original size:42 final size:42
Alignment explanation
Indices: 8621655--8621773 Score: 184
Period size: 42 Copynumber: 2.8 Consensus size: 42
8621645 GCGCACAAAC
8621655 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
1 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
* * * *
8621697 AAAAACGCCGTTAAAAACCATGTTCTTTAGAGGCGCTTAGAG
1 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
* *
8621739 AAAAACACCGCTAAAGATCATGTTCTTTAGCGGCG
1 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCG
8621774 TTTTTTCTTA
Statistics
Matches: 68, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 68 1.00
ACGTcount: A:0.34, C:0.22, G:0.21, T:0.23
Consensus pattern (42 bp):
AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
Found at i:8621792 original size:42 final size:42
Alignment explanation
Indices: 8621746--8621946 Score: 236
Period size: 42 Copynumber: 4.9 Consensus size: 42
8621736 GAGAAAAACA
*
8621746 CCGCTAAAGATCATGTTCTTTAGCGGCG-TTTTTTCTTAAGCG
1 CCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTTC-TAAGCG
* * *
8621788 CCGCTAAAGAACATGGTCTTTAGCGACGTTTTTTTCTGAGCG
1 CCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTTCTAAGCG
* * *
8621830 CCTCTAAAGAACATGGTCTTTAGCAGCGTTTTTTTCT-A---
1 CCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTTCTAAGCG
* * * *
8621868 -TGCTAAAGACCATGTTCTTTTGCGGCGTTTTTTTTTAAGCG
1 CCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTTCTAAGCG
8621909 CCGCTAAAGAACAT-TATCTTTAGCGGCGTTTTTTTCTA
1 CCGCTAAAGAACATGT-TCTTTAGCGGCGTTTTTTTCTA
8621947 TTCTTTAGCG
Statistics
Matches: 134, Mismatches: 18, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
37 29 0.22
38 1 0.01
41 2 0.01
42 95 0.71
43 7 0.05
ACGTcount: A:0.21, C:0.20, G:0.20, T:0.39
Consensus pattern (42 bp):
CCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTTCTAAGCG
Found at i:8621909 original size:79 final size:79
Alignment explanation
Indices: 8621790--8621947 Score: 226
Period size: 79 Copynumber: 2.0 Consensus size: 79
8621780 CTTAAGCGCC
* * *
8621790 GCTAAAGAACATGGTCTTTAGCGACGTTTTTTTCTGAGCGCCTCTAAAGAACATGGTCTTTAGCA
1 GCTAAAGAACATGGTCTTTAGCGACGTTTTTTTCTAAGCGCCGCTAAAGAACATGATCTTTAGCA
8621855 GCGTTTTTTTCTAT
66 GCGTTTTTTTCTAT
* * * * * * *
8621869 GCTAAAGACCATGTTCTTTTGCGGCGTTTTTTTTTAAGCGCCGCTAAAGAACATTATCTTTAGCG
1 GCTAAAGAACATGGTCTTTAGCGACGTTTTTTTCTAAGCGCCGCTAAAGAACATGATCTTTAGCA
8621934 GCGTTTTTTTCTAT
66 GCGTTTTTTTCTAT
8621948 TCTTTAGCGG
Statistics
Matches: 69, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
79 69 1.00
ACGTcount: A:0.22, C:0.19, G:0.20, T:0.40
Consensus pattern (79 bp):
GCTAAAGAACATGGTCTTTAGCGACGTTTTTTTCTAAGCGCCGCTAAAGAACATGATCTTTAGCA
GCGTTTTTTTCTAT
Found at i:8622307 original size:21 final size:21
Alignment explanation
Indices: 8622281--8622330 Score: 82
Period size: 21 Copynumber: 2.4 Consensus size: 21
8622271 TTTTGCTCTG
*
8622281 CTCTGCTTCTCTCGCTGCAGC
1 CTCTGCTTCCCTCGCTGCAGC
*
8622302 CTCTGCTTCCCTCGCTGCCGC
1 CTCTGCTTCCCTCGCTGCAGC
8622323 CTCTGCTT
1 CTCTGCTT
8622331 TAAGTTGTAG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.02, C:0.46, G:0.18, T:0.34
Consensus pattern (21 bp):
CTCTGCTTCCCTCGCTGCAGC
Found at i:8623862 original size:9 final size:9
Alignment explanation
Indices: 8623841--8624024 Score: 208
Period size: 9 Copynumber: 20.2 Consensus size: 9
8623831 NNNNNNNNNN
8623841 TTATGTAAG
1 TTATGTAAG
* *
8623850 TTATTTAAT
1 TTATGTAAG
8623859 TTATGTAAG
1 TTATGTAAG
8623868 TTATGTAAG
1 TTATGTAAG
* *
8623877 TTATTTAAT
1 TTATGTAAG
8623886 TTATGTAAG
1 TTATGTAAG
8623895 TTATGTAAG
1 TTATGTAAG
* *
8623904 TTATTTAAT
1 TTATGTAAG
8623913 TTATGTAAG
1 TTATGTAAG
8623922 TTATGTAAG
1 TTATGTAAG
* *
8623931 TTATTTAAT
1 TTATGTAAG
8623940 TTATGTAAG
1 TTATGTAAG
8623949 TTATGTAAG
1 TTATGTAAG
* *
8623958 TTATTTAAT
1 TTATGTAAG
*
8623967 TTATGTAAT
1 TTATGTAAG
8623976 TTATGTAAG
1 TTATGTAAG
8623985 TTATGTAAG
1 TTATGTAAG
* *
8623994 ATAT-TATG
1 TTATGTAAG
8624002 TTACTGAGTAAG
1 TTA-T--GTAAG
*
8624014 TTATGCAAG
1 TTATGTAAG
8624023 TT
1 TT
8624025 TATATATAAG
Statistics
Matches: 146, Mismatches: 25, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
8 5 0.03
9 134 0.92
11 1 0.01
12 6 0.04
ACGTcount: A:0.33, C:0.01, G:0.16, T:0.50
Consensus pattern (9 bp):
TTATGTAAG
Found at i:8623879 original size:27 final size:27
Alignment explanation
Indices: 8623841--8623988 Score: 287
Period size: 27 Copynumber: 5.5 Consensus size: 27
8623831 NNNNNNNNNN
8623841 TTATGTAAGTTATTTAATTTATGTAAG
1 TTATGTAAGTTATTTAATTTATGTAAG
8623868 TTATGTAAGTTATTTAATTTATGTAAG
1 TTATGTAAGTTATTTAATTTATGTAAG
8623895 TTATGTAAGTTATTTAATTTATGTAAG
1 TTATGTAAGTTATTTAATTTATGTAAG
8623922 TTATGTAAGTTATTTAATTTATGTAAG
1 TTATGTAAGTTATTTAATTTATGTAAG
*
8623949 TTATGTAAGTTATTTAATTTATGTAAT
1 TTATGTAAGTTATTTAATTTATGTAAG
8623976 TTATGTAAGTTAT
1 TTATGTAAGTTAT
8623989 GTAAGATATT
Statistics
Matches: 120, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
27 120 1.00
ACGTcount: A:0.33, C:0.00, G:0.14, T:0.53
Consensus pattern (27 bp):
TTATGTAAGTTATTTAATTTATGTAAG
Found at i:8626401 original size:37 final size:38
Alignment explanation
Indices: 8626360--8626438 Score: 99
Period size: 39 Copynumber: 2.1 Consensus size: 38
8626350 AGCAAACACT
* **
8626360 TAAAACATA-T-TTGCGGCGTTTATTGACAAAACGCCAC
1 TAAAACATACTATTGCGGCATTTAACGA-AAAACGCCAC
8626397 TAAAACATACCTATTGCGGCATTTAACGAAAAACGCCAC
1 TAAAACATA-CTATTGCGGCATTTAACGAAAAACGCCAC
8626436 TAA
1 TAA
8626439 TAACGCAAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
37 9 0.25
39 14 0.39
40 13 0.36
ACGTcount: A:0.39, C:0.23, G:0.14, T:0.24
Consensus pattern (38 bp):
TAAAACATACTATTGCGGCATTTAACGAAAAACGCCAC
Found at i:8626491 original size:116 final size:113
Alignment explanation
Indices: 8626339--8626630 Score: 311
Period size: 116 Copynumber: 2.5 Consensus size: 113
8626329 CAGATAAATC
* *
8626339 CGACACCGTTTAGCAAACACTTAAAACATATTTGCGGCGTTTATTGACAAAACGCCACTAAAACA
1 CGACAGCGTTTAGCAAACACTTAAAACATAATTGCGGCGTTTATTGA-AAAACGCCACTAAAACA
* ** * **
8626404 TACCTATTGCGGCATTTAACGA-AAAACGCCACTAATAACGCAAAATAAAAA
65 GAAATATTACGGCACATAA-GAGAAAACGCCACTAA-AACGC-AAATAAAAA
* * * * *
8626455 CGACTGCGTTTAGCAAATACTTAAAACATAACTGCGGCGTTTATCAT-AAAAAAGCCACAAAAAC
1 CGACAGCGTTTAGCAAACACTTAAAACATAATTGCGGCGTTTAT--TGAAAAACGCCACTAAAAC
* * * *
8626519 CGAAATTTTACGGCACATAAGAGAAAACGCCACTAAAACGCAATTTAAAA
64 AGAAATATTACGGCACATAAGAGAAAACGCCACTAAAACGCAAATAAAAA
* * * *
8626569 CGACAGTGTTTAGCAAAGACTTAAAAAATAATTGCGGCGTTTA-TGAAGAAACACCACTAAAA
1 CGACAGCGTTTAGCAAACACTTAAAACATAATTGCGGCGTTTATTGAA-AAACGCCACTAAAA
8626631 TGGAAACTAA
Statistics
Matches: 146, Mismatches: 25, Indels: 13
0.79 0.14 0.07
Matches are distributed among these distances:
111 1 0.01
112 2 0.01
113 11 0.08
114 45 0.31
115 7 0.05
116 78 0.53
117 1 0.01
118 1 0.01
ACGTcount: A:0.43, C:0.21, G:0.14, T:0.21
Consensus pattern (113 bp):
CGACAGCGTTTAGCAAACACTTAAAACATAATTGCGGCGTTTATTGAAAAACGCCACTAAAACAG
AAATATTACGGCACATAAGAGAAAACGCCACTAAAACGCAAATAAAAA
Found at i:8626988 original size:103 final size:103
Alignment explanation
Indices: 8626872--8627090 Score: 375
Period size: 103 Copynumber: 2.1 Consensus size: 103
8626862 TTACCATAAT
8626872 CCTAAACCCTAAAATATAAAATTTAAACCCTAAACCATATGCCCTCTTAACCCATATACCCTATG
1 CCTAAACCCTAAAATATAAAATTTAAACCCTAAACCATATGCCCTCTTAACCCATATACCCTATG
* * *
8626937 CTCGTATTAATCCTTAAACTTTAAGCTACTAGCTAAAC
66 CCCGTATTAATCCCTAAACTCTAAGCTACTAGCTAAAC
* *
8626975 CCTAAACCTTAAAATATAAAATTTAAACCCTAAACCATATGCCTTCTTAACCCATATACCCTATG
1 CCTAAACCCTAAAATATAAAATTTAAACCCTAAACCATATGCCCTCTTAACCCATATACCCTATG
8627040 CCCGTATTAATCCCTAAACTCTAAGCTACTAGCTAAAC
66 CCCGTATTAATCCCTAAACTCTAAGCTACTAGCTAAAC
* *
8627078 TCTAAACTCTAAA
1 CCTAAACCCTAAA
8627091 CAATAAACAA
Statistics
Matches: 108, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
103 108 1.00
ACGTcount: A:0.38, C:0.28, G:0.05, T:0.29
Consensus pattern (103 bp):
CCTAAACCCTAAAATATAAAATTTAAACCCTAAACCATATGCCCTCTTAACCCATATACCCTATG
CCCGTATTAATCCCTAAACTCTAAGCTACTAGCTAAAC
Found at i:8627091 original size:14 final size:14
Alignment explanation
Indices: 8627072--8627208 Score: 68
Period size: 14 Copynumber: 9.9 Consensus size: 14
8627062 AAGCTACTAG
*
8627072 CTAAACTCTAAACT
1 CTAAACACTAAACT
* *
8627086 CTAAACAATAAACA
1 CTAAACACTAAACT
* * * *
8627100 ATAAACCCTACACC
1 CTAAACACTAAACT
* *
8627114 CTACACCCTAAAC-
1 CTAAACACTAAACT
8627127 CATAAACACTAAACT
1 C-TAAACACTAAACT
*
8627142 CTTAACACTAAA-T
1 CTAAACACTAAACT
*
8627155 CATAAACTAC-ATACT
1 C-TAAAC-ACTAAACT
*
8627170 -TAAACCCATAAACT
1 CTAAACAC-TAAACT
* *
8627184 -TACACCCTAAACT
1 CTAAACACTAAACT
*
8627197 ATAAACACTAAA
1 CTAAACACTAAA
8627209 TCGTAAACCA
Statistics
Matches: 94, Mismatches: 21, Indels: 16
0.72 0.16 0.12
Matches are distributed among these distances:
12 1 0.01
13 14 0.15
14 75 0.80
15 4 0.04
ACGTcount: A:0.49, C:0.30, G:0.00, T:0.21
Consensus pattern (14 bp):
CTAAACACTAAACT
Found at i:8627152 original size:28 final size:28
Alignment explanation
Indices: 8627073--8627161 Score: 81
Period size: 28 Copynumber: 3.2 Consensus size: 28
8627063 AGCTACTAGC
* * * *
8627073 TAAACTCTAAACTCTAAACAATAAACAA
1 TAAACACTAAACTCTTAACACTAAACCA
* * * *
8627101 TAAACCCTACAC-CCTACACCCTAAACCA
1 TAAACACTAAACTCTTA-ACACTAAACCA
*
8627129 TAAACACTAAACTCTTAACACTAAATCA
1 TAAACACTAAACTCTTAACACTAAACCA
8627157 TAAAC
1 TAAAC
8627162 TACATACTTA
Statistics
Matches: 47, Mismatches: 12, Indels: 4
0.75 0.19 0.06
Matches are distributed among these distances:
27 2 0.04
28 42 0.89
29 3 0.06
ACGTcount: A:0.49, C:0.30, G:0.00, T:0.20
Consensus pattern (28 bp):
TAAACACTAAACTCTTAACACTAAACCA
Found at i:8627256 original size:8 final size:8
Alignment explanation
Indices: 8627245--8627312 Score: 52
Period size: 8 Copynumber: 8.8 Consensus size: 8
8627235 AAGACGATAA
8627245 CCTAAACC
1 CCTAAACC
8627253 CCTAAA-C
1 CCTAAACC
*
8627260 CTTAAACC
1 CCTAAACC
8627268 CTCTAAA-C
1 C-CTAAACC
*
8627276 CTTAAACC
1 CCTAAACC
* *
8627284 TCTAAA-G
1 CCTAAACC
*
8627291 CATAAACC
1 CCTAAACC
*
8627299 CTTAAACC
1 CCTAAACC
8627307 CCTAAA
1 CCTAAA
8627313 TATAAACTCT
Statistics
Matches: 45, Mismatches: 11, Indels: 8
0.70 0.17 0.12
Matches are distributed among these distances:
7 14 0.31
8 27 0.60
9 4 0.09
ACGTcount: A:0.41, C:0.37, G:0.01, T:0.21
Consensus pattern (8 bp):
CCTAAACC
Found at i:8627275 original size:16 final size:16
Alignment explanation
Indices: 8627243--8627306 Score: 82
Period size: 15 Copynumber: 4.2 Consensus size: 16
8627233 CTAAGACGAT
8627243 AACC-TAAACCC-CTA
1 AACCTTAAACCCTCTA
8627257 AACCTTAAACCCTCTA
1 AACCTTAAACCCTCTA
8627273 AACCTTAAA-CCTCTA
1 AACCTTAAACCCTCTA
* *
8627288 AAGCATAAACCCT-TA
1 AACCTTAAACCCTCTA
8627303 AACC
1 AACC
8627307 CCTAAATATA
Statistics
Matches: 44, Mismatches: 3, Indels: 5
0.85 0.06 0.10
Matches are distributed among these distances:
14 4 0.09
15 25 0.57
16 15 0.34
ACGTcount: A:0.42, C:0.36, G:0.02, T:0.20
Consensus pattern (16 bp):
AACCTTAAACCCTCTA
Found at i:8627388 original size:22 final size:22
Alignment explanation
Indices: 8627331--8627398 Score: 75
Period size: 22 Copynumber: 3.1 Consensus size: 22
8627321 CTTGATTAAA
8627331 CCCTAAACCATAAGC-CATTAAC
1 CCCTAAACCATAAGCTCA-TAAC
** * *
8627353 CTATAGACCCTAAGCTCATAAC
1 CCCTAAACCATAAGCTCATAAC
*
8627375 CCCTAAACCATAAGCTCCTAAC
1 CCCTAAACCATAAGCTCATAAC
8627397 CC
1 CC
8627399 TTACACACTA
Statistics
Matches: 36, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
22 34 0.94
23 2 0.06
ACGTcount: A:0.37, C:0.38, G:0.06, T:0.19
Consensus pattern (22 bp):
CCCTAAACCATAAGCTCATAAC
Found at i:8627585 original size:12 final size:12
Alignment explanation
Indices: 8627568--8627598 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
8627558 TAATTTTTTC
8627568 ATTTTAACAAAT
1 ATTTTAACAAAT
8627580 ATTTTAACAAAT
1 ATTTTAACAAAT
8627592 ATTTTAA
1 ATTTTAA
8627599 ACTATTTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.48, C:0.06, G:0.00, T:0.45
Consensus pattern (12 bp):
ATTTTAACAAAT
Found at i:8627606 original size:10 final size:10
Alignment explanation
Indices: 8627591--8627615 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
8627581 TTTTAACAAA
8627591 TATTTTAAAC
1 TATTTTAAAC
8627601 TATTTTAAAC
1 TATTTTAAAC
8627611 TATTT
1 TATTT
8627616 GAGCATTAGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.36, C:0.08, G:0.00, T:0.56
Consensus pattern (10 bp):
TATTTTAAAC
Found at i:8627754 original size:73 final size:73
Alignment explanation
Indices: 8627628--8627866 Score: 315
Period size: 73 Copynumber: 3.3 Consensus size: 73
8627618 GCATTAGCGA
* * * *
8627628 CGCTTTCCCAAAAACGCCGCTAAAGCCCCAAAAGATCAGAAAACGGCGCCGTTGTGCTTAGGTTT
1 CGCTTTCCTAAAAACGCCGCTAAATCCCCAAAAGATCAGAAAACGGCGTCGTTGGGCTTAGGTTT
8627693 TTTTGCGG
66 TTTTGCGG
* *
8627701 CGCTTTCCTAAAAACGCCGCTAAATCCCCAAAAGATCAGAAAACGACGTCGTTGGGTTTAGGTTT
1 CGCTTTCCTAAAAACGCCGCTAAATCCCCAAAAGATCAGAAAACGGCGTCGTTGGGCTTAGGTTT
8627766 TTTTGCGG
66 TTTTGCGG
* * * * * * * *
8627774 CACTTTCTTAAAAACGCCACTATATCCACAAAAGCTCA-AAAACGGCATCGTTGGGCTGA-GTTT
1 CGCTTTCCTAAAAACGCCGCTAAATCCCCAAAAGATCAGAAAACGGCGTCGTTGGGCTTAGGTTT
8627837 TTTT-CGG
66 TTTTGCGG
*
8627844 CGCTTTCC-CAAAACGCCGCTAAA
1 CGCTTTCCTAAAAACGCCGCTAAA
8627867 GCCCTCGCAT
Statistics
Matches: 145, Mismatches: 21, Indels: 4
0.85 0.12 0.02
Matches are distributed among these distances:
69 12 0.08
70 9 0.06
71 8 0.06
72 17 0.12
73 99 0.68
ACGTcount: A:0.28, C:0.26, G:0.20, T:0.26
Consensus pattern (73 bp):
CGCTTTCCTAAAAACGCCGCTAAATCCCCAAAAGATCAGAAAACGGCGTCGTTGGGCTTAGGTTT
TTTTGCGG
Found at i:8628015 original size:114 final size:111
Alignment explanation
Indices: 8627766--8628076 Score: 326
Period size: 114 Copynumber: 2.8 Consensus size: 111
8627756 GTTTAGGTTT
* * * * * *
8627766 TTTTGCGGCACTTTCTTAAAAACGCCACTATATCCACAAAAGCTCA-AAAACGGCATCGTTGGGC
1 TTTTGCGGCGCTTTCTTAAAAACACCGCTAAATCCCCAAAAGCTCAGAAAACGACATCGTTGGGC
* * * * *
8627830 -TGAGTTTTTTTCGGCGCTTTCCCAAAACGCCGCTAAAGCCCTCGC
66 TTAAGTTTTTTGCGGCGCTTTCTCAAAACGCCACTAAAGCCCTAGC
* * *
8627875 ATTAGCGGCGCTTTAC-TAAAAACACCGCTAAATCCCCAAAAGCTCAGGAAACGACATCGTTGGG
1 TTTTGCGGCGCTTT-CTTAAAAACACCGCTAAATCCCCAAAAGCTCAGAAAACGACATCGTTGGG
*
8627939 CTTAAGTTTGTTTGCGGCGCTTTCTCAGAAACGCCACTAAAGCCCTAATC
65 CTTAAGTTT-TTTGCGGCGCTTTCTCA-AAACGCCACTAAAGCCCT-AGC
* * * * * *
8627989 TTTTGGGGCGCTTTCTTGAAAACACCGCTAAAATCCCCGAAA-CCCCGAAAAC-AGCGTCGTTGG
1 TTTTGCGGCGCTTTCTTAAAAACACCGCT-AAATCCCCAAAAGCTCAGAAAACGA-CATCGTTGG
* *
8628052 GCTTAGGTTTTTAGCGGCGCTTTCT
64 GCTTAAGTTTTTTGCGGCGCTTTCT
8628077 GGAAATCGCC
Statistics
Matches: 167, Mismatches: 26, Indels: 14
0.81 0.13 0.07
Matches are distributed among these distances:
109 37 0.22
110 17 0.10
111 6 0.04
112 15 0.09
113 33 0.20
114 48 0.29
115 11 0.07
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.26
Consensus pattern (111 bp):
TTTTGCGGCGCTTTCTTAAAAACACCGCTAAATCCCCAAAAGCTCAGAAAACGACATCGTTGGGC
TTAAGTTTTTTGCGGCGCTTTCTCAAAACGCCACTAAAGCCCTAGC
Found at i:8628177 original size:12 final size:12
Alignment explanation
Indices: 8628160--8628185 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
8628150 TTTGGAAAAC
8628160 AAACGCCGCTAA
1 AAACGCCGCTAA
8628172 AAACGCCGCTAA
1 AAACGCCGCTAA
8628184 AA
1 AA
8628186 GCCTGTGTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.46, C:0.31, G:0.15, T:0.08
Consensus pattern (12 bp):
AAACGCCGCTAA
Found at i:8629739 original size:53 final size:53
Alignment explanation
Indices: 8629673--8629786 Score: 183
Period size: 53 Copynumber: 2.1 Consensus size: 53
8629663 TTAACAGTAT
* *
8629673 TTTTTAAAACTATTCTTTAAAGAATTTCAATTAACTATTTAAATTATTATATTA
1 TTTTT-AAACTATTATTTAAAGAATCTCAATTAACTATTTAAATTATTATATTA
* *
8629727 TTTTTAAACTATTATTTAAAGAATCTCAATTAACTATTTAAATTTTTATTTTA
1 TTTTTAAACTATTATTTAAAGAATCTCAATTAACTATTTAAATTATTATATTA
8629780 TTTTTAA
1 TTTTTAA
8629787 TATTTTAACA
Statistics
Matches: 56, Mismatches: 4, Indels: 1
0.92 0.07 0.02
Matches are distributed among these distances:
53 51 0.91
54 5 0.09
ACGTcount: A:0.39, C:0.07, G:0.02, T:0.53
Consensus pattern (53 bp):
TTTTTAAACTATTATTTAAAGAATCTCAATTAACTATTTAAATTATTATATTA
Found at i:8633736 original size:19 final size:19
Alignment explanation
Indices: 8633712--8633753 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
8633702 ATAAGTATGC
8633712 AAAAATTCAAAAAATTTAA
1 AAAAATTCAAAAAATTTAA
** *
8633731 AAAAATTGTAAAATTTTAA
1 AAAAATTCAAAAAATTTAA
8633750 AAAA
1 AAAA
8633754 TTATTTGTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (19 bp):
AAAAATTCAAAAAATTTAA
Found at i:8633821 original size:20 final size:19
Alignment explanation
Indices: 8633778--8633821 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
8633768 TTGTTGGGTT
*
8633778 TTTAT-AAAATTTTAGAAT
1 TTTATGAAAATTTTAGAAA
*
8633796 TTTATGAAAATTTTAATAAA
1 TTTATGAAAATTTT-AGAAA
8633816 TTTATG
1 TTTATG
8633822 GTATTTTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 5 0.23
19 8 0.36
20 9 0.41
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (19 bp):
TTTATGAAAATTTTAGAAA
Found at i:8635251 original size:107 final size:107
Alignment explanation
Indices: 8634784--8635226 Score: 886
Period size: 107 Copynumber: 4.1 Consensus size: 107
8634774 TTTTATTAAT
8634784 TTTTTAATAAATATATTATTTTCAAGTTTTTATTTTATTTTCAATTCATCTTTTTAATTAATAAC
1 TTTTTAATAAATATATTATTTTCAAGTTTTTATTTTATTTTCAATTCATCTTTTTAATTAATAAC
8634849 TCTTTTATTTATAAAATCAAATAATTATTATAAATATAATTA
66 TCTTTTATTTATAAAATCAAATAATTATTATAAATATAATTA
8634891 TTTTTAATAAATATATTATTTTCAAGTTTTTATTTTATTTTCAATTCATCTTTTTAATTAATAAC
1 TTTTTAATAAATATATTATTTTCAAGTTTTTATTTTATTTTCAATTCATCTTTTTAATTAATAAC
8634956 TCTTTTATTTATAAAATCAAATAATTATTATAAATATAATTA
66 TCTTTTATTTATAAAATCAAATAATTATTATAAATATAATTA
8634998 TTTTTAATAAATATATTATTTTCAAGTTTTTATTTTATTTTCAATTCATCTTTTTAATTAATAAC
1 TTTTTAATAAATATATTATTTTCAAGTTTTTATTTTATTTTCAATTCATCTTTTTAATTAATAAC
8635063 TCTTTTATTTATAAAATCAAATAATTATTATAAATATAATTA
66 TCTTTTATTTATAAAATCAAATAATTATTATAAATATAATTA
8635105 TTTTTAATAAATATATTATTTTCAAGTTTTTATTTTATTTTCAATTCATCTTTTTAATTAATAAC
1 TTTTTAATAAATATATTATTTTCAAGTTTTTATTTTATTTTCAATTCATCTTTTTAATTAATAAC
8635170 TCTTTTATTTATAAAATCAAATAATTATTATAAATATAATTA
66 TCTTTTATTTATAAAATCAAATAATTATTATAAATATAATTA
8635212 TTTTTAATAAATATA
1 TTTTTAATAAATATA
8635227 CTTTTTATAT
Statistics
Matches: 336, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
107 336 1.00
ACGTcount: A:0.39, C:0.06, G:0.01, T:0.54
Consensus pattern (107 bp):
TTTTTAATAAATATATTATTTTCAAGTTTTTATTTTATTTTCAATTCATCTTTTTAATTAATAAC
TCTTTTATTTATAAAATCAAATAATTATTATAAATATAATTA
Found at i:8636484 original size:129 final size:131
Alignment explanation
Indices: 8636336--8636604 Score: 479
Period size: 136 Copynumber: 2.0 Consensus size: 131
8636326 TTTTACCTTC
8636336 AAATCCCATTTCCTCTCTCAACTTTAAATGTAAAAAC-ATATATA-TATTATTATCATTATTATT
1 AAATCCCATTTCCTCTCTCAACTTTAAATGTAAAAACAATATATATTATTATTATCATTATTATT
8636399 ATTTTGTGTTTGAGATAATCAAAGATTAAAATTGATTTAGAAGAAGTTGATTGAGGTTGCTAAAA
66 ATTTTGTGTTTGAGATAATCAAAGATTAAAATTGATTTAGAAGAAGTTGATTGAGGTTGCTAAAA
8636464 T
131 T
8636465 AAATCCCATTTCCTCTCTCAACTTTAAATGTAAAAACATAGATATATATATTATTATTATCATTA
1 AAATCCCATTTCCTCTCTCAACTTTAAATGTAAAAAC----A-ATATATATTATTATTATCATTA
8636530 TTATTATTTTGTGTTTGAGATAATCAAAGATTAAAATTGATTTAGAAGAAGTTGATTGAGGTTGC
61 TTATTATTTTGTGTTTGAGATAATCAAAGATTAAAATTGATTTAGAAGAAGTTGATTGAGGTTGC
8636595 TAAAAT
126 TAAAAT
8636601 AAAT
1 AAAT
8636605 ATTTCACTTC
Statistics
Matches: 133, Mismatches: 0, Indels: 7
0.95 0.00 0.05
Matches are distributed among these distances:
129 37 0.28
135 7 0.05
136 89 0.67
ACGTcount: A:0.39, C:0.10, G:0.12, T:0.40
Consensus pattern (131 bp):
AAATCCCATTTCCTCTCTCAACTTTAAATGTAAAAACAATATATATTATTATTATCATTATTATT
ATTTTGTGTTTGAGATAATCAAAGATTAAAATTGATTTAGAAGAAGTTGATTGAGGTTGCTAAAA
T
Found at i:8643325 original size:15 final size:15
Alignment explanation
Indices: 8643307--8643339 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
8643297 CAACAGAATC
*
8643307 GAACAGAGCAGAGTA
1 GAACAGAACAGAGTA
8643322 GAACAGAACAGAGTA
1 GAACAGAACAGAGTA
8643337 GAA
1 GAA
8643340 GATGTGTGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.52, C:0.12, G:0.30, T:0.06
Consensus pattern (15 bp):
GAACAGAACAGAGTA
Found at i:8649387 original size:10 final size:9
Alignment explanation
Indices: 8649372--8649408 Score: 56
Period size: 9 Copynumber: 3.9 Consensus size: 9
8649362 TACTTTATAC
8649372 TTTTATATTT
1 TTTTAT-TTT
8649382 TTTTATTTT
1 TTTTATTTT
8649391 TTTTATTTT
1 TTTTATTTT
8649400 TTTATATTT
1 TTT-TATTT
8649409 GTTGAGGTGA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
9 15 0.58
10 11 0.42
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (9 bp):
TTTTATTTT
Found at i:8649397 original size:17 final size:17
Alignment explanation
Indices: 8649372--8649404 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
8649362 TACTTTATAC
8649372 TTTTATATTTTTTTATT
1 TTTTATATTTTTTTATT
*
8649389 TTTTTTATTTTTTTAT
1 TTTTATATTTTTTTAT
8649405 ATTTGTTGAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (17 bp):
TTTTATATTTTTTTATT
Found at i:8656630 original size:49 final size:51
Alignment explanation
Indices: 8656505--8656697 Score: 194
Period size: 49 Copynumber: 3.7 Consensus size: 51
8656495 GGTAAAAACA
* * * ** * * *
8656505 TGCCAAAGCCATGTCCCAGACATGATCTTACATGGGATGTTTTCATGTTGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTTCTCATCTCGG
8656556 TGCTC-ATGCCATGTCCCAGACATGGTCTTAC-GGGGA-CTTCTCATCTCGG
1 TGC-CAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTTCTCATCTCGG
* * *
8656605 TGCCAACGCCATGTCCCAGAGATGGTCTTACAGGGGACCTTTCATGATCTCAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACC-TTC-TCATCTC--GG
* *
8656660 ATGCCGATGCCATGTCCCAGACATGGTCTTACATGGGA
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA
8656698 TCTCTTTACC
Statistics
Matches: 119, Mismatches: 14, Indels: 13
0.82 0.10 0.09
Matches are distributed among these distances:
48 1 0.01
49 36 0.30
50 9 0.08
51 28 0.24
52 4 0.03
53 6 0.05
55 2 0.02
56 33 0.28
ACGTcount: A:0.22, C:0.26, G:0.25, T:0.27
Consensus pattern (51 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTTCTCATCTCGG
Found at i:8659277 original size:60 final size:60
Alignment explanation
Indices: 8659213--8659329 Score: 225
Period size: 60 Copynumber: 1.9 Consensus size: 60
8659203 ATGACATTGG
8659213 TAGGTAATTTATGAATATAAGTCGAATCATGTTTTATCTTGAGTGCATGCATAAAATCTT
1 TAGGTAATTTATGAATATAAGTCGAATCATGTTTTATCTTGAGTGCATGCATAAAATCTT
*
8659273 TAGGTACTTTATGAATATAAGTCGAATCATGTTTTATCTTGAGTGCATGCATAAAAT
1 TAGGTAATTTATGAATATAAGTCGAATCATGTTTTATCTTGAGTGCATGCATAAAAT
8659330 ATTTTTAAAG
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
60 56 1.00
ACGTcount: A:0.33, C:0.10, G:0.17, T:0.39
Consensus pattern (60 bp):
TAGGTAATTTATGAATATAAGTCGAATCATGTTTTATCTTGAGTGCATGCATAAAATCTT
Found at i:8659987 original size:40 final size:40
Alignment explanation
Indices: 8659932--8660011 Score: 108
Period size: 40 Copynumber: 2.0 Consensus size: 40
8659922 AGCATTTTAC
*
8659932 GTGTTTTCCTGCATGAA-CTCTTACTTCTTGCATGGAAATT
1 GTGTTTTCCTGCATGAATCCCTTACTTCTTGCAT-GAAATT
* **
8659972 GTGTTTTCTTGCATGAATCCCTTGTTTCTTGCATGAAATT
1 GTGTTTTCCTGCATGAATCCCTTACTTCTTGCATGAAATT
8660012 CATACTATTC
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
40 22 0.63
41 13 0.37
ACGTcount: A:0.19, C:0.19, G:0.17, T:0.45
Consensus pattern (40 bp):
GTGTTTTCCTGCATGAATCCCTTACTTCTTGCATGAAATT
Found at i:8665160 original size:4 final size:4
Alignment explanation
Indices: 8665151--8665184 Score: 50
Period size: 4 Copynumber: 8.0 Consensus size: 4
8665141 AAGTTTTATT
8665151 TTTA TTTA TTTA TTTA TTTA GTTTA TTTA GTTTA
1 TTTA TTTA TTTA TTTA TTTA -TTTA TTTA -TTTA
8665185 AATTTTTATA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
4 20 0.71
5 8 0.29
ACGTcount: A:0.24, C:0.00, G:0.06, T:0.71
Consensus pattern (4 bp):
TTTA
Found at i:8665162 original size:8 final size:9
Alignment explanation
Indices: 8665151--8665184 Score: 54
Period size: 9 Copynumber: 4.0 Consensus size: 9
8665141 AAGTTTTATT
8665151 TTTA-TTTA
1 TTTAGTTTA
8665159 TTTA-TTTA
1 TTTAGTTTA
8665167 TTTAGTTTA
1 TTTAGTTTA
8665176 TTTAGTTTA
1 TTTAGTTTA
8665185 AATTTTTATA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 12 0.48
9 13 0.52
ACGTcount: A:0.24, C:0.00, G:0.06, T:0.71
Consensus pattern (9 bp):
TTTAGTTTA
Found at i:8668956 original size:4 final size:4
Alignment explanation
Indices: 8668947--8668980 Score: 50
Period size: 4 Copynumber: 8.0 Consensus size: 4
8668937 AAGTTTTATT
8668947 TTTA TTTA TTTA TTTA TTTA TTTTA TTTA GTTTA
1 TTTA TTTA TTTA TTTA TTTA -TTTA TTTA -TTTA
8668981 AATTTTTATA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
4 20 0.71
5 8 0.29
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:8668988 original size:22 final size:22
Alignment explanation
Indices: 8668930--8668989 Score: 61
Period size: 22 Copynumber: 2.7 Consensus size: 22
8668920 AAGTGGCCCA
*
8668930 AGTTGTAAAGTTTTATTTTTATTT
1 AGTT-TAAATTTTTA-TTTTATTT
*
8668954 A-TTT-ATTTATTTATTTTATTT
1 AGTTTAAATT-TTTATTTTATTT
8668975 AGTTTAAATTTTTAT
1 AGTTTAAATTTTTAT
8668990 ATTCAGTCCA
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
21 11 0.37
22 13 0.43
23 5 0.17
24 1 0.03
ACGTcount: A:0.27, C:0.00, G:0.07, T:0.67
Consensus pattern (22 bp):
AGTTTAAATTTTTATTTTATTT
Found at i:8670817 original size:22 final size:22
Alignment explanation
Indices: 8670790--8670833 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
8670780 TTAAAGATTG
8670790 CCCCACGGCTCTCGCCATTCTC
1 CCCCACGGCTCTCGCCATTCTC
8670812 CCCCACGGCTCTCGCCATTCTC
1 CCCCACGGCTCTCGCCATTCTC
8670834 ACATGTGGTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.09, C:0.55, G:0.14, T:0.23
Consensus pattern (22 bp):
CCCCACGGCTCTCGCCATTCTC
Found at i:8680875 original size:23 final size:22
Alignment explanation
Indices: 8680832--8680889 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
8680822 AAAGGGTATC
* *
8680832 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
8680853 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
8680876 TGCATATCATATCT
1 TACAAATCATATCT
8680890 AAGAGCACAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:8681140 original size:15 final size:16
Alignment explanation
Indices: 8681113--8681145 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
8681103 AATATTTATA
8681113 TTTTTATTAATTTAAG
1 TTTTTATTAATTTAAG
8681129 TTTTTATT-ATTTAAG
1 TTTTTATTAATTTAAG
8681144 TT
1 TT
8681146 AAATTTCACT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.53
16 8 0.47
ACGTcount: A:0.27, C:0.00, G:0.06, T:0.67
Consensus pattern (16 bp):
TTTTTATTAATTTAAG
Found at i:8683689 original size:24 final size:25
Alignment explanation
Indices: 8683662--8683709 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 25
8683652 AGAGGAAAGT
8683662 TTAAAGAACATAAAA-GAAAAAAAA
1 TTAAAGAACATAAAACGAAAAAAAA
** *
8683686 TTAAATTACTTAAAACGAAAAAAA
1 TTAAAGAACATAAAACGAAAAAAA
8683710 TGGGGATAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 12 0.60
25 8 0.40
ACGTcount: A:0.69, C:0.06, G:0.06, T:0.19
Consensus pattern (25 bp):
TTAAAGAACATAAAACGAAAAAAAA
Found at i:8690062 original size:45 final size:43
Alignment explanation
Indices: 8690006--8690161 Score: 156
Period size: 43 Copynumber: 3.6 Consensus size: 43
8689996 TCGAAGCTAC
* * *
8690006 TATACTAGCACACACAATGCATCATCAGACAAAACCAAAGAAAAA
1 TATACTAGCACACACAGTGCATCATCAGA-TATACC-AAGAAAAA
* * ** *
8690051 TATACTGGCACACAGAGTGCATCATTGGATATACCGAAG-CAAA
1 TATACTAGCACACACAGTGCATCATCAGATATACC-AAGAAAAA
* *
8690094 TATACT-GTCACACACAGTGTATCATCTGATATACCAA-AAAAA
1 TATACTAG-CACACACAGTGCATCATCAGATATACCAAGAAAAA
*
8690136 TATACTAACACACACAGTGCATCATC
1 TATACTAGCACACACAGTGCATCATC
8690162 GGATGAATCA
Statistics
Matches: 92, Mismatches: 16, Indels: 9
0.79 0.14 0.08
Matches are distributed among these distances:
42 29 0.32
43 32 0.35
44 7 0.08
45 24 0.26
ACGTcount: A:0.44, C:0.24, G:0.12, T:0.21
Consensus pattern (43 bp):
TATACTAGCACACACAGTGCATCATCAGATATACCAAGAAAAA
Found at i:8694007 original size:28 final size:29
Alignment explanation
Indices: 8693960--8694030 Score: 74
Period size: 29 Copynumber: 2.5 Consensus size: 29
8693950 ATTGGAAAAT
* * * *
8693960 GGACT-ATTTGATTCTTTTTATAGGATAG
1 GGACTAATTTGATCCATTTAATAGGAGAG
*
8693988 GGACTGAA-TTGATCCATTTAATAGTAGAG
1 GGACT-AATTTGATCCATTTAATAGGAGAG
8694017 GGACTAATTTGATC
1 GGACTAATTTGATC
8694031 ATATCTCTAC
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
28 7 0.20
29 27 0.77
30 1 0.03
ACGTcount: A:0.30, C:0.10, G:0.23, T:0.38
Consensus pattern (29 bp):
GGACTAATTTGATCCATTTAATAGGAGAG
Found at i:8694721 original size:42 final size:43
Alignment explanation
Indices: 8694557--8694740 Score: 271
Period size: 43 Copynumber: 4.3 Consensus size: 43
8694547 TAACCGTACT
* * *
8694557 TTTAGCAGCGTTTGTAGGTAAACCGCCGCTAAAGGTCATGTTC
1 TTTAGCGGCGTTTGTGGGTAAAGCGCCGCTAAAGGTCATGTTC
* * *
8694600 TTTAGCGGCGTTTGTGGGTAAAGCGCTGTTAAAGATCATGTTC
1 TTTAGCGGCGTTTGTGGGTAAAGCGCCGCTAAAGGTCATGTTC
8694643 TTTAGCGGCGTTTGTGGGTAAAGCGCCGCTAAAGGTCATGTTC
1 TTTAGCGGCGTTTGTGGGTAAAGCGCCGCTAAAGGTCATGTTC
* * *
8694686 TTTAGCGGCATTTGT-GGCAAAGCACCGCTAAAGGTCATGTTC
1 TTTAGCGGCGTTTGTGGGTAAAGCGCCGCTAAAGGTCATGTTC
*
8694728 TTTAGTGGCGTTT
1 TTTAGCGGCGTTT
8694741 TTTCTCATAA
Statistics
Matches: 127, Mismatches: 14, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
42 36 0.28
43 91 0.72
ACGTcount: A:0.21, C:0.18, G:0.29, T:0.33
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTGGGTAAAGCGCCGCTAAAGGTCATGTTC
Found at i:8694756 original size:86 final size:87
Alignment explanation
Indices: 8694557--8694762 Score: 233
Period size: 86 Copynumber: 2.4 Consensus size: 87
8694547 TAACCGTACT
* * * *
8694557 TTTAGCAGCGTTTGTAGG-TA-AACCGCCGCTAAAGGTCATGTTCTTTAGCGGCGTTTGTGGGTA
1 TTTAGCGGCGTTTGT-GGCTATAAACGCCGCTAAAGGTCATGTTCTTTAGCGGCATTTGTGGGCA
* * *
8694620 AAGCGCTGTTAAAGATCATGTTC
65 AAGCACCGCTAAAGATCATGTTC
* *
8694643 TTTAGCGGCGTTTGTGGGTA-AAGCGCCGCTAAAGGTCATGTTCTTTAGCGGCATTTGT-GGCAA
1 TTTAGCGGCGTTTGTGGCTATAAACGCCGCTAAAGGTCATGTTCTTTAGCGGCATTTGTGGGCAA
*
8694706 AGCACCGCTAAAGGTCATGTTC
66 AGCACCGCTAAAGATCATGTTC
* ** *
8694728 TTTAGTGGCGTTT-TTTCTCATAAACGCCGCAAAAG
1 TTTAGCGGCGTTTGTGGCT-ATAAACGCCGCTAAAG
8694763 TTAGCGATGT
Statistics
Matches: 103, Mismatches: 14, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
84 2 0.02
85 37 0.36
86 64 0.62
ACGTcount: A:0.22, C:0.19, G:0.27, T:0.32
Consensus pattern (87 bp):
TTTAGCGGCGTTTGTGGCTATAAACGCCGCTAAAGGTCATGTTCTTTAGCGGCATTTGTGGGCAA
AGCACCGCTAAAGATCATGTTC
Found at i:8694858 original size:21 final size:21
Alignment explanation
Indices: 8694832--8694875 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
8694822 TTTAACGGCG
* *
8694832 CTAAAAAGCGCCGCTAAAGGC
1 CTAAAAAACGCCGCTAAAAGC
8694853 CTAAAAAACGCCGCTAAAAGC
1 CTAAAAAACGCCGCTAAAAGC
8694874 CT
1 CT
8694876 GTTTTGGTGT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.41, C:0.30, G:0.18, T:0.11
Consensus pattern (21 bp):
CTAAAAAACGCCGCTAAAAGC
Found at i:8696952 original size:21 final size:21
Alignment explanation
Indices: 8696928--8696968 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
8696918 AATTTCTAGA
*
8696928 GTTTTAATTTTGAAAATCATT
1 GTTTTAATTTGGAAAATCATT
* *
8696949 GTTTTAGTTTGGTAAATCAT
1 GTTTTAATTTGGAAAATCAT
8696969 ATGATTTTGG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.29, C:0.05, G:0.15, T:0.51
Consensus pattern (21 bp):
GTTTTAATTTGGAAAATCATT
Found at i:8697630 original size:12 final size:12
Alignment explanation
Indices: 8697613--8697639 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
8697603 TCGTGGTGGT
8697613 ATGCCACTTATA
1 ATGCCACTTATA
8697625 ATGCCACTTATA
1 ATGCCACTTATA
8697637 ATG
1 ATG
8697640 GTGCAACTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.33, C:0.22, G:0.11, T:0.33
Consensus pattern (12 bp):
ATGCCACTTATA
Found at i:8699405 original size:20 final size:20
Alignment explanation
Indices: 8699380--8699419 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
8699370 GTTCTTTCCT
8699380 TCCATATTCGGTGAAGAAAC
1 TCCATATTCGGTGAAGAAAC
8699400 TCCATATTCGGTGAAGAAAC
1 TCCATATTCGGTGAAGAAAC
8699420 AAAAGAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.35, C:0.20, G:0.20, T:0.25
Consensus pattern (20 bp):
TCCATATTCGGTGAAGAAAC
Found at i:8700092 original size:22 final size:22
Alignment explanation
Indices: 8700067--8700110 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
8700057 ATTGGGGTGA
8700067 GGTTGGTATAGGATTTGGGTTT
1 GGTTGGTATAGGATTTGGGTTT
* *
8700089 GGTTGGTATTGGGTTTGGGTTT
1 GGTTGGTATAGGATTTGGGTTT
8700111 AAATATATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.09, C:0.00, G:0.43, T:0.48
Consensus pattern (22 bp):
GGTTGGTATAGGATTTGGGTTT
Found at i:8703406 original size:12 final size:12
Alignment explanation
Indices: 8703389--8703413 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
8703379 TATTTCATTA
8703389 ATACTATATCAC
1 ATACTATATCAC
8703401 ATACTATATCAC
1 ATACTATATCAC
8703413 A
1 A
8703414 CACTCTAAGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.24, G:0.00, T:0.32
Consensus pattern (12 bp):
ATACTATATCAC
Found at i:8705170 original size:13 final size:13
Alignment explanation
Indices: 8705152--8705176 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
8705142 TATGATAAAT
8705152 TAAAAATAATAAC
1 TAAAAATAATAAC
8705165 TAAAAATAATAA
1 TAAAAATAATAA
8705177 TATATCTTAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.72, C:0.04, G:0.00, T:0.24
Consensus pattern (13 bp):
TAAAAATAATAAC
Found at i:8708055 original size:13 final size:13
Alignment explanation
Indices: 8708039--8708109 Score: 65
Period size: 13 Copynumber: 5.5 Consensus size: 13
8708029 TTTTAAAAGC
*
8708039 ACTTTTTCACAGT
1 ACTTTTTCACAAT
*
8708052 AC-TTTTCAAAAAT
1 ACTTTTTC-ACAAT
8708065 ACTTTTTCACAAT
1 ACTTTTTCACAAT
*
8708078 AC-TTTTCAAAAAT
1 ACTTTTTC-ACAAT
* *
8708091 ATTTTTTCACAGT
1 ACTTTTTCACAAT
8708104 ACTTTT
1 ACTTTT
8708110 CAAAAGCAAC
Statistics
Matches: 46, Mismatches: 8, Indels: 8
0.74 0.13 0.13
Matches are distributed among these distances:
12 10 0.22
13 26 0.57
14 10 0.22
ACGTcount: A:0.32, C:0.18, G:0.03, T:0.46
Consensus pattern (13 bp):
ACTTTTTCACAAT
Found at i:8708055 original size:26 final size:26
Alignment explanation
Indices: 8708026--8708114 Score: 124
Period size: 26 Copynumber: 3.4 Consensus size: 26
8708016 TTTAAACCAA
* *
8708026 ACTTTTTAAAAGCACTTTTTCACAGT
1 ACTTTTCAAAAACACTTTTTCACAGT
* *
8708052 ACTTTTCAAAAATACTTTTTCACAAT
1 ACTTTTCAAAAACACTTTTTCACAGT
* *
8708078 ACTTTTCAAAAATATTTTTTCACAGT
1 ACTTTTCAAAAACACTTTTTCACAGT
8708104 ACTTTTCAAAA
1 ACTTTTCAAAA
8708115 GCAACTGGCC
Statistics
Matches: 57, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 57 1.00
ACGTcount: A:0.36, C:0.18, G:0.03, T:0.43
Consensus pattern (26 bp):
ACTTTTCAAAAACACTTTTTCACAGT
Found at i:8714464 original size:35 final size:35
Alignment explanation
Indices: 8714412--8714493 Score: 112
Period size: 35 Copynumber: 2.3 Consensus size: 35
8714402 GAAAGTCCAT
*
8714412 CCCAACC-TTTTAAGGTTGCCTTAGACGGGTCTAA
1 CCCAACCTTTTTAAGGTTGCCATAGACGGGTCTAA
* * *
8714446 CCCAACCTTTTTAAGGTTGGCATAGACTGGTCTAT
1 CCCAACCTTTTTAAGGTTGCCATAGACGGGTCTAA
8714481 CCCAACCTCTTTT
1 CCCAACCT-TTTT
8714494 GAGTCGATTT
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
34 7 0.17
35 31 0.74
36 4 0.10
ACGTcount: A:0.22, C:0.28, G:0.17, T:0.33
Consensus pattern (35 bp):
CCCAACCTTTTTAAGGTTGCCATAGACGGGTCTAA
Found at i:8717765 original size:20 final size:20
Alignment explanation
Indices: 8717742--8717815 Score: 87
Period size: 20 Copynumber: 3.7 Consensus size: 20
8717732 CACAATTCAC
*
8717742 ATCAATTAATTTAATCAAAA
1 ATCAATTAATTTAATCAAAT
* *
8717762 ATCAATTCATTTAA-CAACTT
1 ATCAATTAATTTAATCAA-AT
*
8717782 CTCAATTAATTTAATCAAAT
1 ATCAATTAATTTAATCAAAT
*
8717802 ATCAATTCATTTAA
1 ATCAATTAATTTAA
8717816 CAACTTCGTG
Statistics
Matches: 44, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
19 3 0.07
20 38 0.86
21 3 0.07
ACGTcount: A:0.46, C:0.15, G:0.00, T:0.39
Consensus pattern (20 bp):
ATCAATTAATTTAATCAAAT
Found at i:8717798 original size:40 final size:40
Alignment explanation
Indices: 8717743--8717822 Score: 151
Period size: 40 Copynumber: 2.0 Consensus size: 40
8717733 ACAATTCACA
8717743 TCAATTAATTTAATCAAAAATCAATTCATTTAACAACTTC
1 TCAATTAATTTAATCAAAAATCAATTCATTTAACAACTTC
*
8717783 TCAATTAATTTAATCAAATATCAATTCATTTAACAACTTC
1 TCAATTAATTTAATCAAAAATCAATTCATTTAACAACTTC
8717823 GTGTACGATA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.44, C:0.17, G:0.00, T:0.39
Consensus pattern (40 bp):
TCAATTAATTTAATCAAAAATCAATTCATTTAACAACTTC
Found at i:8718192 original size:114 final size:115
Alignment explanation
Indices: 8718066--8718322 Score: 365
Period size: 115 Copynumber: 2.2 Consensus size: 115
8718056 TCGATACCAA
* *
8718066 ATTGCGTATTGATATCGTTTTGGCATTTAGCC-ATTTCAAAAATTTGGACACAAGCCAACCTGTA
1 ATTG-GTATTGATATCATTTTGACATTTAGCCTATTTCAAAAATTTGGACACAAGCCAACCTGTA
** *
8718130 -CTGATACCTTTATAAAGTATTGATCTTTGGAGATAAATATCAATACTGTAT
65 TC-GATACCTTTATAAAGTACCGATCTTTGAAGATAAATATCAATACTGTAT
* * *
8718181 ATTGGTATTGATATCATTTTGACATTTAGCCTTTTTCAAAAATTTGGAGACAAGTCAACCTGTAT
1 ATTGGTATTGATATCATTTTGACATTTAGCCTATTTCAAAAATTTGGACACAAGCCAACCTGTAT
* *
8718246 CGATACCTTTATAAAGTACCGATCTTTGAAGATAAGTATCGATACTGTAT
66 CGATACCTTTATAAAGTACCGATCTTTGAAGATAAATATCAATACTGTAT
* **
8718296 ATTGGTATTGATACCAAATTGACATTT
1 ATTGGTATTGATATCATTTTGACATTT
8718323 TGTCATTTTA
Statistics
Matches: 127, Mismatches: 13, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
114 25 0.20
115 101 0.80
116 1 0.01
ACGTcount: A:0.32, C:0.15, G:0.16, T:0.37
Consensus pattern (115 bp):
ATTGGTATTGATATCATTTTGACATTTAGCCTATTTCAAAAATTTGGACACAAGCCAACCTGTAT
CGATACCTTTATAAAGTACCGATCTTTGAAGATAAATATCAATACTGTAT
Found at i:8721297 original size:21 final size:21
Alignment explanation
Indices: 8721252--8721297 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
8721242 TCATACGATT
* *
8721252 GTGTACCTCAATCACAAGGGC
1 GTGTACCTCAATCACAAGAGA
*
8721273 GTGTACCTCAATCACACGAGA
1 GTGTACCTCAATCACAAGAGA
8721294 GTGT
1 GTGT
8721298 CTTTCAGTCA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.28, C:0.26, G:0.24, T:0.22
Consensus pattern (21 bp):
GTGTACCTCAATCACAAGAGA
Found at i:8729784 original size:33 final size:33
Alignment explanation
Indices: 8729747--8729813 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
8729737 ATAAGTGTCT
8729747 AACCAATATGCCCTAATTGGCACCACAATTGAA
1 AACCAATATGCCCTAATTGGCACCACAATTGAA
*
8729780 AACCACTATGCCCTAATTGGCACCACAATTGAA
1 AACCAATATGCCCTAATTGGCACCACAATTGAA
8729813 A
1 A
8729814 CATTTAACCA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.39, C:0.28, G:0.12, T:0.21
Consensus pattern (33 bp):
AACCAATATGCCCTAATTGGCACCACAATTGAA
Found at i:8731968 original size:27 final size:27
Alignment explanation
Indices: 8731930--8731985 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
8731920 TAAATAAAAG
8731930 TTAGAATTGTGGTCCCGAAACCATTAT
1 TTAGAATTGTGGTCCCGAAACCATTAT
8731957 TTAGAATTGTGGTCCCGAAACCATTAT
1 TTAGAATTGTGGTCCCGAAACCATTAT
8731984 TT
1 TT
8731986 TCGATACCAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.36
Consensus pattern (27 bp):
TTAGAATTGTGGTCCCGAAACCATTAT
Found at i:8732818 original size:16 final size:17
Alignment explanation
Indices: 8732797--8732838 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 17
8732787 CGAGCAAACA
8732797 AAAATTGAATA-AAATT
1 AAAATTGAATACAAATT
*
8732813 AAAATT-AAAACAAATT
1 AAAATTGAATACAAATT
*
8732829 AAAATAGAAT
1 AAAATTGAAT
8732839 CTCTTTTTCA
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
15 3 0.14
16 16 0.76
17 2 0.10
ACGTcount: A:0.67, C:0.02, G:0.05, T:0.26
Consensus pattern (17 bp):
AAAATTGAATACAAATT
Found at i:8752568 original size:16 final size:16
Alignment explanation
Indices: 8752547--8752577 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
8752537 TTCACTATTA
8752547 TGTCTTTTATATTTTC
1 TGTCTTTTATATTTTC
*
8752563 TGTCTTTTATCTTTT
1 TGTCTTTTATATTTT
8752578 GCATGCATAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.10, C:0.13, G:0.06, T:0.71
Consensus pattern (16 bp):
TGTCTTTTATATTTTC
Found at i:8754224 original size:37 final size:39
Alignment explanation
Indices: 8754183--8754282 Score: 106
Period size: 37 Copynumber: 2.7 Consensus size: 39
8754173 ATAATATTTT
8754183 AATAGTTTAATATTAAATTTAAT-TT-AA-T-ACTTATCTA
1 AATAGTTTAATATT-AATTTAATATTAAATTGA-TTATCTA
* *
8754220 AATAGTATT-TTATTAATTTAATATTAAATTGATTATCTT
1 AATAGT-TTAATATTAATTTAATATTAAATTGATTATCTA
8754259 AATA-TTTAAT-TTAATTTAATATTA
1 AATAGTTTAATATTAATTTAATATTA
8754283 TTTTGTAGAT
Statistics
Matches: 54, Mismatches: 3, Indels: 12
0.78 0.04 0.17
Matches are distributed among these distances:
36 8 0.15
37 28 0.52
38 6 0.11
39 11 0.20
40 1 0.02
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.52
Consensus pattern (39 bp):
AATAGTTTAATATTAATTTAATATTAAATTGATTATCTA
Found at i:8754324 original size:18 final size:18
Alignment explanation
Indices: 8754297--8754343 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 18
8754287 GTAGATAAAC
* *
8754297 ATTTATTATTTTAA-TAA
1 ATTTAATATTTAAATTAA
8754314 GATTTAATA-TTAAATTAA
1 -ATTTAATATTTAAATTAA
8754332 ATTTAATATTTA
1 ATTTAATATTTA
8754344 TCTTGATAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
17 12 0.48
18 13 0.52
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (18 bp):
ATTTAATATTTAAATTAA
Found at i:8754365 original size:14 final size:14
Alignment explanation
Indices: 8754336--8754376 Score: 55
Period size: 14 Copynumber: 2.7 Consensus size: 14
8754326 AATTAAATTT
8754336 AATATTTATCTTGATA
1 AATATTTA--TTGATA
8754352 AATATTTATTGATA
1 AATATTTATTGATA
8754366 AATATTATATT
1 AATATT-TATT
8754377 AATTTAATGT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
14 12 0.50
15 4 0.17
16 8 0.33
ACGTcount: A:0.41, C:0.02, G:0.05, T:0.51
Consensus pattern (14 bp):
AATATTTATTGATA
Found at i:8755736 original size:23 final size:24
Alignment explanation
Indices: 8755706--8755755 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
8755696 TTTTCTTTTA
8755706 TTTTTTG-TGTAGGTTGGGCCTAT
1 TTTTTTGTTGTAGGTTGGGCCTAT
* * *
8755729 TTTTTTGTTTTAGTTTGGGTCTAT
1 TTTTTTGTTGTAGGTTGGGCCTAT
8755753 TTT
1 TTT
8755756 CTCTTTTGTC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
23 7 0.30
24 16 0.70
ACGTcount: A:0.08, C:0.06, G:0.24, T:0.62
Consensus pattern (24 bp):
TTTTTTGTTGTAGGTTGGGCCTAT
Found at i:8757306 original size:63 final size:63
Alignment explanation
Indices: 8757194--8757510 Score: 298
Period size: 63 Copynumber: 5.0 Consensus size: 63
8757184 GTGTAGGGAN
* ** * * **
8757194 TGGTGCTTGTGTAAAATAAAGTGGTGATGAATGTGTT-AGTGCAGGGAATGATTGTATGTGCTG
1 TGGTGCTTGTGTAAAATAAACTAATGTTGAATGTGTTGA-TGTAGGGAATGATTGCGTGTGCTG
* * * * * * *
8757257 TGATGCTTATGTAAAATAAACTAATGATGAATGTGTCGATGTAGTGAATGATTGCGCGTGTTG
1 TGGTGCTTGTGTAAAATAAACTAATGTTGAATGTGTTGATGTAGGGAATGATTGCGTGTGCTG
* * * ** *
8757320 TGGTGCTTGTGGAAAATAAACTAATGTTGTATGTGTTGATGTAGGGAATGATTACGCATGTTG
1 TGGTGCTTGTGTAAAATAAACTAATGTTGAATGTGTTGATGTAGGGAATGATTGCGTGTGCTG
* * * * * *
8757383 AGGTGCTTGTGAAAAATAAAATATTGTTGAATGTGTTGATGCAGGGAATGATTGCGCGTGCTG
1 TGGTGCTTGTGTAAAATAAACTAATGTTGAATGTGTTGATGTAGGGAATGATTGCGTGTGCTG
* * * * * *
8757446 AGGTGCTTGTG-AAAATTAAACCGAA-GTTGAAGGTGTAGATGTGGGGAATGATTGTGTGTGCTG
1 TGGTGCTTGTGTAAAA-TAAA-CTAATGTTGAATGTGTTGATGTAGGGAATGATTGCGTGTGCTG
8757509 TG
1 TG
8757511 ACGATGATGT
Statistics
Matches: 211, Mismatches: 40, Indels: 6
0.82 0.16 0.02
Matches are distributed among these distances:
62 4 0.02
63 205 0.97
64 2 0.01
ACGTcount: A:0.27, C:0.07, G:0.32, T:0.34
Consensus pattern (63 bp):
TGGTGCTTGTGTAAAATAAACTAATGTTGAATGTGTTGATGTAGGGAATGATTGCGTGTGCTG
Found at i:8759141 original size:50 final size:52
Alignment explanation
Indices: 8759077--8759179 Score: 158
Period size: 50 Copynumber: 2.0 Consensus size: 52
8759067 TAATAATCTA
*
8759077 AACATCATAATAATTAACT-ATTTAAATTTAAATAATTTAATAA-ATTTTCTT
1 AACATCATAATAATTAACTGA-TTAAAATTAAATAATTTAATAATATTTTCTT
*
8759128 AACATCA-AATAATTAAGTGATTAAAATTAAATAATTTAATAATATTTTCTT
1 AACATCATAATAATTAACTGATTAAAATTAAATAATTTAATAATATTTTCTT
8759179 A
1 A
8759180 CAATTTGTAA
Statistics
Matches: 48, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
50 31 0.65
51 17 0.35
ACGTcount: A:0.49, C:0.07, G:0.02, T:0.43
Consensus pattern (52 bp):
AACATCATAATAATTAACTGATTAAAATTAAATAATTTAATAATATTTTCTT
Found at i:8760059 original size:22 final size:21
Alignment explanation
Indices: 8760033--8760082 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 21
8760023 AATGTATTTA
8760033 TTAAATTAGATATATATT-AATT
1 TTAAATTA-ATA-ATATTAAATT
*
8760055 TTAAAATAATAATATTAAATT
1 TTAAATTAATAATATTAAATT
*
8760076 TTTAATT
1 TTAAATT
8760083 TTTTTTAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
20 5 0.21
21 12 0.50
22 7 0.29
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (21 bp):
TTAAATTAATAATATTAAATT
Found at i:8762239 original size:52 final size:53
Alignment explanation
Indices: 8762138--8762239 Score: 138
Period size: 54 Copynumber: 1.9 Consensus size: 53
8762128 CATAAATTCG
* *
8762138 AAAAAAAAAAGTTATTAGGGTTTAGGAGGAAGTTAAAATTTTGGGGGAAAATT
1 AAAAAAAAAAGTTATTAGGGTTTAGGAGGAAGATAAAATTTTGGAGGAAAATT
*
8762191 AAAAAGAAAAAGTTTTTAGGGTTT-GG-GGAA-ATAAAATTTTTGGAGGAAA
1 AAAAA-AAAAAGTTATTAGGGTTTAGGAGGAAGATAAAA-TTTTGGAGGAAA
8762240 GTAAAAGGGT
Statistics
Matches: 44, Mismatches: 3, Indels: 5
0.85 0.06 0.10
Matches are distributed among these distances:
51 5 0.11
52 15 0.34
53 7 0.16
54 17 0.39
ACGTcount: A:0.45, C:0.00, G:0.26, T:0.28
Consensus pattern (53 bp):
AAAAAAAAAAGTTATTAGGGTTTAGGAGGAAGATAAAATTTTGGAGGAAAATT
Found at i:8766731 original size:17 final size:17
Alignment explanation
Indices: 8766709--8766755 Score: 60
Period size: 17 Copynumber: 2.7 Consensus size: 17
8766699 ACTTATAGAT
8766709 TATAAAAAATAATTACA
1 TATAAAAAATAATTACA
*
8766726 TATAAAAAAATACATTATA
1 TAT-AAAAAATA-ATTACA
8766745 T-TAAAAAATAA
1 TATAAAAAATAA
8766756 ATATGCGTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
16 1 0.04
17 11 0.41
18 9 0.33
19 6 0.22
ACGTcount: A:0.66, C:0.04, G:0.00, T:0.30
Consensus pattern (17 bp):
TATAAAAAATAATTACA
Found at i:8766735 original size:18 final size:18
Alignment explanation
Indices: 8766707--8766752 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 18
8766697 ATACTTATAG
8766707 ATTATAAAAAATA-ATTAC
1 ATTA-AAAAAATACATTAC
*
8766725 ATATAAAAAAATACATTAT
1 AT-TAAAAAAATACATTAC
8766744 ATTAAAAAA
1 ATTAAAAAA
8766753 TAAATATGCG
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
18 17 0.68
19 8 0.32
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.30
Consensus pattern (18 bp):
ATTAAAAAAATACATTAC
Found at i:8766846 original size:15 final size:15
Alignment explanation
Indices: 8766828--8766876 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
8766818 ATTAAATATG
8766828 AAAAATAAAAAATAA
1 AAAAATAAAAAATAA
**
8766843 AAAAATAATTAATAA
1 AAAAATAAAAAATAA
* *
8766858 AAAAAGAAAACA-AA
1 AAAAATAAAAAATAA
8766872 AAAAA
1 AAAAA
8766877 CTAATTTGAA
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
14 7 0.25
15 21 0.75
ACGTcount: A:0.84, C:0.02, G:0.02, T:0.12
Consensus pattern (15 bp):
AAAAATAAAAAATAA
Found at i:8766862 original size:30 final size:32
Alignment explanation
Indices: 8766811--8766882 Score: 80
Period size: 30 Copynumber: 2.3 Consensus size: 32
8766801 TACCTAGTTT
* *
8766811 AAAAAA-AATTAAATATGAAAAATAAAA-AATA
1 AAAAAATAATTAAATATAAAAAAGAAAACAA-A
8766842 AAAAAATAATT-AATA-AAAAAAGAAAACAAA
1 AAAAAATAATTAAATATAAAAAAGAAAACAAA
*
8766872 AAAAACTAATT
1 AAAAAATAATT
8766883 TGAACTGTAA
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
30 20 0.56
31 12 0.33
32 4 0.11
ACGTcount: A:0.76, C:0.03, G:0.03, T:0.18
Consensus pattern (32 bp):
AAAAAATAATTAAATATAAAAAAGAAAACAAA
Found at i:8768604 original size:5 final size:5
Alignment explanation
Indices: 8768594--8768618 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
8768584 TATTGAACCT
8768594 TTTTA TTTTA TTTTA TTTTA TTTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA
8768619 CTTGATGACT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTTA
Found at i:8771538 original size:27 final size:27
Alignment explanation
Indices: 8771477--8771630 Score: 93
Period size: 27 Copynumber: 5.7 Consensus size: 27
8771467 CTTTAGAGTG
* * *
8771477 CGCCACAAAGGCATTCC-CTTCATATAT
1 CGCCACAAAAGC-TTCCTTTTCATAGAT
* * *
8771504 CTCTACAAAAGCTT-TTGTTTCATAGAT
1 CGCCACAAAAGCTTCCT-TTTCATAGAT
*
8771531 CGCCACAAAGGCTTCCTTTTCATAGAT
1 CGCCACAAAAGCTTCCTTTTCATAGAT
* * *
8771558 CGCCAC-AAAGACTTCTTTTTTATAAAT
1 CGCCACAAAAG-CTTCCTTTTCATAGAT
** * *
8771585 AACCA-TAAAGTATTCCTTTTCATAGAT
1 CGCCACAAAAG-CTTCCTTTTCATAGAT
* *
8771612 CGCCA-AAATGCTTCTTTTT
1 CGCCACAAAAGCTTCCTTTT
8771631 TCTGGCGTGT
Statistics
Matches: 95, Mismatches: 27, Indels: 11
0.71 0.20 0.08
Matches are distributed among these distances:
26 12 0.13
27 82 0.86
28 1 0.01
ACGTcount: A:0.30, C:0.25, G:0.10, T:0.35
Consensus pattern (27 bp):
CGCCACAAAAGCTTCCTTTTCATAGAT
Found at i:8771566 original size:54 final size:54
Alignment explanation
Indices: 8771477--8771630 Score: 145
Period size: 54 Copynumber: 2.9 Consensus size: 54
8771467 CTTTAGAGTG
* * * * *
8771477 CGCCACAAAGGCATTCC-CTTCATATATCTCTACAAAAGCTT-TTGTTTCATAGAT
1 CGCCACAAAGGC-TTCCTTTTCATAGATCGCCACAAAAGCTTCTT-TTTCATAAAT
*
8771531 CGCCACAAAGGCTTCCTTTTCATAGATCGCCAC-AAAGACTTCTTTTTTATAAAT
1 CGCCACAAAGGCTTCCTTTTCATAGATCGCCACAAAAG-CTTCTTTTTCATAAAT
** * ** *
8771585 AACCATAAAGTATTCCTTTTCATAGATCGCCA-AAATGCTTCTTTTT
1 CGCCACAAAGGCTTCCTTTTCATAGATCGCCACAAAAGCTTCTTTTT
8771631 TCTGGCGTGT
Statistics
Matches: 84, Mismatches: 12, Indels: 9
0.80 0.11 0.09
Matches are distributed among these distances:
53 17 0.20
54 65 0.77
55 2 0.02
ACGTcount: A:0.30, C:0.25, G:0.10, T:0.35
Consensus pattern (54 bp):
CGCCACAAAGGCTTCCTTTTCATAGATCGCCACAAAAGCTTCTTTTTCATAAAT
Found at i:8773005 original size:19 final size:19
Alignment explanation
Indices: 8772966--8773010 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
8772956 CCTCTGCTGG
* * *
8772966 TGCTGGTTCTTTGTTCCTC
1 TGCTGGTTATTTCTTCATC
*
8772985 TGTTGGTTATTTCTTCATC
1 TGCTGGTTATTTCTTCATC
8773004 TGCTGGT
1 TGCTGGT
8773011 GCATTGTTCT
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.04, C:0.20, G:0.22, T:0.53
Consensus pattern (19 bp):
TGCTGGTTATTTCTTCATC
Found at i:8775004 original size:15 final size:15
Alignment explanation
Indices: 8774984--8775022 Score: 69
Period size: 15 Copynumber: 2.6 Consensus size: 15
8774974 GAGACTATTT
8774984 TTAATTAAATAAATA
1 TTAATTAAATAAATA
*
8774999 TTAATTACATAAATA
1 TTAATTAAATAAATA
8775014 TTAATTAAA
1 TTAATTAAA
8775023 AACTTTGTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (15 bp):
TTAATTAAATAAATA
Found at i:8775130 original size:15 final size:15
Alignment explanation
Indices: 8775110--8775146 Score: 74
Period size: 15 Copynumber: 2.5 Consensus size: 15
8775100 CGGACTTTTT
8775110 TTAATTACATAAATA
1 TTAATTACATAAATA
8775125 TTAATTACATAAATA
1 TTAATTACATAAATA
8775140 TTAATTA
1 TTAATTA
8775147 AAAACTTTGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.43
Consensus pattern (15 bp):
TTAATTACATAAATA
Found at i:8775198 original size:116 final size:122
Alignment explanation
Indices: 8774976--8775379 Score: 595
Period size: 116 Copynumber: 3.2 Consensus size: 122
8774966 CAGAAAAAGA
* *
8774976 GACTATTTTTAATTAAATAAATATTAATTACATAAATATTAATTAAAAACTTTGTAAAATTATAG
1 GACTTTTTTTAATTACATAAATATTAATTACATAAATATTAATTAAAAACTTTGTAAAATTAT--
*
8775041 AAAACAATGTAAAAGAATGTAAAATTTTTTCAGTAGCAATAATAATAATTAATAATCATCG
64 --AATAATGTAAAAGAATGTAAAATTTTTTCAGTAGCAATAATAATAATTAATAATCATCG
8775102 GACTTTTTTTAATTACATAAATATTAATTACATAAATATTAATTAAAAACTTTGTAAAA-T-T-A
1 GACTTTTTTTAATTACATAAATATTAATTACATAAATATTAATTAAAAACTTTGTAAAATTATAA
*
8775164 -AA-G-AAAAGAATGTAAAATTTTGTCAGTAGCAATAATAATAATTAATAATCATCG
66 TAATGTAAAAGAATGTAAAATTTTTTCAGTAGCAATAATAATAATTAATAATCATCG
8775218 GACTTTTTTTAATTACATAAATATTAATTACATAAATATTAATTAAAAACTTTGTAAAATTATAG
1 GACTTTTTTTAATTACATAAATATTAATTACATAAATATTAATTAAAAACTTTGTAAAATTAT--
8775283 AAAATAATGTAAAAGAATGTAAAATTTTTTCAGTAGCAATAATAATAATTAATAATCATCTTAAA
64 --AATAATGTAAAAGAATGTAAAATTTTTTCAGTAGCAATAATAATAATTAATAATCATC-----
8775348 GG
122 -G
*
8775350 GACTATTTTTAATTACATAAATATTAATTA
1 GACTTTTTTTAATTACATAAATATTAATTA
8775380 AAAAATTTGT
Statistics
Matches: 257, Mismatches: 5, Indels: 26
0.89 0.02 0.09
Matches are distributed among these distances:
116 109 0.42
117 2 0.01
118 3 0.01
119 1 0.00
123 1 0.00
124 3 0.01
125 2 0.01
126 106 0.41
132 30 0.12
ACGTcount: A:0.49, C:0.06, G:0.07, T:0.38
Consensus pattern (122 bp):
GACTTTTTTTAATTACATAAATATTAATTACATAAATATTAATTAAAAACTTTGTAAAATTATAA
TAATGTAAAAGAATGTAAAATTTTTTCAGTAGCAATAATAATAATTAATAATCATCG
Found at i:8775246 original size:15 final size:15
Alignment explanation
Indices: 8775226--8775262 Score: 74
Period size: 15 Copynumber: 2.5 Consensus size: 15
8775216 CGGACTTTTT
8775226 TTAATTACATAAATA
1 TTAATTACATAAATA
8775241 TTAATTACATAAATA
1 TTAATTACATAAATA
8775256 TTAATTA
1 TTAATTA
8775263 AAAACTTTGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.43
Consensus pattern (15 bp):
TTAATTACATAAATA
Found at i:8775562 original size:170 final size:170
Alignment explanation
Indices: 8775280--8775620 Score: 682
Period size: 170 Copynumber: 2.0 Consensus size: 170
8775270 TGTAAAATTA
8775280 TAGAAAATAATGTAAAAGAATGTAAAATTTTTTCAGTAGCAATAATAATAATTAATAATCATCTT
1 TAGAAAATAATGTAAAAGAATGTAAAATTTTTTCAGTAGCAATAATAATAATTAATAATCATCTT
8775345 AAAGGGACTATTTTTAATTACATAAATATTAATTAAAAAATTTGTGCCTGTAAATGTTCATCAAG
66 AAAGGGACTATTTTTAATTACATAAATATTAATTAAAAAATTTGTGCCTGTAAATGTTCATCAAG
8775410 AGTAATTTTAGCCCTTAATTCTCGTGATTTTTTTTTATTT
131 AGTAATTTTAGCCCTTAATTCTCGTGATTTTTTTTTATTT
8775450 TAGAAAATAATGTAAAAGAATGTAAAATTTTTTCAGTAGCAATAATAATAATTAATAATCATCTT
1 TAGAAAATAATGTAAAAGAATGTAAAATTTTTTCAGTAGCAATAATAATAATTAATAATCATCTT
8775515 AAAGGGACTATTTTTAATTACATAAATATTAATTAAAAAATTTGTGCCTGTAAATGTTCATCAAG
66 AAAGGGACTATTTTTAATTACATAAATATTAATTAAAAAATTTGTGCCTGTAAATGTTCATCAAG
8775580 AGTAATTTTAGCCCTTAATTCTCGTGATTTTTTTTTATTT
131 AGTAATTTTAGCCCTTAATTCTCGTGATTTTTTTTTATTT
8775620 T
1 T
8775621 TTAATGATGG
Statistics
Matches: 171, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
170 171 1.00
ACGTcount: A:0.39, C:0.09, G:0.11, T:0.41
Consensus pattern (170 bp):
TAGAAAATAATGTAAAAGAATGTAAAATTTTTTCAGTAGCAATAATAATAATTAATAATCATCTT
AAAGGGACTATTTTTAATTACATAAATATTAATTAAAAAATTTGTGCCTGTAAATGTTCATCAAG
AGTAATTTTAGCCCTTAATTCTCGTGATTTTTTTTTATTT
Found at i:8776469 original size:18 final size:18
Alignment explanation
Indices: 8776446--8776493 Score: 87
Period size: 18 Copynumber: 2.7 Consensus size: 18
8776436 AAAATATGAG
*
8776446 AAATGATGTTCACATTTT
1 AAATGATGTTCACATTTC
8776464 AAATGATGTTCACATTTC
1 AAATGATGTTCACATTTC
8776482 AAATGATGTTCA
1 AAATGATGTTCA
8776494 AATTGATGGA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.35, C:0.12, G:0.12, T:0.40
Consensus pattern (18 bp):
AAATGATGTTCACATTTC
Found at i:8777045 original size:72 final size:72
Alignment explanation
Indices: 8776891--8777063 Score: 199
Period size: 72 Copynumber: 2.4 Consensus size: 72
8776881 AACAACAATG
* * * * * *
8776891 CTAAACTAGTTTTATCAATAGTTATTTATGTTTGGTTTTTGGATATTGAGTTTATGTTCTACTTA
1 CTAAATTAGTTTTATCAATAGTTGTTTATGTTTGGTCTTTGCATATTGAATTTATATTCTACTTA
8776956 TTTATGT
66 TTTATGT
* * * *
8776963 GT-AATCTAGTTTTATTAAAAGTTGTTTATGTTTGGTCTTT-CTTCATTGAATTTATATTCTACT
1 CTAAAT-TAGTTTTATCAATAGTTGTTTATGTTTGGTCTTTGCAT-ATTGAATTTATATTCTACT
*
8777026 TATTT-TTT
64 TATTTATGT
8777034 ACTAAATTAGTTTTATCAATAGTTGTTTAT
1 -CTAAATTAGTTTTATCAATAGTTGTTTAT
8777064 ATGTGATTTT
Statistics
Matches: 83, Mismatches: 14, Indels: 8
0.79 0.13 0.08
Matches are distributed among these distances:
71 5 0.06
72 75 0.90
73 3 0.04
ACGTcount: A:0.25, C:0.08, G:0.13, T:0.55
Consensus pattern (72 bp):
CTAAATTAGTTTTATCAATAGTTGTTTATGTTTGGTCTTTGCATATTGAATTTATATTCTACTTA
TTTATGT
Found at i:8778871 original size:19 final size:19
Alignment explanation
Indices: 8778826--8778886 Score: 70
Period size: 19 Copynumber: 3.1 Consensus size: 19
8778816 ATCTAATTAC
8778826 AAATATTTAATTATTATATTT
1 AAATATTTAATTA-TA-ATTT
*
8778847 AAATATTTAAATATAATTT
1 AAATATTTAATTATAATTT
*
8778866 ATATATTCTAATTA-AATTT
1 AAATATT-TAATTATAATTT
8778885 AA
1 AA
8778887 TAAATAATTA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
19 16 0.46
20 7 0.20
21 12 0.34
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.51
Consensus pattern (19 bp):
AAATATTTAATTATAATTT
Found at i:8779132 original size:13 final size:13
Alignment explanation
Indices: 8779114--8779187 Score: 76
Period size: 13 Copynumber: 5.7 Consensus size: 13
8779104 TTCAAAATTT
*
8779114 TCAAAAGTACTTC
1 TCAAAAGCACTTC
*
8779127 TCAAAAACACTTC
1 TCAAAAGCACTTC
*
8779140 TCAAAAGCACTTT
1 TCAAAAGCACTTC
* * * *
8779153 TCCACAGCATTTT
1 TCAAAAGCACTTC
*
8779166 TCAAAAGCACTTT
1 TCAAAAGCACTTC
8779179 TCAAAAGCA
1 TCAAAAGCA
8779188 ATAAAGAACT
Statistics
Matches: 51, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
13 51 1.00
ACGTcount: A:0.39, C:0.26, G:0.07, T:0.28
Consensus pattern (13 bp):
TCAAAAGCACTTC
Found at i:8779187 original size:26 final size:26
Alignment explanation
Indices: 8779111--8779187 Score: 91
Period size: 26 Copynumber: 3.0 Consensus size: 26
8779101 ACATTCAAAA
* * *
8779111 TTTTCAAAAGTACTTCTCAAAAACAC
1 TTTTCAAAAGCACTTTTCAAAAGCAC
* * * *
8779137 TTCTCAAAAGCACTTTTCCACAGCAT
1 TTTTCAAAAGCACTTTTCAAAAGCAC
8779163 TTTTCAAAAGCACTTTTCAAAAGCA
1 TTTTCAAAAGCACTTTTCAAAAGCA
8779188 ATAAAGAACT
Statistics
Matches: 41, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
26 41 1.00
ACGTcount: A:0.38, C:0.25, G:0.06, T:0.31
Consensus pattern (26 bp):
TTTTCAAAAGCACTTTTCAAAAGCAC
Found at i:8783615 original size:27 final size:27
Alignment explanation
Indices: 8783585--8783643 Score: 100
Period size: 27 Copynumber: 2.2 Consensus size: 27
8783575 AGATCGTCAC
8783585 AAAGGCTTCCTTTTCATAGATAGCCAG
1 AAAGGCTTCCTTTTCATAGATAGCCAG
**
8783612 AAAGGCTTCCTTTTCATAGATTTCCAG
1 AAAGGCTTCCTTTTCATAGATAGCCAG
8783639 AAAGG
1 AAAGG
8783644 TTTTTTTTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.31, C:0.20, G:0.19, T:0.31
Consensus pattern (27 bp):
AAAGGCTTCCTTTTCATAGATAGCCAG
Found at i:8787701 original size:27 final size:27
Alignment explanation
Indices: 8787671--8787735 Score: 94
Period size: 27 Copynumber: 2.4 Consensus size: 27
8787661 TTTTTCACAC
* * *
8787671 TCAAGTCTTTGTTTTAAAATTATAATA
1 TCAAGTCTTTGTTTCAAAATCATAAAA
8787698 TCAAGTCTTTGTTTCAAAATCATAAAA
1 TCAAGTCTTTGTTTCAAAATCATAAAA
*
8787725 TAAAGTCTTTG
1 TCAAGTCTTTG
8787736 AGGGAAAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.37, C:0.11, G:0.09, T:0.43
Consensus pattern (27 bp):
TCAAGTCTTTGTTTCAAAATCATAAAA
Found at i:8789152 original size:22 final size:20
Alignment explanation
Indices: 8789102--8789154 Score: 56
Period size: 20 Copynumber: 2.5 Consensus size: 20
8789092 CTCAATTTAT
8789102 TCAACATAA-AAATCACAAAA
1 TCAACA-AATAAATCACAAAA
8789122 T-AACAAAATAAATCAACAAAA
1 TCAAC-AAATAAATC-ACAAAA
8789143 TGCAACAAATAA
1 T-CAACAAATAA
8789155 CATCTAATTT
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
19 5 0.18
20 7 0.25
21 7 0.25
22 6 0.21
23 3 0.11
ACGTcount: A:0.66, C:0.17, G:0.02, T:0.15
Consensus pattern (20 bp):
TCAACAAATAAATCACAAAA
Found at i:8805634 original size:25 final size:25
Alignment explanation
Indices: 8805613--8805663 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 25
8805603 TATGAGCTTC
8805613 CCAATTCATAGCTCGTGAGAGCATA
1 CCAATTCATAGCTCGTGAGAGCATA
**
8805638 CTGATTCATAGCTCGT-ATGAGCATA
1 CCAATTCATAGCTCGTGA-GAGCATA
8805663 C
1 C
8805664 ATGAATATGA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 1 0.04
25 22 0.96
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.27
Consensus pattern (25 bp):
CCAATTCATAGCTCGTGAGAGCATA
Found at i:8808501 original size:23 final size:24
Alignment explanation
Indices: 8808475--8808527 Score: 65
Period size: 26 Copynumber: 2.2 Consensus size: 24
8808465 CCAACACACC
8808475 AATAT-CGCAG-AGAAGCTGCTAGT
1 AATATGCGCAGTAG-AGCTGCTAGT
8808498 AATAATGGCGCAGTAGAGCTGCTAGT
1 AAT-AT-GCGCAGTAGAGCTGCTAGT
8808524 AATA
1 AATA
8808528 GTAACACAGC
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
23 3 0.12
24 2 0.08
25 1 0.04
26 18 0.69
27 2 0.08
ACGTcount: A:0.36, C:0.15, G:0.26, T:0.23
Consensus pattern (24 bp):
AATATGCGCAGTAGAGCTGCTAGT
Found at i:8808544 original size:26 final size:26
Alignment explanation
Indices: 8808515--8808582 Score: 118
Period size: 26 Copynumber: 2.6 Consensus size: 26
8808505 GCGCAGTAGA
*
8808515 GCTGCTAGTAATAGTAACACAGCAAG
1 GCTGCCAGTAATAGTAACACAGCAAG
8808541 GCTGCCAGTAATAGTAACACAGCAAG
1 GCTGCCAGTAATAGTAACACAGCAAG
*
8808567 GCTGCCAGTAACAGTA
1 GCTGCCAGTAATAGTA
8808583 TATGTGGCAA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 40 1.00
ACGTcount: A:0.37, C:0.22, G:0.24, T:0.18
Consensus pattern (26 bp):
GCTGCCAGTAATAGTAACACAGCAAG
Found at i:8808804 original size:27 final size:27
Alignment explanation
Indices: 8808757--8809088 Score: 294
Period size: 27 Copynumber: 12.3 Consensus size: 27
8808747 GGGTATAACA
* * *
8808757 GTCATTTTAACTTTTGAGGGTATTTCG
1 GTCATTTTACCCTTCGAGGGTATTTCG
* * *
8808784 GTCATTTTAACCTTCGGGGGTATTTCA
1 GTCATTTTACCCTTCGAGGGTATTTCG
*
8808811 GTTATTTTACCCTTC-AGGTGTATTTCG
1 GTCATTTTACCCTTCGAGG-GTATTTCG
* *
8808838 ATCATTTTACTCTTCGAGGGTATTTCG
1 GTCATTTTACCCTTCGAGGGTATTTCG
* * *
8808865 ATCATTTTACGCTTCGAGGGT-GTT-G
1 GTCATTTTACCCTTCGAGGGTATTTCG
* *
8808890 AATCATTTTACCCTTCGGGGGTATTTCG
1 -GTCATTTTACCCTTCGAGGGTATTTCG
*
8808918 ATCATTTTACCCTTCGCA-GGTATTTCG
1 GTCATTTTACCCTTCG-AGGGTATTTCG
* * * * *
8808945 GTTATTTTGCCATTCGAGGGTAATTCT
1 GTCATTTTACCCTTCGAGGGTATTTCG
* * * *
8808972 GTCATTTTATCTTTCGGGGGTATTTCA
1 GTCATTTTACCCTTCGAGGGTATTTCG
* * *
8808999 GTCATTTTATCCTTTGAGGGTATTTCA
1 GTCATTTTACCCTTCGAGGGTATTTCG
* * *
8809026 GTTATTATACCCTTTGAGGGTATTTCG
1 GTCATTTTACCCTTCGAGGGTATTTCG
* * * *
8809053 ATCATTTTACCCTTTGAGAGTATTTTG
1 GTCATTTTACCCTTCGAGGGTATTTCG
*
8809080 GGCATTTTA
1 GTCATTTTA
8809089 GGCCCATTAA
Statistics
Matches: 254, Mismatches: 44, Indels: 14
0.81 0.14 0.04
Matches are distributed among these distances:
25 1 0.00
26 24 0.09
27 225 0.89
28 4 0.02
ACGTcount: A:0.18, C:0.17, G:0.20, T:0.45
Consensus pattern (27 bp):
GTCATTTTACCCTTCGAGGGTATTTCG
Found at i:8811341 original size:22 final size:22
Alignment explanation
Indices: 8811316--8811360 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
8811306 CATATCCTCC
8811316 AATATTTGAATCACCCTCTCTG
1 AATATTTGAATCACCCTCTCTG
8811338 AATATTTGAATCACCCTCTCTG
1 AATATTTGAATCACCCTCTCTG
8811360 A
1 A
8811361 CTGACCATCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.29, C:0.27, G:0.09, T:0.36
Consensus pattern (22 bp):
AATATTTGAATCACCCTCTCTG
Found at i:8813733 original size:27 final size:27
Alignment explanation
Indices: 8813703--8813870 Score: 183
Period size: 27 Copynumber: 6.2 Consensus size: 27
8813693 TATAATAGTT
* *
8813703 ATTTTACACTTCGAGAGTATTTCGGTC
1 ATTTTACCCTTCGAGGGTATTTCGGTC
* *
8813730 ATTTAACCCTTCGGGGGTATTTCGGTC
1 ATTTTACCCTTCGAGGGTATTTCGGTC
* ** *
8813757 ATTTTACCATTCGAGGGTATTTTAGTT
1 ATTTTACCCTTCGAGGGTATTTCGGTC
* *
8813784 ATTTTACCCTTCGGGGGTATTTCGATC
1 ATTTTACCCTTCGAGGGTATTTCGGTC
* * *
8813811 ATTTTACCCTTTGAGGGTATTTCAGTG
1 ATTTTACCCTTCGAGGGTATTTCGGTC
* * *
8813838 AGTTTACCCTTTGAGGGTATTTTGGTC
1 ATTTTACCCTTCGAGGGTATTTCGGTC
*
8813865 TTTTTA
1 ATTTTA
8813871 GGCCCATTAC
Statistics
Matches: 114, Mismatches: 27, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 114 1.00
ACGTcount: A:0.18, C:0.17, G:0.21, T:0.44
Consensus pattern (27 bp):
ATTTTACCCTTCGAGGGTATTTCGGTC
Found at i:8813870 original size:81 final size:81
Alignment explanation
Indices: 8813698--8813860 Score: 218
Period size: 81 Copynumber: 2.0 Consensus size: 81
8813688 AGGGGTATAA
* * * *
8813698 TAGTTATTTTACACTTCGAGAGTATTTCGGTCATTTAACCCTTCGGGGGTATTTCGGTCATTTTA
1 TAGTTATTTTACACTTCGAGAGTATTTCGATCATTTAACCCTTCGAGGGTATTTCAGTCAGTTTA
8813763 CCATTCGAGGGTATTT
66 CCATTCGAGGGTATTT
* * * * * *
8813779 TAGTTATTTTACCCTTCGGGGGTATTTCGATCATTTTACCCTTTGAGGGTATTTCAGTGAGTTTA
1 TAGTTATTTTACACTTCGAGAGTATTTCGATCATTTAACCCTTCGAGGGTATTTCAGTCAGTTTA
* *
8813844 CCCTTTGAGGGTATTT
66 CCATTCGAGGGTATTT
8813860 T
1 T
8813861 GGTCTTTTTA
Statistics
Matches: 70, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
81 70 1.00
ACGTcount: A:0.18, C:0.17, G:0.21, T:0.44
Consensus pattern (81 bp):
TAGTTATTTTACACTTCGAGAGTATTTCGATCATTTAACCCTTCGAGGGTATTTCAGTCAGTTTA
CCATTCGAGGGTATTT
Found at i:8814642 original size:7 final size:7
Alignment explanation
Indices: 8814608--8814643 Score: 54
Period size: 7 Copynumber: 5.1 Consensus size: 7
8814598 GAGAGAGATG
*
8814608 GAAAGGG
1 GAAAGGA
*
8814615 GAAAGGG
1 GAAAGGA
8814622 GAAAGGA
1 GAAAGGA
8814629 GAAAGGA
1 GAAAGGA
8814636 GAAAGGA
1 GAAAGGA
8814643 G
1 G
8814644 GATTCAGCAG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
7 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (7 bp):
GAAAGGA
Found at i:8817919 original size:25 final size:24
Alignment explanation
Indices: 8817862--8817973 Score: 89
Period size: 25 Copynumber: 4.5 Consensus size: 24
8817852 CAGGCACACC
* *
8817862 ACAGTTCGTATGAGCTTCCTAATTT
1 ACAGCTCGTATGAGCTTCC-GATTT
** * *
8817887 GTAACTCGTATGAACTTTCCGATTT
1 ACAGCTCGTATGAGC-TTCCGATTT
*
8817912 ACAGCTCGTATGAGCTTCTTGATTT
1 ACAGCTCGTATGAGCTTC-CGATTT
* * *
8817937 ACAGCTTGTATGAGCCTCCCGATTC
1 ACAGCTCGTATGAG-CTTCCGATTT
*
8817962 ATAGCTCGTATG
1 ACAGCTCGTATG
8817974 GGCATACATG
Statistics
Matches: 67, Mismatches: 17, Indels: 6
0.74 0.19 0.07
Matches are distributed among these distances:
24 3 0.04
25 57 0.85
26 7 0.10
ACGTcount: A:0.22, C:0.22, G:0.19, T:0.37
Consensus pattern (24 bp):
ACAGCTCGTATGAGCTTCCGATTT
Found at i:8817948 original size:50 final size:50
Alignment explanation
Indices: 8817861--8817973 Score: 118
Period size: 50 Copynumber: 2.3 Consensus size: 50
8817851 GCAGGCACAC
* ** * *
8817861 CACAGTTCGTATGAGCTTCCTAATTTGTAACTCGTATGAACTTTCCGATT
1 CACAGCTCGTATGAGCTTCCTAATTTACAACTCGTATGAACCTCCCGATT
* * * * * *
8817911 TACAGCTCGTATGAGCTTCTTGATTTACAGCTTGTATGAGCCTCCCGATT
1 CACAGCTCGTATGAGCTTCCTAATTTACAACTCGTATGAACCTCCCGATT
*
8817961 CATAGCTCGTATG
1 CACAGCTCGTATG
8817974 GGCATACATG
Statistics
Matches: 50, Mismatches: 13, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.22, C:0.23, G:0.19, T:0.36
Consensus pattern (50 bp):
CACAGCTCGTATGAGCTTCCTAATTTACAACTCGTATGAACCTCCCGATT
Done.