Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A09
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: 77927517
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1491452 characters in sequence are not A, C, G, or T
File 26 of 250
Found at i:7486230 original size:30 final size:30
Alignment explanation
Indices: 7486194--7486256 Score: 117
Period size: 30 Copynumber: 2.1 Consensus size: 30
7486184 ACTTAACAAG
7486194 CAAATGTCTCTAAAATAATAACAAAATTAA
1 CAAATGTCTCTAAAATAATAACAAAATTAA
*
7486224 CAAATGTCTTTAAAATAATAACAAAATTAA
1 CAAATGTCTCTAAAATAATAACAAAATTAA
7486254 CAA
1 CAA
7486257 TAAAATAAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.57, C:0.13, G:0.03, T:0.27
Consensus pattern (30 bp):
CAAATGTCTCTAAAATAATAACAAAATTAA
Found at i:7494963 original size:23 final size:23
Alignment explanation
Indices: 7494937--7495030 Score: 125
Period size: 23 Copynumber: 4.1 Consensus size: 23
7494927 AAGTTAGAAG
7494937 AGTGAAGAGACTTGAATATGAAA
1 AGTGAAGAGACTTGAATATGAAA
* * *
7494960 AGTGAAAAAACTTGAATATGAAT
1 AGTGAAGAGACTTGAATATGAAA
* *
7494983 AGTGAAGAGACTTGAAGATCAAA
1 AGTGAAGAGACTTGAATATGAAA
* *
7495006 AGTTAAGAGGCTTGAATATGAAA
1 AGTGAAGAGACTTGAATATGAAA
7495029 AG
1 AG
7495031 ATACACACAT
Statistics
Matches: 59, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 59 1.00
ACGTcount: A:0.48, C:0.05, G:0.24, T:0.22
Consensus pattern (23 bp):
AGTGAAGAGACTTGAATATGAAA
Found at i:7499474 original size:23 final size:23
Alignment explanation
Indices: 7499448--7499541 Score: 125
Period size: 23 Copynumber: 4.1 Consensus size: 23
7499438 AAGTTAGAAG
7499448 AGTGAAGAGACTTGAATATGAAA
1 AGTGAAGAGACTTGAATATGAAA
* * *
7499471 AGTGAAAAAACTTGAATATGAAT
1 AGTGAAGAGACTTGAATATGAAA
* *
7499494 AGTGAAGAGACTTGAAGATCAAA
1 AGTGAAGAGACTTGAATATGAAA
* *
7499517 AGTTAAGAGGCTTGAATATGAAA
1 AGTGAAGAGACTTGAATATGAAA
7499540 AG
1 AG
7499542 ATACACACAT
Statistics
Matches: 59, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 59 1.00
ACGTcount: A:0.48, C:0.05, G:0.24, T:0.22
Consensus pattern (23 bp):
AGTGAAGAGACTTGAATATGAAA
Found at i:7501263 original size:36 final size:36
Alignment explanation
Indices: 7501223--7501337 Score: 140
Period size: 45 Copynumber: 2.9 Consensus size: 36
7501213 CTCAATTTAA
7501223 TCATGCATGTGTTCTATTCATTGAAAAGAAATTGAT
1 TCATGCATGTGTTCTATTCATTGAAAAGAAATTGAT
7501259 TCATGCATGTGTTCTATTCATTCTAGTCATTGAAAAGAAATTGAT
1 TCATGCATGTGTTC---T-A---T--TCATTGAAAAGAAATTGAT
*
7501304 TCATGCATGTGTTGTATTCATTGAAAAGAAATTG
1 TCATGCATGTGTTCTATTCATTGAAAAGAAATTG
7501338 GTATAAGTAT
Statistics
Matches: 69, Mismatches: 1, Indels: 18
0.78 0.01 0.20
Matches are distributed among these distances:
36 31 0.45
38 1 0.01
39 1 0.01
40 1 0.01
41 1 0.01
42 1 0.01
43 1 0.01
45 32 0.46
ACGTcount: A:0.32, C:0.11, G:0.17, T:0.39
Consensus pattern (36 bp):
TCATGCATGTGTTCTATTCATTGAAAAGAAATTGAT
Found at i:7501289 original size:45 final size:45
Alignment explanation
Indices: 7501234--7501325 Score: 166
Period size: 45 Copynumber: 2.0 Consensus size: 45
7501224 CATGCATGTG
*
7501234 TTCTATTCATTGAAAAGAAATTGATTCATGCATGTGTTCTATTCA
1 TTCTAGTCATTGAAAAGAAATTGATTCATGCATGTGTTCTATTCA
*
7501279 TTCTAGTCATTGAAAAGAAATTGATTCATGCATGTGTTGTATTCA
1 TTCTAGTCATTGAAAAGAAATTGATTCATGCATGTGTTCTATTCA
7501324 TT
1 TT
7501326 GAAAAGAAAT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.30, C:0.12, G:0.15, T:0.42
Consensus pattern (45 bp):
TTCTAGTCATTGAAAAGAAATTGATTCATGCATGTGTTCTATTCA
Found at i:7501970 original size:21 final size:22
Alignment explanation
Indices: 7501946--7501992 Score: 87
Period size: 21 Copynumber: 2.2 Consensus size: 22
7501936 ATTTGAATAG
7501946 TTCAAGCCATTGGCTTTTGTC-
1 TTCAAGCCATTGGCTTTTGTCA
7501967 TTCAAGCCATTGGCTTTTGTCA
1 TTCAAGCCATTGGCTTTTGTCA
7501989 TTCA
1 TTCA
7501993 TCTTTTAGCC
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 21 0.84
22 4 0.16
ACGTcount: A:0.17, C:0.23, G:0.17, T:0.43
Consensus pattern (22 bp):
TTCAAGCCATTGGCTTTTGTCA
Found at i:7506683 original size:13 final size:13
Alignment explanation
Indices: 7506665--7506689 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
7506655 AAAGTAAACG
7506665 TACACGGGCGTGC
1 TACACGGGCGTGC
7506678 TACACGGGCGTG
1 TACACGGGCGTG
7506690 TCCCTGCCGA
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:0.16, C:0.28, G:0.40, T:0.16
Consensus pattern (13 bp):
TACACGGGCGTGC
Found at i:7508290 original size:17 final size:18
Alignment explanation
Indices: 7508268--7508306 Score: 62
Period size: 17 Copynumber: 2.2 Consensus size: 18
7508258 TGCATACACA
7508268 AATTAATTCAG-CACATT
1 AATTAATTCAGACACATT
*
7508285 AATTAATTTAGACACATT
1 AATTAATTCAGACACATT
7508303 AATT
1 AATT
7508307 TTCGGCTGCT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 10 0.50
18 10 0.50
ACGTcount: A:0.44, C:0.13, G:0.05, T:0.38
Consensus pattern (18 bp):
AATTAATTCAGACACATT
Found at i:7513389 original size:18 final size:17
Alignment explanation
Indices: 7513352--7513390 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
7513342 TGCACACACA
7513352 AATTAATTCAACACATT
1 AATTAATTCAACACATT
* *
7513369 AATTAATTTAGACATATT
1 AATTAATTCA-ACACATT
7513387 AATT
1 AATT
7513391 TTCGGCTGCT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 9 0.47
18 10 0.53
ACGTcount: A:0.46, C:0.10, G:0.03, T:0.41
Consensus pattern (17 bp):
AATTAATTCAACACATT
Found at i:7514291 original size:20 final size:19
Alignment explanation
Indices: 7514250--7514292 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
7514240 TAATATTAAC
*
7514250 AATAATTAATAATTATAGA
1 AATAATTAATAATTAAAGA
* *
7514269 AATAATTTAATATTTAAATA
1 AATAA-TTAATAATTAAAGA
7514289 AATA
1 AATA
7514293 TCTATTTATT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 5 0.25
20 15 0.75
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (19 bp):
AATAATTAATAATTAAAGA
Found at i:7527877 original size:15 final size:17
Alignment explanation
Indices: 7527857--7527898 Score: 52
Period size: 15 Copynumber: 2.5 Consensus size: 17
7527847 AAGTAATGAT
7527857 TATTAT-TAATATT-TA
1 TATTATATAATATTATA
*
7527872 TATTATATTATATTATA
1 TATTATATAATATTATA
7527889 TATATATATA
1 TAT-TATATA
7527899 TGACAAAGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
15 6 0.27
16 6 0.27
17 5 0.23
18 5 0.23
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (17 bp):
TATTATATAATATTATA
Found at i:7527998 original size:39 final size:40
Alignment explanation
Indices: 7527908--7528001 Score: 138
Period size: 40 Copynumber: 2.4 Consensus size: 40
7527898 ATGACAAAGA
7527908 AAGAAAGAAAAGAAACAGAGAGCAAAACAAAACAGAGAAGG
1 AAGAAAG-AAAGAAACAGAGAGCAAAACAAAACAGAGAAGG
*
7527949 GAGAAAGAAAGAAACAGAGAGCAAAAC-AAACAGA-AAGG
1 AAGAAAGAAAGAAACAGAGAGCAAAACAAAACAGAGAAGG
*
7527987 AAGGAAGGAAAGAAA
1 AA-GAAAGAAAGAAA
7528002 GAAAGAAAAG
Statistics
Matches: 49, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
38 5 0.10
39 18 0.37
40 20 0.41
41 6 0.12
ACGTcount: A:0.65, C:0.09, G:0.27, T:0.00
Consensus pattern (40 bp):
AAGAAAGAAAGAAACAGAGAGCAAAACAAAACAGAGAAGG
Found at i:7529215 original size:37 final size:38
Alignment explanation
Indices: 7529115--7529215 Score: 87
Period size: 37 Copynumber: 2.6 Consensus size: 38
7529105 GACCTTGAGT
* **
7529115 CGATGAGACACTGGATGTCATACTATTACTTCGGATAGATT
1 CGATGAGACACTGGGTGTCA-AC--TTACTTCGGATAGAGC
** ** * *
7529156 CGATGAGGTACTGGGTACCAACTTACTTCGGCTTG-GC
1 CGATGAGACACTGGGTGTCAACTTACTTCGGATAGAGC
7529193 CGATGAGACACTGGGTGTCAACT
1 CGATGAGACACTGGGTGTCAACT
7529216 ATTGCTTCGA
Statistics
Matches: 47, Mismatches: 13, Indels: 4
0.73 0.20 0.06
Matches are distributed among these distances:
37 19 0.40
38 11 0.23
40 2 0.04
41 15 0.32
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.28
Consensus pattern (38 bp):
CGATGAGACACTGGGTGTCAACTTACTTCGGATAGAGC
Found at i:7532538 original size:13 final size:13
Alignment explanation
Indices: 7532520--7532544 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
7532510 TTGGATCACA
7532520 TGCCCATGTGTGT
1 TGCCCATGTGTGT
7532533 TGCCCATGTGTG
1 TGCCCATGTGTG
7532545 ACACACACCT
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:0.08, C:0.24, G:0.32, T:0.36
Consensus pattern (13 bp):
TGCCCATGTGTGT
Found at i:7538475 original size:16 final size:16
Alignment explanation
Indices: 7538454--7538484 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
7538444 ATCCCAATTA
7538454 TTAAAAATAATTTTAT
1 TTAAAAATAATTTTAT
*
7538470 TTAAAAATATTTTTA
1 TTAAAAATAATTTTA
7538485 AAAATATTAT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
TTAAAAATAATTTTAT
Found at i:7545160 original size:3 final size:3
Alignment explanation
Indices: 7545142--7545190 Score: 75
Period size: 3 Copynumber: 16.7 Consensus size: 3
7545132 TCATAATACA
7545142 ATT ATT -TT ACTT ATT ATT ATT ATT A-T ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
7545186 ATT AT
1 ATT AT
7545191 AAGAGTGAAA
Statistics
Matches: 43, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
2 4 0.09
3 36 0.84
4 3 0.07
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:7546199 original size:6 final size:6
Alignment explanation
Indices: 7546188--7546241 Score: 99
Period size: 6 Copynumber: 9.0 Consensus size: 6
7546178 ATATATACAC
*
7546188 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ACGTAT ATGTAT
1 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
7546236 ATGTAT
1 ATGTAT
7546242 CAGTTTATGC
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 46 1.00
ACGTcount: A:0.33, C:0.02, G:0.17, T:0.48
Consensus pattern (6 bp):
ATGTAT
Found at i:7549168 original size:17 final size:17
Alignment explanation
Indices: 7549133--7549169 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
7549123 TGTGGCGAGA
* *
7549133 AAATAAAATAATAAGAT
1 AAATAAAATAAAAAAAT
7549150 AAATAAAATAAAAAAAT
1 AAATAAAATAAAAAAAT
7549167 AAA
1 AAA
7549170 GACTTTACAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.78, C:0.00, G:0.03, T:0.19
Consensus pattern (17 bp):
AAATAAAATAAAAAAAT
Found at i:7549832 original size:17 final size:17
Alignment explanation
Indices: 7549807--7549841 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
7549797 TTCGATTTGG
*
7549807 TTAAATCAATTTTGATT
1 TTAAATCAATTTTAATT
*
7549824 TTAAGTCAATTTTAATT
1 TTAAATCAATTTTAATT
7549841 T
1 T
7549842 AGTTAAATTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.34, C:0.06, G:0.06, T:0.54
Consensus pattern (17 bp):
TTAAATCAATTTTAATT
Found at i:7550435 original size:48 final size:48
Alignment explanation
Indices: 7550407--7550509 Score: 188
Period size: 48 Copynumber: 2.1 Consensus size: 48
7550397 GTGGCTGAGT
*
7550407 TGGTGGTGTAGGTGCTGTTGGTTCATATGGGAGACTAGGAGCCATGAC
1 TGGTGGTGTAGGAGCTGTTGGTTCATATGGGAGACTAGGAGCCATGAC
*
7550455 TGGTGGTGTAGGAGCTGTTGGTTCATGTGGGAGACTAGGAGCCATGAC
1 TGGTGGTGTAGGAGCTGTTGGTTCATATGGGAGACTAGGAGCCATGAC
7550503 TGGTGGT
1 TGGTGGT
7550510 TCATATGGAG
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 53 1.00
ACGTcount: A:0.17, C:0.12, G:0.42, T:0.29
Consensus pattern (48 bp):
TGGTGGTGTAGGAGCTGTTGGTTCATATGGGAGACTAGGAGCCATGAC
Found at i:7550524 original size:33 final size:33
Alignment explanation
Indices: 7550473--7550542 Score: 97
Period size: 33 Copynumber: 2.1 Consensus size: 33
7550463 TAGGAGCTGT
* *
7550473 TGGTTCATGTGGGAGACTAGGAGCCATGACTGG
1 TGGTTCATATGGGAGACTAGGAACCATGACTGG
*
7550506 TGGTTCATAT-GGAGGACTAGGAACCTTGACTGG
1 TGGTTCATATGGGA-GACTAGGAACCATGACTGG
7550539 TGGT
1 TGGT
7550543 GGAGCTGGTG
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
32 3 0.09
33 30 0.91
ACGTcount: A:0.21, C:0.14, G:0.37, T:0.27
Consensus pattern (33 bp):
TGGTTCATATGGGAGACTAGGAACCATGACTGG
Found at i:7551598 original size:19 final size:19
Alignment explanation
Indices: 7551575--7551613 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
7551565 AATTTATTAA
7551575 AAAAATAAATTTTGAATTTT
1 AAAAAT-AATTTTGAATTTT
*
7551595 AAAAATTATTTTGAATTTT
1 AAAAATAATTTTGAATTTT
7551614 TTTGTAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (19 bp):
AAAAATAATTTTGAATTTT
Found at i:7554450 original size:16 final size:16
Alignment explanation
Indices: 7554429--7554462 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
7554419 AATATGATTC
*
7554429 TGTGTATTGTGATATA
1 TGTGTAATGTGATATA
7554445 TGTGTAATGTGATATA
1 TGTGTAATGTGATATA
7554461 TG
1 TG
7554463 CCTAAACGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.26, C:0.00, G:0.26, T:0.47
Consensus pattern (16 bp):
TGTGTAATGTGATATA
Found at i:7556479 original size:17 final size:18
Alignment explanation
Indices: 7556459--7556493 Score: 63
Period size: 17 Copynumber: 2.0 Consensus size: 18
7556449 CTAATTGCTA
7556459 TAAGTGTAT-AATATATT
1 TAAGTGTATAAATATATT
7556476 TAAGTGTATAAATATATT
1 TAAGTGTATAAATATATT
7556494 GACTTGTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 9 0.53
18 8 0.47
ACGTcount: A:0.43, C:0.00, G:0.11, T:0.46
Consensus pattern (18 bp):
TAAGTGTATAAATATATT
Found at i:7557980 original size:15 final size:15
Alignment explanation
Indices: 7557960--7557996 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
7557950 TTGGTAAAAC
7557960 TGTTGGTATAGA-TTT
1 TGTTGGTA-AGAGTTT
7557975 TGTTGGTAAGAGTTT
1 TGTTGGTAAGAGTTT
7557990 TGTTGGT
1 TGTTGGT
7557997 TTTGATTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 3 0.14
15 18 0.86
ACGTcount: A:0.16, C:0.00, G:0.32, T:0.51
Consensus pattern (15 bp):
TGTTGGTAAGAGTTT
Found at i:7558028 original size:18 final size:19
Alignment explanation
Indices: 7557991--7558028 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
7557981 TAAGAGTTTT
*
7557991 GTTGGTTTTGATTTTATGG
1 GTTGGTTTAGATTTTATGG
*
7558010 GTTGGTTTAG-TTTTGTGG
1 GTTGGTTTAGATTTTATGG
7558028 G
1 G
7558029 GAATATTGCT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.08, C:0.00, G:0.37, T:0.55
Consensus pattern (19 bp):
GTTGGTTTAGATTTTATGG
Found at i:7565467 original size:10 final size:9
Alignment explanation
Indices: 7565414--7565474 Score: 65
Period size: 9 Copynumber: 7.0 Consensus size: 9
7565404 ATATCAAAAA
7565414 TATAATTTT
1 TATAATTTT
*
7565423 AATAA-TTT
1 TATAATTTT
7565431 TA-AATTTT
1 TATAATTTT
* *
7565439 TAAAAAGTTT
1 T-ATAATTTT
7565449 TATAATTTT
1 TATAATTTT
7565458 TATAATTTT
1 TATAATTTT
7565467 T-TAATTTT
1 TATAATTTT
7565475 GAAAAATTAA
Statistics
Matches: 44, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
7 2 0.05
8 15 0.34
9 21 0.48
10 6 0.14
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.61
Consensus pattern (9 bp):
TATAATTTT
Found at i:7565471 original size:17 final size:17
Alignment explanation
Indices: 7565416--7565474 Score: 57
Period size: 17 Copynumber: 3.4 Consensus size: 17
7565406 ATCAAAAATA
*
7565416 TAATTTTAATAA-TTTT
1 TAATTTTTATAATTTTT
* * *
7565432 AAATTTTTAAAAAGTTTTA
1 TAATTTTT-ATAA-TTTTT
7565451 TAATTTTTATAATTTTT
1 TAATTTTTATAATTTTT
7565468 TAATTTT
1 TAATTTT
7565475 GAAAAATTAA
Statistics
Matches: 33, Mismatches: 7, Indels: 5
0.73 0.16 0.11
Matches are distributed among these distances:
16 6 0.18
17 14 0.42
18 3 0.09
19 10 0.30
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (17 bp):
TAATTTTTATAATTTTT
Found at i:7567206 original size:13 final size:13
Alignment explanation
Indices: 7567188--7567214 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
7567178 GCTCGGCAGG
7567188 GACACGCCCGTGT
1 GACACGCCCGTGT
7567201 GACACGCCCGTGT
1 GACACGCCCGTGT
7567214 G
1 G
7567215 TAATTACTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.37, G:0.33, T:0.15
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:7571166 original size:5 final size:5
Alignment explanation
Indices: 7571158--7571196 Score: 53
Period size: 5 Copynumber: 7.8 Consensus size: 5
7571148 GTTTATAAAG
*
7571158 AAAAT AAAAT AAACA- AATAT AAAAT AAAAT AAAAT AAAA
1 AAAAT AAAAT AAA-AT AAAAT AAAAT AAAAT AAAAT AAAA
7571197 ATAGAATTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
4 1 0.03
5 28 0.93
6 1 0.03
ACGTcount: A:0.79, C:0.03, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:7571181 original size:15 final size:14
Alignment explanation
Indices: 7571152--7571196 Score: 54
Period size: 15 Copynumber: 3.1 Consensus size: 14
7571142 AATTTAGTTT
*
7571152 ATAAAGAAAATAAA
1 ATAAACAAAATAAA
7571166 ATAAACAAATATAAA
1 ATAAACAAA-ATAAA
*
7571181 ATAAAATAAAATAAA
1 AT-AAACAAAATAAA
7571196 A
1 A
7571197 ATAGAATTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
14 8 0.30
15 13 0.48
16 6 0.22
ACGTcount: A:0.78, C:0.02, G:0.02, T:0.18
Consensus pattern (14 bp):
ATAAACAAAATAAA
Found at i:7579720 original size:31 final size:31
Alignment explanation
Indices: 7579682--7579740 Score: 109
Period size: 31 Copynumber: 1.9 Consensus size: 31
7579672 ACATACATAC
*
7579682 GTATCTCATAAGTTGTATGGCATGCATATAT
1 GTATCTCATAACTTGTATGGCATGCATATAT
7579713 GTATCTCATAACTTGTATGGCATGCATA
1 GTATCTCATAACTTGTATGGCATGCATA
7579741 CCCCAAACAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.29, C:0.15, G:0.19, T:0.37
Consensus pattern (31 bp):
GTATCTCATAACTTGTATGGCATGCATATAT
Found at i:7587691 original size:29 final size:30
Alignment explanation
Indices: 7587648--7587730 Score: 91
Period size: 29 Copynumber: 2.8 Consensus size: 30
7587638 AAAATTTCAA
*
7587648 AAAAAATATAAAAATTATTTTTAAAAAT-T
1 AAAAATTATAAAAATTATTTTTAAAAATAT
* * *
7587677 TAAAATTATTAAAATTA--TTTGAAAATAT
1 AAAAATTATAAAAATTATTTTTAAAAATAT
7587705 AAAAATTATAAAAATATATCTTTTAA
1 AAAAATTATAAAAAT-TAT-TTTTAA
7587731 TAGTTTTAAA
Statistics
Matches: 42, Mismatches: 7, Indels: 7
0.75 0.12 0.12
Matches are distributed among these distances:
27 8 0.19
28 14 0.33
29 16 0.38
32 4 0.10
ACGTcount: A:0.58, C:0.01, G:0.01, T:0.40
Consensus pattern (30 bp):
AAAAATTATAAAAATTATTTTTAAAAATAT
Found at i:7587709 original size:19 final size:19
Alignment explanation
Indices: 7587674--7587713 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
7587664 ATTTTTAAAA
*
7587674 ATTTAAAATTATTAAAATT
1 ATTTAAAATTATAAAAATT
7587693 ATTTGAAAA-TATAAAAATT
1 ATTT-AAAATTATAAAAATT
7587712 AT
1 AT
7587714 AAAAATATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 15 0.79
20 4 0.21
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (19 bp):
ATTTAAAATTATAAAAATT
Found at i:7590490 original size:14 final size:14
Alignment explanation
Indices: 7590473--7590503 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
7590463 CTCAAAATAC
7590473 TTTTCTTTTCTTTT
1 TTTTCTTTTCTTTT
*
7590487 TTTTTTTTTCTTTT
1 TTTTCTTTTCTTTT
7590501 TTT
1 TTT
7590504 CACTTTTTGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (14 bp):
TTTTCTTTTCTTTT
Found at i:7595957 original size:16 final size:16
Alignment explanation
Indices: 7595936--7595994 Score: 57
Period size: 16 Copynumber: 3.7 Consensus size: 16
7595926 TTAATCTCTT
7595936 TAATATTAAATTAATA
1 TAATATTAAATTAATA
** *
7595952 TAATATTTATCTTGATA
1 TAATA-TTAAATTAATA
* *
7595969 -AATATTATATTAATT
1 TAATATTAAATTAATA
7595984 TAATATTAAAT
1 TAATATTAAAT
7595995 CTTATTAAAA
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
15 8 0.24
16 18 0.53
17 8 0.24
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (16 bp):
TAATATTAAATTAATA
Found at i:7596584 original size:19 final size:19
Alignment explanation
Indices: 7596551--7596590 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
7596541 AAAATATTAT
*
7596551 ATTAATTTTAATTTATTTG
1 ATTAATTTTAATTTACTTG
7596570 ATTAA-TTTAATTTTACTTG
1 ATTAATTTTAA-TTTACTTG
7596589 AT
1 AT
7596591 CAAAATTAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 5 0.26
19 14 0.74
ACGTcount: A:0.33, C:0.03, G:0.05, T:0.60
Consensus pattern (19 bp):
ATTAATTTTAATTTACTTG
Found at i:7601980 original size:32 final size:31
Alignment explanation
Indices: 7601903--7601980 Score: 84
Period size: 32 Copynumber: 2.4 Consensus size: 31
7601893 TGCATTTAGT
* *
7601903 ATTAAATTAGTTTATTTAAATTAATATTTTTA
1 ATTAAATTA-TTAATGTAAATTAATATTTTTA
* *
7601935 ATTACAGTAATTAATGTAAATTAATATTTCTTA
1 ATTA-AATTATTAATGTAAATTAATATTT-TTA
*
7601968 TTTAAATTATTAA
1 ATTAAATTATTAA
7601981 ATATAATTAA
Statistics
Matches: 37, Mismatches: 7, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
32 28 0.76
33 9 0.24
ACGTcount: A:0.42, C:0.03, G:0.04, T:0.51
Consensus pattern (31 bp):
ATTAAATTATTAATGTAAATTAATATTTTTA
Found at i:7602252 original size:19 final size:19
Alignment explanation
Indices: 7602207--7602256 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 19
7602197 TTATTTTAAC
7602207 TTTTT-AAT-TAATAATTA
1 TTTTTAAATATAATAATTA
**
7602224 TAAATTAAATATAATAATTA
1 T-TTTTAAATATAATAATTA
7602244 TTTTTAAATATAA
1 TTTTTAAATATAA
7602257 ATTTAATAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
17 1 0.04
18 2 0.08
19 13 0.50
20 10 0.38
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (19 bp):
TTTTTAAATATAATAATTA
Found at i:7613559 original size:30 final size:30
Alignment explanation
Indices: 7613504--7613560 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
7613494 ACCTAAACTA
* *
7613504 TTTTTATCAGTTTGGACCTTGTACTTTCTT
1 TTTTTATCAGTTTGGACCGTATACTTTCTT
* *
7613534 TTTTTATTAGTTTGGCCCGTATACTTT
1 TTTTTATCAGTTTGGACCGTATACTTT
7613561 AATTCTATAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.14, C:0.16, G:0.14, T:0.56
Consensus pattern (30 bp):
TTTTTATCAGTTTGGACCGTATACTTTCTT
Found at i:7614611 original size:14 final size:14
Alignment explanation
Indices: 7614583--7614619 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
7614573 ATTGATATTT
7614583 ATAATTT-TTTT-A
1 ATAATTTATTTTAA
*
7614595 ATATTTTATTTTAA
1 ATAATTTATTTTAA
7614609 ATAATTTATTT
1 ATAATTTATTT
7614620 GTTTTGATCC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
12 6 0.29
13 4 0.19
14 11 0.52
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (14 bp):
ATAATTTATTTTAA
Found at i:7614838 original size:20 final size:19
Alignment explanation
Indices: 7614808--7614852 Score: 56
Period size: 18 Copynumber: 2.3 Consensus size: 19
7614798 GATAACATTA
*
7614808 ATTTTTGAAAATTTATTTTAT
1 ATTTTTGAAAA-TCATTTT-T
7614829 ATTTTT-AAAATCATTTTT
1 ATTTTTGAAAATCATTTTT
7614847 ATTTTT
1 ATTTTT
7614853 TGAATTTTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
18 7 0.30
19 6 0.26
20 4 0.17
21 6 0.26
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.64
Consensus pattern (19 bp):
ATTTTTGAAAATCATTTTT
Found at i:7623062 original size:16 final size:16
Alignment explanation
Indices: 7623030--7623080 Score: 54
Period size: 16 Copynumber: 3.2 Consensus size: 16
7623020 TTGTGCATGT
7623030 ATTATATTTTAAAAAA
1 ATTATATTTTAAAAAA
7623046 ATTAT-TTTTAAATAAA
1 ATTATATTTTAAA-AAA
*
7623062 AGTTA-A-TCTAAAAAA
1 A-TTATATTTTAAAAAA
7623077 ATTA
1 ATTA
7623081 ATTATTAGCA
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
14 3 0.10
15 11 0.35
16 14 0.45
17 3 0.10
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.41
Consensus pattern (16 bp):
ATTATATTTTAAAAAA
Found at i:7625248 original size:30 final size:30
Alignment explanation
Indices: 7625214--7625273 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
7625204 ACTTAACAAG
*
7625214 CAAATACCTCTAAAATAATAATAAAATTAA
1 CAAATACCTCTAAAATAATAACAAAATTAA
* *
7625244 CAAATGCCTTTAAAATAATAACAAAATTAA
1 CAAATACCTCTAAAATAATAACAAAATTAA
7625274 TAATAAAATA
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:0.58, C:0.13, G:0.02, T:0.27
Consensus pattern (30 bp):
CAAATACCTCTAAAATAATAACAAAATTAA
Found at i:7626608 original size:21 final size:21
Alignment explanation
Indices: 7626579--7626619 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
7626569 TAAAAATATA
*
7626579 TTATTTTAT-ATTAATATTTAT
1 TTATCTTATAATTAA-ATTTAT
7626600 TTATCTTATAATTAAATTTA
1 TTATCTTATAATTAAATTTA
7626620 AAAGAAATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (21 bp):
TTATCTTATAATTAAATTTAT
Found at i:7628020 original size:44 final size:45
Alignment explanation
Indices: 7627972--7628058 Score: 140
Period size: 46 Copynumber: 1.9 Consensus size: 45
7627962 ATGAATTATT
*
7627972 CTGTCTCCAATGCCATA-TATAATATGGACTTACATGGCTCAATC
1 CTGTCTCCAAAGCCATATTATAATATGGACTTACATGGCTCAATC
*
7628016 CTGTCTCCAAAGCCATATTTCTAATATGGACTTACATGGCTCA
1 CTGTCTCCAAAGCCATA-TTATAATATGGACTTACATGGCTCA
7628059 TTTCTATTCT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
44 16 0.41
46 23 0.59
ACGTcount: A:0.29, C:0.25, G:0.14, T:0.32
Consensus pattern (45 bp):
CTGTCTCCAAAGCCATATTATAATATGGACTTACATGGCTCAATC
Found at i:7634797 original size:11 final size:11
Alignment explanation
Indices: 7634781--7634806 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
7634771 CAAATGACAA
7634781 GATTGTGATAG
1 GATTGTGATAG
7634792 GATTGTGATAG
1 GATTGTGATAG
7634803 GATT
1 GATT
7634807 TCAGAAGCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.27, C:0.00, G:0.35, T:0.38
Consensus pattern (11 bp):
GATTGTGATAG
Found at i:7635512 original size:17 final size:17
Alignment explanation
Indices: 7635471--7635519 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 17
7635461 TATTATATAT
* *
7635471 TTTATATAATAATTAAA
1 TTTAAATAATTATTAAA
*
7635488 TTTAAATAATTATTAAC
1 TTTAAATAATTATTAAA
* *
7635505 TTTGAATATTTATTA
1 TTTAAATAATTATTA
7635520 TACATATATA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (17 bp):
TTTAAATAATTATTAAA
Found at i:7646641 original size:34 final size:34
Alignment explanation
Indices: 7646550--7646641 Score: 166
Period size: 34 Copynumber: 2.7 Consensus size: 34
7646540 GTATCAGTTT
* *
7646550 GGCCTTAGCCCATCTCAGTAATAATAAGCATTAG
1 GGCCTTAGCCCATCTCAGTAACAGTAAGCATTAG
7646584 GGCCTTAGCCCATCTCAGTAACAGTAAGCATTAG
1 GGCCTTAGCCCATCTCAGTAACAGTAAGCATTAG
7646618 GGCCTTAGCCCATCTCAGTAACAG
1 GGCCTTAGCCCATCTCAGTAACAG
7646642 ATATGAAGAT
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 56 1.00
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.24
Consensus pattern (34 bp):
GGCCTTAGCCCATCTCAGTAACAGTAAGCATTAG
Found at i:7661016 original size:25 final size:26
Alignment explanation
Indices: 7660937--7661017 Score: 71
Period size: 25 Copynumber: 3.2 Consensus size: 26
7660927 TCCGTAAAAC
*
7660937 AGAAGAAGCAAATGAAA-TAAAAA-TG
1 AGAAGAA-CAAATAAAAGTAAAAATTG
* * *
7660962 AAAAGAACAAA-AAAAGATGAACAATGG
1 AGAAGAACAAATAAAAG-T-AAAAATTG
7660989 AGAAGAA-AAATAAAAGTAAAAATTG
1 AGAAGAACAAATAAAAGTAAAAATTG
7661014 AGAA
1 AGAA
7661018 CGTGAAACTT
Statistics
Matches: 44, Mismatches: 7, Indels: 10
0.72 0.11 0.16
Matches are distributed among these distances:
23 3 0.07
24 4 0.09
25 17 0.39
26 8 0.18
27 12 0.27
ACGTcount: A:0.67, C:0.04, G:0.19, T:0.11
Consensus pattern (26 bp):
AGAAGAACAAATAAAAGTAAAAATTG
Found at i:7661680 original size:16 final size:16
Alignment explanation
Indices: 7661636--7661680 Score: 63
Period size: 16 Copynumber: 2.8 Consensus size: 16
7661626 TTATTTTTCT
*
7661636 TATATATTCTTTTATA
1 TATATATTCTATTATA
* *
7661652 TATATATTTTATTATG
1 TATATATTCTATTATA
7661668 TATATATTCTATT
1 TATATATTCTATT
7661681 TTTTTACTAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.62
Consensus pattern (16 bp):
TATATATTCTATTATA
Found at i:7664943 original size:17 final size:18
Alignment explanation
Indices: 7664923--7664961 Score: 62
Period size: 17 Copynumber: 2.2 Consensus size: 18
7664913 AAAATAATAA
*
7664923 TAAAATAATAATAG-AAT
1 TAAAATAAAAATAGAAAT
7664940 TAAAATAAAAATAGAAAT
1 TAAAATAAAAATAGAAAT
7664958 TAAA
1 TAAA
7664962 GATTTCAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 13 0.65
18 7 0.35
ACGTcount: A:0.69, C:0.00, G:0.05, T:0.26
Consensus pattern (18 bp):
TAAAATAAAAATAGAAAT
Found at i:7669544 original size:27 final size:27
Alignment explanation
Indices: 7669514--7669583 Score: 68
Period size: 27 Copynumber: 2.6 Consensus size: 27
7669504 ATTGAATAGT
* **
7669514 TATAATTTTTTATTAAAAATCAAGTGA
1 TATAATTTTTTATTAAAAACCAAAAGA
** ** *
7669541 TATAACCTTTTACCAATAACCAAAAGA
1 TATAATTTTTTATTAAAAACCAAAAGA
7669568 TATAATTTTTTATTAA
1 TATAATTTTTTATTAA
7669584 TCACATCTTT
Statistics
Matches: 31, Mismatches: 12, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.44, C:0.10, G:0.04, T:0.41
Consensus pattern (27 bp):
TATAATTTTTTATTAAAAACCAAAAGA
Found at i:7680417 original size:12 final size:12
Alignment explanation
Indices: 7680400--7680425 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
7680390 AATGCTTTAT
7680400 GTTATCTAGTAA
1 GTTATCTAGTAA
7680412 GTTATCTAGTAA
1 GTTATCTAGTAA
7680424 GT
1 GT
7680426 GATAATTGTT
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:0.31, C:0.08, G:0.19, T:0.42
Consensus pattern (12 bp):
GTTATCTAGTAA
Found at i:7681361 original size:6 final size:6
Alignment explanation
Indices: 7681352--7681392 Score: 82
Period size: 6 Copynumber: 6.8 Consensus size: 6
7681342 TATATATATC
7681352 TTTGTA TTTGTA TTTGTA TTTGTA TTTGTA TTTGTA TTTGT
1 TTTGTA TTTGTA TTTGTA TTTGTA TTTGTA TTTGTA TTTGT
7681393 TGCAATGACG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 35 1.00
ACGTcount: A:0.15, C:0.00, G:0.17, T:0.68
Consensus pattern (6 bp):
TTTGTA
Found at i:7681723 original size:26 final size:26
Alignment explanation
Indices: 7681694--7681746 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
7681684 TAGTGATTTG
*
7681694 TTTTATATTCTAATTTTAATTTCTTA
1 TTTTATATTCTAATGTTAATTTCTTA
*
7681720 TTTTATATTCTGATGTTAATTTCTTA
1 TTTTATATTCTAATGTTAATTTCTTA
7681746 T
1 T
7681747 GTCCCATGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.25, C:0.08, G:0.04, T:0.64
Consensus pattern (26 bp):
TTTTATATTCTAATGTTAATTTCTTA
Found at i:7683807 original size:35 final size:35
Alignment explanation
Indices: 7683749--7683843 Score: 95
Period size: 35 Copynumber: 2.7 Consensus size: 35
7683739 ATAAATTTAG
* **
7683749 TATAAATACAATTTAATTTATATTTT-ATTATTTGAT
1 TATAAATATAATTTAA-AAATATTTTGA-TATTTGAT
* *
7683785 T-TAAATATAATTTGTAAAATATTTTGATATTTTAT
1 TATAAATATAATTT-AAAAATATTTTGATATTTGAT
*
7683820 TATGAATATAATTTAAAAATATTT
1 TATAAATATAATTTAAAAATATTT
7683844 AAATATTATT
Statistics
Matches: 49, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
35 35 0.71
36 14 0.29
ACGTcount: A:0.42, C:0.01, G:0.04, T:0.53
Consensus pattern (35 bp):
TATAAATATAATTTAAAAATATTTTGATATTTGAT
Found at i:7684063 original size:21 final size:21
Alignment explanation
Indices: 7684039--7684091 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
7684029 CATTGTTTCT
*
7684039 AATCTCACCGCTATAGTATCC
1 AATCTCACCGCTATAGTAACC
* *
7684060 AATCTCACCACTATAGTAACT
1 AATCTCACCGCTATAGTAACC
7684081 AATCTCACCGC
1 AATCTCACCGC
7684092 CACCGCTGTT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.32, C:0.34, G:0.08, T:0.26
Consensus pattern (21 bp):
AATCTCACCGCTATAGTAACC
Found at i:7685738 original size:24 final size:25
Alignment explanation
Indices: 7685703--7685756 Score: 108
Period size: 25 Copynumber: 2.2 Consensus size: 25
7685693 AAAAATTGTA
7685703 GTAAAAATTTTTTAAGGAATAAACT
1 GTAAAAATTTTTTAAGGAATAAACT
7685728 GTAAAAATTTTTTAAGGAATAAACT
1 GTAAAAATTTTTTAAGGAATAAACT
7685753 GTAA
1 GTAA
7685757 TTTTATTATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.48, C:0.04, G:0.13, T:0.35
Consensus pattern (25 bp):
GTAAAAATTTTTTAAGGAATAAACT
Found at i:7688494 original size:10 final size:10
Alignment explanation
Indices: 7688475--7688506 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
7688465 TATTAGGATT
7688475 TTAT-TTTAA
1 TTATCTTTAA
7688484 TTATCTTTAA
1 TTATCTTTAA
7688494 TTATCTTTAA
1 TTATCTTTAA
7688504 TTA
1 TTA
7688507 AATGTATTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 4 0.18
10 18 0.82
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.62
Consensus pattern (10 bp):
TTATCTTTAA
Found at i:7691528 original size:5 final size:5
Alignment explanation
Indices: 7691507--7691580 Score: 82
Period size: 5 Copynumber: 14.4 Consensus size: 5
7691497 GCAACCTAAT
7691507 TTTTA CTTTTAA TTTTA TTTTA TTTTA TTTTTA TTTTTA CTTTTA -TTTA
1 TTTTA -TTTT-A TTTTA TTTTA TTTTA -TTTTA -TTTTA -TTTTA TTTTA
7691556 TTTTA TTTTA --TTA TTTTA TTTTA TT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TT
7691581 CAGATATTAA
Statistics
Matches: 62, Mismatches: 1, Indels: 11
0.84 0.01 0.15
Matches are distributed among these distances:
3 3 0.05
4 4 0.06
5 30 0.48
6 24 0.39
7 1 0.02
ACGTcount: A:0.20, C:0.03, G:0.00, T:0.77
Consensus pattern (5 bp):
TTTTA
Found at i:7691538 original size:22 final size:22
Alignment explanation
Indices: 7691507--7691580 Score: 89
Period size: 22 Copynumber: 3.3 Consensus size: 22
7691497 GCAACCTAAT
* *
7691507 TTTTACTTTTAATTTTATTTTA
1 TTTTATTTTTATTTTTATTTTA
7691529 TTTTATTTTTATTTTTACTTTTA
1 TTTTATTTTTATTTTTA-TTTTA
7691552 -TTTA-TTTTATTTTATTATTTTA
1 TTTTATTTTTA-TTT-TTATTTTA
7691574 TTTTATT
1 TTTTATT
7691581 CAGATATTAA
Statistics
Matches: 45, Mismatches: 2, Indels: 8
0.82 0.04 0.15
Matches are distributed among these distances:
21 5 0.11
22 27 0.60
23 12 0.27
24 1 0.02
ACGTcount: A:0.20, C:0.03, G:0.00, T:0.77
Consensus pattern (22 bp):
TTTTATTTTTATTTTTATTTTA
Found at i:7691550 original size:7 final size:6
Alignment explanation
Indices: 7691505--7691577 Score: 60
Period size: 6 Copynumber: 11.8 Consensus size: 6
7691495 AGGCAACCTA
* * *
7691505 ATTTTT ACTTTT AATTTT A-TTTT A-TTTT ATTTTT ATTTTT ACTTTT
1 ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT
*
7691551 ATTTATT TTATTTT ATTATTTT ATTTT
1 ATTT-TT AT-TTTT A-T-TTTT ATTTT
7691578 ATTCAGATAT
Statistics
Matches: 57, Mismatches: 6, Indels: 8
0.80 0.08 0.11
Matches are distributed among these distances:
5 10 0.18
6 32 0.56
7 6 0.11
8 9 0.16
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.77
Consensus pattern (6 bp):
ATTTTT
Found at i:7691555 original size:27 final size:26
Alignment explanation
Indices: 7691505--7691580 Score: 91
Period size: 27 Copynumber: 2.8 Consensus size: 26
7691495 AGGCAACCTA
*
7691505 ATTTTTACTTTTAATTTTATTTTATTTT
1 ATTTTTA-TTTTTATTTTA-TTTATTTT
7691533 ATTTTTATTTTTACTTTTATTTATTTT
1 ATTTTTATTTTTA-TTTTATTTATTTT
7691560 A-TTTTATTATTTTATTTTATT
1 ATTTTTA-T-TTTTATTTTATT
7691581 CAGATATTAA
Statistics
Matches: 44, Mismatches: 1, Indels: 7
0.85 0.02 0.13
Matches are distributed among these distances:
26 5 0.11
27 22 0.50
28 17 0.39
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (26 bp):
ATTTTTATTTTTATTTTATTTATTTT
Found at i:7699133 original size:25 final size:25
Alignment explanation
Indices: 7699098--7699145 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
7699088 AGACACACCA
* *
7699098 CAGCTCTTATGAGCTTACTGATTTT
1 CAGCTCGTATGAGCTTACCGATTTT
7699123 CAGCTCGTATGAGCTTACCGATT
1 CAGCTCGTATGAGCTTACCGATT
7699146 CATAGCTTGT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.21, C:0.23, G:0.19, T:0.38
Consensus pattern (25 bp):
CAGCTCGTATGAGCTTACCGATTTT
Found at i:7699152 original size:25 final size:25
Alignment explanation
Indices: 7699098--7699161 Score: 76
Period size: 25 Copynumber: 2.6 Consensus size: 25
7699088 AGACACACCA
* * *
7699098 CAGCTCTTATGAGCTTACTGATTTT
1 CAGCTCGTATGAGCTTACCGATTAT
7699123 CAGCTCGTATGAGCTTACCGATTCAT
1 CAGCTCGTATGAGCTTACCGATT-AT
*
7699149 -AGCTTGTATGAGC
1 CAGCTCGTATGAGC
7699162 ATACATGTAC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
25 33 0.97
26 1 0.03
ACGTcount: A:0.22, C:0.22, G:0.20, T:0.36
Consensus pattern (25 bp):
CAGCTCGTATGAGCTTACCGATTAT
Found at i:7700709 original size:68 final size:65
Alignment explanation
Indices: 7700632--7700803 Score: 177
Period size: 67 Copynumber: 2.6 Consensus size: 65
7700622 CATCACGTGT
* * * *
7700632 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGTGATACTATGTG-TACACCAT
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGATACAAGGTGAGACACCAT
7700696 GTAG
62 GTAG
** * *
7700700 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCAAGGTGAAAGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACAAGGTG--AGACACCATGT
7700765 AG
64 AG
* * *
7700767 ACAAGAGAGCTACGAGATAAAT-TAGCTAGGTCACATG
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATG
7700804 GGTGGTACTG
Statistics
Matches: 90, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
64 27 0.30
65 3 0.03
66 16 0.18
67 31 0.34
68 13 0.14
ACGTcount: A:0.34, C:0.16, G:0.28, T:0.22
Consensus pattern (65 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACAAGGTGAGACACCATGTAG
Found at i:7700737 original size:64 final size:65
Alignment explanation
Indices: 7700656--7700812 Score: 201
Period size: 67 Copynumber: 2.4 Consensus size: 65
7700646 AGACATTATG
* * * * *
7700656 ATGTAGCTAGGTCGCATGGGTGATACTATGTG-TACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTAGGTGAGACACCATGTAGACAAGAGAGCTACGAGATAA
* * *
7700720 ATGTAGCTAGGTCGCATGCGTGGTTCAAGGTGAAAGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTAGGTG--AGACACCATGTAGACAAGAGAGCTACGAGAT
7700785 AA
64 AA
*
7700787 AT-TAGCTAGGTCACATGGGTGGTACT
1 ATGTAGCTAGGTCGCATGGGTGGTACT
7700813 GAGTATTCAC
Statistics
Matches: 78, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
64 27 0.35
66 20 0.26
67 31 0.40
ACGTcount: A:0.31, C:0.16, G:0.30, T:0.24
Consensus pattern (65 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTAGGTGAGACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:7702780 original size:18 final size:19
Alignment explanation
Indices: 7702743--7702780 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
7702733 AATTTGATTA
*
7702743 ATTATTGAGTTCATCCATG
1 ATTATTGAGTTCATACATG
*
7702762 ATTATTG-GTTCATATATG
1 ATTATTGAGTTCATACATG
7702780 A
1 A
7702781 ATTTACATGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.29, C:0.11, G:0.16, T:0.45
Consensus pattern (19 bp):
ATTATTGAGTTCATACATG
Found at i:7707244 original size:15 final size:16
Alignment explanation
Indices: 7707224--7707253 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
7707214 TTAAAAATAG
7707224 AAAAAGTT-TGAACTA
1 AAAAAGTTATGAACTA
7707239 AAAAAGTTATGAACT
1 AAAAAGTTATGAACT
7707254 CTAGAAACTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.53, C:0.07, G:0.13, T:0.27
Consensus pattern (16 bp):
AAAAAGTTATGAACTA
Found at i:7723208 original size:6 final size:6
Alignment explanation
Indices: 7723197--7723237 Score: 55
Period size: 6 Copynumber: 6.5 Consensus size: 6
7723187 TCCTCTTATC
*
7723197 TTTTTA TTTTTA TTTTTTTA TTTTTA TTTTTA TTTTCA TTT
1 TTTTTA TTTTTA --TTTTTA TTTTTA TTTTTA TTTTTA TTT
7723238 CAATTTTATT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
6 26 0.81
8 6 0.19
ACGTcount: A:0.15, C:0.02, G:0.00, T:0.83
Consensus pattern (6 bp):
TTTTTA
Found at i:7723214 original size:14 final size:14
Alignment explanation
Indices: 7723192--7723227 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
7723182 TTGAATCCTC
*
7723192 TTATCTTTTTATTT
1 TTATTTTTTTATTT
7723206 TTATTTTTTTATTT
1 TTATTTTTTTATTT
7723220 TTATTTTT
1 TTATTTTT
7723228 ATTTTCATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.14, C:0.03, G:0.00, T:0.83
Consensus pattern (14 bp):
TTATTTTTTTATTT
Found at i:7726157 original size:13 final size:13
Alignment explanation
Indices: 7726139--7726163 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
7726129 AGTTTAATTA
7726139 GTTAATTAGTTTT
1 GTTAATTAGTTTT
7726152 GTTAATTAGTTT
1 GTTAATTAGTTT
7726164 AACAAACAAC
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:0.24, C:0.00, G:0.16, T:0.60
Consensus pattern (13 bp):
GTTAATTAGTTTT
Found at i:7730004 original size:32 final size:32
Alignment explanation
Indices: 7729968--7730028 Score: 113
Period size: 32 Copynumber: 1.9 Consensus size: 32
7729958 TTAGGGGGTT
*
7729968 AGAGTTGTAACACCCTAAAATTTTTATTTTGA
1 AGAGTTGTAACACCCTAAAATTTCTATTTTGA
7730000 AGAGTTGTAACACCCTAAAATTTCTATTT
1 AGAGTTGTAACACCCTAAAATTTCTATTT
7730029 CAGCTTTCGT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.34, C:0.15, G:0.11, T:0.39
Consensus pattern (32 bp):
AGAGTTGTAACACCCTAAAATTTCTATTTTGA
Found at i:7733000 original size:14 final size:15
Alignment explanation
Indices: 7732969--7733004 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
7732959 TTTATTAATC
7732969 ATATATATAACTTAT
1 ATATATATAACTTAT
7732984 ATATAT-TAAC-TAT
1 ATATATATAACTTAT
7732997 -TATATATA
1 ATATATATA
7733005 GAATACCTCA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
12 5 0.25
13 5 0.25
14 4 0.20
15 6 0.30
ACGTcount: A:0.47, C:0.06, G:0.00, T:0.47
Consensus pattern (15 bp):
ATATATATAACTTAT
Found at i:7733117 original size:32 final size:32
Alignment explanation
Indices: 7733080--7733144 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 32
7733070 GATTTTAATC
*
7733080 TATAATTTAATTTTTACCCTATACACATTTAG
1 TATAATTCAATTTTTACCCTATACACATTTAG
* *
7733112 TATAATTCAATTTTTACCCTATATATATTTAG
1 TATAATTCAATTTTTACCCTATACACATTTAG
7733144 T
1 T
7733145 CCTTATACTA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.34, C:0.14, G:0.03, T:0.49
Consensus pattern (32 bp):
TATAATTCAATTTTTACCCTATACACATTTAG
Found at i:7735815 original size:32 final size:33
Alignment explanation
Indices: 7735769--7735832 Score: 96
Period size: 32 Copynumber: 2.0 Consensus size: 33
7735759 TTTCATATGT
7735769 TGGGATTAGGGTTTTT-TAGGGTTAGGGTTAGGG
1 TGGGATTAGGGTTTTTAT-GGGTTAGGGTTAGGG
*
7735802 TGGG-TTAGGGTTTTTATGGTTTAGGGTTAGG
1 TGGGATTAGGGTTTTTATGGGTTAGGGTTAGG
7735833 TTTTTTTAAG
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 24 0.83
33 5 0.17
ACGTcount: A:0.14, C:0.00, G:0.44, T:0.42
Consensus pattern (33 bp):
TGGGATTAGGGTTTTTATGGGTTAGGGTTAGGG
Found at i:7735840 original size:16 final size:18
Alignment explanation
Indices: 7735824--7735864 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
7735814 TTTATGGTTT
7735824 AGGGTTA-GGTTTTTTTA
1 AGGGTTATGGTTTTTTTA
* *
7735841 AGGTTTATGGTTTTTGTA
1 AGGGTTATGGTTTTTTTA
7735859 AGGGTT
1 AGGGTT
7735865 TAATTAATTA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
17 6 0.30
18 14 0.70
ACGTcount: A:0.17, C:0.00, G:0.32, T:0.51
Consensus pattern (18 bp):
AGGGTTATGGTTTTTTTA
Found at i:7735845 original size:23 final size:22
Alignment explanation
Indices: 7735803--7735852 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 22
7735793 GGGTTAGGGT
*
7735803 GGGTTAGGGTTTTTATGGTTTA
1 GGGTTAGGGTTTTTAAGGTTTA
*
7735825 GGGTTAGGTTTTTTTAAGGTTTA
1 GGGTTAGG-GTTTTTAAGGTTTA
*
7735848 TGGTT
1 GGGTT
7735853 TTTGTAAGGG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
22 8 0.33
23 16 0.67
ACGTcount: A:0.14, C:0.00, G:0.34, T:0.52
Consensus pattern (22 bp):
GGGTTAGGGTTTTTAAGGTTTA
Found at i:7735895 original size:26 final size:26
Alignment explanation
Indices: 7735864--7735931 Score: 127
Period size: 26 Copynumber: 2.6 Consensus size: 26
7735854 TTGTAAGGGT
*
7735864 TTAATTAATTAAATTAGTGTGTAAGA
1 TTAATTAATTAAATTAGGGTGTAAGA
7735890 TTAATTAATTAAATTAGGGTGTAAGA
1 TTAATTAATTAAATTAGGGTGTAAGA
7735916 TTAATTAATTAAATTA
1 TTAATTAATTAAATTA
7735932 AATATTAATT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 41 1.00
ACGTcount: A:0.44, C:0.00, G:0.13, T:0.43
Consensus pattern (26 bp):
TTAATTAATTAAATTAGGGTGTAAGA
Found at i:7736203 original size:126 final size:124
Alignment explanation
Indices: 7736058--7736449 Score: 442
Period size: 126 Copynumber: 3.1 Consensus size: 124
7736048 AATTTTTGGT
* * * * * * *
7736058 TTTTTTTCTTCAGTAGTATCTAGAAAAAAAAATTTAAGAAGAAGTTTCTGAAGAAATAGTATCCA
1 TTTTTTTCTACAGTGGTATCT-GAAAAAAAAATTTGAGAAGACGTTTCTGAAAAAATAGTGTCAA
* * *
7736123 AAACGCTTCAAGTAGGATGCACTGTCAGCAAAATTCCTGAAAAATACTCCCACGTGGATGC
65 AAACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAA-ACTCCCACGTGGACGC
* * * * *
7736184 TTTTTTTCTACAGTGGTATCTGAGAAAATAATTTTGAGAAGACGTTTTTTAAAAAATAGTGTAAA
1 TTTTTTTCTACAGTGGTATCTGA-AAAAAAAATTTGAGAAGACGTTTCTGAAAAAATAGTGTCAA
* * *
7736249 AAACGCTTTAAGCAGGATGCACTGTCAGCAAAAGTATTGAAAAAAGCTCCCACGTGGACGC
65 AAACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAA-CTCCCACGTGGACGC
** * * * *
7736310 TTTTTTGATACAGTGGTATCTGAAAAAATAATTGTGAGATGACCTTTCTGAACAAATAGTGTCAA
1 TTTTTTTCTACAGTGGTATCTGAAAAAAAAATT-TGAGAAGACGTTTCTGAAAAAATAGTGTCAA
* * * * * * *
7736375 AAATGCTTCATGCAGTATGCACTTTCAGCAAAATTACTGAGAAAAGCTCTCACATGGACGC
65 AAACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGA-AAAAACTCCCACGTGGACGC
*
7736436 TCTTTTTCTACAGT
1 TTTTTTTCTACAGT
7736450 AGTTCCTATT
Statistics
Matches: 220, Mismatches: 42, Indels: 8
0.81 0.16 0.03
Matches are distributed among these distances:
125 10 0.05
126 206 0.94
127 4 0.02
ACGTcount: A:0.36, C:0.16, G:0.18, T:0.30
Consensus pattern (124 bp):
TTTTTTTCTACAGTGGTATCTGAAAAAAAAATTTGAGAAGACGTTTCTGAAAAAATAGTGTCAAA
AACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAACTCCCACGTGGACGC
Found at i:7740029 original size:18 final size:18
Alignment explanation
Indices: 7740008--7740042 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
7739998 AAAAGGAAAC
*
7740008 ATATAAGGGTTAGGATAT
1 ATATAAGGGCTAGGATAT
7740026 ATATAAGGGCTAGGATA
1 ATATAAGGGCTAGGATA
7740043 CGCACCTGGC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.40, C:0.03, G:0.29, T:0.29
Consensus pattern (18 bp):
ATATAAGGGCTAGGATAT
Found at i:7740671 original size:7 final size:7
Alignment explanation
Indices: 7740661--7740707 Score: 67
Period size: 7 Copynumber: 6.7 Consensus size: 7
7740651 TTGTATACAT
7740661 AATACTA
1 AATACTA
7740668 AATACTA
1 AATACTA
*
7740675 AATAGTA
1 AATACTA
*
7740682 AATATTA
1 AATACTA
*
7740689 AATATTA
1 AATACTA
7740696 AATACTA
1 AATACTA
7740703 AATAC
1 AATAC
7740708 GAAACGAGTA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
7 37 1.00
ACGTcount: A:0.57, C:0.09, G:0.02, T:0.32
Consensus pattern (7 bp):
AATACTA
Found at i:7741756 original size:50 final size:51
Alignment explanation
Indices: 7741644--7741756 Score: 142
Period size: 48 Copynumber: 2.3 Consensus size: 51
7741634 AAAAAATTAT
* **
7741644 AAAATTAAAATTAAAATTGCATAAATGAAAAAAAAATATAAAATTGTATTGA
1 AAAATTAAAATTAAAATTACATAAAT-AAAAAAAAATATAAAATACTATTGA
* *
7741696 AAAATT--AATTAAAATTACATAAAT-TAAAAAAATATTAAATACTATTGA
1 AAAATTAAAATTAAAATTACATAAATAAAAAAAAATATAAAATACTATTGA
*
7741744 AATATTAAAATTA
1 AAAATTAAAATTA
7741757 TCACTTACCA
Statistics
Matches: 53, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
48 25 0.47
50 22 0.42
52 6 0.11
ACGTcount: A:0.61, C:0.03, G:0.04, T:0.32
Consensus pattern (51 bp):
AAAATTAAAATTAAAATTACATAAATAAAAAAAAATATAAAATACTATTGA
Found at i:7741955 original size:10 final size:10
Alignment explanation
Indices: 7741910--7741957 Score: 60
Period size: 10 Copynumber: 4.6 Consensus size: 10
7741900 GCTTTGAAAA
7741910 AATTTGAGAG
1 AATTTGAGAG
*
7741920 AATATGAGAG
1 AATTTGAGAG
*
7741930 AATTTTTAGAAG
1 AA-TTTGAG-AG
7741942 AATTTGAGAG
1 AATTTGAGAG
7741952 AATTTG
1 AATTTG
7741958 GATAGGAGGA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
10 19 0.59
11 9 0.28
12 4 0.12
ACGTcount: A:0.42, C:0.00, G:0.25, T:0.33
Consensus pattern (10 bp):
AATTTGAGAG
Found at i:7745658 original size:2 final size:2
Alignment explanation
Indices: 7745651--7745676 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
7745641 CACTTATTAA
7745651 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
7745677 CCATATCAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7749800 original size:9 final size:9
Alignment explanation
Indices: 7749768--7749973 Score: 78
Period size: 9 Copynumber: 21.7 Consensus size: 9
7749758 CATAAAACCT
*
7749768 TAAAAATATT
1 TAAAAAT-TA
7749778 TAAAAATTA
1 TAAAAATTA
7749787 CTAAAAATTA
1 -TAAAAATTA
7749797 TAAAGAATTA
1 TAAA-AATTA
* *
7749807 GGAAAATTTA
1 -TAAAAATTA
*
7749817 TTAAAATTA
1 TAAAAATTA
7749826 TTAAAAA-TA
1 -TAAAAATTA
* *
7749835 GAAAAAATA
1 TAAAAATTA
7749844 TAAACAATTA
1 TAAA-AATTA
* *
7749854 T-ATAATCACA
1 TAAAAAT--TA
*
7749864 AAAAAAGTTTA
1 TAAAAA--TTA
* *
7749875 CACAAAAGTA
1 TA-AAAATTA
*
7749885 TTAAAATTA
1 TAAAAATTA
7749894 TTTAAAAATTA
1 --TAAAAATTA
* *
7749905 TGAAATTTA
1 TAAAAATTA
*
7749914 TTAAAATTA
1 TAAAAATTA
7749923 TTAAAAA-TA
1 -TAAAAATTA
* *
7749932 GAAAAAATA
1 TAAAAATTA
7749941 T-AAAATTA
1 TAAAAATTA
*
7749949 CAAAAATTA
1 TAAAAATTA
*
7749958 TATAAAAATA
1 TA-AAAATTA
7749968 TAAAAA
1 TAAAAA
7749974 GTACTAAAAT
Statistics
Matches: 146, Mismatches: 32, Indels: 37
0.68 0.15 0.17
Matches are distributed among these distances:
8 19 0.13
9 55 0.38
10 51 0.35
11 16 0.11
12 4 0.03
13 1 0.01
ACGTcount: A:0.62, C:0.03, G:0.04, T:0.31
Consensus pattern (9 bp):
TAAAAATTA
Found at i:7749805 original size:20 final size:19
Alignment explanation
Indices: 7749768--7749982 Score: 70
Period size: 19 Copynumber: 11.3 Consensus size: 19
7749758 CATAAAACCT
*
7749768 TAAAAATATTTAAAAATTAC
1 TAAAAAT-TATAAAAATTAC
*
7749788 TAAAAATTATAAAGAATTAG
1 TAAAAATTATAAA-AATTAC
* * * *
7749808 GAAAATTTATTAAAATTAT
1 TAAAAATTATAAAAATTAC
* *
7749827 TAAAAA-TAGAAAAAATA-
1 TAAAAATTATAAAAATTAC
* *
7749844 TAAACAATTAT-ATAATCAC
1 TAAA-AATTATAAAAATTAC
* * *
7749863 AAAAAAAGTTTACACAAAAGTA-
1 -TAAAAA--TTATA-AAAATTAC
*
7749885 TTAAAATTATTTAAAAATTA-
1 TAAAAATTA--TAAAAATTAC
* * * *
7749905 TGAAATTTATTAAAATTAT
1 TAAAAATTATAAAAATTAC
* *
7749924 TAAAAA-TAGAAAAAATA-
1 TAAAAATTATAAAAATTAC
*
7749941 T-AAAATTACAAAAATTA-
1 TAAAAATTATAAAAATTAC
* *
7749958 TATAAAAATATAAAAAGTAC
1 TA-AAAATTATAAAAATTAC
7749978 TAAAA
1 TAAAA
7749983 TTTTTTAAAA
Statistics
Matches: 142, Mismatches: 37, Indels: 33
0.67 0.17 0.16
Matches are distributed among these distances:
16 4 0.03
17 15 0.11
18 30 0.21
19 41 0.29
20 40 0.28
21 8 0.06
23 4 0.03
ACGTcount: A:0.61, C:0.04, G:0.04, T:0.31
Consensus pattern (19 bp):
TAAAAATTATAAAAATTAC
Found at i:7749939 original size:29 final size:29
Alignment explanation
Indices: 7749883--7749939 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
7749873 TACACAAAAG
* **
7749883 TATTAAAATTATTTAAAAATTATGAAATT
1 TATTAAAATTATTTAAAAATGAAAAAATT
7749912 TATTAAAATTA-TTAAAAATAGAAAAAAT
1 TATTAAAATTATTTAAAAAT-GAAAAAAT
7749940 ATAAAATTAC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 8 0.33
29 16 0.67
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.39
Consensus pattern (29 bp):
TATTAAAATTATTTAAAAATGAAAAAATT
Found at i:7749947 original size:36 final size:37
Alignment explanation
Indices: 7749897--7749992 Score: 106
Period size: 36 Copynumber: 2.6 Consensus size: 37
7749887 AAAATTATTT
* *
7749897 AAAAATTATGAAATTTATTAAAATTAT-TAAAAATAG
1 AAAAAATATAAAATTTATTAAAATTATATAAAAATAG
** *
7749933 AAAAAATATAAAA-TTACAAAAATTATATAAAAATAT
1 AAAAAATATAAAATTTATTAAAATTATATAAAAATAG
* *
7749969 AAAAAGTACTAAAATTTTTTAAAA
1 AAAAAATA-TAAAATTTATTAAAA
7749993 ATATCAGAGA
Statistics
Matches: 48, Mismatches: 9, Indels: 4
0.79 0.15 0.07
Matches are distributed among these distances:
35 11 0.23
36 26 0.54
37 5 0.10
38 6 0.12
ACGTcount: A:0.62, C:0.02, G:0.03, T:0.32
Consensus pattern (37 bp):
AAAAAATATAAAATTTATTAAAATTATATAAAAATAG
Found at i:7749973 original size:28 final size:27
Alignment explanation
Indices: 7749934--7749996 Score: 81
Period size: 28 Copynumber: 2.3 Consensus size: 27
7749924 TAAAAATAGA
*
7749934 AAAAATATAAAATTACAAAAATTATAT
1 AAAAATATAAAAGTACAAAAATTATAT
* * *
7749961 AAAAATATAAAAAGTACTAAAATTTTTT
1 AAAAATAT-AAAAGTACAAAAATTATAT
7749989 AAAAATAT
1 AAAAATAT
7749997 CAGAGATTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
27 8 0.26
28 23 0.74
ACGTcount: A:0.63, C:0.03, G:0.02, T:0.32
Consensus pattern (27 bp):
AAAAATATAAAAGTACAAAAATTATAT
Found at i:7750013 original size:97 final size:95
Alignment explanation
Indices: 7749780--7749994 Score: 244
Period size: 97 Copynumber: 2.3 Consensus size: 95
7749770 AAAATATTTA
* *
7749780 AAAATTACTAAAA--ATTATAAAGAATTAGGAAAATTTATTAAAATTATTAAAAATAGAAAAAAT
1 AAAAGTACTAAAATTATT-TAAA-AATTATG-AAATTTATTAAAATTATTAAAAATAGAAAAAAT
* *
7749843 ATAAACAATTATATAATCACAAAAAAAGTTTACAC
63 ATAAACAATTAAAAAATCACAAAAAAA--TTACAC
*
7749878 AAAAGTATTAAAATTATTTAAAAATTATGAAATTTATTAAAATTATTAAAAATAGAAAAAATAT-
1 AAAAGTACTAAAATTATTTAAAAATTATGAAATTTATTAAAATTATTAAAAATAGAAAAAATATA
* * * *
7749942 AA-AATTACAAAAATTATATAAAAA-TATA-
66 AACAATTA-AAAAATCACAAAAAAATTACAC
*
7749970 AAAAGTACTAAAATTTTTTAAAAAT
1 AAAAGTACTAAAATTATTTAAAAAT
7749995 ATCAGAGATT
Statistics
Matches: 103, Mismatches: 11, Indels: 12
0.82 0.09 0.10
Matches are distributed among these distances:
92 23 0.22
93 3 0.03
95 5 0.05
96 13 0.13
97 35 0.34
98 17 0.17
99 4 0.04
100 3 0.03
ACGTcount: A:0.60, C:0.04, G:0.04, T:0.32
Consensus pattern (95 bp):
AAAAGTACTAAAATTATTTAAAAATTATGAAATTTATTAAAATTATTAAAAATAGAAAAAATATA
AACAATTAAAAAATCACAAAAAAATTACAC
Found at i:7751790 original size:31 final size:31
Alignment explanation
Indices: 7751755--7751824 Score: 88
Period size: 31 Copynumber: 2.3 Consensus size: 31
7751745 ATATTTTATT
* *
7751755 ATTTTAGTCACT-CAAGTTAGATAAATTGTCA
1 ATTTTAGTCACTCCAA-TTAAATAAATTGTAA
* *
7751786 ATTTTAGTCACTCCTATTAAATAAGTTGTAA
1 ATTTTAGTCACTCCAATTAAATAAATTGTAA
7751817 ATTTTAGT
1 ATTTTAGT
7751825 TACTTTACCG
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
31 32 0.94
32 2 0.06
ACGTcount: A:0.34, C:0.11, G:0.11, T:0.43
Consensus pattern (31 bp):
ATTTTAGTCACTCCAATTAAATAAATTGTAA
Found at i:7752856 original size:26 final size:26
Alignment explanation
Indices: 7752827--7752882 Score: 71
Period size: 25 Copynumber: 2.2 Consensus size: 26
7752817 GGCTTTTTTC
* *
7752827 TTTCTAAA-ACTACAGCCTTTGGTAAG
1 TTTCTAAACACT-CAACCTTTGGTAAA
7752853 TTTC-AAACACTCAACCTTTGGTAAA
1 TTTCTAAACACTCAACCTTTGGTAAA
7752878 TTTCT
1 TTTCT
7752883 TCCCTTTATT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
25 19 0.73
26 7 0.27
ACGTcount: A:0.30, C:0.21, G:0.11, T:0.38
Consensus pattern (26 bp):
TTTCTAAACACTCAACCTTTGGTAAA
Found at i:7759304 original size:18 final size:16
Alignment explanation
Indices: 7759272--7759307 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 16
7759262 TATTATTATG
7759272 AAATTAAAAATATAAA
1 AAATTAAAAATATAAA
7759288 AAATCTAAAATATATAAA
1 AAAT-TAAAA-ATATAAA
7759306 AA
1 AA
7759308 TGTATAAAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 4 0.22
17 5 0.28
18 9 0.50
ACGTcount: A:0.72, C:0.03, G:0.00, T:0.25
Consensus pattern (16 bp):
AAATTAAAAATATAAA
Found at i:7760138 original size:15 final size:13
Alignment explanation
Indices: 7760108--7760132 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
7760098 AGATTTTGAA
7760108 AAATTTATAAAAT
1 AAATTTATAAAAT
7760121 AAATTTATAAAA
1 AAATTTATAAAA
7760133 AATAAAAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (13 bp):
AAATTTATAAAAT
Found at i:7761813 original size:14 final size:14
Alignment explanation
Indices: 7761796--7761822 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
7761786 TAGGATAATT
7761796 TTTAAATTTTATTA
1 TTTAAATTTTATTA
7761810 TTTAAATTTTATT
1 TTTAAATTTTATT
7761823 TTAGCTTTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (14 bp):
TTTAAATTTTATTA
Found at i:7761869 original size:10 final size:10
Alignment explanation
Indices: 7761836--7761861 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
7761826 GCTTTTACCT
7761836 TTATCTTTAA
1 TTATCTTTAA
7761846 TTATCTTTAA
1 TTATCTTTAA
7761856 TTATCT
1 TTATCT
7761862 GTATTTATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.27, C:0.12, G:0.00, T:0.62
Consensus pattern (10 bp):
TTATCTTTAA
Found at i:7763499 original size:21 final size:21
Alignment explanation
Indices: 7763474--7763514 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
7763464 CATTGATTTA
7763474 GTAAATTAGTTTATGAAATTC
1 GTAAATTAGTTTATGAAATTC
7763495 GTAAATTAGTTTATGAAATT
1 GTAAATTAGTTTATGAAATT
7763515 AGAATATGCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.39, C:0.02, G:0.15, T:0.44
Consensus pattern (21 bp):
GTAAATTAGTTTATGAAATTC
Found at i:7771331 original size:21 final size:21
Alignment explanation
Indices: 7771307--7771347 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
7771297 CATTGATTTA
7771307 GTAAATTAGTTTATGAAATTC
1 GTAAATTAGTTTATGAAATTC
7771328 GTAAATTAGTTTATGAAATT
1 GTAAATTAGTTTATGAAATT
7771348 AGAATATGCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.39, C:0.02, G:0.15, T:0.44
Consensus pattern (21 bp):
GTAAATTAGTTTATGAAATTC
Found at i:7775814 original size:7 final size:7
Alignment explanation
Indices: 7775790--7775837 Score: 52
Period size: 7 Copynumber: 7.6 Consensus size: 7
7775780 AGGCAACCCA
7775790 ATTT-TT
1 ATTTATT
7775796 ATTTATT
1 ATTTATT
7775803 A-TTATT
1 ATTTATT
7775809 ATTTATT
1 ATTTATT
*
7775816 -TTT-CT
1 ATTTATT
7775821 -TTTATT
1 ATTTATT
7775827 ATTTATT
1 ATTTATT
7775834 ATTT
1 ATTT
7775838 TATTTTTGGG
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
5 4 0.11
6 14 0.39
7 18 0.50
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.75
Consensus pattern (7 bp):
ATTTATT
Found at i:7775844 original size:21 final size:21
Alignment explanation
Indices: 7775792--7775844 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 21
7775782 GCAACCCAAT
7775792 TTTTATTTATTATTATTATTTA
1 TTTTATTT-TTATTATTATTTA
7775814 TTTT-TCTTTTATTATT-TATTA
1 TTTTAT-TTTTATTATTAT-TTA
7775835 TTTTATTTTT
1 TTTTATTTTT
7775845 GGGATATTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
20 1 0.04
21 20 0.71
22 7 0.25
ACGTcount: A:0.21, C:0.02, G:0.00, T:0.77
Consensus pattern (21 bp):
TTTTATTTTTATTATTATTTA
Found at i:7777114 original size:99 final size:99
Alignment explanation
Indices: 7776934--7777132 Score: 283
Period size: 99 Copynumber: 2.0 Consensus size: 99
7776924 AATAATTTTT
7776934 TTAGGAATATATTGCGCTGAGTAACCGGGGTGGGGTGCTTGGCTGTCATCTCTCTTCGCGTCAAA
1 TTAGGAATATATTGCGCTGAGTAACCGGGGTGGGGTGCTTGGCTGTCATCTCTCTTCGCGTCAAA
* *
7776999 AGGTTCGATATGTTCTTAAG-AAAAATATAATAAA
66 AGGTTCAATATATTCTTAAGCAAAAATA-AATAAA
* * * * * * * *
7777033 TTAGGAGTATGTTGGGCTGAGTAACCGGGGTGGGGTGCTTGGTTGTTATTTTTCTTTGCGTCAAA
1 TTAGGAATATATTGCGCTGAGTAACCGGGGTGGGGTGCTTGGCTGTCATCTCTCTTCGCGTCAAA
*
7777098 AGGTTCAATTTATTCTTAAGCAAAAATAAATAAA
66 AGGTTCAATATATTCTTAAGCAAAAATAAATAAA
7777132 T
1 T
7777133 AAATAAATAA
Statistics
Matches: 88, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
99 81 0.92
100 7 0.08
ACGTcount: A:0.28, C:0.13, G:0.26, T:0.34
Consensus pattern (99 bp):
TTAGGAATATATTGCGCTGAGTAACCGGGGTGGGGTGCTTGGCTGTCATCTCTCTTCGCGTCAAA
AGGTTCAATATATTCTTAAGCAAAAATAAATAAA
Found at i:7777583 original size:17 final size:18
Alignment explanation
Indices: 7777561--7777594 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
7777551 TTTTAGGGAC
7777561 TAAATTGAA-GGCAAAAG
1 TAAATTGAAGGGCAAAAG
*
7777578 TAAATTTAAGGGCAAAA
1 TAAATTGAAGGGCAAAA
7777595 AGTGTGAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.53, C:0.06, G:0.21, T:0.21
Consensus pattern (18 bp):
TAAATTGAAGGGCAAAAG
Found at i:7779730 original size:28 final size:28
Alignment explanation
Indices: 7779681--7779740 Score: 66
Period size: 28 Copynumber: 2.1 Consensus size: 28
7779671 GAGTTAAGGT
* * *
7779681 TTTTTCGAAATTTACCGGATTAGATTGA
1 TTTTTCAAAATTTACCGAATTAGATTAA
** *
7779709 TTTTTCAAAATTTATTGAATTAGGTTAA
1 TTTTTCAAAATTTACCGAATTAGATTAA
7779737 TTTT
1 TTTT
7779741 GAAGAGGGAA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.30, C:0.07, G:0.13, T:0.50
Consensus pattern (28 bp):
TTTTTCAAAATTTACCGAATTAGATTAA
Found at i:7780318 original size:20 final size:21
Alignment explanation
Indices: 7780284--7780359 Score: 75
Period size: 22 Copynumber: 3.6 Consensus size: 21
7780274 GAACAAAACA
* *
7780284 TGAGAGTGAACTAAGAGA-AT
1 TGAGAATGAATTAAGAGAGAT
7780304 TGAGTAA-GAATTAAGAGAGGAT
1 TGAG-AATGAATTAAGAGA-GAT
*
7780326 TGAGAATGAATTGAGAGAGAGT
1 TGAGAATGAATTAAGAGAGA-T
*
7780348 TGAGAGTGAATT
1 TGAGAATGAATT
7780360 GAAAAAGTGA
Statistics
Matches: 47, Mismatches: 4, Indels: 8
0.80 0.07 0.14
Matches are distributed among these distances:
20 14 0.30
21 5 0.11
22 28 0.60
ACGTcount: A:0.42, C:0.01, G:0.33, T:0.24
Consensus pattern (21 bp):
TGAGAATGAATTAAGAGAGAT
Found at i:7780765 original size:20 final size:21
Alignment explanation
Indices: 7780732--7780773 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
7780722 AAAAAGTTAT
7780732 TTTTATTTAATTTTTAAAATA
1 TTTTATTTAATTTTTAAAATA
* *
7780753 TTTT-TTTATTTTTTATAATA
1 TTTTATTTAATTTTTAAAATA
7780773 T
1 T
7780774 AAAAATAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (21 bp):
TTTTATTTAATTTTTAAAATA
Found at i:7785981 original size:20 final size:21
Alignment explanation
Indices: 7785950--7785988 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
7785940 AGGAGATTTT
7785950 ATTTGAATTTGATTCTAATCA
1 ATTTGAATTTGATTCTAATCA
*
7785971 ATTTG-ATTTGATTTTAAT
1 ATTTGAATTTGATTCTAAT
7785989 AAAAATGATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.31, C:0.05, G:0.10, T:0.54
Consensus pattern (21 bp):
ATTTGAATTTGATTCTAATCA
Found at i:7793120 original size:5 final size:5
Alignment explanation
Indices: 7793110--7793137 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
7793100 AAGATAGACA
7793110 AAAAT AAAAT AAAAT AAAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAA
7793138 GAGATAACAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:7801347 original size:20 final size:19
Alignment explanation
Indices: 7801324--7801367 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
7801314 AATTCTATTA
7801324 GAATAACTTTACTAGAAAAC
1 GAATAACTTTAC-AGAAAAC
** *
7801344 GAATCTCTTTACATAAAAC
1 GAATAACTTTACAGAAAAC
7801363 GAATA
1 GAATA
7801368 CATTTTTCCA
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
19 10 0.50
20 10 0.50
ACGTcount: A:0.48, C:0.16, G:0.09, T:0.27
Consensus pattern (19 bp):
GAATAACTTTACAGAAAAC
Found at i:7807792 original size:18 final size:18
Alignment explanation
Indices: 7807771--7807818 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
7807761 TTTTATGAAC
*
7807771 TTTTATATTTTT-ATTGAT
1 TTTTATATTTTTGAAT-AT
7807789 TTTT-TACTTTTTGAATAT
1 TTTTATA-TTTTTGAATAT
7807807 TTTTATATTTTT
1 TTTTATATTTTT
7807819 TAATTTATAT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 2 0.08
18 20 0.77
19 4 0.15
ACGTcount: A:0.21, C:0.02, G:0.04, T:0.73
Consensus pattern (18 bp):
TTTTATATTTTTGAATAT
Found at i:7810218 original size:20 final size:20
Alignment explanation
Indices: 7810193--7810235 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
7810183 ATCATTACTC
7810193 TTATCCTGAATTTCAGGATT
1 TTATCCTGAATTTCAGGATT
*
7810213 TTATCCTGAATTTCAGTATT
1 TTATCCTGAATTTCAGGATT
7810233 TTA
1 TTA
7810236 ATTTGGATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.26, C:0.14, G:0.12, T:0.49
Consensus pattern (20 bp):
TTATCCTGAATTTCAGGATT
Found at i:7818015 original size:12 final size:12
Alignment explanation
Indices: 7817998--7818023 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
7817988 TATTTGTTTA
7817998 TTGTTTTTATAT
1 TTGTTTTTATAT
7818010 TTGTTTTTATAT
1 TTGTTTTTATAT
7818022 TT
1 TT
7818024 TTAAATGTAT
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:0.15, C:0.00, G:0.08, T:0.77
Consensus pattern (12 bp):
TTGTTTTTATAT
Found at i:7818024 original size:19 final size:18
Alignment explanation
Indices: 7817984--7818026 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 18
7817974 TTTGTCTCAC
*
7817984 TTTTTATTTGTTTATTGT
1 TTTTTATTTGTTTATTAT
7818002 TTTTATATTTGTTT-TTAT
1 TTTT-TATTTGTTTATTAT
7818020 ATTTTTA
1 -TTTTTA
7818027 AATGTATTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
18 9 0.41
19 13 0.59
ACGTcount: A:0.16, C:0.00, G:0.07, T:0.77
Consensus pattern (18 bp):
TTTTTATTTGTTTATTAT
Found at i:7818065 original size:24 final size:26
Alignment explanation
Indices: 7818016--7818065 Score: 77
Period size: 24 Copynumber: 2.0 Consensus size: 26
7818006 ATATTTGTTT
7818016 TTATATTTTTAAATGTATTTTATTTA
1 TTATATTTTTAAATGTATTTTATTTA
*
7818042 TTATA-TTTTAAAT-TTTTTTATTTA
1 TTATATTTTTAAATGTATTTTATTTA
7818066 ATGAAATAAG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 10 0.43
25 8 0.35
26 5 0.22
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (26 bp):
TTATATTTTTAAATGTATTTTATTTA
Found at i:7824779 original size:40 final size:40
Alignment explanation
Indices: 7824719--7824804 Score: 136
Period size: 40 Copynumber: 2.1 Consensus size: 40
7824709 ACTAATTAGC
*
7824719 ACAAATAAACCCAACTAAATCTCCGTTAATTTGATTCAAT
1 ACAAATAAACCCAACTAAATCTCCGTTAATTCGATTCAAT
* * *
7824759 ACAAGTAAACCTAACTAAATCTCTGTTAATTCGATTCAAT
1 ACAAATAAACCCAACTAAATCTCCGTTAATTCGATTCAAT
7824799 ACAAAT
1 ACAAAT
7824805 GAAAAACCAC
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.43, C:0.21, G:0.06, T:0.30
Consensus pattern (40 bp):
ACAAATAAACCCAACTAAATCTCCGTTAATTCGATTCAAT
Found at i:7835365 original size:46 final size:46
Alignment explanation
Indices: 7835313--7835424 Score: 215
Period size: 46 Copynumber: 2.4 Consensus size: 46
7835303 AGTGTGCTCT
*
7835313 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGAAAC
7835359 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGAAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGAAAC
7835405 CTGATATGAAATGTGTAAGA
1 CTGATATGAAATGTGTAAGA
7835425 TACCATGGCA
Statistics
Matches: 65, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 65 1.00
ACGTcount: A:0.38, C:0.12, G:0.24, T:0.25
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGAAAC
Found at i:7835448 original size:32 final size:32
Alignment explanation
Indices: 7835389--7835449 Score: 77
Period size: 32 Copynumber: 1.9 Consensus size: 32
7835379 CCATGGTTGA
* * *
7835389 AAGATACCATGGAAACCTGATATGAAATGTGT
1 AAGATACCATGGAAACATGACAGGAAATGTGT
* *
7835421 AAGATACCATGGCAACATGACGGGAAATG
1 AAGATACCATGGAAACATGACAGGAAATG
7835450 AATAAGACCA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
32 24 1.00
ACGTcount: A:0.41, C:0.15, G:0.25, T:0.20
Consensus pattern (32 bp):
AAGATACCATGGAAACATGACAGGAAATGTGT
Found at i:7835472 original size:78 final size:78
Alignment explanation
Indices: 7835343--7835502 Score: 221
Period size: 78 Copynumber: 2.1 Consensus size: 78
7835333 CCATGGTTGA
* * * **
7835343 AAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGAAACCTG
1 AAGATACCATGGCAACATGACAGGAAATGAATAAGACCATGGTTGAAAGATACCATGGAAACCTG
* *
7835408 ATATGAAATGTGT
66 ACATGAAATATGT
* * * *
7835421 AAGATACCATGGCAACATGACGGGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAGCGTG
1 AAGATACCATGGCAACATGACAGGAAATGAATAAGACCATGGTTGAAAGATACCATGGAAACCTG
7835486 ACATGAAATATGT
66 ACATGAAATATGT
7835499 AAGA
1 AAGA
7835503 CCATGGTTAA
Statistics
Matches: 71, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
78 71 1.00
ACGTcount: A:0.40, C:0.14, G:0.24, T:0.21
Consensus pattern (78 bp):
AAGATACCATGGCAACATGACAGGAAATGAATAAGACCATGGTTGAAAGATACCATGGAAACCTG
ACATGAAATATGT
Found at i:7835473 original size:46 final size:46
Alignment explanation
Indices: 7835421--7835572 Score: 180
Period size: 46 Copynumber: 3.3 Consensus size: 46
7835411 TGAAATGTGT
* *
7835421 AAGATACCATGGCAACATGACGGGAAATGAATAAGACCATGGTTGA
1 AAGATACCATGGCAACATGACAGGAAATGAGTAAGACCATGGTTGA
* * * *
7835467 AAGATACCATGGCAGCGTGACATGAAAT-ATGTAAGACCATGGTTAA
1 AAGATACCATGGCAACATGACAGGAAATGA-GTAAGACCATGGTTGA
* * *
7835513 AAAATACCATGGCAACATGACAGAAAATGAGTAAGACCATAGTTGA
1 AAGATACCATGGCAACATGACAGGAAATGAGTAAGACCATGGTTGA
* * *
7835559 TAGACACTATGGCA
1 AAGATACCATGGCA
7835573 TCATATCAAA
Statistics
Matches: 87, Mismatches: 17, Indels: 4
0.81 0.16 0.04
Matches are distributed among these distances:
45 1 0.01
46 85 0.98
47 1 0.01
ACGTcount: A:0.42, C:0.16, G:0.23, T:0.19
Consensus pattern (46 bp):
AAGATACCATGGCAACATGACAGGAAATGAGTAAGACCATGGTTGA
Done.