Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009643.1 Hibiscus syriacus cultivar Beakdansim tig00117056_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 8859806
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 13 of 41
Found at i:2688959 original size:27 final size:26
Alignment explanation
Indices: 2688910--2688969 Score: 68
Period size: 27 Copynumber: 2.3 Consensus size: 26
2688900 GAGAAAAGAA
*
2688910 TAATAAAAAATAGTAATATAATAATAT
1 TAATAAAAAATAGAAATATAATAA-AT
*
2688937 TAATAAAAAATGGAAA-ATAAATAAAT
1 TAATAAAAAATAGAAATAT-AATAAAT
*
2688963 AAATAAA
1 TAATAAA
2688970 TATAAAACAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
26 10 0.34
27 19 0.66
ACGTcount: A:0.68, C:0.00, G:0.05, T:0.27
Consensus pattern (26 bp):
TAATAAAAAATAGAAATATAATAAAT
Found at i:2689388 original size:31 final size:32
Alignment explanation
Indices: 2689333--2689418 Score: 113
Period size: 33 Copynumber: 2.7 Consensus size: 32
2689323 AAGTCCTACT
*
2689333 TAGACTCAAA-ATGTTTCGGTTTTAGTGTTTCAA
1 TAGACTCAAATACG-TT-GGTTTTAGTGTTTCAA
*
2689366 T-GACTCAAATACGTTGGTTTTAGTGTTTTAA
1 TAGACTCAAATACGTTGGTTTTAGTGTTTCAA
2689397 TAGGACTCAAATACGTTGGTTT
1 TA-GACTCAAATACGTTGGTTT
2689419 ATTTTTTGAA
Statistics
Matches: 48, Mismatches: 2, Indels: 6
0.86 0.04 0.11
Matches are distributed among these distances:
31 16 0.33
32 10 0.21
33 22 0.46
ACGTcount: A:0.27, C:0.12, G:0.20, T:0.42
Consensus pattern (32 bp):
TAGACTCAAATACGTTGGTTTTAGTGTTTCAA
Found at i:2689519 original size:23 final size:21
Alignment explanation
Indices: 2689468--2689530 Score: 65
Period size: 22 Copynumber: 2.9 Consensus size: 21
2689458 GGCCTGTAAA
* *
2689468 AATAATAAAATAAAAATATATT
1 AATAATATAAT-ATAATATATT
2689490 AATAATATATATATATATATATAT
1 AATAATATA-ATATA-ATATAT-T
2689514 AA-AATATAATATAATAT
1 AATAATATAATATAATAT
2689531 TTTTGTAGAC
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
21 4 0.11
22 15 0.42
23 14 0.39
24 3 0.08
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (21 bp):
AATAATATAATATAATATATT
Found at i:2689530 original size:21 final size:22
Alignment explanation
Indices: 2689482--2689530 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 22
2689472 ATAAAATAAA
2689482 AATATATTAATAATATATATAT
1 AATATATTAATAATATATATAT
2689504 ATATATATATAA-AATATA-ATAT
1 A-ATATAT-TAATAATATATATAT
2689526 AATAT
1 AATAT
2689531 TTTTGTAGAC
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
21 4 0.16
22 6 0.24
23 12 0.48
24 3 0.12
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (22 bp):
AATATATTAATAATATATATAT
Found at i:2691229 original size:21 final size:23
Alignment explanation
Indices: 2691200--2691245 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
2691190 TTAAAAAATT
*
2691200 ATATTAAAT-TAAA-TATTATTC
1 ATATAAAATGTAAATTATTATTC
*
2691221 ATATAAAATGTAAATTATTTTTC
1 ATATAAAATGTAAATTATTATTC
2691244 AT
1 AT
2691246 TTTGTGGGTG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 8 0.38
22 4 0.19
23 9 0.43
ACGTcount: A:0.46, C:0.04, G:0.02, T:0.48
Consensus pattern (23 bp):
ATATAAAATGTAAATTATTATTC
Found at i:2693357 original size:3 final size:3
Alignment explanation
Indices: 2693349--2693471 Score: 152
Period size: 3 Copynumber: 42.3 Consensus size: 3
2693339 AAACCCCCAA
2693349 TCT TCT TCT TCT TCT TCCT TCTT TCT TCT TCT T-T TCT TCT T-T TCT
1 TCT TCT TCT TCT TCT T-CT TC-T TCT TCT TCT TCT TCT TCT TCT TCT
*
2693394 TCT TCT T-T TCT TCT TC- TCT TCT T-T TTT TCT TCT T-T T-T TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
*
2693437 TCT TATT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT T-CT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
2693472 ATCTCACACC
Statistics
Matches: 108, Mismatches: 3, Indels: 18
0.84 0.02 0.14
Matches are distributed among these distances:
2 14 0.13
3 86 0.80
4 8 0.07
ACGTcount: A:0.01, C:0.28, G:0.00, T:0.71
Consensus pattern (3 bp):
TCT
Found at i:2693394 original size:19 final size:19
Alignment explanation
Indices: 2693351--2693471 Score: 145
Period size: 19 Copynumber: 6.0 Consensus size: 19
2693341 ACCCCCAATC
2693351 TTCTTCTTCTTCTTCCTTC-T
1 TTCTTCTTCTT-TT-CTTCTT
2693371 TTCTTCTTCTTTTCTTCTT
1 TTCTTCTTCTTTTCTTCTT
2693390 TTCTTCTTCTTTTCTTCTT
1 TTCTTCTTCTTTTCTTCTT
* *
2693409 CTCTTCTTTTTTTCTTCTTTT
1 TTCTTCTTCTTTTCTTC--TT
2693430 TTCTTCTTCTTATTTCTTCTT
1 TTCTTCTTC-T-TTTCTTCTT
2693451 CTTCTTCTTCTTCTTCTTCTT
1 -TTCTTCTTCTT-TTCTTCTT
2693472 ATCTCACACC
Statistics
Matches: 90, Mismatches: 4, Indels: 13
0.84 0.04 0.12
Matches are distributed among these distances:
18 4 0.04
19 37 0.41
20 12 0.13
21 20 0.22
22 10 0.11
23 7 0.08
ACGTcount: A:0.01, C:0.28, G:0.00, T:0.71
Consensus pattern (19 bp):
TTCTTCTTCTTTTCTTCTT
Found at i:2693500 original size:37 final size:36
Alignment explanation
Indices: 2693459--2693544 Score: 127
Period size: 37 Copynumber: 2.4 Consensus size: 36
2693449 TTCTTCTTCT
2693459 TCTTCTTCTTCTTATCTCACACCCACATTAACCTCAC
1 TCTTCTTCTTCTTATCTCACACCCACATTAACC-CAC
* * **
2693496 TCTTCTTCTTCTTCTCTCACATCCATGTTAACCCAC
1 TCTTCTTCTTCTTATCTCACACCCACATTAACCCAC
2693532 TCTTCTTCTTCTT
1 TCTTCTTCTTCTT
2693545 CTTCTTCTAT
Statistics
Matches: 45, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
36 16 0.36
37 29 0.64
ACGTcount: A:0.16, C:0.38, G:0.01, T:0.44
Consensus pattern (36 bp):
TCTTCTTCTTCTTATCTCACACCCACATTAACCCAC
Found at i:2695215 original size:20 final size:20
Alignment explanation
Indices: 2695190--2695227 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
2695180 GACCCCGAGT
2695190 CGATCCGAGCCGTGCCGTAC
1 CGATCCGAGCCGTGCCGTAC
2695210 CGATCCGAGCCGTGCCGT
1 CGATCCGAGCCGTGCCGT
2695228 GCCATGCCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.13, C:0.39, G:0.32, T:0.16
Consensus pattern (20 bp):
CGATCCGAGCCGTGCCGTAC
Found at i:2700833 original size:22 final size:22
Alignment explanation
Indices: 2700785--2700835 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
2700775 TTCAGCTGTT
* *
2700785 ATAACTCCAGAAATTATATCAT
1 ATAACTCCAGAAATTAAATCAA
* * *
2700807 GTAACTCCTGGAATTAAATCAA
1 ATAACTCCAGAAATTAAATCAA
2700829 ATAACTC
1 ATAACTC
2700836 ATGTAACTCC
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.43, C:0.20, G:0.08, T:0.29
Consensus pattern (22 bp):
ATAACTCCAGAAATTAAATCAA
Found at i:2701703 original size:26 final size:26
Alignment explanation
Indices: 2701666--2701755 Score: 69
Period size: 26 Copynumber: 3.5 Consensus size: 26
2701656 TAGAATAATA
* *
2701666 AGAAGAAGAAGATAGAAGAAAGAAGA
1 AGAAGAAGAAGAAAGAAAAAAGAAGA
* * *
2701692 AGAGGAATAAGAAAGAAAAAATAAGA
1 AGAAGAAGAAGAAAGAAAAAAGAAGA
* *
2701718 A-AA-AAGAAAGAAA-AAATAAGAAAAA
1 AGAAGAAG-AAGAAAGAAAAAAG-AAGA
2701743 AGAAAGAAGAAGA
1 AG-AAGAAGAAGA
2701756 CCGGGGGTGT
Statistics
Matches: 49, Mismatches: 10, Indels: 9
0.72 0.15 0.13
Matches are distributed among these distances:
24 7 0.14
25 11 0.22
26 22 0.45
27 6 0.12
28 3 0.06
ACGTcount: A:0.72, C:0.00, G:0.23, T:0.04
Consensus pattern (26 bp):
AGAAGAAGAAGAAAGAAAAAAGAAGA
Found at i:2701726 original size:21 final size:21
Alignment explanation
Indices: 2701700--2701750 Score: 102
Period size: 21 Copynumber: 2.4 Consensus size: 21
2701690 GAAGAGGAAT
2701700 AAGAAAGAAAAAATAAGAAAA
1 AAGAAAGAAAAAATAAGAAAA
2701721 AAGAAAGAAAAAATAAGAAAA
1 AAGAAAGAAAAAATAAGAAAA
2701742 AAGAAAGAA
1 AAGAAAGAA
2701751 GAAGACCGGG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.80, C:0.00, G:0.16, T:0.04
Consensus pattern (21 bp):
AAGAAAGAAAAAATAAGAAAA
Found at i:2707371 original size:13 final size:12
Alignment explanation
Indices: 2707340--2707388 Score: 50
Period size: 12 Copynumber: 4.2 Consensus size: 12
2707330 GTTGCAGCCG
*
2707340 AGAAAGAAAGAA
1 AGAAAGGAAGAA
*
2707352 AGAAAGGGAGAA
1 AGAAAGGAAGAA
2707364 AGGAAAGGAAG-A
1 A-GAAAGGAAGAA
2707376 AG-AA-GAAGAA
1 AGAAAGGAAGAA
2707386 AGA
1 AGA
2707389 GAGAGATAAG
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
9 4 0.13
10 5 0.16
11 1 0.03
12 13 0.42
13 8 0.26
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (12 bp):
AGAAAGGAAGAA
Found at i:2707512 original size:45 final size:45
Alignment explanation
Indices: 2707451--2707561 Score: 195
Period size: 45 Copynumber: 2.5 Consensus size: 45
2707441 TTATAATTTT
*
2707451 TTAGTTTGTTAGTTTAGGGTTTAGGGTAAAACAAAAATCAGTTAA
1 TTAGTTTGTTAGTTTAGGGTTTAGGGCAAAACAAAAATCAGTTAA
*
2707496 TTAGTTTGTTAGTTTAGAGTTTAGGGCAAAACAAAAATCAGTTAA
1 TTAGTTTGTTAGTTTAGGGTTTAGGGCAAAACAAAAATCAGTTAA
*
2707541 TTAGTTTGTCAGTTTAGGGTT
1 TTAGTTTGTTAGTTTAGGGTT
2707562 ATATGATTGT
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
45 62 1.00
ACGTcount: A:0.32, C:0.05, G:0.23, T:0.40
Consensus pattern (45 bp):
TTAGTTTGTTAGTTTAGGGTTTAGGGCAAAACAAAAATCAGTTAA
Found at i:2710185 original size:21 final size:22
Alignment explanation
Indices: 2710155--2710199 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 22
2710145 TAATTATTAG
* *
2710155 TAAATCATTAGTATTAAATAAT
1 TAAATCATTAATAATAAATAAT
*
2710177 TAAAT-ATTAATAATAAATCAT
1 TAAATCATTAATAATAAATAAT
2710198 TA
1 TA
2710200 TTAATAATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 15 0.75
22 5 0.25
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.40
Consensus pattern (22 bp):
TAAATCATTAATAATAAATAAT
Found at i:2710225 original size:59 final size:56
Alignment explanation
Indices: 2710145--2710255 Score: 150
Period size: 59 Copynumber: 1.9 Consensus size: 56
2710135 TTATTACTAG
* * *
2710145 TAATTATTAGTAAATCATTAGTATTAAATAATTAAATATTAATAATAAATCATTATTAA
1 TAATAATTACTAAATCATTAGTATCAAATAATTAAATATT--TAA-AAATCATTATTAA
* *
2710204 TAATAATTACTAAATCATTAGTATCAAATCATTAATTATTTAAAAATCATTA
1 TAATAATTACTAAATCATTAGTATCAAATAATTAAATATTTAAAAATCATTA
2710256 ATAAATTTGA
Statistics
Matches: 47, Mismatches: 5, Indels: 3
0.85 0.09 0.05
Matches are distributed among these distances:
56 9 0.19
57 3 0.06
59 35 0.74
ACGTcount: A:0.50, C:0.06, G:0.03, T:0.41
Consensus pattern (56 bp):
TAATAATTACTAAATCATTAGTATCAAATAATTAAATATTTAAAAATCATTATTAA
Found at i:2710358 original size:14 final size:14
Alignment explanation
Indices: 2710337--2710726 Score: 192
Period size: 14 Copynumber: 29.1 Consensus size: 14
2710327 ATTAGTAATA
2710337 ATTATTAAATCATT
1 ATTATTAAATCATT
*
2710351 AATATTAAATCATT
1 ATTATTAAATCATT
2710365 ATTATTAAATC---
1 ATTATTAAATCATT
*
2710376 ATTACTAAATCATT
1 ATTATTAAATCATT
**
2710390 ACCATTAAATCATT
1 ATTATTAAATCATT
*
2710404 ATTA-T-AATGATT
1 ATTATTAAATCATT
2710416 ATTATTAAATC---
1 ATTATTAAATCATT
2710427 ATTATT--ATCATT
1 ATTATTAAATCATT
*
2710439 ATTATTAAATTATT
1 ATTATTAAATCATT
*
2710453 ATTA-T-AATGATT
1 ATTATTAAATCATT
*
2710465 ATTACTAAATCATT
1 ATTATTAAATCATT
*
2710479 ATTA-T-AATGATT
1 ATTATTAAATCATT
*
2710491 ATTATCAAATCATT
1 ATTATTAAATCATT
* *
2710505 ACTAAATCATCAAATAATT
1 A-T---T-ATTAAATCATT
* *
2710524 AAATATTAAA--ATC
1 -ATTATTAAATCATT
2710537 ATTATTAAATCATT
1 ATTATTAAATCATT
** *
2710551 A-T-TGGAATGATT
1 ATTATTAAATCATT
*
2710563 ATTACTAAATCATT
1 ATTATTAAATCATT
*
2710577 ATTA-T-AATGATT
1 ATTATTAAATCATT
**
2710589 ATTAGCAAATCATT
1 ATTATTAAATCATT
*
2710603 AGTAAATCATCAAATCATT
1 A-T---T-ATTAAATCATT
* *
2710622 AAATATTAAA--ATC
1 -ATTATTAAATCATT
2710635 ATTATTAAATC---
1 ATTATTAAATCATT
2710646 ATTATTAAATCATT
1 ATTATTAAATCATT
*
2710660 ATTA-T-AATGATT
1 ATTATTAAATCATT
*
2710672 ATTACTAAATCATT
1 ATTATTAAATCATT
*
2710686 ATTA-T-AATGATT
1 ATTATTAAATCATT
*
2710698 ATTACTAAATCA-T
1 ATTATTAAATCATT
*
2710711 AATATTAAAATCATT
1 ATTATT-AAATCATT
2710726 A
1 A
2710727 CTAAATCATC
Statistics
Matches: 290, Mismatches: 43, Indels: 85
0.69 0.10 0.20
Matches are distributed among these distances:
9 3 0.01
11 27 0.09
12 90 0.31
13 21 0.07
14 109 0.38
15 14 0.05
16 2 0.01
18 2 0.01
19 20 0.07
20 2 0.01
ACGTcount: A:0.45, C:0.09, G:0.03, T:0.43
Consensus pattern (14 bp):
ATTATTAAATCATT
Found at i:2710419 original size:3 final size:3
Alignment explanation
Indices: 2710401--2710495 Score: 52
Period size: 3 Copynumber: 32.7 Consensus size: 3
2710391 CCATTAAATC
* * * * * *
2710401 ATT ATT ATA ATG ATT ATT ATT A-A ATC ATT ATT ATC ATT ATT ATT A-A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * * * * *
2710447 ATT ATT ATT ATA ATG ATT ATT ACT A-A ATC ATT ATT ATA ATG ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
2710494 AT
1 AT
2710496 CAAATCATTA
Statistics
Matches: 69, Mismatches: 20, Indels: 6
0.73 0.21 0.06
Matches are distributed among these distances:
2 3 0.04
3 66 0.96
ACGTcount: A:0.41, C:0.04, G:0.03, T:0.52
Consensus pattern (3 bp):
ATT
Found at i:2710423 original size:26 final size:26
Alignment explanation
Indices: 2710337--2710603 Score: 239
Period size: 26 Copynumber: 10.6 Consensus size: 26
2710327 ATTAGTAATA
* *
2710337 ATTATTAAATCATTAATATTAAATCATT
1 ATTATTAAATCATTATTA-T-AATGATT
* *
2710365 ATTATTAAATCATTACTA-AATCATT
1 ATTATTAAATCATTATTATAATGATT
**
2710390 ACCATTAAATCATTATTATAATGATT
1 ATTATTAAATCATTATTATAATGATT
*
2710416 ATTATTAAATCATTA-T-T-ATCATT
1 ATTATTAAATCATTATTATAATGATT
*
2710439 ATTATTAAATTATTATTATAATGATT
1 ATTATTAAATCATTATTATAATGATT
*
2710465 ATTACTAAATCATTATTATAATGATT
1 ATTATTAAATCATTATTATAATGATT
* * * *
2710491 ATTATCAAATCATTACTA-AATCATC
1 ATTATTAAATCATTATTATAATGATT
* * * * *
2710516 A--AATAATTAAATATTA-AA--ATC
1 ATTATTAAATCATTATTATAATGATT
**
2710537 ATTATTAAATCATTATTGGAATGATT
1 ATTATTAAATCATTATTATAATGATT
*
2710563 ATTACTAAATCATTATTATAATGATT
1 ATTATTAAATCATTATTATAATGATT
**
2710589 ATTAGCAAATCATTA
1 ATTATTAAATCATTA
2710604 GTAAATCATC
Statistics
Matches: 196, Mismatches: 34, Indels: 20
0.78 0.14 0.08
Matches are distributed among these distances:
21 4 0.02
23 40 0.20
24 4 0.02
25 30 0.15
26 101 0.52
28 17 0.09
ACGTcount: A:0.44, C:0.09, G:0.03, T:0.44
Consensus pattern (26 bp):
ATTATTAAATCATTATTATAATGATT
Found at i:2710450 original size:20 final size:22
Alignment explanation
Indices: 2710359--2710468 Score: 76
Period size: 23 Copynumber: 4.6 Consensus size: 22
2710349 TTAATATTAA
*
2710359 ATCATTATTATTAAATCATTACTAA
1 ATCATTATTATTAAA-CATTA-T-T
**
2710384 ATCATTACCATTAAATCATTATTAT
1 ATCATTATTATTAAA-CATTA-T-T
*
2710409 AATGATTATTATTAAATCATTATT
1 -ATCATTATTATTAAA-CATTATT
*
2710433 ATCATTATTATTAAATTATTATT
1 ATCATTATTATTAAA-CATTATT
* *
2710456 ATAATGATTATTA
1 ATCATTATTATTA
2710469 CTAAATCATT
Statistics
Matches: 73, Mismatches: 11, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
23 32 0.44
24 1 0.01
25 22 0.30
26 18 0.25
ACGTcount: A:0.42, C:0.08, G:0.02, T:0.48
Consensus pattern (22 bp):
ATCATTATTATTAAACATTATT
Found at i:2710454 original size:49 final size:52
Alignment explanation
Indices: 2710338--2710553 Score: 67
Period size: 49 Copynumber: 4.3 Consensus size: 52
2710328 TTAGTAATAA
* *
2710338 TTATTA-AATCATTAATATTAAATCATTATTATTAA--ATCATTACTAAATCA
1 TTATTATAATCATTATTATTAAATCATTATTA-TAATGATTATTACTAAATCA
* * *
2710388 TTACCATTA-AATCATTATTA-T-AATGATTATTATTAA--ATCATTA-T-TATCA
1 TT---ATTATAATCATTATTATTAAATCATTATTA-TAATGATTATTACTAAATCA
* * *
2710437 TTATTATTAA--ATTATTATTATAATGATTATTACTAAATCATTATTA-T-AATGA
1 TTATTA-TAATCATTATTATTA-AATCATTATTA-T-AATGATTATTACTAAATCA
* * * * * *
2710489 TTATTATCAA--ATCATTACTAAATCATCA-AATAATTAAATATTA--AAATCA
1 TTATTAT-AATCATTATTATTAAATCATTATTATAA-TGATTATTACTAAATCA
2710538 TTATTA-AATCATTATT
1 TTATTATAATCATTATT
2710554 GGAATGATTA
Statistics
Matches: 134, Mismatches: 16, Indels: 33
0.73 0.09 0.18
Matches are distributed among these distances:
46 11 0.08
47 3 0.02
48 4 0.03
49 41 0.31
50 6 0.04
51 28 0.21
52 27 0.20
53 14 0.10
ACGTcount: A:0.44, C:0.09, G:0.01, T:0.45
Consensus pattern (52 bp):
TTATTATAATCATTATTATTAAATCATTATTATAATGATTATTACTAAATCA
Found at i:2710549 original size:46 final size:46
Alignment explanation
Indices: 2710491--2710658 Score: 165
Period size: 49 Copynumber: 3.5 Consensus size: 46
2710481 TATAATGATT
* *
2710491 ATTATCAAATCATTACTAAATCATCAAATAATTAAATATTAAAATC
1 ATTATTAAATCATTATTAAATCATCAAATAATTAAATATTAAAATC
* * * * * * * * *
2710537 ATTATTAAATCATTATTGGAATGATTATTACTAAATCATTATTATAATG
1 ATTATTAAATCATTATT-AAATCATCA--AATAATTAAATATTAAAATC
* *
2710586 ATTATTAGCAAATCATTAGTAAATCATCAAATCATTAAATATTAAAATC
1 ATTATT---AAATCATTATTAAATCATCAAATAATTAAATATTAAAATC
2710635 ATTATTAAATCATTATTAAATCAT
1 ATTATTAAATCATTATTAAATCAT
2710659 TATTATAATG
Statistics
Matches: 93, Mismatches: 23, Indels: 12
0.73 0.18 0.09
Matches are distributed among these distances:
46 32 0.34
47 6 0.06
49 39 0.42
51 6 0.06
52 10 0.11
ACGTcount: A:0.47, C:0.10, G:0.04, T:0.39
Consensus pattern (46 bp):
ATTATTAAATCATTATTAAATCATCAAATAATTAAATATTAAAATC
Found at i:2710552 original size:98 final size:97
Alignment explanation
Indices: 2710439--2710710 Score: 388
Period size: 98 Copynumber: 2.8 Consensus size: 97
2710429 TATTATCATT
*
2710439 ATTATTAAATTATTATTATAATGATTATTACTAAATCATTATTATAATGATTATTATCAAATCAT
1 ATTATTAAATCATTATTA-AATGATTATTACTAAATCATTATTATAATGATTATTATCAAATCAT
2710504 TACTAAATCATCAAATAATTAAATATTAAAATC
65 TACTAAATCATCAAATAATTAAATATTAAAATC
* *
2710537 ATTATTAAATCATTATTGGAATGATTATTACTAAATCATTATTATAATGATTATTAGCAAATCAT
1 ATTATTAAATCATTATT-AAATGATTATTACTAAATCATTATTATAATGATTATTATCAAATCAT
* *
2710602 TAGTAAATCATCAAATCATTAAATATTAAAATC
65 TACTAAATCATCAAATAATTAAATATTAAAATC
* * *
2710635 ATTATTAAATCATTATTAAATCATTATTA-T-AATGATTATTACTAAATCATTATTAT-AATGAT
1 ATTATTAAATCATTATTAAATGATTATTACTAAATCATTATTA-T-AATGATTATTATCAA--AT
*
2710697 TATTACTAAATCAT
62 CATTACTAAATCAT
2710711 AATATTAAAA
Statistics
Matches: 157, Mismatches: 12, Indels: 10
0.88 0.07 0.06
Matches are distributed among these distances:
95 10 0.06
96 4 0.03
97 20 0.13
98 123 0.78
ACGTcount: A:0.45, C:0.08, G:0.04, T:0.43
Consensus pattern (97 bp):
ATTATTAAATCATTATTAAATGATTATTACTAAATCATTATTATAATGATTATTATCAAATCATT
ACTAAATCATCAAATAATTAAATATTAAAATC
Found at i:2710680 original size:26 final size:25
Alignment explanation
Indices: 2710630--2710735 Score: 123
Period size: 26 Copynumber: 4.3 Consensus size: 25
2710620 TTAAATATTA
*
2710630 AAATCATTATTAAATCATTA-T--T
1 AAATCATTATTAAATGATTATTACT
2710652 AAATCATTATTATAATGATTATTACT
1 AAATCATTATTA-AATGATTATTACT
2710678 AAATCATTATTATAATGATTATTACT
1 AAATCATTATTA-AATGATTATTACT
*
2710704 AAATCATAATATTAAA--ATCATTACT
1 AAATCAT--TATTAAATGATTATTACT
2710729 AAATCAT
1 AAATCAT
2710736 CAAATCATAA
Statistics
Matches: 76, Mismatches: 2, Indels: 9
0.87 0.02 0.10
Matches are distributed among these distances:
22 12 0.16
23 7 0.09
24 1 0.01
25 15 0.20
26 34 0.45
27 2 0.03
28 5 0.07
ACGTcount: A:0.46, C:0.09, G:0.02, T:0.42
Consensus pattern (25 bp):
AAATCATTATTAAATGATTATTACT
Found at i:2710895 original size:49 final size:49
Alignment explanation
Indices: 2710829--2711101 Score: 383
Period size: 49 Copynumber: 5.6 Consensus size: 49
2710819 ATTACTAATA
*
2710829 ATTACTAAACCATTACTATCAAATCATTAAATATTAATAATAATTTCATT
1 ATTACT-AATCATTACTATCAAATCATTAAATATTAATAATAATTTCATT
*
2710879 ATTACTAATCATTACTACCAAATCATTAAATATTAATAATAATTTCATT
1 ATTACTAATCATTACTATCAAATCATTAAATATTAATAATAATTTCATT
*
2710928 ATTACTAATCATTACTATCAAATCATTAAATATTAATAATAGTTTCATT
1 ATTACTAATCATTACTATCAAATCATTAAATATTAATAATAATTTCATT
* *
2710977 ATTACTAATCATTACTAACAAATTATTAAATATTAATAATAATTTCATT
1 ATTACTAATCATTACTATCAAATCATTAAATATTAATAATAATTTCATT
* * * *
2711026 ATTACTAATCATTACTA-AATAATTATTATAATTTTAA-ATATAAATTCATT
1 ATTACTAATCATTACTATCA-AATCATTA-AATATTAATA-ATAATTTCATT
* *
2711076 ATTA--AATCATGATTATCAAATCATTA
1 ATTACTAATCATTACTATCAAATCATTA
2711102 CTAAATCAAA
Statistics
Matches: 205, Mismatches: 14, Indels: 10
0.90 0.06 0.04
Matches are distributed among these distances:
48 17 0.08
49 161 0.79
50 27 0.13
ACGTcount: A:0.45, C:0.12, G:0.01, T:0.42
Consensus pattern (49 bp):
ATTACTAATCATTACTATCAAATCATTAAATATTAATAATAATTTCATT
Found at i:2714422 original size:21 final size:21
Alignment explanation
Indices: 2714398--2714443 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
2714388 ACATATAATA
*
2714398 TAAATTAA-ACAAAATATATTT
1 TAAAATAACACAAAATAT-TTT
*
2714419 TAAAATAACACTAAATATTTT
1 TAAAATAACACAAAATATTTT
2714440 TAAA
1 TAAA
2714444 CACAATATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 14 0.64
22 8 0.36
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.37
Consensus pattern (21 bp):
TAAAATAACACAAAATATTTT
Found at i:2714980 original size:28 final size:28
Alignment explanation
Indices: 2714949--2715016 Score: 111
Period size: 28 Copynumber: 2.4 Consensus size: 28
2714939 TTATATAATA
2714949 TAATAATATATAACTTAAACTAACAAAC
1 TAATAATATATAACTTAAACTAACAAAC
2714977 TAAT-ATAATATAACTTAAACTAACAAAC
1 TAATAAT-ATATAACTTAAACTAACAAAC
*
2715005 TAATAATTTATA
1 TAATAATATATA
2715017 CTAACAAACT
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
27 2 0.05
28 33 0.89
29 2 0.05
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.32
Consensus pattern (28 bp):
TAATAATATATAACTTAAACTAACAAAC
Found at i:2715019 original size:21 final size:21
Alignment explanation
Indices: 2714986--2715034 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
2714976 CTAATATAAT
2714986 ATAACTTAAACTAACAAACTA
1 ATAACTTAAACTAACAAACTA
* *
2715007 ATAATTTATACTAACAAACTA
1 ATAACTTAAACTAACAAACTA
2715028 ATTAACT
1 A-TAACT
2715035 AAATTTTAGT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.53, C:0.16, G:0.00, T:0.31
Consensus pattern (21 bp):
ATAACTTAAACTAACAAACTA
Found at i:2715660 original size:31 final size:31
Alignment explanation
Indices: 2715618--2715700 Score: 116
Period size: 29 Copynumber: 2.7 Consensus size: 31
2715608 CATGCATAGC
* * *
2715618 TCGCCCTGAGTGCATGACGACCTCTCCTTGG
1 TCGCCCGGAGTGCATGGCGACCTCTCCTTGA
*
2715649 TCGCTCGGAGTGCATGGCGA-C-CTCCTTGA
1 TCGCCCGGAGTGCATGGCGACCTCTCCTTGA
2715678 TCGCCCGGAGTGCATGGCGACCT
1 TCGCCCGGAGTGCATGGCGACCT
2715701 ACGACTTCAC
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
29 26 0.58
30 2 0.04
31 17 0.38
ACGTcount: A:0.13, C:0.34, G:0.30, T:0.23
Consensus pattern (31 bp):
TCGCCCGGAGTGCATGGCGACCTCTCCTTGA
Found at i:2718369 original size:35 final size:35
Alignment explanation
Indices: 2718323--2718394 Score: 135
Period size: 35 Copynumber: 2.1 Consensus size: 35
2718313 CCAAAAAAGA
2718323 AGAGTTGGATTAGGACTCAAATACTAGTCTAAAAT
1 AGAGTTGGATTAGGACTCAAATACTAGTCTAAAAT
*
2718358 AGAGTTGGATTAGGACTCTAATACTAGTCTAAAAT
1 AGAGTTGGATTAGGACTCAAATACTAGTCTAAAAT
2718393 AG
1 AG
2718395 GATTTTTTAG
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.39, C:0.11, G:0.21, T:0.29
Consensus pattern (35 bp):
AGAGTTGGATTAGGACTCAAATACTAGTCTAAAAT
Found at i:2718795 original size:17 final size:18
Alignment explanation
Indices: 2718769--2718808 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
2718759 ATTATATGAA
2718769 TATT-TTATTCAT-TTAT
1 TATTATTATTCATGTTAT
*
2718785 TTTTATTATTCATGTTAT
1 TATTATTATTCATGTTAT
2718803 TATTAT
1 TATTAT
2718809 ACGTATATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
16 3 0.15
17 8 0.40
18 9 0.45
ACGTcount: A:0.25, C:0.05, G:0.03, T:0.68
Consensus pattern (18 bp):
TATTATTATTCATGTTAT
Found at i:2718999 original size:81 final size:81
Alignment explanation
Indices: 2718861--2719029 Score: 188
Period size: 81 Copynumber: 2.1 Consensus size: 81
2718851 TTTTACTATA
* * *
2718861 TTTTATTATTATATATATATATATATTTCTTTAATATTTTACTTATAAGTCTATTATT-A-CTAT
1 TTTTATTATTATATATATATATATATTTCTTTAATAGTTTACTTATAAGCCTATTATTAATATAT
2718924 ATATATT-GTAATTAT
66 ATATATTCGTAATTAT
* *
2718939 TTTTATCTAGTTATATATATA-ATA-ATTATACTTTTAATAGTTTATTTATATA-CCTCTTATTA
1 TTTTAT-TA-TTATATATATATATATATT-T-C-TTTAATAGTTTACTTATA-AGCCTATTATTA
*
2719001 ATATATATATATTCTTAATTAT
60 ATATATATATATTCGTAATTAT
2719023 TTTTATT
1 TTTTATT
2719030 TGATTATTTC
Statistics
Matches: 76, Mismatches: 6, Indels: 13
0.80 0.06 0.14
Matches are distributed among these distances:
78 9 0.12
79 6 0.08
80 12 0.16
81 23 0.30
82 2 0.03
83 11 0.14
84 13 0.17
ACGTcount: A:0.34, C:0.06, G:0.02, T:0.57
Consensus pattern (81 bp):
TTTTATTATTATATATATATATATATTTCTTTAATAGTTTACTTATAAGCCTATTATTAATATAT
ATATATTCGTAATTAT
Found at i:2727945 original size:106 final size:106
Alignment explanation
Indices: 2727719--2728562 Score: 1059
Period size: 106 Copynumber: 8.0 Consensus size: 106
2727709 ATATCACGCC
* *
2727719 ACTCGAGATAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAACTTT-T
1 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAA-TTTCC
* * *
2727783 CAGTTTCATTCAGAGCCAATTTCAATTTCACAGCGAAGGATATTGG
65 CA--AT--TTCAGAGCCAATTTCAACTTCACATCGAAGGATATTGG
* * *
2727829 ACTCGGGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTAGTCAACAAATAATTTCCC
1 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCC
*
2727894 AATTTCAGAGCCAATTTCAACTTCACATCGAAGGATGTTGG
66 AATTTCAGAGCCAATTTCAACTTCACATCGAAGGATATTGG
* *
2727935 ACTCGGGACAACACAAGTTCAACTTCACAATGAAGGGACGGCTGGTTGTCAACAAACAATTTCCC
1 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCC
* * * *
2728000 AATTTAAGAGTCAATTTCAACTTCATAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACATCGAAGGATATTGG
* * *
2728041 ACTCAAGACAACACAAGTTCAACTTCACAACGAAGGGATGGCTGGTTGTCAACAAACAATCTCCC
1 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCC
* *
2728106 AATTTCAGAG-C-----CAA--T-A-GT-GAAAGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACATCGAAGGATATTGG
* * * * *
2728136 ACTCGAGACGACACAAGTTCAACTTCACAACGAAGAGAAGACTGGTTGTCAATAAACAATTTCCC
1 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCC
* *
2728201 AATTTCAGGGTCAATTTCAACTTCACATCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACATCGAAGGATATTGG
* *
2728242 ACTCGAGAC--CACAAGTTCAACTTCACAACGAAGGGACGACTGGTTGTCAACAAATAATTTCCC
1 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCC
* * *
2728305 AATTTCAGAGCTAATTTCAACTTCATAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACATCGAAGGATATTGG
* * * *
2728346 ACTCGAGACGACACAAGTTCAACTTCACAACGAATGGACGGCTGGTTGTCAACAAATAATTTCCT
1 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCC
* * *
2728411 AATTTCAGGGTCAATTTCAACTTCACATCGAAGGATATTAG
66 AATTTCAGAGCCAATTTCAACTTCACATCGAAGGATATTGG
* * * * * ** * * *
2728452 ACTCAAGACAGCATAAGCTCAACTTCACAGCGAAGGGGTGGTTGGCTGTCAACAAACAATTTTCC
1 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCC
* * ** *
2728517 AGTTCCAGAGCCAATTTCAACTTCACGGCGGAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACATCGAAGGATATTGG
2728558 ACTCG
1 ACTCG
2728563 GAACAATACA
Statistics
Matches: 643, Mismatches: 77, Indels: 32
0.86 0.10 0.04
Matches are distributed among these distances:
95 78 0.12
96 1 0.00
97 1 0.00
98 1 0.00
100 3 0.00
101 3 0.00
103 1 0.00
104 96 0.15
105 2 0.00
106 396 0.62
108 1 0.00
109 3 0.00
110 57 0.09
ACGTcount: A:0.34, C:0.22, G:0.19, T:0.24
Consensus pattern (106 bp):
ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCC
AATTTCAGAGCCAATTTCAACTTCACATCGAAGGATATTGG
Found at i:2728301 original size:411 final size:414
Alignment explanation
Indices: 2727719--2728531 Score: 1193
Period size: 411 Copynumber: 2.0 Consensus size: 414
2727709 ATATCACGCC
* * * * *
2727719 ACTCGAGATAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAACTTTTC
1 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGAGAAGACTGGTTGTCAACAAACAACTTTCC
* * *
2727784 AGTTTCATTCAGAGCCAATTTCAATTTCACAGCGAAGGATATTGGACTCGGGACAACACAAGTTC
66 AG-AT-ATTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCGAGAC-ACACAAGTTC
*
2727849 AACTTCACAACGAAGGGACGGCTGGTAGTCAACAAATAATTTCCCAATTTCAGAGCCAATTTCAA
128 AACTTCACAACGAAGGGACGACTGGTAGTCAACAAATAATTTCCCAATTTCAGAGCCAATTTCAA
* * * *
2727914 CTTCACATCGAAGGATGTTGGACTCGGGACAACACAAGTTCAACTTCACAATGAAGGGACGGCTG
193 CTTCACAGCGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTG
* *
2727979 GTTGTCAACAAACAATTTCCCAATTTAAGAGTCAATTTCAACTTCATAACGAAGGATATTGGACT
258 GTTGTCAACAAACAATTTCCCAATTTAAGAGTCAATTTCAACTTCACAACGAAGGATATTAGACT
* *
2728044 CAAGACAACACAAGTTCAACTTCACAACGAAGGGATGGCTGGTTGTCAACAAACAATCTCCCAAT
323 CAAGACAACACAAGCTCAACTTCACAACGAAGGGATGGCTGGCTGTCAACAAACAATCTCCCAAT
*
2728109 TTCAGAGCCAATAGTGAAAGATATTGG
388 TCCAGAGCCAATAGTGAAAGATATTGG
* *
2728136 ACTCGAGACGACACAAGTTCAACTTCACAACGAAGAGAAGACTGGTTGTCAATAAACAA-TTTCC
1 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGAGAAGACTGGTTGTCAACAAACAACTTT-C
* * *
2728200 CA-AT-TTCAGGGTCAATTTCAACTTCACATCGAAGGATATTGGACTCGAGAC-CACAAGTTCAA
65 CAGATATTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACACACAAGTTCAA
* *
2728262 CTTCACAACGAAGGGACGACTGGTTGTCAACAAATAATTTCCCAATTTCAGAGCTAATTTCAACT
130 CTTCACAACGAAGGGACGACTGGTAGTCAACAAATAATTTCCCAATTTCAGAGCCAATTTCAACT
* * *
2728327 TCATAGCGAAGGATATTGGACTCGAGACGACACAAGTTCAACTTCACAACGAATGGACGGCTGGT
195 TCACAGCGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGT
* * * * *
2728392 TGTCAACAAATAATTTCCTAATTTCAGGGTCAATTTCAACTTCACATCGAAGGATATTAGACTCA
260 TGTCAACAAACAATTTCCCAATTTAAGAGTCAATTTCAACTTCACAACGAAGGATATTAGACTCA
* * * * * * * *
2728457 AGACAGCATAAGCTCAACTTCACAGCGAAGGGGTGGTTGGCTGTCAACAAACAATTTTCCAGTTC
325 AGACAACACAAGCTCAACTTCACAACGAAGGGATGGCTGGCTGTCAACAAACAATCTCCCAATTC
2728522 CAGAGCCAAT
390 CAGAGCCAAT
2728532 TTCAACTTCA
Statistics
Matches: 354, Mismatches: 41, Indels: 8
0.88 0.10 0.02
Matches are distributed among these distances:
411 253 0.71
413 42 0.12
415 1 0.00
416 3 0.01
417 55 0.16
ACGTcount: A:0.35, C:0.22, G:0.19, T:0.24
Consensus pattern (414 bp):
ACTCGAGACAACACAAGTTCAACTTCACAACGAAGAGAAGACTGGTTGTCAACAAACAACTTTCC
AGATATTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACACACAAGTTCAAC
TTCACAACGAAGGGACGACTGGTAGTCAACAAATAATTTCCCAATTTCAGAGCCAATTTCAACTT
CACAGCGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTT
GTCAACAAACAATTTCCCAATTTAAGAGTCAATTTCAACTTCACAACGAAGGATATTAGACTCAA
GACAACACAAGCTCAACTTCACAACGAAGGGATGGCTGGCTGTCAACAAACAATCTCCCAATTCC
AGAGCCAATAGTGAAAGATATTGG
Found at i:2728374 original size:305 final size:306
Alignment explanation
Indices: 2727821--2728418 Score: 948
Period size: 305 Copynumber: 2.0 Consensus size: 306
2727811 CACAGCGAAG
* * * * *
2727821 GATATTGGACTCGGGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTAGTCAACAAAT
1 GATATTGGACTCGAGACAACACAAGTTCAACTTCACAACGAAGAGAAGACTGGTAGTCAACAAAC
* *
2727886 AATTTCCCAATTTCAGAGCCAATTTCAACTTCACATCGAAGGATGTTGGACTCGGGACAACACAA
66 AATTTCCCAATTTCAGAGCCAATTTCAACTTCACATCGAAGGATATTGGACTCGAGAC-ACACAA
* *
2727951 GTTCAACTTCACAATGAAGGGACGGCTGGTTGTCAACAAACAATTTCCCAATTTAAGAGTCAATT
130 GTTCAACTTCACAACGAAGGGACGACTGGTTGTCAACAAACAATTTCCCAATTTAAGAGTCAATT
*
2728016 TCAACTTCATAACGAAGGATATTGGACTCAAGACAACACAAGTTCAACTTCACAACGAAGGGATG
195 TCAACTTCATAACGAAGGATATTGGACTCAAGACAACACAAGTTCAACTTCACAACGAAGGGACG
2728081 GCTGGTTGTCAACAAACAATCTCCCAATTTCAGAGCCAATAGTGAAA
260 GCTGGTTGTCAACAAACAATCTCCCAATTTCAGAGCCAATAGTGAAA
* * *
2728128 GATATTGGACTCGAGACGACACAAGTTCAACTTCACAACGAAGAGAAGACTGGTTGTCAATAAAC
1 GATATTGGACTCGAGACAACACAAGTTCAACTTCACAACGAAGAGAAGACTGGTAGTCAACAAAC
* *
2728193 AATTTCCCAATTTCAGGGTCAATTTCAACTTCACATCGAAGGATATTGGACTCGAGAC-CACAAG
66 AATTTCCCAATTTCAGAGCCAATTTCAACTTCACATCGAAGGATATTGGACTCGAGACACACAAG
* *
2728257 TTCAACTTCACAACGAAGGGACGACTGGTTGTCAACAAATAATTTCCCAATTTCAGAG-CTAATT
131 TTCAACTTCACAACGAAGGGACGACTGGTTGTCAACAAACAATTTCCCAATTTAAGAGTC-AATT
* * * *
2728321 TCAACTTCATAGCGAAGGATATTGGACTCGAGACGACACAAGTTCAACTTCACAACGAATGGACG
195 TCAACTTCATAACGAAGGATATTGGACTCAAGACAACACAAGTTCAACTTCACAACGAAGGGACG
* * *
2728386 GCTGGTTGTCAACAAATAATTTCCTAATTTCAG
260 GCTGGTTGTCAACAAACAATCTCCCAATTTCAG
2728419 GGTCAATTTC
Statistics
Matches: 266, Mismatches: 24, Indels: 4
0.90 0.08 0.01
Matches are distributed among these distances:
304 1 0.00
305 154 0.58
307 111 0.42
ACGTcount: A:0.35, C:0.22, G:0.19, T:0.24
Consensus pattern (306 bp):
GATATTGGACTCGAGACAACACAAGTTCAACTTCACAACGAAGAGAAGACTGGTAGTCAACAAAC
AATTTCCCAATTTCAGAGCCAATTTCAACTTCACATCGAAGGATATTGGACTCGAGACACACAAG
TTCAACTTCACAACGAAGGGACGACTGGTTGTCAACAAACAATTTCCCAATTTAAGAGTCAATTT
CAACTTCATAACGAAGGATATTGGACTCAAGACAACACAAGTTCAACTTCACAACGAAGGGACGG
CTGGTTGTCAACAAACAATCTCCCAATTTCAGAGCCAATAGTGAAA
Found at i:2729137 original size:35 final size:35
Alignment explanation
Indices: 2729040--2729116 Score: 136
Period size: 35 Copynumber: 2.2 Consensus size: 35
2729030 ATGTAACCAA
* *
2729040 AAAAAAGAGTTGGATTAGGACTCAAATACTAGTCT
1 AAAATAGAGTTGGATTAGGACTTAAATACTAGTCT
2729075 AAAATAGAGTTGGATTAGGACTTAAATACTAGTCT
1 AAAATAGAGTTGGATTAGGACTTAAATACTAGTCT
2729110 AAAATAG
1 AAAATAG
2729117 GGTTTTTTAG
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 40 1.00
ACGTcount: A:0.44, C:0.09, G:0.19, T:0.27
Consensus pattern (35 bp):
AAAATAGAGTTGGATTAGGACTTAAATACTAGTCT
Found at i:2729517 original size:17 final size:18
Alignment explanation
Indices: 2729491--2729530 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
2729481 ATTATATGGA
2729491 TATT-TTATTCAT-TTAT
1 TATTATTATTCATGTTAT
*
2729507 TTTTATTATTCATGTTAT
1 TATTATTATTCATGTTAT
2729525 TATTAT
1 TATTAT
2729531 ACATATATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
16 3 0.15
17 8 0.40
18 9 0.45
ACGTcount: A:0.25, C:0.05, G:0.03, T:0.68
Consensus pattern (18 bp):
TATTATTATTCATGTTAT
Found at i:2729540 original size:2 final size:2
Alignment explanation
Indices: 2729528--2729619 Score: 75
Period size: 2 Copynumber: 46.5 Consensus size: 2
2729518 ATGTTATTAT
* * * *
2729528 TA TA CA TA TA TA TA TA TA TA TA TA TA TA T- TT TCA TT TGA T- TT
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA T-A TA TA
* *
2729570 TT TA CTA TA T- TT TA T- TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2729611 TA TA TA TA T
1 TA TA TA TA T
2729620 TTCTTTAATA
Statistics
Matches: 76, Mismatches: 7, Indels: 14
0.78 0.07 0.14
Matches are distributed among these distances:
1 4 0.05
2 68 0.89
3 4 0.05
ACGTcount: A:0.40, C:0.03, G:0.01, T:0.55
Consensus pattern (2 bp):
TA
Found at i:2729801 original size:2 final size:2
Alignment explanation
Indices: 2729796--2729832 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
2729786 CTTATAACTT
2729796 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
2729833 TTTTTATTGT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:2730091 original size:38 final size:40
Alignment explanation
Indices: 2730040--2730119 Score: 112
Period size: 40 Copynumber: 2.0 Consensus size: 40
2730030 AGTGAGAGGG
*
2730040 TAGCTTTTCTATTTT-TAAATA-TTTGTTGTATATATATA
1 TAGCTTTTCTATTTTATAAATACTTTGATGTATATATATA
*
2730078 TAGCTTATT-TATTTTATTAATACTTTGATGTATATATATA
1 TAGCTT-TTCTATTTTATAAATACTTTGATGTATATATATA
2730118 TA
1 TA
2730120 TATATATATA
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
38 12 0.32
39 7 0.19
40 18 0.49
ACGTcount: A:0.31, C:0.05, G:0.07, T:0.56
Consensus pattern (40 bp):
TAGCTTTTCTATTTTATAAATACTTTGATGTATATATATA
Found at i:2730235 original size:19 final size:18
Alignment explanation
Indices: 2730189--2730250 Score: 58
Period size: 19 Copynumber: 3.4 Consensus size: 18
2730179 CCTTATATTG
2730189 TTTATTTATTTTATTTTCTC
1 TTTATTTATTTTA--TTCTC
*
2730209 TCT-TTTATTTTATTCTC
1 TTTATTTATTTTATTCTC
2730226 TTTATCTTATTTGT-TT-TC
1 TTTAT-TTATTT-TATTCTC
2730244 TTTATTT
1 TTTATTT
2730251 TGTTTATCTA
Statistics
Matches: 37, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
17 9 0.24
18 8 0.22
19 17 0.46
20 3 0.08
ACGTcount: A:0.13, C:0.11, G:0.02, T:0.74
Consensus pattern (18 bp):
TTTATTTATTTTATTCTC
Found at i:2735664 original size:2 final size:2
Alignment explanation
Indices: 2735659--2735687 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
2735649 ATATATATAT
2735659 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
2735688 AAGAATTTCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:2737252 original size:28 final size:29
Alignment explanation
Indices: 2737220--2737292 Score: 123
Period size: 28 Copynumber: 2.6 Consensus size: 29
2737210 ATTCTTTAAA
2737220 TCCTAAATTTAAACATTTTTTT-AATAAT
1 TCCTAAATTTAAACATTTTTTTAAATAAT
2737248 TCCTAAATTTAAAC-TTTTTTTAAATAAT
1 TCCTAAATTTAAACATTTTTTTAAATAAT
*
2737276 TCCTAAATTTAATCATT
1 TCCTAAATTTAAACATT
2737293 AAATATTAAA
Statistics
Matches: 42, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
27 7 0.17
28 33 0.79
29 2 0.05
ACGTcount: A:0.38, C:0.12, G:0.00, T:0.49
Consensus pattern (29 bp):
TCCTAAATTTAAACATTTTTTTAAATAAT
Found at i:2761429 original size:26 final size:26
Alignment explanation
Indices: 2761388--2761443 Score: 94
Period size: 26 Copynumber: 2.2 Consensus size: 26
2761378 TTCTCGTGTA
**
2761388 ACAAGTTACACGACTTTCCTTATTAC
1 ACAAGTTACAAAACTTTCCTTATTAC
2761414 ACAAGTTACAAAACTTTCCTTATTAC
1 ACAAGTTACAAAACTTTCCTTATTAC
2761440 ACAA
1 ACAA
2761444 ATGACATATT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.38, C:0.25, G:0.05, T:0.32
Consensus pattern (26 bp):
ACAAGTTACAAAACTTTCCTTATTAC
Found at i:2762034 original size:41 final size:42
Alignment explanation
Indices: 2761993--2762240 Score: 258
Period size: 41 Copynumber: 6.1 Consensus size: 42
2761983 GGTATATAGC
* * *
2761993 GGCATTTTTAGAACAAACGCCGCTAAAGACT-GTACTTTAGC
1 GGCATTTTTAGTACAAACGCCGCTATAGACTCGTACTTTAGT
* * * *
2762034 GGCATTTGTA-TAAAAACGCCGCTATATACTTGTACTTTAGT
1 GGCATTTTTAGTACAAACGCCGCTATAGACTCGTACTTTAGT
2762075 GGCATTTTT-GTACAAACGCCGCTATAGACTCGTACTTTAGT
1 GGCATTTTTAGTACAAACGCCGCTATAGACTCGTACTTTAGT
* * * *
2762116 GG-TTTTTTTGTACAAATGCCGCTATAGAATCGTACTTTAGT
1 GGCATTTTTAGTACAAACGCCGCTATAGACTCGTACTTTAGT
** * * *
2762157 GGTGTTTTTA-TACAAACACCGCTACAGACTCGTAC-TTAAT
1 GGCATTTTTAGTACAAACGCCGCTATAGACTCGTACTTTAGT
* * * * *
2762197 GGCGTTTTTA-TATAAACGCCGCTAAAGACTTGTACGTTAGT
1 GGCATTTTTAGTACAAACGCCGCTATAGACTCGTACTTTAGT
2762238 GGC
1 GGC
2762241 GTTTGTGTTT
Statistics
Matches: 176, Mismatches: 26, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
40 55 0.31
41 116 0.66
42 5 0.03
ACGTcount: A:0.27, C:0.19, G:0.19, T:0.34
Consensus pattern (42 bp):
GGCATTTTTAGTACAAACGCCGCTATAGACTCGTACTTTAGT
Found at i:2765755 original size:18 final size:18
Alignment explanation
Indices: 2765717--2765756 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
2765707 TAACGCAATC
**
2765717 AATTTGCTTCATAATCCT
1 AATTTGCTTCATAAAACT
*
2765735 AATTTGCTTCATAAAATT
1 AATTTGCTTCATAAAACT
2765753 AATT
1 AATT
2765757 AAATCCCGTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.35, C:0.15, G:0.05, T:0.45
Consensus pattern (18 bp):
AATTTGCTTCATAAAACT
Found at i:2769420 original size:42 final size:41
Alignment explanation
Indices: 2769259--2769420 Score: 137
Period size: 42 Copynumber: 3.9 Consensus size: 41
2769249 TGTATTTAAG
*
2769259 AACGCCGCTTTAGATCTAACCTTTTGCGGCGTTTCTTCC-GAA
1 AACGCCGCTATAGATCTAACCTTTTGCGGCGTTT-TTCCAG-A
* * ** * *
2769301 AATGCCGCTATAGATCTAAGCTTTTGCGTTGCTTTTCTAGA
1 AACGCCGCTATAGATCTAACCTTTTGCGGCGTTTTTCCAGA
* * * * * *
2769342 AACGCCGCTATAGATATCGATCTTTTGTGTCATTTTTCCAGA
1 AACGCCGCTATAGATCT-AACCTTTTGCGGCGTTTTTCCAGA
* * *
2769384 AACGCCGCCATAGATCTTGACCTATTGCGGCGTTTTT
1 AACGCCGCTATAGATC-TAACCTTTTGCGGCGTTTTT
2769421 GTTCTCAAAT
Statistics
Matches: 94, Mismatches: 23, Indels: 6
0.76 0.19 0.05
Matches are distributed among these distances:
41 19 0.20
42 74 0.79
43 1 0.01
ACGTcount: A:0.21, C:0.24, G:0.19, T:0.36
Consensus pattern (41 bp):
AACGCCGCTATAGATCTAACCTTTTGCGGCGTTTTTCCAGA
Found at i:2771327 original size:3 final size:3
Alignment explanation
Indices: 2771319--2771418 Score: 200
Period size: 3 Copynumber: 33.3 Consensus size: 3
2771309 TATAACCTAC
2771319 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
2771367 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
2771415 ATA A
1 ATA A
2771419 AGCTTTCTTG
Statistics
Matches: 97, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 97 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:2782210 original size:17 final size:18
Alignment explanation
Indices: 2782188--2782222 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
2782178 CCCTTCTTAT
2782188 TTATTTTACA-ATTTAAA
1 TTATTTTACATATTTAAA
*
2782205 TTATTTTATATATTTAAA
1 TTATTTTACATATTTAAA
2782223 AAATTACAGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (18 bp):
TTATTTTACATATTTAAA
Found at i:2784090 original size:8 final size:8
Alignment explanation
Indices: 2784079--2784111 Score: 57
Period size: 8 Copynumber: 4.1 Consensus size: 8
2784069 AGCCGACAAG
2784079 GCTAGAAA
1 GCTAGAAA
*
2784087 GCTAGCAA
1 GCTAGAAA
2784095 GCTAGAAA
1 GCTAGAAA
2784103 GCTAGAAA
1 GCTAGAAA
2784111 G
1 G
2784112 AATGAACTCA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.45, C:0.15, G:0.27, T:0.12
Consensus pattern (8 bp):
GCTAGAAA
Found at i:2786074 original size:18 final size:17
Alignment explanation
Indices: 2786054--2786087 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
2786044 CTTTGACTGA
*
2786054 AAAAGTCAAATTTTATG
1 AAAAGCCAAATTTTATG
*
2786071 AAAAGCCATATTTTATG
1 AAAAGCCAAATTTTATG
2786088 TATTTCAATG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.44, C:0.09, G:0.12, T:0.35
Consensus pattern (17 bp):
AAAAGCCAAATTTTATG
Found at i:2788982 original size:22 final size:22
Alignment explanation
Indices: 2788957--2789003 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
2788947 TGAGTTGATT
2788957 TTAAAATAT-AAACATATAAATA
1 TTAAAATATAAAACA-ATAAATA
* *
2788979 TTAAGATTTAAAACAATAAATA
1 TTAAAATATAAAACAATAAATA
2789001 TTA
1 TTA
2789004 TATTCTATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 17 0.77
23 5 0.23
ACGTcount: A:0.60, C:0.04, G:0.02, T:0.34
Consensus pattern (22 bp):
TTAAAATATAAAACAATAAATA
Found at i:2796275 original size:6 final size:6
Alignment explanation
Indices: 2796264--2796312 Score: 53
Period size: 6 Copynumber: 8.2 Consensus size: 6
2796254 GACACGTATT
* * * * *
2796264 ACCACG ACCACG ACCGCG ACCGCG ACCGCG ACCTCG ACCTCG ACCACG
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
2796312 A
1 A
2796313 GCCGAGCCGA
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 40 1.00
ACGTcount: A:0.24, C:0.49, G:0.22, T:0.04
Consensus pattern (6 bp):
ACCACG
Found at i:2796289 original size:12 final size:12
Alignment explanation
Indices: 2796268--2796312 Score: 63
Period size: 12 Copynumber: 3.8 Consensus size: 12
2796258 CGTATTACCA
2796268 CGACCACGACCG
1 CGACCACGACCG
*
2796280 CGACCGCGACCG
1 CGACCACGACCG
* *
2796292 CGACCTCGACCT
1 CGACCACGACCG
2796304 CGACCACGA
1 CGACCACGA
2796313 GCCGAGCCGA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 29 1.00
ACGTcount: A:0.22, C:0.49, G:0.24, T:0.04
Consensus pattern (12 bp):
CGACCACGACCG
Found at i:2796295 original size:18 final size:18
Alignment explanation
Indices: 2796268--2796312 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
2796258 CGTATTACCA
2796268 CGACCACGACCGCGACCG
1 CGACCACGACCGCGACCG
* * *
2796286 CGACCGCGACCTCGACCT
1 CGACCACGACCGCGACCG
2796304 CGACCACGA
1 CGACCACGA
2796313 GCCGAGCCGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.22, C:0.49, G:0.24, T:0.04
Consensus pattern (18 bp):
CGACCACGACCGCGACCG
Found at i:2796320 original size:5 final size:5
Alignment explanation
Indices: 2796310--2796358 Score: 62
Period size: 5 Copynumber: 9.8 Consensus size: 5
2796300 ACCTCGACCA
* * * *
2796310 CGAGC CGAGC CGAGC CGAGC CGTGC CGTGC CGAGC CGAGA CGAGA CGAG
1 CGAGC CGAGC CGAGC CGAGC CGAGC CGAGC CGAGC CGAGC CGAGC CGAG
2796359 ACGGACGGAC
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 41 1.00
ACGTcount: A:0.20, C:0.35, G:0.41, T:0.04
Consensus pattern (5 bp):
CGAGC
Found at i:2801756 original size:108 final size:107
Alignment explanation
Indices: 2801620--2801961 Score: 526
Period size: 108 Copynumber: 3.2 Consensus size: 107
2801610 GGAGCATGGA
* * *
2801620 ACTCGAATAATCTTTAACAATCGTGTCTGCCCCCTATTTCTTCAGAGAGTATAAGATCCACAATC
1 ACTCGAACAATCTTCAACAATCGTGTCTGCCCCCTATATCTTCAGAGAGTATAAGA-CCACAATC
2801685 TTCATCAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAG
65 TTCATCAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAG
*
2801728 ACTCGAACAATCTTCAACAATCGCGTCTGCCCCCTATATCTTCAGAGAGTATAAGACTCACAATC
1 ACTCGAACAATCTTCAACAATCGTGTCTGCCCCCTATATCTTCAGAGAGTATAAGAC-CACAATC
2801793 TTCATCAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAG
65 TTCATCAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAG
* * *
2801836 ACTCGAACAATTTTCAACTATCGTGTCTGCCCCCTATATCTTCAGAGAGTATAAGACCCCCAATC
1 ACTCGAACAATCTTCAACAATCGTGTCTGCCCCCTATATCTTCAGAGAGTATAAGA-CCACAATC
* * * *
2801901 TTCAACGATCGTGTCTGCTCCCTATTTCTTCAGAGAGTATAAG
65 TTCATCAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAG
* *
2801944 AC-C-CACAATTTTCAACAA
1 ACTCGAACAATCTTCAACAA
2801962 ATGGGTTCGC
Statistics
Matches: 218, Mismatches: 14, Indels: 6
0.92 0.06 0.03
Matches are distributed among these distances:
106 13 0.06
107 2 0.01
108 202 0.93
109 1 0.00
ACGTcount: A:0.29, C:0.28, G:0.13, T:0.30
Consensus pattern (107 bp):
ACTCGAACAATCTTCAACAATCGTGTCTGCCCCCTATATCTTCAGAGAGTATAAGACCACAATCT
TCATCAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAG
Found at i:2801982 original size:53 final size:53
Alignment explanation
Indices: 2801628--2801961 Score: 470
Period size: 53 Copynumber: 6.2 Consensus size: 53
2801618 GAACTCGAAT
* * *
2801628 AATCTTTAACAATCGTGTCTGCCCCCTATTTCTTCAGAGAGTATAAGATCCAC
1 AATCTTCAACAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACCCAC
* *
2801681 AATCTTCATCAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAAC
1 AATCTTCAACAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGAC-C-CAC
* *
2801736 AATCTTCAACAATCGCGTCTGCCCCCTATATCTTCAGAGAGTATAAGACTCAC
1 AATCTTCAACAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACCCAC
* *
2801789 AATCTTCATCAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAAC
1 AATCTTCAACAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGAC-C-CAC
* * * * *
2801844 AATTTTCAACTATCGTGTCTGCCCCCTATATCTTCAGAGAGTATAAGACCCCC
1 AATCTTCAACAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACCCAC
* * *
2801897 AATCTTCAACGATCGTGTCTGCTCCCTATTTCTTCAGAGAGTATAAGACCCAC
1 AATCTTCAACAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACCCAC
*
2801950 AATTTTCAACAA
1 AATCTTCAACAA
2801962 ATGGGTTCGC
Statistics
Matches: 250, Mismatches: 27, Indels: 8
0.88 0.09 0.03
Matches are distributed among these distances:
53 153 0.61
54 2 0.01
55 95 0.38
ACGTcount: A:0.28, C:0.28, G:0.13, T:0.30
Consensus pattern (53 bp):
AATCTTCAACAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACCCAC
Found at i:2801992 original size:53 final size:53
Alignment explanation
Indices: 2801882--2802048 Score: 135
Period size: 53 Copynumber: 3.1 Consensus size: 53
2801872 TATCTTCAGA
* * * * *
2801882 GAGTATAAGACCCCCAATCTTCAAC-GAT-CGTGTCTGCTCCCTATTTCT-TCAGA
1 GAGTATAAGACCCACAATATTCAACAAATGGGT-TC-GCTCCCTATTTCTCT-AGG
*
2801935 GAGTATAAGACCCACAATTTTCAACAAATGGGTTCGCTCCCTATTTCTCTAGG
1 GAGTATAAGACCCACAATATTCAACAAATGGGTTCGCTCCCTATTTCTCTAGG
* * * ** * **
2801988 GAGTAT-GGAACTCAGACATATTCTTCAAACGGGTTCGCTCCCCCTTTCTCTAGG
1 GAGTATAAG-ACCCACA-ATATTCAACAAATGGGTTCGCTCCCTATTTCTCTAGG
2802042 GAGTATA
1 GAGTATA
2802049 GAACTCGAAC
Statistics
Matches: 94, Mismatches: 14, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
52 1 0.01
53 49 0.52
54 42 0.45
55 2 0.02
ACGTcount: A:0.26, C:0.26, G:0.18, T:0.30
Consensus pattern (53 bp):
GAGTATAAGACCCACAATATTCAACAAATGGGTTCGCTCCCTATTTCTCTAGG
Found at i:2802087 original size:105 final size:100
Alignment explanation
Indices: 2801964--2802364 Score: 424
Period size: 105 Copynumber: 3.9 Consensus size: 100
2801954 TTCAACAAAT
* *
2801964 GGGTTCGCTCCCTATTTCTCTAGGGAGTATGGAACTCAGACATATTCTTCAAACGGGTTCGCTCC
1 GGGTTCGCTCCCTCTTTCT-TAAGGAGTATGGAACTC-GA-ATA-TCTTCAAACGGGTTCGCTCC
* *
2802029 CCCTTTCTCTAGGGAGTATAGAACTCGAACATCTTCAAC
62 CTCTTTCTCTAAGGAGTATAGAACTCGAACATCTTCAAC
* * * * **
2802068 TGGGTTCGCTCCCTCTTTCTTCAGGGAGTATAGAACTCAAAAATCTTCTTCTTACGGGTTCGCTC
1 -GGGTTCGCTCCCTCTTTCTT-AAGGAGTATGGAACTC--GAAT-ATCTTCAAACGGGTTCGCTC
** * *
2802133 ATTCTCTCTCTAAAGAGTATAGAACTCGAACATCTTCAAAC
61 CCTCTTTCTCTAAGGAGTATAGAACTCGAACATCTTC-AAC
* * *
2802174 GGGTTCGCTCCTTCTTTCATTAAGGAGTATGGAACTCGGATATCTTCACACGGGTTCGCTCCCTC
1 GGGTTCGCTCCCTCTTTC-TTAAGGAGTATGGAACTCGAATATCTTCAAACGGGTTCGCTCCCTC
* * * *
2802239 TTTCTCTAGGGAGTATGGAACTCAAACATCTCTTTAAAC
65 TTTCTCTAAGGAGTATAGAACTCGAACA--TC-TTCAAC
* ** * *
2802278 GGGTTCGATCTTTCTTTCTTTAAGGAGTATGGAACTCGAACATCTTCAAACGGGTTCGCTCCTTC
1 GGGTTCGCTCCCTCTTTC-TTAAGGAGTATGGAACTCGAATATCTTCAAACGGGTTCGCTCCCTC
*
2802343 TTTCTTTAAGGAGTATAGAACT
65 TTTCTCTAAGGAGTATAGAACT
2802365 TGCATATCTT
Statistics
Matches: 250, Mismatches: 38, Indels: 17
0.82 0.12 0.06
Matches are distributed among these distances:
102 42 0.17
103 2 0.01
104 83 0.33
105 116 0.46
106 7 0.03
ACGTcount: A:0.23, C:0.24, G:0.19, T:0.33
Consensus pattern (100 bp):
GGGTTCGCTCCCTCTTTCTTAAGGAGTATGGAACTCGAATATCTTCAAACGGGTTCGCTCCCTCT
TTCTCTAAGGAGTATAGAACTCGAACATCTTCAAC
Found at i:2802203 original size:156 final size:154
Alignment explanation
Indices: 2802009--2802364 Score: 493
Period size: 156 Copynumber: 2.3 Consensus size: 154
2801999 TCAGACATAT
** *
2802009 TCTTCAAACGGGTTCGCTCCCCCTTTCTCTAGGGAGTATAGAACTCGAACATCTTCA-ACTGGGT
1 TCTTCAAACGGGTTCGCTCCTTCTTTCT-TAAGGAGTATAGAACTCGAACATCTTCACAC-GGGT
* *
2802073 TCGCTCCCTCTTTCT-TCAGGGAGTATAGAACTCAAAAATCTTCTTCT-TACGGGTTCGCTCATT
64 TCGCTCCCTCTTTCTCT-AGGGAGTATAGAACTCAAAAATC-TCTT-TAAACGGGTTCGATCATT
2802136 CTCTCTCTAAAGAGTATAGAACTCGAACA
126 CTCTCTCTAAAGAGTATAGAACTCGAACA
* * *
2802165 TCTTCAAACGGGTTCGCTCCTTCTTTCATTAAGGAGTATGGAACTCGGATATCTTCACACGGGTT
1 TCTTCAAACGGGTTCGCTCCTTCTTTC-TTAAGGAGTATAGAACTCGAACATCTTCACACGGGTT
* * * *
2802230 CGCTCCCTCTTTCTCTAGGGAGTATGGAACTCAAACATCTCTTTAAACGGGTTCGATCTTTCTTT
65 CGCTCCCTCTTTCTCTAGGGAGTATAGAACTCAAAAATCTCTTTAAACGGGTTCGATCATTCTCT
* * *
2802295 CTTTAAGGAGTATGGAACTCGAACA
130 CTCTAAAGAGTATAGAACTCGAACA
2802320 TCTTCAAACGGGTTCGCTCCTTCTTTCTTTAAGGAGTATAGAACT
1 TCTTCAAACGGGTTCGCTCCTTCTTTC-TTAAGGAGTATAGAACT
2802365 TGCATATCTT
Statistics
Matches: 179, Mismatches: 17, Indels: 9
0.87 0.08 0.04
Matches are distributed among these distances:
154 1 0.01
155 85 0.47
156 89 0.50
157 4 0.02
ACGTcount: A:0.24, C:0.25, G:0.19, T:0.33
Consensus pattern (154 bp):
TCTTCAAACGGGTTCGCTCCTTCTTTCTTAAGGAGTATAGAACTCGAACATCTTCACACGGGTTC
GCTCCCTCTTTCTCTAGGGAGTATAGAACTCAAAAATCTCTTTAAACGGGTTCGATCATTCTCTC
TCTAAAGAGTATAGAACTCGAACA
Found at i:2802352 original size:155 final size:156
Alignment explanation
Indices: 2801978--2802376 Score: 527
Period size: 155 Copynumber: 2.5 Consensus size: 156
2801968 TCGCTCCCTA
* * ** * *
2801978 TTTCTCTAGGGAGTATGGAACTCAGACATATTCTTCAAACGGGTTCGCTCCCCCTTTCTCTAGGG
1 TTTCTCTAAGGAGTATGGAACTC-GA-ACA-TCTTCAAACGGGTTCGCTCCTTCTTTCTTTAAGG
*
2802043 AGTATAGAACTCGAACATCTTCAACTGGGTTCGCTCCCTCTTTCTTCAGGGAGTATAGAACTCAA
63 AGTATAGAACTCGAATATCTTCAACTGGGTTCGCTCCCTCTTTCTTCAGGGAGTATAGAACTCAA
* *
2802108 AAATCTTCTTCTTACGGGTTCGCTCATTC
128 AAATCTTCTTCTAACGGGTTCGATCATTC
* * * *
2802137 TCTCTCTAAAGAGTATAGAACTCGAACATCTTCAAACGGGTTCGCTCCTTCTTTCATTAAGGAGT
1 TTTCTCTAAGGAGTATGGAACTCGAACATCTTCAAACGGGTTCGCTCCTTCTTTCTTTAAGGAGT
* * *
2802202 ATGGAACTCGGATATCTTCACAC-GGGTTCGCTCCCTCTTTC-TCTAGGGAGTATGGAACTCAAA
66 ATAGAACTCGAATATCTTCA-ACTGGGTTCGCTCCCTCTTTCTTC-AGGGAGTATAGAACTCAAA
* *
2802265 CATC-TCTT-TAAACGGGTTCGATCTTTC
129 AATCTTCTTCT-AACGGGTTCGATCATTC
*
2802292 TTTCTTTAAGGAGTATGGAACTCGAACATCTTCAAACGGGTTCGCTCCTTCTTTCTTTAAGGAGT
1 TTTCTCTAAGGAGTATGGAACTCGAACATCTTCAAACGGGTTCGCTCCTTCTTTCTTTAAGGAGT
* *
2802357 ATAGAACTTGCATATCTTCA
66 ATAGAACTCGAATATCTTCA
2802377 TTTGCTTCAC
Statistics
Matches: 211, Mismatches: 26, Indels: 10
0.85 0.11 0.04
Matches are distributed among these distances:
154 1 0.00
155 97 0.46
156 88 0.42
157 4 0.02
158 2 0.01
159 19 0.09
ACGTcount: A:0.24, C:0.24, G:0.19, T:0.33
Consensus pattern (156 bp):
TTTCTCTAAGGAGTATGGAACTCGAACATCTTCAAACGGGTTCGCTCCTTCTTTCTTTAAGGAGT
ATAGAACTCGAATATCTTCAACTGGGTTCGCTCCCTCTTTCTTCAGGGAGTATAGAACTCAAAAA
TCTTCTTCTAACGGGTTCGATCATTC
Found at i:2802374 original size:51 final size:51
Alignment explanation
Indices: 2801959--2802376 Score: 392
Period size: 51 Copynumber: 8.0 Consensus size: 51
2801949 CAATTTTCAA
* * * *
2801959 CAAATGGGTTCGCTCCCTATTTCTCTAGGGAGTATGGAACTCAGACATATTCTT
1 CAAACGGGTTCGCTCCCTCTTTCTCTAAGGAGTATAGAACTC-GA-ATA-TCTT
* * *
2802013 CAAACGGGTTCGCTCCCCCTTTCTCTAGGGAGTATAGAACTCGAACATCTT
1 CAAACGGGTTCGCTCCCTCTTTCTCTAAGGAGTATAGAACTCGAATATCTT
* * *
2802064 C-AACTGGGTTCGCTCCCTCTTTCT-TCAGGGAGTATAGAACTCAAAAATCTTCTT
1 CAAAC-GGGTTCGCTCCCTCTTTCTCT-AAGGAGTATAGAACTC--GAAT-ATCTT
** ** * * *
2802118 CTTACGGGTTCGCTCATTCTCTCTCTAAAGAGTATAGAACTCGAACATCTT
1 CAAACGGGTTCGCTCCCTCTTTCTCTAAGGAGTATAGAACTCGAATATCTT
* * *
2802169 CAAACGGGTTCGCTCCTTCTTTCAT-TAAGGAGTATGGAACTCGGATATCTT
1 CAAACGGGTTCGCTCCCTCTTTC-TCTAAGGAGTATAGAACTCGAATATCTT
* * * * *
2802220 CACACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCAAACATCTCTT
1 CAAACGGGTTCGCTCCCTCTTTCTCTAAGGAGTATAGAACTC-GA-ATATCTT
* * ** * * *
2802273 TAAACGGGTTCGATCTTTCTTTCTTTAAGGAGTATGGAACTCGAACATCTT
1 CAAACGGGTTCGCTCCCTCTTTCTCTAAGGAGTATAGAACTCGAATATCTT
* * * *
2802324 CAAACGGGTTCGCTCCTTCTTTCTTTAAGGAGTATAGAACTTGCATATCTT
1 CAAACGGGTTCGCTCCCTCTTTCTCTAAGGAGTATAGAACTCGAATATCTT
2802375 CA
1 CA
2802377 TTTGCTTCAC
Statistics
Matches: 304, Mismatches: 49, Indels: 25
0.80 0.13 0.07
Matches are distributed among these distances:
50 5 0.02
51 172 0.57
52 6 0.02
53 45 0.15
54 73 0.24
55 3 0.01
ACGTcount: A:0.24, C:0.24, G:0.19, T:0.33
Consensus pattern (51 bp):
CAAACGGGTTCGCTCCCTCTTTCTCTAAGGAGTATAGAACTCGAATATCTT
Found at i:2802803 original size:36 final size:37
Alignment explanation
Indices: 2802763--2802934 Score: 210
Period size: 36 Copynumber: 4.8 Consensus size: 37
2802753 AAAATGGATC
*
2802763 TGCTTCACTACTT-TTTGGTGAAGACTTAAGATGGTT
1 TGCTTCACTACTTCTCTGGTGAAGACTTAAGATGGTT
*
2802799 TGCTTCACTAC-TCTCTGGTGAAGACTTATGATGGTT
1 TGCTTCACTACTTCTCTGGTGAAGACTTAAGATGGTT
* * * *
2802835 TGCTTCACTA-TTCTCTGGTGAAGGCTTCAGATTGAT
1 TGCTTCACTACTTCTCTGGTGAAGACTTAAGATGGTT
* * *
2802871 TGCTTCACTA-TTCTCCGGTGAAGGCTTCAGATGGTT
1 TGCTTCACTACTTCTCTGGTGAAGACTTAAGATGGTT
* *
2802907 TGCTTCACTAC-TCTCCGGTGAAGGCTTA
1 TGCTTCACTACTTCTCTGGTGAAGACTTA
2802935 GGATTGACTT
Statistics
Matches: 122, Mismatches: 11, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
35 1 0.01
36 121 0.99
ACGTcount: A:0.19, C:0.20, G:0.23, T:0.38
Consensus pattern (37 bp):
TGCTTCACTACTTCTCTGGTGAAGACTTAAGATGGTT
Found at i:2807766 original size:21 final size:21
Alignment explanation
Indices: 2807740--2807873 Score: 164
Period size: 21 Copynumber: 6.4 Consensus size: 21
2807730 CGATGCGGTA
*
2807740 TTCTCGTCTTTATGAATGGTC
1 TTCTCGTCTTGATGAATGGTC
*
2807761 TTCTCGTCTTGATGAATGGTT
1 TTCTCGTCTTGATGAATGGTC
* **
2807782 TTCTCGTCTTGATAAATGACC
1 TTCTCGTCTTGATGAATGGTC
2807803 TTCTCGTCTTGATGAATGG-C
1 TTCTCGTCTTGATGAATGGTC
* *
2807823 ATTATCGTCTTGATGAAT-GAC
1 -TTCTCGTCTTGATGAATGGTC
*
2807844 ATTCTCGTCTTGATGAATGCTC
1 -TTCTCGTCTTGATGAATGGTC
2807866 TTCTCGTC
1 TTCTCGTC
2807874 CTTGGTACGA
Statistics
Matches: 98, Mismatches: 12, Indels: 6
0.84 0.10 0.05
Matches are distributed among these distances:
20 2 0.02
21 95 0.97
22 1 0.01
ACGTcount: A:0.18, C:0.20, G:0.19, T:0.43
Consensus pattern (21 bp):
TTCTCGTCTTGATGAATGGTC
Found at i:2807819 original size:63 final size:63
Alignment explanation
Indices: 2807740--2807873 Score: 182
Period size: 63 Copynumber: 2.1 Consensus size: 63
2807730 CGATGCGGTA
* * ***
2807740 TTCTCGTCTTTATGAATGGTC-TTCTCGTCTTGATGAATGGTTTTCTCGTCTTGATAAATGAC-C
1 TTCTCGTCTTGATGAATGG-CATTATCGTCTTGATGAATGACATTCTCGTCTTGATAAATG-CTC
*
2807803 TTCTCGTCTTGATGAATGGCATTATCGTCTTGATGAATGACATTCTCGTCTTGATGAATGCTC
1 TTCTCGTCTTGATGAATGGCATTATCGTCTTGATGAATGACATTCTCGTCTTGATAAATGCTC
2807866 TTCTCGTC
1 TTCTCGTC
2807874 CTTGGTACGA
Statistics
Matches: 63, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
62 2 0.03
63 61 0.97
ACGTcount: A:0.18, C:0.20, G:0.19, T:0.43
Consensus pattern (63 bp):
TTCTCGTCTTGATGAATGGCATTATCGTCTTGATGAATGACATTCTCGTCTTGATAAATGCTC
Found at i:2815276 original size:6 final size:6
Alignment explanation
Indices: 2815265--2815300 Score: 72
Period size: 6 Copynumber: 6.0 Consensus size: 6
2815255 CGAAGACACG
2815265 TATTAC TATTAC TATTAC TATTAC TATTAC TATTAC
1 TATTAC TATTAC TATTAC TATTAC TATTAC TATTAC
2815301 CACGACCACG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.33, C:0.17, G:0.00, T:0.50
Consensus pattern (6 bp):
TATTAC
Found at i:2833391 original size:15 final size:16
Alignment explanation
Indices: 2833363--2833396 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
2833353 GTTGAATTTA
2833363 AAAAATAATGAAAATT
1 AAAAATAATGAAAATT
*
2833379 AAAAATCAT-AAAATT
1 AAAAATAATGAAAATT
2833394 AAA
1 AAA
2833397 TTGAATTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 9 0.53
16 8 0.47
ACGTcount: A:0.71, C:0.03, G:0.03, T:0.24
Consensus pattern (16 bp):
AAAAATAATGAAAATT
Found at i:2836219 original size:21 final size:21
Alignment explanation
Indices: 2836195--2836234 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
2836185 TTTATTTTAT
2836195 AACTTTATTTCAATTATCGTA
1 AACTTTATTTCAATTATCGTA
*
2836216 AACTTTGTTTCAATTATCG
1 AACTTTATTTCAATTATCG
2836235 AACTTGAAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.15, G:0.07, T:0.47
Consensus pattern (21 bp):
AACTTTATTTCAATTATCGTA
Found at i:2836282 original size:33 final size:33
Alignment explanation
Indices: 2836229--2836321 Score: 161
Period size: 33 Copynumber: 2.8 Consensus size: 33
2836219 TTTGTTTCAA
2836229 TTATCGAACTT-GAAGTTTTTAAGTATTTGAAT
1 TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
2836261 TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
1 TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
* *
2836294 TTATCAAACTTGGAAGTATTTAAGTATT
1 TTATCGAACTTGGAAGTTTTTAAGTATT
2836322 CAATTATTTG
Statistics
Matches: 58, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
32 11 0.19
33 47 0.81
ACGTcount: A:0.32, C:0.06, G:0.16, T:0.45
Consensus pattern (33 bp):
TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
Found at i:2836603 original size:20 final size:21
Alignment explanation
Indices: 2836556--2836611 Score: 87
Period size: 21 Copynumber: 2.7 Consensus size: 21
2836546 TGGAGCGTGG
*
2836556 GGGAATCGGTACCCTCTCATA
1 GGGAATCGGTTCCCTCTCATA
*
2836577 GGGAATCGGTTTCCTCTCATA
1 GGGAATCGGTTCCCTCTCATA
2836598 -GGAATCGGTTCCCT
1 GGGAATCGGTTCCCT
2836612 AAGTGTAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
20 13 0.41
21 19 0.59
ACGTcount: A:0.20, C:0.27, G:0.25, T:0.29
Consensus pattern (21 bp):
GGGAATCGGTTCCCTCTCATA
Found at i:2836803 original size:14 final size:14
Alignment explanation
Indices: 2836773--2836827 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
2836763 ATCTGGAATA
*
2836773 TTAAAATCGGTTTTT
1 TTAAAACCGG-TTTT
*
2836788 TTATAACCGGTTTT
1 TTAAAACCGGTTTT
2836802 TTAAAAAAACCGGTTTT
1 TT---AAAACCGGTTTT
2836819 TTAAAACCG
1 TTAAAACCG
2836828 AAACCGATTA
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
14 13 0.38
15 8 0.24
17 13 0.38
ACGTcount: A:0.33, C:0.13, G:0.13, T:0.42
Consensus pattern (14 bp):
TTAAAACCGGTTTT
Found at i:2836812 original size:17 final size:17
Alignment explanation
Indices: 2836792--2836824 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
2836782 GTTTTTTTAT
2836792 AACCGGTTTTTTAAAAA
1 AACCGGTTTTTTAAAAA
2836809 AACCGGTTTTTTAAAA
1 AACCGGTTTTTTAAAA
2836825 CCGAAACCGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.39, C:0.12, G:0.12, T:0.36
Consensus pattern (17 bp):
AACCGGTTTTTTAAAAA
Found at i:2836824 original size:15 final size:15
Alignment explanation
Indices: 2836775--2836824 Score: 55
Period size: 15 Copynumber: 3.2 Consensus size: 15
2836765 CTGGAATATT
* *
2836775 AAAATCGGTTTTTTT
1 AAAACCGGTTTTTTA
*
2836790 ATAACCGGTTTTTTAAA
1 AAAACCGGTTTTTT--A
2836807 AAAACCGGTTTTTTA
1 AAAACCGGTTTTTTA
2836822 AAA
1 AAA
2836825 CCGAAACCGA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
15 16 0.55
17 13 0.45
ACGTcount: A:0.36, C:0.10, G:0.12, T:0.42
Consensus pattern (15 bp):
AAAACCGGTTTTTTA
Found at i:2846661 original size:10 final size:10
Alignment explanation
Indices: 2846624--2846660 Score: 56
Period size: 10 Copynumber: 3.7 Consensus size: 10
2846614 CGACCGAGGC
2846624 CATCCGAAAG
1 CATCCGAAAG
2846634 CATCCGAAAG
1 CATCCGAAAG
* *
2846644 CATTCGAGAG
1 CATCCGAAAG
2846654 CATCCGA
1 CATCCGA
2846661 GGCCATCCGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
10 24 1.00
ACGTcount: A:0.35, C:0.30, G:0.22, T:0.14
Consensus pattern (10 bp):
CATCCGAAAG
Found at i:2846676 original size:14 final size:14
Alignment explanation
Indices: 2846657--2846689 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
2846647 TCGAGAGCAT
2846657 CCGAGGCCATCCGA
1 CCGAGGCCATCCGA
2846671 CCGAGGCCATCCGA
1 CCGAGGCCATCCGA
*
2846685 ACGAG
1 CCGAG
2846690 CTATGCGAGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.24, C:0.39, G:0.30, T:0.06
Consensus pattern (14 bp):
CCGAGGCCATCCGA
Found at i:2846728 original size:33 final size:33
Alignment explanation
Indices: 2846681--2846788 Score: 180
Period size: 33 Copynumber: 3.3 Consensus size: 33
2846671 CCGAGGCCAT
* * *
2846681 CCGAACGAGCTATGCGAGGGCATCCGAAGGCGA
1 CCGAGCGAGCTATGCGAGGGAATCCGAGGGCGA
2846714 CCGAGCGAGCTATGCGAGGGAATCCGAGGGCGA
1 CCGAGCGAGCTATGCGAGGGAATCCGAGGGCGA
*
2846747 CCGAGCGAGCTATGCGAGGGAATCCGAGGGCAA
1 CCGAGCGAGCTATGCGAGGGAATCCGAGGGCGA
2846780 CCGAGCGAG
1 CCGAGCGAG
2846789 GGTAGGTCGC
Statistics
Matches: 71, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 71 1.00
ACGTcount: A:0.26, C:0.26, G:0.40, T:0.08
Consensus pattern (33 bp):
CCGAGCGAGCTATGCGAGGGAATCCGAGGGCGA
Found at i:2846962 original size:29 final size:29
Alignment explanation
Indices: 2846929--2846986 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 29
2846919 GCAATCTCTT
*
2846929 GTAGGTCGCCGGGAAGACATGGCGACCTA
1 GTAGGTCGCCCGGAAGACATGGCGACCTA
*
2846958 GTAGGTCGCCCGGAAGGCATGGCGACCTA
1 GTAGGTCGCCCGGAAGACATGGCGACCTA
2846987 CGGCCAACAC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.22, C:0.26, G:0.38, T:0.14
Consensus pattern (29 bp):
GTAGGTCGCCCGGAAGACATGGCGACCTA
Found at i:2848516 original size:36 final size:36
Alignment explanation
Indices: 2848474--2848549 Score: 143
Period size: 36 Copynumber: 2.1 Consensus size: 36
2848464 TTATAGCTAA
*
2848474 AAAAATCGTCTTTATTCGAATTTTGCCAAAAATAGC
1 AAAAATCGTATTTATTCGAATTTTGCCAAAAATAGC
2848510 AAAAATCGTATTTATTCGAATTTTGCCAAAAATAGC
1 AAAAATCGTATTTATTCGAATTTTGCCAAAAATAGC
2848546 AAAA
1 AAAA
2848550 TCCCGAAAAT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.32
Consensus pattern (36 bp):
AAAAATCGTATTTATTCGAATTTTGCCAAAAATAGC
Found at i:2853041 original size:15 final size:15
Alignment explanation
Indices: 2853023--2853052 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
2853013 CCACGGTGCT
2853023 CCCGGAATCCTGCGC
1 CCCGGAATCCTGCGC
2853038 CCCGGAATCCTGCGC
1 CCCGGAATCCTGCGC
2853053 GATTGTGATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.47, G:0.27, T:0.13
Consensus pattern (15 bp):
CCCGGAATCCTGCGC
Found at i:2853515 original size:36 final size:36
Alignment explanation
Indices: 2853473--2853548 Score: 143
Period size: 36 Copynumber: 2.1 Consensus size: 36
2853463 TTATAGCTAA
*
2853473 AAAAATCGTCTTTATTCGAATTTTGCCAAAAATAGC
1 AAAAATCGTATTTATTCGAATTTTGCCAAAAATAGC
2853509 AAAAATCGTATTTATTCGAATTTTGCCAAAAATAGC
1 AAAAATCGTATTTATTCGAATTTTGCCAAAAATAGC
2853545 AAAA
1 AAAA
2853549 TCCCGAAAAT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.32
Consensus pattern (36 bp):
AAAAATCGTATTTATTCGAATTTTGCCAAAAATAGC
Found at i:2854676 original size:27 final size:28
Alignment explanation
Indices: 2854646--2854719 Score: 91
Period size: 27 Copynumber: 2.8 Consensus size: 28
2854636 TTCAGTAAGA
*
2854646 TATTTAAT-TGTTATGAAATATTGAGTC
1 TATTTAATATATTATGAAATATTGAGTC
*
2854673 TA-TTATTATATTATGAAATATTGAGTC
1 TATTTAATATATTATGAAATATTGAGTC
* *
2854700 TA-TTATTATATTGTGAAATA
1 TATTTAATATATTATGAAATA
2854720 ATAATGGGGC
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
26 4 0.09
27 39 0.91
ACGTcount: A:0.36, C:0.03, G:0.12, T:0.49
Consensus pattern (28 bp):
TATTTAATATATTATGAAATATTGAGTC
Found at i:2857939 original size:34 final size:33
Alignment explanation
Indices: 2857851--2857946 Score: 138
Period size: 33 Copynumber: 2.8 Consensus size: 33
2857841 AAAACAGACT
* **
2857851 ATCGCAACGCGGAAATGACTATCGCAACGAGAGA
1 ATCGCAATGC-GAAATGAAAATCGCAACGAGAGA
*
2857885 ATCGCAATGCGAAATGAAAATCGCAACGAGTGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
2857918 ATCGCAATGCGAAAATGAAAATCGCAACG
1 ATCGCAATGCG-AAATGAAAATCGCAACG
2857947 CGAAACTAAT
Statistics
Matches: 57, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
33 31 0.54
34 26 0.46
ACGTcount: A:0.42, C:0.21, G:0.24, T:0.14
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:2857942 original size:20 final size:19
Alignment explanation
Indices: 2857884--2857951 Score: 74
Period size: 19 Copynumber: 3.8 Consensus size: 19
2857874 GCAACGAGAG
2857884 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
2857903 AATCGCAA--CG-AGTG--
1 AATCGCAATGCGAAATGAA
2857917 AATCGCAATGCGAAAATGAA
1 AATCGCAATGCG-AAATGAA
*
2857937 AATCGCAACGCGAAA
1 AATCGCAATGCGAAA
2857952 CTAATTTCGC
Statistics
Matches: 40, Mismatches: 3, Indels: 12
0.73 0.05 0.22
Matches are distributed among these distances:
14 8 0.20
16 5 0.12
17 2 0.05
18 3 0.08
19 11 0.28
20 11 0.28
ACGTcount: A:0.46, C:0.19, G:0.22, T:0.13
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:2857977 original size:19 final size:19
Alignment explanation
Indices: 2857955--2858117 Score: 112
Period size: 20 Copynumber: 8.9 Consensus size: 19
2857945 CGCGAAACTA
*
2857955 ATTTCGCGTTGCGATTTTC
1 ATTTCGCATTGCGATTTTC
2857974 ATTTTCGCATTGCGA--TTC
1 A-TTTCGCATTGCGATTTTC
* *
2857992 A-CTCG--TTGCAATTTTC
1 ATTTCGCATTGCGATTTTC
2858008 ATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTTTC
2858027 ATTTCGCATTGCGA--TTC
1 ATTTCGCATTGCGATTTTC
* **
2858044 -TCTCG--TTGCGATAGTC
1 ATTTCGCATTGCGATTTTC
**
2858060 AATTTCGCATTGCGATAGTC
1 -ATTTCGCATTGCGATTTTC
** **
2858080 ATTTCCGTGTTGCGATAGTC
1 ATTT-CGCATTGCGATTTTC
2858100 ATATTCGCATTGCGATTT
1 AT-TTCGCATTGCGATTT
2858118 CCGCGTTGCG
Statistics
Matches: 116, Mismatches: 14, Indels: 27
0.74 0.09 0.17
Matches are distributed among these distances:
14 11 0.09
16 13 0.11
17 6 0.05
18 8 0.07
19 29 0.25
20 47 0.41
21 2 0.02
ACGTcount: A:0.17, C:0.21, G:0.19, T:0.42
Consensus pattern (19 bp):
ATTTCGCATTGCGATTTTC
Found at i:2858065 original size:53 final size:53
Alignment explanation
Indices: 2857954--2858084 Score: 183
Period size: 53 Copynumber: 2.5 Consensus size: 53
2857944 ACGCGAAACT
* **
2857954 AATTTCGCGTTGCGATTTTCATTTTCGCATTGCGATTCACTCGTTGCAATTTTC
1 AATTTCGCATTGCGATTTTCA-TTTCGCATTGCGATTCACTCGTTGCAATAGTC
* *
2858008 -ATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATAGTC
1 AATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCACTCGTTGCAATAGTC
**
2858060 AATTTCGCATTGCGATAGTCATTTC
1 AATTTCGCATTGCGATTTTCATTTC
2858085 CGTGTTGCGA
Statistics
Matches: 69, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
52 28 0.41
53 41 0.59
ACGTcount: A:0.18, C:0.22, G:0.18, T:0.43
Consensus pattern (53 bp):
AATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCACTCGTTGCAATAGTC
Found at i:2858067 original size:34 final size:34
Alignment explanation
Indices: 2858027--2858135 Score: 114
Period size: 34 Copynumber: 3.0 Consensus size: 34
2858017 TGCGATTTTC
2858027 ATTTCGCATTGCGATTCTCTCGTTGCGATAGTCA
1 ATTTCGCATTGCGATTCTCTCGTTGCGATAGTCA
*
2858061 ATTTCGCATTGCGATAGTCATTTCCGTGTTGCGATAGTC-
1 ATTTCGCATTGCGAT--TC-TCT-C--GTTGCGATAGTCA
*
2858100 ATATTCGCATTGCGATT-TCCGCGTTGCGATAGTCA
1 AT-TTCGCATTGCGATTCT-CTCGTTGCGATAGTCA
2858135 A
1 A
2858136 ATGAATGTCT
Statistics
Matches: 63, Mismatches: 3, Indels: 17
0.76 0.04 0.20
Matches are distributed among these distances:
34 27 0.43
35 1 0.02
36 4 0.06
37 2 0.03
38 2 0.03
39 2 0.03
40 25 0.40
ACGTcount: A:0.19, C:0.22, G:0.22, T:0.37
Consensus pattern (34 bp):
ATTTCGCATTGCGATTCTCTCGTTGCGATAGTCA
Found at i:2858074 original size:20 final size:19
Alignment explanation
Indices: 2858006--2858115 Score: 113
Period size: 20 Copynumber: 5.9 Consensus size: 19
2857996 GTTGCAATTT
**
2858006 TCATTTCGCATTGCGATTT
1 TCATTTCGCATTGCGATAG
2858025 TCATTTCGCATTGCGAT--
1 TCATTTCGCATTGCGATAG
*
2858042 TC-TCTCG--TTGCGATAG
1 TCATTTCGCATTGCGATAG
2858058 TCAATTTCGCATTGCGATAG
1 TC-ATTTCGCATTGCGATAG
**
2858078 TCATTTCCGTGTTGCGATAG
1 TCATTT-CGCATTGCGATAG
2858098 TCATATTCGCATTGCGAT
1 TCAT-TTCGCATTGCGAT
2858116 TTCCGCGTTG
Statistics
Matches: 77, Mismatches: 6, Indels: 15
0.79 0.06 0.15
Matches are distributed among these distances:
14 7 0.09
16 6 0.08
17 2 0.03
18 4 0.05
19 21 0.27
20 35 0.45
21 2 0.03
ACGTcount: A:0.18, C:0.22, G:0.20, T:0.40
Consensus pattern (19 bp):
TCATTTCGCATTGCGATAG
Found at i:2860350 original size:3 final size:3
Alignment explanation
Indices: 2860342--2860368 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
2860332 CTTTGGGGAT
2860342 TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC
2860369 AGTGTTATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:2860577 original size:24 final size:24
Alignment explanation
Indices: 2860543--2860596 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
2860533 CTGAAAAATC
2860543 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
* *
2860567 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
2860591 ATCAAA
1 ATCAAA
2860597 TTTCGAATAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.41, C:0.20, G:0.19, T:0.20
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:2860610 original size:24 final size:24
Alignment explanation
Indices: 2860543--2860610 Score: 64
Period size: 24 Copynumber: 2.8 Consensus size: 24
2860533 CTGAAAAATC
* * *
2860543 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAGTCCGAATACTGACCAAG
** *
2860567 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAGTCCGAATACTGACCAAG
* *
2860591 ATCAAATTTCGAATACTGAC
1 ATCAAAGTCCGAATACTGAC
2860611 TAATACTCAC
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.18, T:0.24
Consensus pattern (24 bp):
ATCAAAGTCCGAATACTGACCAAG
Found at i:2861421 original size:20 final size:20
Alignment explanation
Indices: 2861396--2861445 Score: 100
Period size: 20 Copynumber: 2.5 Consensus size: 20
2861386 ATTAAAACCT
2861396 GTTGCGAATTCAGAAATCAA
1 GTTGCGAATTCAGAAATCAA
2861416 GTTGCGAATTCAGAAATCAA
1 GTTGCGAATTCAGAAATCAA
2861436 GTTGCGAATT
1 GTTGCGAATT
2861446 TGAAATTCAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.28
Consensus pattern (20 bp):
GTTGCGAATTCAGAAATCAA
Found at i:2861529 original size:20 final size:20
Alignment explanation
Indices: 2861471--2861543 Score: 94
Period size: 20 Copynumber: 3.6 Consensus size: 20
2861461 CGATAGTCAG
*
2861471 AATCTCGTTGCGATTTACAG-
1 AATCGCGTTGCGATTTAC-GT
*
2861491 ATTCGCGTTGCGATTTACGT
1 AATCGCGTTGCGATTTACGT
2861511 AATCGCGTTGCGATTTACGT
1 AATCGCGTTGCGATTTACGT
* *
2861531 ATTCGCATTGCGA
1 AATCGCGTTGCGA
2861544 ATTAGGAAAA
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
19 1 0.02
20 46 0.98
ACGTcount: A:0.21, C:0.21, G:0.23, T:0.36
Consensus pattern (20 bp):
AATCGCGTTGCGATTTACGT
Found at i:2861564 original size:21 final size:21
Alignment explanation
Indices: 2861540--2861580 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
2861530 TATTCGCATT
2861540 GCGAATTAGGAAAATCGCAAC
1 GCGAATTAGGAAAATCGCAAC
* *
2861561 GCGAATTTGGGAAATCGCAA
1 GCGAATTAGGAAAATCGCAA
2861581 TACGTATTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.39, C:0.17, G:0.27, T:0.17
Consensus pattern (21 bp):
GCGAATTAGGAAAATCGCAAC
Found at i:2861595 original size:55 final size:55
Alignment explanation
Indices: 2861526--2861636 Score: 213
Period size: 55 Copynumber: 2.0 Consensus size: 55
2861516 CGTTGCGATT
2861526 TACGTATTCGCATTGCGAATTAGGAAAATCGCAACGCGAATTTGGGAAATCGCAA
1 TACGTATTCGCATTGCGAATTAGGAAAATCGCAACGCGAATTTGGGAAATCGCAA
*
2861581 TACGTATTCTCATTGCGAATTAGGAAAATCGCAACGCGAATTTGGGAAATCGCAA
1 TACGTATTCGCATTGCGAATTAGGAAAATCGCAACGCGAATTTGGGAAATCGCAA
2861636 T
1 T
2861637 GCGATAGTCA
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 55 1.00
ACGTcount: A:0.34, C:0.18, G:0.23, T:0.25
Consensus pattern (55 bp):
TACGTATTCGCATTGCGAATTAGGAAAATCGCAACGCGAATTTGGGAAATCGCAA
Found at i:2861621 original size:21 final size:21
Alignment explanation
Indices: 2861595--2861640 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
2861585 TATTCTCATT
2861595 GCGAATTAGGAAAATCGCAAC
1 GCGAATTAGGAAAATCGCAAC
* * *
2861616 GCGAATTTGGGAAATCGCAAT
1 GCGAATTAGGAAAATCGCAAC
2861637 GCGA
1 GCGA
2861641 TAGTCAGAAT
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:0.37, C:0.17, G:0.28, T:0.17
Consensus pattern (21 bp):
GCGAATTAGGAAAATCGCAAC
Found at i:2861735 original size:20 final size:20
Alignment explanation
Indices: 2861691--2861883 Score: 176
Period size: 20 Copynumber: 9.6 Consensus size: 20
2861681 TACCGGAGAT
*
2861691 CGCGTTGCGAATTATC-GAT-
1 CGCGTTGCGATTTA-CGGATA
2861710 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
2861730 CGCGTTGCGATTTTACGTATT
1 CGCGTTGCGA-TTTACGGATA
* * *
2861751 CTCGTTGCGATTTACAGATT
1 CGCGTTGCGATTTACGGATA
* *
2861771 CGCGTTGCGATTTACGTATT
1 CGCGTTGCGATTTACGGATA
* *
2861791 CTCGTTGCGATTTATGGATA
1 CGCGTTGCGATTTACGGATA
** *
2861811 TACGTTGCGATTTTACGTAT-
1 CGCGTTGCGA-TTTACGGATA
*
2861831 TGTCGTTGCGATTTACGGATA
1 CG-CGTTGCGATTTACGGATA
*
2861852 CGCGTTGTGATTTTACGGATA
1 CGCGTTGCGA-TTTACGGATA
*
2861873 CTCGTTGCGAT
1 CGCGTTGCGAT
2861884 AGTCAGAATC
Statistics
Matches: 144, Mismatches: 23, Indels: 13
0.80 0.13 0.07
Matches are distributed among these distances:
18 1 0.01
19 16 0.11
20 76 0.53
21 51 0.35
ACGTcount: A:0.18, C:0.18, G:0.25, T:0.38
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:2861762 original size:41 final size:41
Alignment explanation
Indices: 2861712--2861883 Score: 256
Period size: 41 Copynumber: 4.2 Consensus size: 41
2861702 TTATCGATCG
2861712 CGTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTCT
1 CGTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTCT
* *
2861753 CGTTGCGATTTACAGATTCGCGTTGCGA-TTTACGTATTCT
1 CGTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTCT
* ** *
2861793 CGTTGCGATTTATGGATATACGTTGCGATTTTACGTATTGT
1 CGTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTCT
* * *
2861834 CGTTGCGATTTACGGATACGCGTTGTGATTTTACGGATACT
1 CGTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTCT
2861875 CGTTGCGAT
1 CGTTGCGAT
2861884 AGTCAGAATC
Statistics
Matches: 115, Mismatches: 15, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
40 35 0.30
41 80 0.70
ACGTcount: A:0.18, C:0.17, G:0.25, T:0.40
Consensus pattern (41 bp):
CGTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTCT
Found at i:2861817 original size:81 final size:80
Alignment explanation
Indices: 2861690--2861883 Score: 255
Period size: 81 Copynumber: 2.4 Consensus size: 80
2861680 ATACCGGAGA
* * *
2861690 TCGCGTTGCGAATTATCGA-TCGCGTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTCTC
1 TCGCGTTGCGATTTA-CGATTCTCGTTGCGATTTACGGATACACGTTGCGATTTTACGTATTCTC
2861754 GTTGCGATTTACAGAT
65 GTTGCGATTTACAGAT
* * *
2861770 TCGCGTTGCGATTTACGTATTCTCGTTGCGATTTATGGATATACGTTGCGATTTTACGTATTGTC
1 TCGCGTTGCGATTTACG-ATTCTCGTTGCGATTTACGGATACACGTTGCGATTTTACGTATTCTC
*
2861835 GTTGCGATTTACGGAT
65 GTTGCGATTTACAGAT
* * *
2861851 ACGCGTTGTGATTTTACGGATACTCGTTGCGAT
1 TCGCGTTGCGA-TTTAC-GATTCTCGTTGCGAT
2861884 AGTCAGAATC
Statistics
Matches: 100, Mismatches: 10, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
79 2 0.02
80 15 0.15
81 64 0.64
82 18 0.18
83 1 0.01
ACGTcount: A:0.18, C:0.18, G:0.25, T:0.39
Consensus pattern (80 bp):
TCGCGTTGCGATTTACGATTCTCGTTGCGATTTACGGATACACGTTGCGATTTTACGTATTCTCG
TTGCGATTTACAGAT
Found at i:2861939 original size:20 final size:20
Alignment explanation
Indices: 2861690--2861944 Score: 139
Period size: 20 Copynumber: 12.7 Consensus size: 20
2861680 ATACCGGAGA
*
2861690 TCGCGTTGCGAATTATCG-A-
1 TCGCGTTGCG-ATTTTCGTAT
* *
2861709 TCGCGTTGCGATTTACGGAT
1 TCGCGTTGCGATTTTCGTAT
*
2861729 ACGCGTTGCGATTTTACGTAT
1 TCGCGTTGCGATTTT-CGTAT
* *
2861750 TCTCGTTGCGATTTACAG-AT
1 TCGCGTTGCGATTTTC-GTAT
*
2861770 TCGCGTTGCGATTTACGTAT
1 TCGCGTTGCGATTTTCGTAT
* *
2861790 TCTCGTTGCGATTTAT-GGAT
1 TCGCGTTGCGATTT-TCGTAT
*
2861810 AT-ACGTTGCGATTTTACGTAT
1 -TCGCGTTGCGATTTT-CGTAT
* *
2861831 T-GTCGTTGCGATTTACGGAT
1 TCG-CGTTGCGATTTTCGTAT
* * *
2861851 ACGCGTTGTGATTTTACGGAT
1 TCGCGTTGCGATTTT-CGTAT
* * ** *
2861872 ACTCGTTGCGATAGTCAG-AA
1 TCGCGTTGCGATTTTC-GTAT
* * *
2861892 TCGCGTTACGATTTAT-ATGT
1 TCGCGTTGCGATTT-TCGTAT
*
2861912 TCGCGTTGCGATTTTCATAT
1 TCGCGTTGCGATTTTCGTAT
*
2861932 TCGCGTTGTGATT
1 TCGCGTTGCGATT
2861945 CTGGAAAATC
Statistics
Matches: 184, Mismatches: 36, Indels: 31
0.73 0.14 0.12
Matches are distributed among these distances:
18 5 0.03
19 14 0.08
20 114 0.62
21 51 0.28
ACGTcount: A:0.18, C:0.18, G:0.25, T:0.39
Consensus pattern (20 bp):
TCGCGTTGCGATTTTCGTAT
Found at i:2862822 original size:4 final size:4
Alignment explanation
Indices: 2862813--2862847 Score: 70
Period size: 4 Copynumber: 8.8 Consensus size: 4
2862803 TCTTTAAGCT
2862813 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
2862848 CTATCAGTTC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 31 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:2864903 original size:18 final size:18
Alignment explanation
Indices: 2864880--2864937 Score: 72
Period size: 18 Copynumber: 3.5 Consensus size: 18
2864870 ATTTTAAGTA
2864880 TATAAAATAATTAAATTT
1 TATAAAATAATTAAATTT
*
2864898 TATAAAAT-A-T--ATAT
1 TATAAAATAATTAAATTT
2864912 T-TAAAATAATTAAATTT
1 TATAAAATAATTAAATTT
2864929 TATAAAATA
1 TATAAAATA
2864938 TATGTTTAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
13 6 0.18
14 5 0.15
15 1 0.03
16 1 0.03
17 5 0.15
18 15 0.45
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (18 bp):
TATAAAATAATTAAATTT
Found at i:2864920 original size:31 final size:31
Alignment explanation
Indices: 2864882--2864947 Score: 123
Period size: 31 Copynumber: 2.1 Consensus size: 31
2864872 TTTAAGTATA
2864882 TAAAATAATTAAATTTTATAAAATATATATT
1 TAAAATAATTAAATTTTATAAAATATATATT
*
2864913 TAAAATAATTAAATTTTATAAAATATATGTT
1 TAAAATAATTAAATTTTATAAAATATATATT
2864944 TAAA
1 TAAA
2864948 TATTATTTGA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.44
Consensus pattern (31 bp):
TAAAATAATTAAATTTTATAAAATATATATT
Found at i:2864945 original size:15 final size:14
Alignment explanation
Indices: 2864894--2864945 Score: 50
Period size: 15 Copynumber: 3.4 Consensus size: 14
2864884 AAATAATTAA
2864894 ATTTTATAAAATAT
1 ATTTTATAAAATAT
* *
2864908 ATATTTAAAATAATTAA
1 AT-TTTATAA-AA-TAT
2864925 ATTTTATAAAATAT
1 ATTTTATAAAATAT
2864939 ATGTTTA
1 AT-TTTA
2864946 AATATTATTT
Statistics
Matches: 30, Mismatches: 4, Indels: 7
0.73 0.10 0.17
Matches are distributed among these distances:
14 6 0.20
15 12 0.40
16 8 0.27
17 4 0.13
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (14 bp):
ATTTTATAAAATAT
Found at i:2886011 original size:11 final size:11
Alignment explanation
Indices: 2885995--2886020 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
2885985 TTCAATGATC
2885995 ATTTTTAACGT
1 ATTTTTAACGT
2886006 ATTTTTAACGT
1 ATTTTTAACGT
2886017 ATTT
1 ATTT
2886021 GAAACTGATA
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:0.08, G:0.08, T:0.58
Consensus pattern (11 bp):
ATTTTTAACGT
Found at i:2891155 original size:25 final size:24
Alignment explanation
Indices: 2891117--2891168 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 24
2891107 AATTATTTAA
*
2891117 ATTTAATTTTTTAAGAGGAATAAT
1 ATTTAATATTTTAAGAGGAATAAT
* *
2891141 ATTTAAATATTTTAAGATGATTAAT
1 ATTT-AATATTTTAAGAGGAATAAT
2891166 ATT
1 ATT
2891169 ATCTTTTATT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
24 4 0.17
25 20 0.83
ACGTcount: A:0.42, C:0.00, G:0.10, T:0.48
Consensus pattern (24 bp):
ATTTAATATTTTAAGAGGAATAAT
Found at i:2891550 original size:14 final size:15
Alignment explanation
Indices: 2891527--2891557 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
2891517 ATTATTCTCT
2891527 AAAATGAAGAAAAGA
1 AAAATGAAGAAAAGA
2891542 AAAAT-AAGAAAAGA
1 AAAATGAAGAAAAGA
2891556 AA
1 AA
2891558 CCCTTCTACT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.69
15 5 0.31
ACGTcount: A:0.77, C:0.00, G:0.16, T:0.06
Consensus pattern (15 bp):
AAAATGAAGAAAAGA
Found at i:2897805 original size:31 final size:31
Alignment explanation
Indices: 2897701--2897807 Score: 94
Period size: 31 Copynumber: 3.5 Consensus size: 31
2897691 ATTGGGTCTG
* * *
2897701 AGAGCCTACCTAAGAAAGTTCTCGGGGCCAC
1 AGAGCCTACCCAAGAAAGATCTCGAGGCCAC
* * **
2897732 GGGGCCTACCCAAG-AAGAATCTCGAGGCTGC
1 AGAGCCTACCCAAGAAAG-ATCTCGAGGCCAC
*
2897763 ATG-G-CTAACCCAAGAAAGATCACGAGGCCAC
1 A-GAGCCT-ACCCAAGAAAGATCTCGAGGCCAC
2897794 AGAGCCTACCCAAG
1 AGAGCCTACCCAAG
2897808 GGTCGTCTTT
Statistics
Matches: 59, Mismatches: 11, Indels: 12
0.72 0.13 0.15
Matches are distributed among these distances:
30 6 0.10
31 47 0.80
32 6 0.10
ACGTcount: A:0.32, C:0.30, G:0.26, T:0.12
Consensus pattern (31 bp):
AGAGCCTACCCAAGAAAGATCTCGAGGCCAC
Found at i:2899241 original size:23 final size:23
Alignment explanation
Indices: 2899215--2899275 Score: 95
Period size: 23 Copynumber: 2.7 Consensus size: 23
2899205 CTCATATAAA
*
2899215 TGCACCGAAGTGCCACATAGAAT
1 TGCACCGTAGTGCCACATAGAAT
* *
2899238 TGCACCGTAGTGCCGCGTAGAAT
1 TGCACCGTAGTGCCACATAGAAT
2899261 TGCACCGTAGTGCCA
1 TGCACCGTAGTGCCA
2899276 TATAATAATG
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.26, C:0.28, G:0.26, T:0.20
Consensus pattern (23 bp):
TGCACCGTAGTGCCACATAGAAT
Found at i:2899462 original size:103 final size:103
Alignment explanation
Indices: 2899291--2899611 Score: 624
Period size: 103 Copynumber: 3.1 Consensus size: 103
2899281 TAATGTCCAT
2899291 AAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCA
2899356 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
2899394 AAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCA
2899459 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
* *
2899497 AAGGACCATATATCATTCCTTAATAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCA
2899562 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
2899600 AAGGACCACATA
1 AAGGACCACATA
2899612 GACCCTCGAC
Statistics
Matches: 215, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
103 215 1.00
ACGTcount: A:0.36, C:0.23, G:0.13, T:0.27
Consensus pattern (103 bp):
AAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCA
GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
Found at i:2904445 original size:23 final size:23
Alignment explanation
Indices: 2904419--2904469 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
2904409 CATATAAATG
2904419 CACCGAAGAGCCACATAGAATTA
1 CACCGAAGAGCCACATAGAATTA
* * ** *
2904442 CACCGTAGTGCTGCGTAGAATTA
1 CACCGAAGAGCCACATAGAATTA
2904465 CACCG
1 CACCG
2904470 TAGTGCCATA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.33, C:0.27, G:0.22, T:0.18
Consensus pattern (23 bp):
CACCGAAGAGCCACATAGAATTA
Found at i:2904664 original size:103 final size:103
Alignment explanation
Indices: 2904493--2904813 Score: 606
Period size: 103 Copynumber: 3.1 Consensus size: 103
2904483 TAATGTCCAT
*
2904493 AAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTAACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCA
2904558 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
2904596 AAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCA
2904661 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
*
2904699 AAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTTTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCA
* *
2904764 AACTTCACACATGTTCCAAAGAATACATATATGTCGCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
2904802 AAGGACCACATA
1 AAGGACCACATA
2904814 GACCCTCGAC
Statistics
Matches: 214, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
103 214 1.00
ACGTcount: A:0.37, C:0.22, G:0.14, T:0.27
Consensus pattern (103 bp):
AAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCA
GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
Found at i:2909628 original size:23 final size:23
Alignment explanation
Indices: 2909602--2909660 Score: 82
Period size: 23 Copynumber: 2.6 Consensus size: 23
2909592 CATATAAATG
*
2909602 CACCGAAGTGCCACATAGAATTA
1 CACCGTAGTGCCACATAGAATTA
* * *
2909625 CACCGTAGTGCCGCGTAGAATTG
1 CACCGTAGTGCCACATAGAATTA
2909648 CACCGTAGTGCCA
1 CACCGTAGTGCCA
2909661 TATAATAATG
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.29, C:0.29, G:0.24, T:0.19
Consensus pattern (23 bp):
CACCGTAGTGCCACATAGAATTA
Found at i:2909915 original size:102 final size:103
Alignment explanation
Indices: 2909676--2909992 Score: 579
Period size: 102 Copynumber: 3.1 Consensus size: 103
2909666 TAATGTCCAT
*
2909676 AAGGACCACATATCATTCTTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCA
2909741 GACTTCACACATGTTCC-AAGAATAC--ATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
2909776 AAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTAT-TGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCA
2909840 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
*
2909878 AATGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCA
*
2909943 GACTTCACACATGTTCCAAAGGATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
2909981 AAGGACCACATA
1 AAGGACCACATA
2909993 GACCCTCGAC
Statistics
Matches: 209, Mismatches: 4, Indels: 5
0.96 0.02 0.02
Matches are distributed among these distances:
99 27 0.13
100 61 0.29
102 63 0.30
103 58 0.28
ACGTcount: A:0.36, C:0.23, G:0.14, T:0.27
Consensus pattern (103 bp):
AAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCA
GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
Found at i:2914549 original size:23 final size:22
Alignment explanation
Indices: 2914494--2914588 Score: 88
Period size: 23 Copynumber: 4.3 Consensus size: 22
2914484 TCGAGGGTTC
*
2914494 TATGTGGTCATTC-GGGACAAAAT
1 TATGTGGTCCTTCAGGG-C-AAAT
2914517 TATGTGGTCCTTCAGGGCAAACT
1 TATGTGGTCCTTCAGGGCAAA-T
* *
2914540 TATGTGGTCCTTTAGGACAAA-
1 TATGTGGTCCTTCAGGGCAAAT
* *
2914561 TATGT-GACACTTCAGTGCAAAT
1 TATGTGGTC-CTTCAGGGCAAAT
2914583 TATGTG
1 TATGTG
2914589 AGATGTGGTG
Statistics
Matches: 60, Mismatches: 7, Indels: 10
0.78 0.09 0.13
Matches are distributed among these distances:
20 2 0.03
21 14 0.23
22 8 0.13
23 33 0.55
24 3 0.05
ACGTcount: A:0.27, C:0.16, G:0.24, T:0.33
Consensus pattern (22 bp):
TATGTGGTCCTTCAGGGCAAAT
Found at i:2915866 original size:20 final size:21
Alignment explanation
Indices: 2915843--2915882 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
2915833 TTAACTTTTT
2915843 AGTCAAAATCAAT-GGTCAAC
1 AGTCAAAATCAATGGGTCAAC
**
2915863 AGTCAAGCTCAATGGGTCAA
1 AGTCAAAATCAATGGGTCAA
2915883 AGTTAATAGG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.40, C:0.20, G:0.20, T:0.20
Consensus pattern (21 bp):
AGTCAAAATCAATGGGTCAAC
Found at i:2918278 original size:28 final size:29
Alignment explanation
Indices: 2918216--2918279 Score: 85
Period size: 31 Copynumber: 2.2 Consensus size: 29
2918206 GGTTCTCATT
* *
2918216 CGAAATGATCAAGGACTAATATGGGTTCATT
1 CGAAATGATCAAGGAC--ATATGGGTGCATC
2918247 CGAAATGATCAAGGAC-TATGGGTGCATC
1 CGAAATGATCAAGGACATATGGGTGCATC
2918275 CGAAA
1 CGAAA
2918280 GAAAGCAGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
28 15 0.48
31 16 0.52
ACGTcount: A:0.36, C:0.16, G:0.25, T:0.23
Consensus pattern (29 bp):
CGAAATGATCAAGGACATATGGGTGCATC
Found at i:2919334 original size:2 final size:2
Alignment explanation
Indices: 2919323--2919386 Score: 112
Period size: 2 Copynumber: 32.0 Consensus size: 2
2919313 AAATGTTTAA
2919323 AT AT -T AT AT AT AT AT 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 AT AT AT AT AT AT AT AT
2919364 AT AT AT AT AT AT AGT AT AT AT AT
1 AT AT AT AT AT AT A-T AT AT AT AT
2919387 CAGGGACTAA
Statistics
Matches: 60, Mismatches: 0, Indels: 4
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.02
2 57 0.95
3 2 0.03
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2924339 original size:23 final size:22
Alignment explanation
Indices: 2924296--2924338 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
2924286 ATAATGTAAC
*
2924296 ATTTTTTATTTCAACCTAAAAT
1 ATTTTTTATTTCAACATAAAAT
2924318 ATTTCTTTA-TTCAACATAAAA
1 ATTT-TTTATTTCAACATAAAA
2924339 AGTTAGGCTC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.40, C:0.14, G:0.00, T:0.47
Consensus pattern (22 bp):
ATTTTTTATTTCAACATAAAAT
Found at i:2933868 original size:29 final size:32
Alignment explanation
Indices: 2933830--2933889 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 32
2933820 GTTAATGTTT
*
2933830 ATTTTAAACC-TTAAA-ATTAGATAAAATATC
1 ATTTTAAACCAATAAATATTAGATAAAATATC
*
2933860 ATTTT-AACCAATAAATTTTAGATAAAATAT
1 ATTTTAAACCAATAAATATTAGATAAAATAT
2933890 TAATTTAATC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
29 4 0.15
30 9 0.35
31 13 0.50
ACGTcount: A:0.50, C:0.08, G:0.03, T:0.38
Consensus pattern (32 bp):
ATTTTAAACCAATAAATATTAGATAAAATATC
Done.