Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167882.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_15, 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: 22478863
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 61000 characters in sequence are not A, C, G, or T
File 25 of 106
Found at i:4590318 original size:63 final size:63
Alignment explanation
Indices: 4590219--4590434 Score: 253
Period size: 63 Copynumber: 3.4 Consensus size: 63
4590209 TTTTTTGGGT
* * *
4590219 TTATTAAAGGCATCTTT--TAGTAAAA-ACGTCTTCAATAAGCTCGTAAAT-AAATTTTAAGGGG
1 TTATTAAAGGCATTTTTGCTAGAAAAATAC--CTTCAATAAGCTCAT-AATCAAATTTTAAGGGG
4590280 A
63 A
* * * **
4590281 TTATTAAAGGCATTTTTGCTAGAAAAATACCTTCAATAAGCTCATAGTCCATTTTTAAGCAGA
1 TTATTAAAGGCATTTTTGCTAGAAAAATACCTTCAATAAGCTCATAATCAAATTTTAAGGGGA
* ** *
4590344 TTATTGAAGGTGTTTTTGCTAGAAAAATACCTTCAATAAACTCATAATCAAATTTTAAGGGGA
1 TTATTAAAGGCATTTTTGCTAGAAAAATACCTTCAATAAGCTCATAATCAAATTTTAAGGGGA
4590407 TTATTGAAA-GCATTTTTGCTAGAAAAAT
1 TTATT-AAAGGCATTTTTGCTAGAAAAAT
4590435 GCTTCACTTA
Statistics
Matches: 129, Mismatches: 20, Indels: 9
0.82 0.13 0.06
Matches are distributed among these distances:
62 18 0.14
63 100 0.78
64 9 0.07
65 2 0.02
ACGTcount: A:0.38, C:0.12, G:0.15, T:0.35
Consensus pattern (63 bp):
TTATTAAAGGCATTTTTGCTAGAAAAATACCTTCAATAAGCTCATAATCAAATTTTAAGGGGA
Found at i:4593618 original size:34 final size:35
Alignment explanation
Indices: 4593569--4593644 Score: 109
Period size: 35 Copynumber: 2.2 Consensus size: 35
4593559 ATATATAAAC
*
4593569 CAAATATTTTTTGGGCA-AAACCTACAACTAACTT
1 CAAATATTTTATGGGCATAAACCTACAACTAACTT
* *
4593603 CAAATGTTTTATGGGCATAAACCTACAATTAACTT
1 CAAATATTTTATGGGCATAAACCTACAACTAACTT
*
4593638 CACATAT
1 CAAATAT
4593645 ATAATTAAAC
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
34 15 0.42
35 21 0.58
ACGTcount: A:0.38, C:0.20, G:0.09, T:0.33
Consensus pattern (35 bp):
CAAATATTTTATGGGCATAAACCTACAACTAACTT
Found at i:4607585 original size:26 final size:27
Alignment explanation
Indices: 4607535--4607589 Score: 76
Period size: 27 Copynumber: 2.1 Consensus size: 27
4607525 TTACAAGTAA
* **
4607535 ATTTTGATAACTTTTGGTATAGTTTTG
1 ATTTGGATAACTTTTAATATAGTTTTG
4607562 ATTTGGATAACTTTTAATAT-GTTTTG
1 ATTTGGATAACTTTTAATATAGTTTTG
4607588 AT
1 AT
4607590 AATCTTTGTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
26 8 0.32
27 17 0.68
ACGTcount: A:0.25, C:0.04, G:0.16, T:0.55
Consensus pattern (27 bp):
ATTTGGATAACTTTTAATATAGTTTTG
Found at i:4607685 original size:63 final size:63
Alignment explanation
Indices: 4607616--4607755 Score: 140
Period size: 63 Copynumber: 2.2 Consensus size: 63
4607606 TTAATAACAT
* *
4607616 TTGATAAGATTTTGGTAACTTTCGAT-AGAATTTTAGTAA-CTTATAATGTAATTTTTGTAATCA
1 TTGATAAGATTTTGGT-ACTTTCGATGA-AATTTTAGTAACCTCATAATGTAATTTTAGTAATCA
* * ** ** * *
4607679 TTGATAAAACTTTGGTTTTTTTTATGAAATTTTGGTAACCTCATAATGTAATTTTAGTAATCT
1 TTGATAAGATTTTGGTACTTTCGATGAAATTTTAGTAACCTCATAATGTAATTTTAGTAATCA
* *
4607742 TTCATATGATTTTG
1 TTGATAAGATTTTG
4607756 CTAATTTTAA
Statistics
Matches: 61, Mismatches: 14, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
62 15 0.25
63 46 0.75
ACGTcount: A:0.31, C:0.07, G:0.14, T:0.49
Consensus pattern (63 bp):
TTGATAAGATTTTGGTACTTTCGATGAAATTTTAGTAACCTCATAATGTAATTTTAGTAATCA
Found at i:4608129 original size:22 final size:22
Alignment explanation
Indices: 4608036--4608147 Score: 97
Period size: 22 Copynumber: 5.1 Consensus size: 22
4608026 GATTGATAAT
*
4608036 TAAATTATCTTTAATTTACTAAC
1 TAAATTATCTATAATTTACT-AC
* *
4608059 TATATTAT-TAGTGATTTACTAC
1 TAAATTATCTA-TAATTTACTAC
* * *
4608081 -AAATTATCAAT-TTTTAGCTAT
1 TAAATTATCTATAATTTA-CTAC
*
4608102 TCAATTATCTATAATTTACTAC
1 TAAATTATCTATAATTTACTAC
4608124 TAAATTATC-ATTAATTTACTAC
1 TAAATTATCTA-TAATTTACTAC
4608146 TA
1 TA
4608148 GTTTATGAAT
Statistics
Matches: 71, Mismatches: 12, Indels: 13
0.74 0.12 0.14
Matches are distributed among these distances:
20 4 0.06
21 11 0.15
22 37 0.52
23 19 0.27
ACGTcount: A:0.38, C:0.12, G:0.03, T:0.47
Consensus pattern (22 bp):
TAAATTATCTATAATTTACTAC
Found at i:4608266 original size:22 final size:21
Alignment explanation
Indices: 4608209--4608273 Score: 60
Period size: 22 Copynumber: 3.0 Consensus size: 21
4608199 ATGGTTTATT
4608209 AAAATTATAACTGATTTACTAC
1 AAAATTATAA-TGATTTACTAC
* *
4608231 -TAATTAATTGATGATTTACTAC
1 AAAATT-A-TAATGATTTACTAC
*
4608253 AAAATTATCAATGATTAACTA
1 AAAATTAT-AATGATTTACTA
4608274 ATTTATTACT
Statistics
Matches: 34, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
21 5 0.15
22 23 0.68
23 6 0.18
ACGTcount: A:0.45, C:0.11, G:0.06, T:0.38
Consensus pattern (21 bp):
AAAATTATAATGATTTACTAC
Found at i:4608297 original size:22 final size:22
Alignment explanation
Indices: 4608272--4608605 Score: 173
Period size: 22 Copynumber: 15.3 Consensus size: 22
4608262 AATGATTAAC
* *
4608272 TAATTTATTACTAAATTATCAT
1 TAATTTACTATTAAATTATCAT
* *
4608294 TAATTTA-TAATTAAATTATTAG
1 TAATTTACT-ATTAAATTATCAT
* * * *
4608316 TGATTTACTACTATATTATTAGT
1 TAATTTACTATTAAATTATCA-T
* *
4608339 T-ATTTACTATTAAGTTATCAA
1 TAATTTACTATTAAATTATCAT
* * *
4608360 TAATTTA-GACTAAATTATCAA
1 TAATTTACTATTAAATTATCAT
* * *
4608381 TGATTTACTATTATATTATTAT
1 TAATTTACTATTAAATTATCAT
** * *
4608403 GCATTTACTACTATATTATCAT
1 TAATTTACTATTAAATTATCAT
* * * *
4608425 TGATTTACTACTTAATTTTTTAT
1 TAATTTACTA-TTAAATTATCAT
* * *
4608448 T-ATTTATTA-CAGAATTATCAC
1 TAATTTACTATTA-AATTATCAT
* * *
4608469 AAATTTATTATCAAATTATCCA-
1 TAATTTACTATTAAATTAT-CAT
* * *
4608491 TGATTCACTATCAAATTATCAT
1 TAATTTACTATTAAATTATCAT
4608513 TAATTTA-TATTAAATTATTCA-
1 TAATTTACTATTAAATTA-TCAT
*
4608534 TAATTTACTATTAAGTTATCAT
1 TAATTTACTATTAAATTATCAT
** * * *
4608556 CGATTAACTATTAAGTTATCGT
1 TAATTTACTATTAAATTATCAT
* *
4608578 TAATTTATTATTAAGTTAT-AT
1 TAATTTACTATTAAATTATCAT
*
4608599 TGATTTA
1 TAATTTA
4608606 TTTTTCAATT
Statistics
Matches: 241, Mismatches: 57, Indels: 29
0.74 0.17 0.09
Matches are distributed among these distances:
20 1 0.00
21 52 0.22
22 174 0.72
23 14 0.06
ACGTcount: A:0.37, C:0.09, G:0.05, T:0.49
Consensus pattern (22 bp):
TAATTTACTATTAAATTATCAT
Found at i:4608328 original size:44 final size:43
Alignment explanation
Indices: 4608274--4608574 Score: 209
Period size: 44 Copynumber: 6.9 Consensus size: 43
4608264 TGATTAACTA
*
4608274 ATTTATTACTAAATTATCATTAATTTA-TAATTAAATTATTAGTG
1 ATTTACTACTAAATTATCATTAATTTACT-ATTAAATTATTA-TG
* * * * *
4608318 ATTTACTACTATATTATTAGTT-ATTTACTATTAAGTTATCAATA
1 ATTTACTACTAAATTATCA-TTAATTTACTATTAAATTAT-TATG
* * * *
4608362 ATTTA-GACTAAATTATCAATGATTTACTATTATATTATTATG
1 ATTTACTACTAAATTATCATTAATTTACTATTAAATTATTATG
* * * * *
4608404 CATTTACTACTATATTATCATTGATTTACTACTTAATTTTTTATT
1 -ATTTACTACTAAATTATCATTAATTTACTA-TTAAATTATTATG
* ** * * *
4608449 ATTTATTAC-AGAATTATCACAAATTTATTATCAAATTATCCATG
1 ATTTACTACTA-AATTATCATTAATTTACTATTAAATTAT-TATG
* *
4608493 ATTCACTA-TCAAATTATCATTAATTTA-TATTAAATTATTCATA
1 ATTTACTACT-AAATTATCATTAATTTACTATTAAATTATT-ATG
* * ** * *
4608536 ATTTACTATTAAGTTATCATCGATTAACTATTAAGTTAT
1 ATTTACTACTAAATTATCATTAATTTACTATTAAATTAT
4608575 CGTTAATTTA
Statistics
Matches: 198, Mismatches: 45, Indels: 28
0.73 0.17 0.10
Matches are distributed among these distances:
42 3 0.02
43 69 0.35
44 112 0.57
45 14 0.07
ACGTcount: A:0.38, C:0.10, G:0.04, T:0.48
Consensus pattern (43 bp):
ATTTACTACTAAATTATCATTAATTTACTATTAAATTATTATG
Found at i:4608376 original size:87 final size:89
Alignment explanation
Indices: 4608272--4608439 Score: 229
Period size: 87 Copynumber: 1.9 Consensus size: 89
4608262 AATGATTAAC
* *
4608272 TAATTTATTACTAAATTATCATTAATTTA-TAATTAAATTATTAGTG-ATTTACTACTATATTAT
1 TAATTTATGACTAAATTATCAATAATTTACT-ATTAAATTATTA-TGCATTTACTACTATATTAT
*
4608335 TAGTT-ATTTACTA-TTAAGTTATCAA
64 CA-TTGATTTACTACTTAAGTTATCAA
* *
4608360 TAATTTA-GACTAAATTATCAATGATTTACTATTATATTATTATGCATTTACTACTATATTATCA
1 TAATTTATGACTAAATTATCAATAATTTACTATTAAATTATTATGCATTTACTACTATATTATCA
4608424 TTGATTTACTACTTAA
66 TTGATTTACTACTTAA
4608440 TTTTTTATTA
Statistics
Matches: 71, Mismatches: 5, Indels: 8
0.85 0.06 0.10
Matches are distributed among these distances:
86 4 0.06
87 55 0.77
88 12 0.17
ACGTcount: A:0.38, C:0.09, G:0.05, T:0.49
Consensus pattern (89 bp):
TAATTTATGACTAAATTATCAATAATTTACTATTAAATTATTATGCATTTACTACTATATTATCA
TTGATTTACTACTTAAGTTATCAA
Found at i:4608431 original size:65 final size:65
Alignment explanation
Indices: 4608274--4608431 Score: 176
Period size: 65 Copynumber: 2.4 Consensus size: 65
4608264 TGATTAACTA
* * * *
4608274 ATTTATTACTAAATTATCATTAATTTATAATTAAATTATTAGTGATTTACTACTATATTATTAGT
1 ATTTACTACT-AATTATCATTAATTTATAACTAAATTATCAATGATTTACTACTATATTATTAGT
*
4608339 T
65 C
* * * *
4608340 ATTTACTATTAAGTTATCAATAATTTA-GACTAAATTATCAATGATTTACTATTATATTATTA-T
1 ATTTACTACTAA-TTATCATTAATTTATAACTAAATTATCAATGATTTACTACTATATTATTAGT
4608403 GC
65 -C
*
4608405 ATTTACTACTATATTATCATTGATTTA
1 ATTTACTACTA-ATTATCATTAATTTA
4608432 CTACTTAATT
Statistics
Matches: 77, Mismatches: 12, Indels: 7
0.80 0.12 0.07
Matches are distributed among these distances:
64 1 0.01
65 54 0.70
66 22 0.29
ACGTcount: A:0.37, C:0.08, G:0.05, T:0.49
Consensus pattern (65 bp):
ATTTACTACTAATTATCATTAATTTATAACTAAATTATCAATGATTTACTACTATATTATTAGTC
Found at i:4608553 original size:65 final size:66
Alignment explanation
Indices: 4608470--4608596 Score: 159
Period size: 65 Copynumber: 1.9 Consensus size: 66
4608460 AATTATCACA
* *
4608470 AATTTATTATCAAATTATCCAT-GATTCACTATCAAATTATCATTAATTTA-TATTAAATTATTC
1 AATTTACTATCAAATTAT-CATCGATTAACTATCAAATTATCATTAATTTATTATTAAATTATTC
4608533 AT
65 AT
* * * * * *
4608535 AATTTACTATTAAGTTATCATCGATTAACTATTAAGTTATCGTTAATTTATTATTAAGTTAT
1 AATTTACTATCAAATTATCATCGATTAACTATCAAATTATCATTAATTTATTATTAAATTAT
4608597 ATTGATTTAT
Statistics
Matches: 52, Mismatches: 8, Indels: 3
0.83 0.13 0.05
Matches are distributed among these distances:
64 3 0.06
65 39 0.75
66 10 0.19
ACGTcount: A:0.38, C:0.10, G:0.05, T:0.47
Consensus pattern (66 bp):
AATTTACTATCAAATTATCATCGATTAACTATCAAATTATCATTAATTTATTATTAAATTATTCA
T
Found at i:4609747 original size:59 final size:59
Alignment explanation
Indices: 4609614--4609889 Score: 245
Period size: 59 Copynumber: 4.7 Consensus size: 59
4609604 TTATACAAAG
* ** *
4609614 AAAATTGATACTTTCAAC-TTTTCT-T-TAAA-GCATTTTG-ACATTTCTATTTTCAA-A
1 AAAATTGATACTTTCAACTTTTTCTCTAAAAATGTTTTTTGAAAATTT-TATTTTCAAGA
*
4609668 GAAAATTGATACTTTCAACTTTTTCT-TAAAAATGTTTTTCTTGAAAATTTTA-TTTGAAGA
1 -AAAATTGATACTTTCAACTTTTTCTCTAAAAATG-TTTT-TTGAAAATTTTATTTTCAAGA
* * * *
4609728 AAAATTGATACTTTTAACTTTTCCT-TTAAAATG-TTTTTGAAAATTTTATTTTCAAGG
1 AAAATTGATACTTTCAACTTTTTCTCTAAAAATGTTTTTTGAAAATTTTATTTTCAAGA
* * * *
4609785 AAAATTGATACTTTTAA-TTTTTCCTCCAAAAAATATATTATT-AAAATTTTTATTTTCAAGA
1 AAAATTGATACTTTCAACTTTTT-CT-CTAAAAATGT-TTTTTGAAAA-TTTTATTTTCAAGA
* *
4609846 AAAATTGATGCTTTCAACTTTTTCTCT-AAAATACTTTTTTGAAA
1 AAAATTGATACTTTCAACTTTTTCTCTAAAAAT-GTTTTTTGAAA
4609890 TCATTTGTTT
Statistics
Matches: 183, Mismatches: 21, Indels: 29
0.79 0.09 0.12
Matches are distributed among these distances:
55 18 0.10
56 23 0.13
57 31 0.17
58 1 0.01
59 51 0.28
60 15 0.08
61 39 0.21
62 5 0.03
ACGTcount: A:0.36, C:0.11, G:0.07, T:0.47
Consensus pattern (59 bp):
AAAATTGATACTTTCAACTTTTTCTCTAAAAATGTTTTTTGAAAATTTTATTTTCAAGA
Found at i:4609791 original size:116 final size:117
Alignment explanation
Indices: 4609614--4609877 Score: 301
Period size: 116 Copynumber: 2.3 Consensus size: 117
4609604 TTATACAAAG
*
4609614 AAAATTGATACTTTCAACTTTTCTTT-AAA-GCATTTTGACATTTCTATTTTCAAAGAAAATTGA
1 AAAATTGATACTTTCAACTTTTCTTTAAAATGCATTTTGAAATTTCTATTTTCAAAGAAAATTGA
* * * * *
4609677 TACTTTCAACTTTTT-CT-TAAAAATGTTTTTCTTGAAAA-TTTTA-TTTGAAGA
66 TACTTTCAA-TTTTTCCTCAAAAAAT-ATATTATT-AAAATTTTTATTTTCAAGA
* * *
4609728 AAAATTGATACTTTTAACTTTTCCTTTAAAATG-TTTTTGAAAATTT-TATTTTCAAGGAAAATT
1 AAAATTGATACTTTCAACTTTT-CTTTAAAATGCATTTTG-AAATTTCTATTTTCAAAGAAAATT
*
4609791 GATACTTTTAATTTTTCCTCCAAAAAATATATTATTAAAATTTTTATTTTCAAGA
64 GATACTTTCAATTTTTCCT-CAAAAAATATATTATTAAAATTTTTATTTTCAAGA
* *
4609846 AAAATTGATGCTTTCAACTTTTTCTCTAAAAT
1 AAAATTGATACTTTCAAC-TTTTCTTTAAAAT
4609878 ACTTTTTTGA
Statistics
Matches: 127, Mismatches: 13, Indels: 16
0.81 0.08 0.10
Matches are distributed among these distances:
114 21 0.17
115 9 0.07
116 40 0.31
117 16 0.13
118 37 0.29
119 4 0.03
ACGTcount: A:0.36, C:0.11, G:0.07, T:0.47
Consensus pattern (117 bp):
AAAATTGATACTTTCAACTTTTCTTTAAAATGCATTTTGAAATTTCTATTTTCAAAGAAAATTGA
TACTTTCAATTTTTCCTCAAAAAATATATTATTAAAATTTTTATTTTCAAGA
Found at i:4609909 original size:71 final size:69
Alignment explanation
Indices: 4609832--4610041 Score: 278
Period size: 70 Copynumber: 3.0 Consensus size: 69
4609822 TTATTAAAAT
4609832 TTTTATTTTCAAGAAAAATTGATGCTTTCAACTTTTTCTCTAAAATACTTTTTTGAAATCATTTG
1 TTTTATTTTCAAGAAAAATTGATGCTTTCAACTTTTTCTCTAAAATACTTTTTTGAAAT--TTTG
4609897 TTTTAA
64 TTTTAA
* * * * *
4609903 TTTTATTTTCAAGGAAAATTAATGCTTTCAACTTTTCCTCAAAAATACATTTTTTGAAATTTTTT
1 TTTTATTTTCAAGAAAAATTGATGCTTTCAACTTTTTCTCTAAAATAC-TTTTTTGAAATTTTGT
4609968 TTTAA
65 TTTAA
* * * * * *
4609973 TTTTATTTTCAAGTAAAATTGATACTTTCAACTTTTTCT-TAAAAGTATTTTTTTTAATTTTTAT
1 TTTTATTTTCAAGAAAAATTGATGCTTTCAACTTTTTCTCTAAAA-TACTTTTTTGAAATTTTGT
4610037 TTTAA
65 TTTAA
4610042 GAGAATCATT
Statistics
Matches: 123, Mismatches: 14, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
69 22 0.18
70 46 0.37
71 44 0.36
72 11 0.09
ACGTcount: A:0.31, C:0.10, G:0.06, T:0.53
Consensus pattern (69 bp):
TTTTATTTTCAAGAAAAATTGATGCTTTCAACTTTTTCTCTAAAATACTTTTTTGAAATTTTGTT
TTAA
Found at i:4612255 original size:437 final size:437
Alignment explanation
Indices: 4611584--4612377 Score: 938
Period size: 437 Copynumber: 1.8 Consensus size: 437
4611574 AGCTCTAGCC
* * ** *
4611584 TATTTTACGTCAAATGATATCAATTTTAAGATTATTTTCACTTTTTATGTTTACACTTTTTTTTT
1 TATTTTACGTCAAATGATATCAATTTTAAGACTATTCTCACTTTTTACATTAACACTTTTTTTTT
** * * *
4611649 GTTTGGAATAACTTTTTATTTATAATAATAATTTTTACGTTAGCAATTCAATTATTTTAAGTTAT
66 GTTCAGAATAACTTTTTATTTATAATAATAATTTTTACATTAGCAATTCAATTATTATAAGTTAC
* * * * *
4611714 AATAATATATTTTTATATTTGTTCTTATCTTTTATTACATTTAGAGTTATCACGACTTTTTTAAG
131 AATAATATATTTTTATAGTTGTTCTTATCTTTTATTACATTTAAAATTATCACAACTCTTTTAAG
* * *
4611779 GTATAACAACACTTCTTACACACTTTTTATGTCAAATGATATAAATTTTACT-ATTATTCTCACC
196 GTATAACAACACTTCTTACACACATTTTAAGTCAAATGATACAAATTTT-CTAATTATTCTCA--
** *
4611843 T-TTTTACATAAACACTTATTTTT-TTATTGAATTA-T-TA-TT-T-ATAATAATAATTCTTTTC
258 TATTTTACATAAA-ACTTATTTTTGTT-TAAAATTATTGTATTTATAATAATAATAATTCTTTTA
* *
4611901 TGTTGTCAACTTAATTATTTACGTTAAAATAATATATATATATATGCATTTGTTCTTGCATTTCA
321 TGTTATCAACTTAATTATTTACATTAAAATAATATATATATATATGCATTTGTTCTTGCATTTCA
4611966 AACGTTTAGAATTATCATAATGCTTCCTTAATATGTTACGATAATTCTAACT
386 AACGTTTAGAATTATCATAATGCTTCCTTAATATGTTACGATAATTCTAACT
*
4612018 TATTTTACGTCAAATTATA-CTAATTTTACA-ACTATTCTCACTTTTTAACATTAACACTCTTTT
1 TATTTTACGTCAAATGATATC-AATTTTA-AGACTATTCTCACTTTTT-ACATTAACACT-TTTT
* *
4612081 TTTCTGTTCAGAATTA-TTTTTATTTATAATAATAATTCTTTTACATTATCAACTT-AATTATTG
62 TTT-TGTTCAGAATAACTTTTTATTTATAATAATAA-T-TTTTACATTAGCAA-TTCAATTATT-
* * *
4612144 AT-A-TTACAATAATACT-TTTTTATGGTTGTTCTTATTTTTTATTACATTTAAAATTATCGCAA
122 ATAAGTTACAATAATA-TATTTTTATAGTTGTTCTTATCTTTTATTACATTTAAAATTATCACAA
* * * * * * *
4612206 CTCCCTTTTAGGGTGTTACAACACTTC-TA-ACCCATTTTAAGTGAAATGATACCAATTTTGTAA
186 CT--CTTTTAAGGTATAACAACACTTCTTACACACATTTTAAGTCAAATGATACAAATTTTCTAA
*
4612269 TTATTCTCATATTTTACATAAAATTTATTTTTGGTTTAAAATTATTTGTATTTATAATAATAATA
249 TTATTCTCATATTTTACATAAAACTTATTTTT-GTTTAAAATTA-TTGTATTTATAATAATAATA
* * *
4612334 ATTCTTTTATGTTATCAAGTTATTTATTTACATTACAATAATAT
312 ATTCTTTTATGTTATCAACTTAATTATTTACATTAAAATAATAT
4612378 TTTCATACTT
Statistics
Matches: 298, Mismatches: 40, Indels: 36
0.80 0.11 0.10
Matches are distributed among these distances:
433 1 0.00
434 39 0.13
435 19 0.06
436 44 0.15
437 97 0.33
438 24 0.08
439 24 0.08
440 2 0.01
441 1 0.00
442 47 0.16
ACGTcount: A:0.32, C:0.12, G:0.06, T:0.49
Consensus pattern (437 bp):
TATTTTACGTCAAATGATATCAATTTTAAGACTATTCTCACTTTTTACATTAACACTTTTTTTTT
GTTCAGAATAACTTTTTATTTATAATAATAATTTTTACATTAGCAATTCAATTATTATAAGTTAC
AATAATATATTTTTATAGTTGTTCTTATCTTTTATTACATTTAAAATTATCACAACTCTTTTAAG
GTATAACAACACTTCTTACACACATTTTAAGTCAAATGATACAAATTTTCTAATTATTCTCATAT
TTTACATAAAACTTATTTTTGTTTAAAATTATTGTATTTATAATAATAATAATTCTTTTATGTTA
TCAACTTAATTATTTACATTAAAATAATATATATATATATGCATTTGTTCTTGCATTTCAAACGT
TTAGAATTATCATAATGCTTCCTTAATATGTTACGATAATTCTAACT
Found at i:4612418 original size:437 final size:431
Alignment explanation
Indices: 4611584--4612501 Score: 912
Period size: 437 Copynumber: 2.1 Consensus size: 431
4611574 AGCTCTAGCC
* ** *
4611584 TATTTTACGTCAAATGATA-TCAATTTTA-AGATTATTTTCACTTTTT-ATGTTTACACTTTTTT
1 TATTTTACGTCAAATGATACT-AATTTTACA-ACTATTTTCACTTTTTAACATTAACACTTTTTT
** * *
4611646 TTTGTTTGGAATAACTTTTTATTTATAATAATAATTTTTACGTTAGCAATTCAATTATTTTAAGT
64 TTTGTTCAGAATAACTTTTTATTTATAATAATAATTTTTACATTAGCAATTCAATTATTATAAGT
* * * * * *
4611711 TATAATAATATATTTTTATATTTGTTCTTATCTTTTATTACATTTAGAGTTATCACGACTTTTTT
129 TACAATAATATATTTTTATAGTTGTTCTTATCTTTTATTACATTTAAAATTATCACAACTCTTTT
* * *
4611776 AAGGTATAACAACACTTCTTACACACTTTTTATGTCAAATGATATAAATTTTACTATTATTCTCA
194 AAGGTATAACAACACTTCTTACACACATTTTAAGTCAAATGATACAAATTTTACTATTATTCTCA
** * *
4611841 CCTTTTTACATAAACACTTATTTTTTTATTGAATTATTATTTATAATAATAATTCTTTTCTGTTG
259 -CTTTTTACATAAACACTTATTTTTTTATAAAATTATTATTTATAATAATAATTCTTTTATGTTA
*
4611906 TCAACTTAATTATTTACGTTAAAATAATATATATATATATGCATTTGTTCTTGCATTTCAAACGT
323 TCAACTTAATTATTTACATTAAAATAATATATATATATA-GCA-TTGTTCTTGCATTTCAAACGT
* *
4611971 TTAGAATTATCATAA-TGCTTCCTTAA-TATGTTACGATAA-TTCTAACT
386 TTAGAATTATCACAACT-CTTCCTTAAGT-TGTTA--AAAATTTCTAACT
* *
4612018 TATTTTACGTCAAATTATACTAATTTTACAACTATTCTCACTTTTTAACATTAACACTCTTTTTT
1 TATTTTACGTCAAATGATACTAATTTTACAACTATTTTCACTTTTTAACATTAACACT-TTTTTT
* *
4612083 TCTGTTCAGAATTA-TTTTTATTTATAATAATAATTCTTTTACATTATCAACTT-AATTATTGAT
65 T-TGTTCAGAATAACTTTTTATTTATAATAATAA-T-TTTTACATTAGCAA-TTCAATTATT-AT
* * *
4612146 -A-TTACAATAATACT-TTTTTATGGTTGTTCTTATTTTTTATTACATTTAAAATTATCGCAACT
125 AAGTTACAATAATA-TATTTTTATAGTTGTTCTTATCTTTTATTACATTTAAAATTATCACAACT
* * * * * * *
4612208 CCCTTTTAGGGTGTTACAACACTTC-TA-ACCCATTTTAAGTGAAATGATACCAATTTT-GTAAT
189 --CTTTTAAGGTATAACAACACTTCTTACACACATTTTAAGTCAAATGATACAAATTTTACT-AT
*
4612270 TATTCTCA-TATTTTACATAAA-ATTTATTTTTGGTT-TAAAATTATTTGTATTTATAATAATAA
251 TATTCTCACT-TTTTACATAAACACTTATTTTT--TTATAAAATTA--T-TA-TT-T-ATAATAA
* * *
4612332 TAATTCTTTTATGTTATCAAGTTATTTATTTACATTACAATAATAT-T-T-TCATA-C-TTGTTC
307 TAATTCTTTTATGTTATCAACTTAATTATTTACATTAAAATAATATATATAT-ATAGCATTGTTC
* * * * *
4612392 TTATC-TTTTATTACGTTT-GAAATTATCACAACTCTTTCTTAAGTTGTTAAAAATTTTTAACT
371 TT-GCATTTCA-AACGTTTAG-AATTATCACAACTCTTCCTTAAGTTGTTAAAAATTTCTAACT
* * * *
4612454 CATTTTATGCCAAATGATACCAATTTTACAACTATTTTCACCTTTTTA
1 TATTTTACGTCAAATGATACTAATTTTACAACTATTTTCA-CTTTTTA
4612502 CTTCATGACA
Statistics
Matches: 401, Mismatches: 53, Indels: 57
0.78 0.10 0.11
Matches are distributed among these distances:
434 39 0.10
435 23 0.06
436 98 0.24
437 134 0.33
438 27 0.07
439 25 0.06
440 6 0.01
441 2 0.00
442 47 0.12
ACGTcount: A:0.32, C:0.13, G:0.06, T:0.49
Consensus pattern (431 bp):
TATTTTACGTCAAATGATACTAATTTTACAACTATTTTCACTTTTTAACATTAACACTTTTTTTT
TGTTCAGAATAACTTTTTATTTATAATAATAATTTTTACATTAGCAATTCAATTATTATAAGTTA
CAATAATATATTTTTATAGTTGTTCTTATCTTTTATTACATTTAAAATTATCACAACTCTTTTAA
GGTATAACAACACTTCTTACACACATTTTAAGTCAAATGATACAAATTTTACTATTATTCTCACT
TTTTACATAAACACTTATTTTTTTATAAAATTATTATTTATAATAATAATTCTTTTATGTTATCA
ACTTAATTATTTACATTAAAATAATATATATATATAGCATTGTTCTTGCATTTCAAACGTTTAGA
ATTATCACAACTCTTCCTTAAGTTGTTAAAAATTTCTAACT
Found at i:4612598 original size:17 final size:16
Alignment explanation
Indices: 4612559--4612612 Score: 54
Period size: 17 Copynumber: 3.2 Consensus size: 16
4612549 AATTATTCTC
*
4612559 ATATTTTTATATTTACGC
1 ATATTTTT-TATTTA-GA
*
4612577 TTATTTTTTACTTTAGA
1 ATATTTTTTA-TTTAGA
*
4612594 ATATTTTTTATTTATA
1 ATATTTTTTATTTAGA
4612610 ATA
1 ATA
4612613 ATAAATTTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
16 8 0.26
17 12 0.39
18 11 0.35
ACGTcount: A:0.30, C:0.06, G:0.04, T:0.61
Consensus pattern (16 bp):
ATATTTTTTATTTAGA
Found at i:4613018 original size:18 final size:17
Alignment explanation
Indices: 4612990--4613033 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
4612980 ATTCTCACTA
*
4612990 TTTTATATTAAATCTTACT
1 TTTTAT-TTAAA-ATTACT
*
4613009 TTTTATTTAAAATTATT
1 TTTTATTTAAAATTACT
4613026 TTTTATTT
1 TTTTATTT
4613034 GTAATAATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.66
Consensus pattern (17 bp):
TTTTATTTAAAATTACT
Found at i:4613064 original size:928 final size:921
Alignment explanation
Indices: 4612005--4614139 Score: 2151
Period size: 928 Copynumber: 2.3 Consensus size: 921
4611995 AATATGTTAC
* * * * * *
4612005 GATAATTCTAACTTATTTTACGTCAAATTATACTAATTTTACAACTATTCTCACT-TTTTAACAT
1 GATACTTCTAA-TCATTTTACGTTAAATAATACTAATTTTACAATTATTCTCACTATTTT-ATAT
* * * * **
4612069 TAACACTCTT-TTTTTCTGTTCAGAATTA-TTTTTATTTATAATAATAATTCTTTTACATTATCA
64 TAA-A-TCTTCTTTTTAT-TT-AAAATTATTTTTTATTTGTAATAATAATTTTTTTACATTGCCA
* * * ** * *
4612132 ACTTAATTATTGATATTACAATAATACTTTTTTATGGTTGTTCTTATTTTTTATTACATTTAAAA
125 ACTTAATTATT-ATGTTACAATAATACTTTTTTATGATTGTTGTTACCTTTCATTACGTTTAAAA
** * * *
4612197 TTATCGCAACTCCCTT-TTAGGGTGTTACAACACTTCTAACCCATTTTAAGTGAAATGATACCAA
189 TTATCAAAACT-CTTTCTTAGGGTGTTACAACACTTCTAACCCATTTTAAGTCAAATGATACTAA
* * *
4612261 TTTTGTAATTATTCTCA-TATTTTACATAAAATTTA-TTTTTGGTTTAAAATTATT-TGTATTTA
253 TTTTATGATTATTCTCACTATTTTACATAAAACTTATTTTTTGGTTTAAAATTATTATGTATTTA
* * * ** *
4612323 TAATAATAATAATTCTTTTATGTTATC-AAGTTATTTATTTACATTACAATAATA-TTTTCATAC
318 TAATAAT--T-ATTATTTTACG-TACCAAAAATA-ATATTTACATTACAATAATATTTTTCATAC
* * *
4612386 TTGTTCTTATCTTTTATTACGTTT-GAAATTATCAC-AACTCTTTCTTA-AGTTGTTA-AAAATT
378 TTGTTCTTATCTTTTATTACGTTTAG-AATTATCACTAA-TCTTTCTTAGAGGTATTACAAAACT
* * * *
4612447 TTTAA-CTCATTTTATGCCAAATGATACCAATTTTACAACTATT-TTCACCTTTTTAC-TTCATG
441 TCTAATC-CAATTTATGCCAAATGACACCAATTTTACAACTATTCTT-ACCTTTTTACATT-ATA
* * * ** * *
4612509 AC-ATTTTAATATATTTTACATTAAATTATACCAATTTTACAATTATTCTCATATTTTTATA-TT
503 ACAATTCTAACATACTTTACACCAAATAATACCAATTTTACAATTATTCT--TACTTTTATACTT
* * * *
4612572 TAC-GCTTA-TTTTTTACTTTAGAA-TATTTTTTATTTATAATAATAAATTTTTTATATTGTCAA
566 AACATC-TAGTTTTTTACTTTAGAATTATTATTTATTTATAATAATAAATTTTTTATATTATCAA
* * * * * ** * *
4612634 -TTTATTATTTACGTTACAATAAAATTTTTTATGTTTGTTCTTACTTTTTATTATATTCATAATC
630 CATAATTATTTACGTCACAATAAAATCTTTTACGCATATTCTTACTTTTTATTATATTCAGAATC
* * **
4612698 ATCATAACTTTTTCTTAAATATCACAACACTTC-AACCATATTTTACACCAAATTATACCACTTT
695 ATCATAA-TTTTT-TT-AAGAT-ACAACACTTCTAA-CATATTTTACACCAAATGATACCAAGTT
* * ***
4612762 TACTATTATTTTCACATTTTTA-CTTAACACTTTTTTTTGTTTAAAATTATTTTTTATTTATAAT
755 TACAATTATTTTCACATTTTTATCTTAACAC-TTATTTT-TTT--AATTA-GAATTATTTATAAT
* * *
4612826 ACTAATTTTTTTACATTGCAAATTTATTACGTTTTAATAATATT-TTTTAACATTTATTATTAAT
815 ACTAATTTTTTTACATTACAAATTTATTACATTTCAATAA-ATTCTTTTAACATTTATTATTAAT
4612890 TTTCATTACGTTTAAAATTATTATAATTTTTCGTCAAAATGTAAT
879 TTTCATTACGTTTAAAATTATTATAATTTTT--TCAAAATGTAAT
*
4612935 GATACTTCTAATCATTTTACGTTAAATAATATTAATTTTACAATTATTCTCACTATTTTATATTA
1 GATACTTCTAATCATTTTACGTTAAATAATACTAATTTTACAATTATTCTCACTATTTTATATTA
4613000 AATCTTACTTTTTATTTAAAATTATTTTTTATTTGTAATAATAATTTTTTTACATTGCCAACTTA
66 AATCTT-CTTTTTATTTAAAATTATTTTTTATTTGTAATAATAATTTTTTTACATTGCCAACTTA
* * * *
4613065 TTTACTTATGTTATAATAATACATTTTTA-CACTTGTTGTTACCTTTCATTACGTTTAAAATTAT
130 ATTA-TTATGTTACAATAATACTTTTTTATGA-TTGTTGTTACCTTTCATTACGTTTAAAATTAT
* * * * * * * *
4613129 CATAATTTTTTCTTAAAGGGT-TTACAACATTTCTAA-CTATTTTATGTCAAATAATAATAATTT
193 CAAAACTCTTTCTT--AGGGTGTTACAACACTTCTAACCCATTTTAAGTCAAATGATACTAATTT
* * * * * * * * *
4613192 TACGATTACTCTCACCATTTTTATATTAACACTTATTTTTTTGTTTAGAATTATTATTTATTTCT
256 TATGATTATTCTCACTA-TTTTACA-TAAAACTTATTTTTTGGTTTAAAATTATTATGTATTTAT
* * * *
4613257 AATAATTATTATTTTACGTGCCAAAAATAATATTTATATTACAATAATATTTTTTATGCTTGTTC
319 AATAATTATTATTTTACGTACCAAAAATAATATTTACATTACAATAATATTTTTCATACTTGTTC
* * * **
4613322 TTATTTTTTATTACGTTTAGAATTATCACTAATCTTTGTTAGGGGTATTACAGTACTTCTAATCC
384 TTATCTTTTATTACGTTTAGAATTATCACTAATCTTTCTTAGAGGTATTACAAAACTTCTAATCC
* * *
4613387 AATTTATGCCAAGTGACATCAATTTTACAATTATTCTTACCTTTTTACATTATAACAATTCTAAC
449 AATTTATGCCAAATGACACCAATTTTACAACTATTCTTACCTTTTTACATTATAACAATTCTAAC
** *** **
4613452 ATACTTTATGCCAAATAATTTTAATTTTATGATTATTCTTACTTTTATACGTTAACATCTAGTTT
514 ATACTTTACACCAAATAATACCAATTTTACAATTATTCTTACTTTTATAC-TTAACATCTAGTTT
** * * *
4613517 TTTTGTTTAGAATTATTATTTGTTTATAATAATAATTTTTTTATGTTATCAACATAATTATTTAC
578 TTTACTTTAGAATTATTATTTATTTATAATAATAAATTTTTTATATTATCAACATAATTATTTAC
* * * *
4613582 GTCACTATAAAATCTTTTACGCATATTTTTACTTTTTATTATATTTAGAATTATCATAATTTTTT
643 GTCACAATAAAATCTTTTACGCATATTCTTACTTTTTATTATATTCAGAATCATCATAATTTTTT
* * * * ** *
4613647 TAAGGTACGATATTTCTAACATATTTTACGTCAAATGATACCAAGTTTACAATTATTTTCACTTT
708 TAAGATACAACACTTCTAACATATTTTACACCAAATGATACCAAGTTTACAATTATTTTCACATT
* * ** *
4613712 TTTATGTTAACACTTATTTTTTTATTTAGAATTATTTATAATACTAATTTTTTTATGTTACCAAT
773 TTTATCTTAACACTTATTTTTTTAATTAGAATTATTTATAATACTAATTTTTTTACATTACAAAT
* * * * * **
4613777 TTATTACATTTCAATAAATTCTTTTTACGTTTATTGTTACTTTTCATTATGTTTATGATTATTAT
838 TTATTACATTTCAATAAATTCTTTTAACATTTATTATTAATTTTCATTACGTTTAAAATTATTAT
* **
4613842 AATTTTTTTAAGGTGTAAT
903 AATTTTTTCAAAATGTAAT
* * ** * *
4613861 AATACTTCTAA-CTATTTTACGTTAAGTAATACTAATTTTATGATTATTTTCACTATTTTATGTT
1 GATACTTCTAATC-ATTTTACGTTAAATAATACTAATTTTACAATTATTCTCACTATTTTATATT
* *
4613925 -AA-C-TCTTTTCTATCTAAAATTATTTTTTATTTGTAATAATAA-TTTTTTATATTGCCAACTT
65 AAATCTTCTTTT-TATTTAAAATTATTTTTTATTTGTAATAATAATTTTTTTACATTGCCAACTT
* *
4613986 AATTATTTATGTTACAATAATAATATTTTTATGATTGTTGTTACCTTTCATTACGTTTAGAATTA
129 AATTA-TTATGTTACAATAATACT-TTTTTATGATTGTTGTTACCTTTCATTACGTTTAAAATTA
* *** * *
4614051 TCAAAACTCTTTGTTAGGGTGTTACGTTACTTCTAACTCATTTTATA-TCAAATGACACTAATTT
192 TCAAAACTCTTTCTTAGGGTGTTACAACACTTCTAACCCATTTTA-AGTCAAATGATACTAATTT
* *
4614115 TATGACTATTCTCACTTTTTTACAT
256 TATGATTATTCTCACTATTTTACAT
4614140 TATGATACTT
Statistics
Matches: 986, Mismatches: 179, Indels: 89
0.79 0.14 0.07
Matches are distributed among these distances:
921 6 0.01
922 59 0.06
923 111 0.11
924 2 0.00
925 3 0.00
926 64 0.06
927 15 0.02
928 214 0.22
929 91 0.09
930 85 0.09
931 28 0.03
932 125 0.13
933 70 0.07
934 16 0.02
935 39 0.04
936 58 0.06
ACGTcount: A:0.32, C:0.12, G:0.06, T:0.51
Consensus pattern (921 bp):
GATACTTCTAATCATTTTACGTTAAATAATACTAATTTTACAATTATTCTCACTATTTTATATTA
AATCTTCTTTTTATTTAAAATTATTTTTTATTTGTAATAATAATTTTTTTACATTGCCAACTTAA
TTATTATGTTACAATAATACTTTTTTATGATTGTTGTTACCTTTCATTACGTTTAAAATTATCAA
AACTCTTTCTTAGGGTGTTACAACACTTCTAACCCATTTTAAGTCAAATGATACTAATTTTATGA
TTATTCTCACTATTTTACATAAAACTTATTTTTTGGTTTAAAATTATTATGTATTTATAATAATT
ATTATTTTACGTACCAAAAATAATATTTACATTACAATAATATTTTTCATACTTGTTCTTATCTT
TTATTACGTTTAGAATTATCACTAATCTTTCTTAGAGGTATTACAAAACTTCTAATCCAATTTAT
GCCAAATGACACCAATTTTACAACTATTCTTACCTTTTTACATTATAACAATTCTAACATACTTT
ACACCAAATAATACCAATTTTACAATTATTCTTACTTTTATACTTAACATCTAGTTTTTTACTTT
AGAATTATTATTTATTTATAATAATAAATTTTTTATATTATCAACATAATTATTTACGTCACAAT
AAAATCTTTTACGCATATTCTTACTTTTTATTATATTCAGAATCATCATAATTTTTTTAAGATAC
AACACTTCTAACATATTTTACACCAAATGATACCAAGTTTACAATTATTTTCACATTTTTATCTT
AACACTTATTTTTTTAATTAGAATTATTTATAATACTAATTTTTTTACATTACAAATTTATTACA
TTTCAATAAATTCTTTTAACATTTATTATTAATTTTCATTACGTTTAAAATTATTATAATTTTTT
CAAAATGTAAT
Found at i:4613262 original size:218 final size:212
Alignment explanation
Indices: 4612541--4613263 Score: 519
Period size: 211 Copynumber: 3.4 Consensus size: 212
4612531 AAATTATACC
* * * ** *
4612541 AATTTTACAATTATTCTCA-TATTTTTATATTTACGCTTATTTTTTACTTTAGAA-TATTTTTTA
1 AATTTTACAATTATTCTCACCATTTTTATATTAACACTTATTTTTTTGTTTAAAATTATTTTTTA
* * * * ***
4612604 TTTATAATAATAAATTTTTTATATTGTCAATTTATTATTTACGTTACAATAA-AATTTTTTATGT
66 TTTATAATAAT---TTTTTTACATTG-CAA-AT-TTA-TTACGTTATAATAATAATTTTTAACAC
* * * ** * * * * *
4612668 TTGTTCTT-ACTTTTTATTATATTCATAATCATCATAACTTTTTC-TTAAATA--TCACAACACT
124 TTATTATTAAC-TTTCATTACGTTTAAAATTATCATAA-TTTTTCGTCAAA-AGGTAACAACACT
* ** * **
4612729 TC-AACCATATTTTACACCAAATTATACC
186 TCTAATC--ATTTTACGTCAAATAATAAT
* * * *
4612757 ACTTTTACTATTATTTTCA-CATTTTTA-CTTAACAC-T-TTTTTTTGTTTAAAATTATTTTTTA
1 AATTTTACAATTATTCTCACCATTTTTATATTAACACTTATTTTTTTGTTTAAAATTATTTTTTA
* * *
4612818 TTTATAATACTAATTTTTTTACATTGCAAATTTATTACGTTTTAATAATATTTTTTAACATTTAT
66 TTTAT-A-A-TAATTTTTTTACATTGCAAATTTATTACGTTATAATAATAATTTTTAACACTTAT
* * * ** *
4612883 TATTAATTTTCATTACGTTTAAAATTATTATAATTTTTCGTCAAAATGTAATGATACTTCTAATC
128 TATTAACTTTCATTACGTTTAAAATTATCATAATTTTTCGTCAAAAGGTAACAACACTTCTAATC
* *
4612948 ATTTTACGTTAAATAATATT
193 ATTTTACGTCAAATAATAAT
* * *
4612968 AATTTTACAATTATTCTCACTA-TTTTATATTAA-ATCTTA-CTTTTTATTTAAAATTATTTTTT
1 AATTTTACAATTATTCTCACCATTTTTATATTAACA-CTTATTTTTTTGTTTAAAATTATTTTTT
*
4613030 ATTTGTAATAATAATTTTTTTACATTGCCAACTTATTTACTTATGTTATAATAATACATTTTT-A
65 A-TT-T-ATAATAATTTTTTTACATTG-CAA---ATTTA-TTACGTTATAATAATA-ATTTTTAA
* * * * * *
4613094 CACTTGTTGTTACCTTTCATTACGTTTAAAATTATCATAATTTTTTC-TTAAAGGGTTTACAACA
121 CACTTATTATTAACTTTCATTACGTTTAAAATTATCATAA-TTTTTCGTCAAAAGG-TAACAACA
* *
4613158 TTTCTAA-CTATTTTATGTCAAATAATAAT
184 CTTCTAATC-ATTTTACGTCAAATAATAAT
* * * *
4613187 AATTTTACGATTACTCTCACCATTTTTATATTAACACTTATTTTTTTGTTTAGAATTATTATTTA
1 AATTTTACAATTATTCTCACCATTTTTATATTAACACTTATTTTTTTGTTTAAAATTATTTTTTA
*
4613252 TTTCTAATAATT
66 TTTATAATAATT
4613264 ATTATTTTAC
Statistics
Matches: 402, Mismatches: 75, Indels: 58
0.75 0.14 0.11
Matches are distributed among these distances:
210 19 0.05
211 76 0.19
212 16 0.04
213 57 0.14
214 32 0.08
215 8 0.02
216 26 0.06
217 9 0.02
218 63 0.16
219 58 0.14
220 17 0.04
221 21 0.05
ACGTcount: A:0.33, C:0.11, G:0.04, T:0.52
Consensus pattern (212 bp):
AATTTTACAATTATTCTCACCATTTTTATATTAACACTTATTTTTTTGTTTAAAATTATTTTTTA
TTTATAATAATTTTTTTACATTGCAAATTTATTACGTTATAATAATAATTTTTAACACTTATTAT
TAACTTTCATTACGTTTAAAATTATCATAATTTTTCGTCAAAAGGTAACAACACTTCTAATCATT
TTACGTCAAATAATAAT
Found at i:4613348 original size:219 final size:220
Alignment explanation
Indices: 4612940--4613354 Score: 491
Period size: 219 Copynumber: 1.9 Consensus size: 220
4612930 GTAATGATAC
* * * *
4612940 TTCTAATCATTTTACGTTAAATAATATTAATTTTACAATTATTCTCACTATTTTATATTAAATCT
1 TTCTAATCATTTTACGTCAAATAATAATAATTTTACAATTACTCTCACCATTTTATATTAAATCT
* * * * ** *
4613005 TACTTTTTATTTAAAATTATTTTTTATTTGTAATAATAATTTTTTTACATTGCCAACTTATTTAC
66 TACTTTTTATTTAAAATTATTATTTATTTCTAATAATAATTATTTTACAGTGCCAAAATATATAC
* * *
4613070 TTATGTTATAATAATACATTTTTACACTTGTTGTTACCTTTCATTACGTTTAAAATTATCA-TAA
131 TTATATTACAATAATACATTTTTACACTTGTTCTTACCTTTCATTACGTTTAAAATTATCACTAA
4613134 TTTTTTCTTAAAGGGTTTACAACAT
196 TTTTTTCTTAAAGGGTTTACAACAT
* *
4613159 TTCTAA-CTATTTTATGTCAAATAATAATAATTTTACGATTACTCTCACCATTTTTATATTAACA
1 TTCTAATC-ATTTTACGTCAAATAATAATAATTTTACAATTACTCTCACCA-TTTTATATTAA-A
* * * *
4613223 -CTTATTTTTTTGTTTAGAATTATTATTTATTTCTAATAATTATTATTTTAC-GTGCCAAAA-AT
63 TCTTA-CTTTTTATTTAAAATTATTATTTATTTCTAATAATAATTATTTTACAGTGCCAAAATAT
* * ** ** * *
4613285 AATATTTATATTACAATAATA-TTTTTTATGCTTGTTCTTATTTTTTATTACGTTTAGAATTATC
127 -ATACTTATATTACAATAATACATTTTTACACTTGTTCTTACCTTTCATTACGTTTAAAATTATC
4613349 ACTAAT
191 ACTAAT
4613355 CTTTGTTAGG
Statistics
Matches: 162, Mismatches: 28, Indels: 11
0.81 0.14 0.05
Matches are distributed among these distances:
218 1 0.01
219 80 0.49
220 41 0.25
221 40 0.25
ACGTcount: A:0.33, C:0.11, G:0.05, T:0.52
Consensus pattern (220 bp):
TTCTAATCATTTTACGTCAAATAATAATAATTTTACAATTACTCTCACCATTTTATATTAAATCT
TACTTTTTATTTAAAATTATTATTTATTTCTAATAATAATTATTTTACAGTGCCAAAATATATAC
TTATATTACAATAATACATTTTTACACTTGTTCTTACCTTTCATTACGTTTAAAATTATCACTAA
TTTTTTCTTAAAGGGTTTACAACAT
Found at i:4613554 original size:17 final size:17
Alignment explanation
Indices: 4613518--4613560 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
4613508 ATCTAGTTTT
* * *
4613518 TTTGTTTAGAATTATTA
1 TTTGTTTATAATAATAA
4613535 TTTGTTTATAATAATAA
1 TTTGTTTATAATAATAA
*
4613552 TTTTTTTAT
1 TTTGTTTAT
4613561 GTTATCAACA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.30, C:0.00, G:0.07, T:0.63
Consensus pattern (17 bp):
TTTGTTTATAATAATAA
Found at i:4614324 original size:19 final size:19
Alignment explanation
Indices: 4614275--4614324 Score: 50
Period size: 19 Copynumber: 2.7 Consensus size: 19
4614265 CAAAAAACCT
4614275 AAAAA-AAAAAG-CTAATAA
1 AAAAAGAAAAAGTC-AATAA
* *
4614293 AAAAAGTAGAAGTCAATAA
1 AAAAAGAAAAAGTCAATAA
*
4614312 AGAAAGAAAAAGT
1 AAAAAGAAAAAGT
4614325 TAGAGGAAAA
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
18 5 0.20
19 19 0.76
20 1 0.04
ACGTcount: A:0.70, C:0.04, G:0.14, T:0.12
Consensus pattern (19 bp):
AAAAAGAAAAAGTCAATAA
Found at i:4618818 original size:217 final size:219
Alignment explanation
Indices: 4618505--4618897 Score: 621
Period size: 217 Copynumber: 1.8 Consensus size: 219
4618495 TACTTTATCC
*
4618505 AAAAAAAATCACTGGGAATAAACATGTTTCAACTTTCAAAGCTAAATTCAAGTAAAAAGAAATCA
1 AAAAAAAATCACTGAGAATAAACATGTTTCAACTTTCAAAGCTAAATTCAAGTAAAAAGAAATCA
*
4618570 AAGAAAGCTTTCAACATCTTCTCTCCCAAACCACAAAAACTAGTTAA-TAAAAAATAATCAAAGA
66 AAAAAAGCTTTCAACATCTTCTCTCCCAAACCACAAAAACTAGTTAATTAAAAAATAATCAAAGA
*
4618634 ACACAACAAATAACTGACCGATTAAAAAAACAAAAAC-AAATTAAAGGATGAAAAATACAGAATA
131 ACACAACAAATAACTGACCAATTAAAAAAACAAAAACAAAATTAAAGGATGAAAAATACAGAATA
4618698 CTTATACTCTAGATTCAAAAAAAA
196 CTTATACTCTAGATTCAAAAAAAA
*
4618722 AAAAAAAATCACTGAGACTAAACATGTTTCAACTTTCAAAGCTAAATTCAAGTAAAAAGAAATCA
1 AAAAAAAATCACTGAGAATAAACATGTTTCAACTTTCAAAGCTAAATTCAAGTAAAAAGAAATCA
* * * * * **
4618787 AAAAAAG-TATTCAACATGTTCTTTGCCAAACCACAAACACTGGTTAATTTGAAAATAATCAAAG
66 AAAAAAGCT-TTCAACATCTTCTCTCCCAAACCACAAAAACTAGTTAATTAAAAAATAATCAAAG
* * * *
4618851 AATACGACAAATAAGTGACCAATTTAAAAAACAAAAACAAAATTAAA
130 AACACAACAAATAACTGACCAATTAAAAAAACAAAAACAAAATTAAA
4618898 AGAAGAAACA
Statistics
Matches: 158, Mismatches: 15, Indels: 4
0.89 0.08 0.02
Matches are distributed among these distances:
216 1 0.01
217 102 0.65
218 47 0.30
219 8 0.05
ACGTcount: A:0.54, C:0.16, G:0.09, T:0.22
Consensus pattern (219 bp):
AAAAAAAATCACTGAGAATAAACATGTTTCAACTTTCAAAGCTAAATTCAAGTAAAAAGAAATCA
AAAAAAGCTTTCAACATCTTCTCTCCCAAACCACAAAAACTAGTTAATTAAAAAATAATCAAAGA
ACACAACAAATAACTGACCAATTAAAAAAACAAAAACAAAATTAAAGGATGAAAAATACAGAATA
CTTATACTCTAGATTCAAAAAAAA
Found at i:4620699 original size:15 final size:15
Alignment explanation
Indices: 4620681--4620710 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
4620671 AAACTACTAA
4620681 TAAATATATATAAAT
1 TAAATATATATAAAT
*
4620696 TAAATATCTATAAAT
1 TAAATATATATAAAT
4620711 AACATTCTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (15 bp):
TAAATATATATAAAT
Found at i:4623580 original size:9 final size:9
Alignment explanation
Indices: 4623530--4623602 Score: 53
Period size: 9 Copynumber: 7.8 Consensus size: 9
4623520 AGGCTGATTT
4623530 TTTTAATTA
1 TTTTAATTA
4623539 TTATT-ATTA
1 TT-TTAATTA
4623548 TTATT-ATTA
1 TT-TTAATTA
*
4623557 TTTATGATT-
1 TTT-TAATTA
4623566 TTTTAATTA
1 TTTTAATTA
4623575 TTTTAAATATA
1 TTTT-AAT-TA
4623586 TTTATAATTA
1 TTT-TAATTA
*
4623596 ATTTAAT
1 TTTTAAT
4623603 ACATAACTTA
Statistics
Matches: 55, Mismatches: 2, Indels: 14
0.77 0.03 0.20
Matches are distributed among these distances:
8 5 0.09
9 29 0.53
10 12 0.22
11 8 0.15
12 1 0.02
ACGTcount: A:0.36, C:0.00, G:0.01, T:0.63
Consensus pattern (9 bp):
TTTTAATTA
Found at i:4624786 original size:21 final size:18
Alignment explanation
Indices: 4624728--4624773 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
4624718 TGTGAGAGTT
* *
4624728 TAATTGTTTAATTATATTA
1 TAATTGATTAATT-GATTA
*
4624747 TAATTTATTAATTGATTA
1 TAATTGATTAATTGATTA
4624765 TAATTGATT
1 TAATTGATT
4624774 GTAACTTGAT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
18 12 0.52
19 11 0.48
ACGTcount: A:0.37, C:0.00, G:0.07, T:0.57
Consensus pattern (18 bp):
TAATTGATTAATTGATTA
Found at i:4630154 original size:10 final size:9
Alignment explanation
Indices: 4630132--4630221 Score: 67
Period size: 9 Copynumber: 9.8 Consensus size: 9
4630122 AAATATTTTT
4630132 AAAAAATAT-
1 AAAAAAT-TC
4630141 AAAAAATTC
1 AAAAAATTC
4630150 -AAAAATTC
1 AAAAAATTC
*
4630158 AAAAAAATC
1 AAAAAATTC
* * *
4630167 TAAAATTTA
1 AAAAAATTC
*
4630176 ATAAAAGATAC
1 A-AAAA-ATTC
4630187 AAAAAATTC
1 AAAAAATTC
*
4630196 AAAAAATTTT
1 AAAAAA-TTC
*
4630206 GAAAAATTC
1 AAAAAATTC
4630215 AAAAAAT
1 AAAAAAT
4630222 AAAAATTTTA
Statistics
Matches: 62, Mismatches: 14, Indels: 10
0.72 0.16 0.12
Matches are distributed among these distances:
8 9 0.15
9 36 0.58
10 15 0.24
11 2 0.03
ACGTcount: A:0.67, C:0.07, G:0.02, T:0.24
Consensus pattern (9 bp):
AAAAAATTC
Found at i:4630402 original size:21 final size:22
Alignment explanation
Indices: 4630359--4630402 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
4630349 AGGAAATTTT
*
4630359 AAAAATTATGAAAGATTATAAA
1 AAAAATTATGAAAGATTAAAAA
**
4630381 AAAAATT-TGAAATTTTAAAAA
1 AAAAATTATGAAAGATTAAAAA
4630402 A
1 A
4630403 TTTCAAAAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.64, C:0.00, G:0.07, T:0.30
Consensus pattern (22 bp):
AAAAATTATGAAAGATTAAAAA
Found at i:4630439 original size:28 final size:26
Alignment explanation
Indices: 4630381--4630432 Score: 68
Period size: 26 Copynumber: 1.9 Consensus size: 26
4630371 AGATTATAAA
* *
4630381 AAAAATTTGAAATTTTAAAAAATTTC
1 AAAAATATGAAATTTCAAAAAATTTC
4630407 AAAAATATGAAATATTCCAAAAAATT
1 AAAAATATGAAAT-TT-CAAAAAATT
4630433 ATAAAAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 12 0.55
27 2 0.09
28 8 0.36
ACGTcount: A:0.58, C:0.06, G:0.04, T:0.33
Consensus pattern (26 bp):
AAAAATATGAAATTTCAAAAAATTTC
Found at i:4630503 original size:20 final size:19
Alignment explanation
Indices: 4630492--4630532 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 19
4630482 ATTTTAATAC
4630492 AAAATT-TGAAATATTAAA
1 AAAATTATGAAATATTAAA
*
4630510 AAAATTATGAAA-ATTCAA
1 AAAATTATGAAATATTAAA
4630528 AAAAT
1 AAAAT
4630533 ATATAAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 16 0.76
19 5 0.24
ACGTcount: A:0.63, C:0.02, G:0.05, T:0.29
Consensus pattern (19 bp):
AAAATTATGAAATATTAAA
Found at i:4630605 original size:27 final size:26
Alignment explanation
Indices: 4630575--4630630 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 26
4630565 AAAATGAAAA
4630575 TTTTCAAAAAATTTTAAATTTTTTGACT
1 TTTTCAAAAAATTTTAAATTTTTT-A-T
* *
4630603 TTTTC-CAAAATTTTAGATTTTTTAT
1 TTTTCAAAAAATTTTAAATTTTTTAT
4630628 TTT
1 TTT
4630631 CAATTTTTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
25 4 0.15
26 1 0.04
27 16 0.62
28 5 0.19
ACGTcount: A:0.30, C:0.07, G:0.04, T:0.59
Consensus pattern (26 bp):
TTTTCAAAAAATTTTAAATTTTTTAT
Found at i:4630801 original size:42 final size:41
Alignment explanation
Indices: 4630724--4630805 Score: 103
Period size: 41 Copynumber: 2.0 Consensus size: 41
4630714 AGTTTTCATA
* * * *
4630724 TTTTTTATTTTTTAAAAATATTTCATATTTCATATTTTTAT
1 TTTTTTAATTTTGAAAAATATTTAATATTTAATATTTTTAT
4630765 TTTTTTAATTTTG-AAAATATTTTAATATTTTAATATTTTTA
1 TTTTTTAATTTTGAAAAATA-TTTAATA-TTTAATATTTTTA
4630806 AATTCTTTTA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
40 6 0.17
41 17 0.49
42 12 0.34
ACGTcount: A:0.32, C:0.02, G:0.01, T:0.65
Consensus pattern (41 bp):
TTTTTTAATTTTGAAAAATATTTAATATTTAATATTTTTAT
Found at i:4631313 original size:21 final size:21
Alignment explanation
Indices: 4631279--4631318 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
4631269 TGGTTGAGGT
*
4631279 TTGTTAATTAGTTATTGTAAC
1 TTGTTAATTAGTTAGTGTAAC
* *
4631300 TTGTTACTTTGTTAGTGTA
1 TTGTTAATTAGTTAGTGTA
4631319 GTACTTAGTC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.23, C:0.05, G:0.17, T:0.55
Consensus pattern (21 bp):
TTGTTAATTAGTTAGTGTAAC
Found at i:4634604 original size:139 final size:139
Alignment explanation
Indices: 4634413--4634759 Score: 396
Period size: 139 Copynumber: 2.5 Consensus size: 139
4634403 GCTTTACATA
* * * *
4634413 ATGTATTTGTATATACATTTTTATCCATGTAAATATCTTTGTATGTACATTATTTCATTTGTTTG
1 ATGTATTTGCATATACATTTTTATCCATGTAAACATCTTTATATGTAAATTATTTCATTTGTTTG
* * * *
4634478 GGAGAATCTTTGTCTTTTTCAATTTTGCACATAGTTTTCAATATGAATT-TTGGTTTTTACCATG
66 GGAGAATCTTTGCCCTTTTCAATTTTGCACATAATTTTCAATATGAATTCTT-CTTTTTACCATG
*
4634542 CGTTGCATT-C
130 CATTGC-TTAC
**
4634552 ATGTATTTGCATATACATTTTTATTGATGTAAACATCTTTATATGTAAATTATTTCATTTGTTTG
1 ATGTATTTGCATATACATTTTTATCCATGTAAACATCTTTATATGTAAATTATTTCATTTGTTTG
* * * * * * *
4634617 GGAGACTTTTTGCCCTTTTCAATTTTGTATATAATTTTGAATATGAATTCTTCTTTTTACTATGT
66 GGAGAATCTTTGCCCTTTTCAATTTTGCACATAATTTTCAATATGAATTCTTCTTTTTACCATGC
4634682 ATTGCTTAC
131 ATTGCTTAC
* * * * *
4634691 ACGTATTTGCGTATACATTTATTTTATCCAT-TAAATAT-TCTTATATGTATATTATTTTATTTG
1 ATGTATTTGCATATACA--T-TTTTATCCATGTAAACATCT-TTATATGTAAATTATTTCATTTG
*
4634754 TCTGGG
62 TTTGGG
4634760 GCAACCTTTT
Statistics
Matches: 176, Mismatches: 26, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
138 2 0.01
139 130 0.74
140 3 0.02
141 33 0.19
142 8 0.05
ACGTcount: A:0.25, C:0.11, G:0.12, T:0.51
Consensus pattern (139 bp):
ATGTATTTGCATATACATTTTTATCCATGTAAACATCTTTATATGTAAATTATTTCATTTGTTTG
GGAGAATCTTTGCCCTTTTCAATTTTGCACATAATTTTCAATATGAATTCTTCTTTTTACCATGC
ATTGCTTAC
Found at i:4637519 original size:31 final size:32
Alignment explanation
Indices: 4637481--4637540 Score: 95
Period size: 31 Copynumber: 1.9 Consensus size: 32
4637471 TAGATGACAT
* *
4637481 ATGATGAGATTTAAGTCCAAA-TAGCTGGCAC
1 ATGATGAGACTTAAGCCCAAATTAGCTGGCAC
4637512 ATGATGAGACTTAAGCCCAAATTAGCTGG
1 ATGATGAGACTTAAGCCCAAATTAGCTGG
4637541 TACTAGTTGA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
31 19 0.73
32 7 0.27
ACGTcount: A:0.35, C:0.17, G:0.23, T:0.25
Consensus pattern (32 bp):
ATGATGAGACTTAAGCCCAAATTAGCTGGCAC
Found at i:4637719 original size:22 final size:22
Alignment explanation
Indices: 4637678--4637739 Score: 72
Period size: 22 Copynumber: 2.8 Consensus size: 22
4637668 AGAAATGATT
* * *
4637678 TATAAGATCTTTAGGTATAATC
1 TATAAGACCTTCAGGCATAATC
*
4637700 TCTAAGACCTTCAGGCATAATC
1 TATAAGACCTTCAGGCATAATC
4637722 TATAAGACC-TCAAGGCAT
1 TATAAGACCTTC-AGGCAT
4637740 GAACCCAAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
21 2 0.06
22 32 0.94
ACGTcount: A:0.35, C:0.19, G:0.15, T:0.31
Consensus pattern (22 bp):
TATAAGACCTTCAGGCATAATC
Found at i:4637931 original size:42 final size:42
Alignment explanation
Indices: 4637822--4638187 Score: 240
Period size: 42 Copynumber: 8.4 Consensus size: 42
4637812 TTTTAGTTAC
* *
4637822 AAATTCTAAAGTTTC-ATAG-CTCTAGTTAGAGGAGCTCTTTT-
1 AAATTTTAAAGTTTCAAT-GCCTCTAGTTAGAGAAGC-CTTTTA
** *
4637863 ATGTTTTAAAAAGTTTCATTGCCTCTAGTTAGAGAAGCCTTTTA
1 AAATTTT--AAAGTTTCAATGCCTCTAGTTAGAGAAGCCTTTTA
4637907 AAATTTTAAAGTTTCAATGCCTCTAGTTAGAGAAGCCTTTTA
1 AAATTTTAAAGTTTCAATGCCTCTAGTTAGAGAAGCCTTTTA
* * * *
4637949 AACTTTTAAAGTTTCATTGCC-CTTGTTGAGGAGAAGCTTTCTGATTTTT
1 AAATTTTAAAGTTTCAATGCCTCTAGTT-A-GAGAAGC---C---TTTTA
** * * * * *
4637998 ATTTTTTAAAGTTTCAATGCTTTTAATTAAAGGAGCCTTTTA
1 AAATTTTAAAGTTTCAATGCCTCTAGTTAGAGAAGCCTTTTA
* *
4638040 AAAATTTAAAGTTTCAATGCCTCTAGTTAGA-AGAGCCTTTTG
1 AAATTTTAAAGTTTCAATGCCTCTAGTTAGAGA-AGCCTTTTA
* * * * *
4638082 AACTTTTAAAGTTTTAATGCTTCTA-TTGAGGATGAAGTTTTCAATTTTG
1 AAATTTTAAAGTTTCAATGCCTCTAGTT-A-GA-GAAG----C-CTTTTA
* * * *
4638131 AATTTTTAAAGTTTCAATGCCTTTGGTTAGAGGAGCCTTTTA
1 AAATTTTAAAGTTTCAATGCCTCTAGTTAGAGAAGCCTTTTA
* *
4638173 AATTTTTAAAATTTC
1 AAATTTTAAAGTTTC
4638188 TAAACTTTTG
Statistics
Matches: 255, Mismatches: 45, Indels: 49
0.73 0.13 0.14
Matches are distributed among these distances:
41 11 0.04
42 130 0.51
43 24 0.09
44 23 0.09
45 2 0.01
46 1 0.00
47 3 0.01
48 8 0.03
49 48 0.19
50 5 0.02
ACGTcount: A:0.30, C:0.12, G:0.16, T:0.43
Consensus pattern (42 bp):
AAATTTTAAAGTTTCAATGCCTCTAGTTAGAGAAGCCTTTTA
Found at i:4638040 original size:133 final size:133
Alignment explanation
Indices: 4637872--4638187 Score: 395
Period size: 133 Copynumber: 2.4 Consensus size: 133
4637862 TATGTTTTAA
* * * * *
4637872 AAAGTTTCATTGCCTCTAGTTAGAGAAGCCTTTTAAAATTTTAAAGTTTCAATGCCTCTAGTTAG
1 AAAGTTTCAATGCCTTTAATTAAAGGAGCCTTTTAAAATTTTAAAGTTTCAATGCCTCTAGTTAG
* * * *
4637937 -AGAAGCCTTTTAAACTTTTAAAGTTTCATTGCC-CTTGTTGAGGA-GAAGCTTTCTGATTTTTA
66 AAG-AGCCTTTTAAACTTTTAAAGTTTCAATGCCTC-TATTGAGGATGAAGCTTTC-AATTTTGA
*
4637999 TTTTTT
128 ATTTTT
* *
4638005 AAAGTTTCAATGCTTTTAATTAAAGGAGCCTTTTAAAAATTTAAAGTTTCAATGCCTCTAGTTAG
1 AAAGTTTCAATGCCTTTAATTAAAGGAGCCTTTTAAAATTTTAAAGTTTCAATGCCTCTAGTTAG
* * * *
4638070 AAGAGCCTTTTGAACTTTTAAAGTTTTAATGCTTCTATTGAGGATGAAGTTTTCAATTTTGAATT
66 AAGAGCCTTTTAAACTTTTAAAGTTTCAATGCCTCTATTGAGGATGAAGCTTTCAATTTTGAATT
4638135 TTT
131 TTT
** * * *
4638138 AAAGTTTCAATGCCTTTGGTTAGAGGAGCCTTTTAAATTTTTAAAATTTC
1 AAAGTTTCAATGCCTTTAATTAAAGGAGCCTTTTAAAATTTTAAAGTTTC
4638188 TAAACTTTTG
Statistics
Matches: 157, Mismatches: 23, Indels: 6
0.84 0.12 0.03
Matches are distributed among these distances:
133 146 0.93
134 11 0.07
ACGTcount: A:0.29, C:0.12, G:0.16, T:0.43
Consensus pattern (133 bp):
AAAGTTTCAATGCCTTTAATTAAAGGAGCCTTTTAAAATTTTAAAGTTTCAATGCCTCTAGTTAG
AAGAGCCTTTTAAACTTTTAAAGTTTCAATGCCTCTATTGAGGATGAAGCTTTCAATTTTGAATT
TTT
Found at i:4638089 original size:91 final size:91
Alignment explanation
Indices: 4637910--4638089 Score: 213
Period size: 91 Copynumber: 2.0 Consensus size: 91
4637900 CCTTTTAAAA
* * ** * *
4637910 TTTTAAAGTTTCAATGCCTCTAGTTAGAGAAGCCTTTTAAACTTTTAAAGTTTCATTGCCCTTGT
1 TTTTAAAGTTTCAATGCCTCTAATTAAAGAAGCCTTTTAAAAATTTAAAGTTTCAATGCCCTAGT
* *
4637975 TGAGGAGAAGCTTTCTGATTTTTATT
66 TGAGAAGAAGCTTTCTGACTTTTATT
* * *
4638001 TTTTAAAGTTTCAATGCTTTTAATTAAAGGAGCCTTTTAAAAATTTAAAGTTTCAATGCCTCTAG
1 TTTTAAAGTTTCAATGCCTCTAATTAAAGAAGCCTTTTAAAAATTTAAAGTTTCAATGCC-CTAG
4638066 TT-AGAAG-AGCCTTT-TGAACTTTTA
65 TTGAGAAGAAG-CTTTCTG-ACTTTTA
4638090 AAGTTTTAAT
Statistics
Matches: 75, Mismatches: 11, Indels: 6
0.82 0.12 0.07
Matches are distributed among these distances:
90 4 0.05
91 66 0.88
92 5 0.07
ACGTcount: A:0.29, C:0.13, G:0.15, T:0.43
Consensus pattern (91 bp):
TTTTAAAGTTTCAATGCCTCTAATTAAAGAAGCCTTTTAAAAATTTAAAGTTTCAATGCCCTAGT
TGAGAAGAAGCTTTCTGACTTTTATT
Found at i:4638213 original size:133 final size:132
Alignment explanation
Indices: 4637872--4638233 Score: 392
Period size: 133 Copynumber: 2.7 Consensus size: 132
4637862 TATGTTTTAA
* * *
4637872 AAAGTTTCATTGCCTCTAGTTAGAGAAGCCTTTTAAAATTTTAAAGTTTCAATGCCTCTAGTTAG
1 AAAGTTTCAATGCCTTTAGTTAGAGGAGCCTTTTAAAATTTTAAAGTTTCAA-GCCTCTAGTTAG
* * * * * * *
4637937 AGAAG-CCTTTTAAACTTTTAAAGTTTCATTGCCCTTGTTGAGGAGAAGCTTTCTGATTTTTATT
65 A-AAGAGCTTTTGAACTTTTAAAGTTTCAATGCCCTTATTGAGGAGAAGCTTTCTAATTTTGAAT
4638001 TTTT
129 TTTT
* * * *
4638005 AAAGTTTCAATGCTTTTAATTAAAGGAGCCTTTTAAAAATTTAAAGTTTCAATGCCTCTAGTTAG
1 AAAGTTTCAATGCCTTTAGTTAGAGGAGCCTTTTAAAATTTTAAAGTTTCAA-GCCTCTAGTTAG
* * *
4638070 -AAGAGCCTTTTGAACTTTTAAAGTTTTAATG-CTTCTATTGAGGATGAAGTTTTC-AATTTTGA
65 AAAGAG-CTTTTGAACTTTTAAAGTTTCAATGCCCT-TATTGAGGA-GAAGCTTTCTAATTTTGA
4638132 ATTTTT
127 ATTTTT
* * * * * *
4638138 AAAGTTTCAATGCCTTTGGTTAGAGGAGCCTTTTAAATTTTTAAAATTTCTAA-ACTTTTGTTAA
1 AAAGTTTCAATGCCTTTAGTTAGAGGAGCCTTTTAAAATTTTAAAGTTTC-AAGCCTCTAGTT-A
*
4638202 GAAAGAGCTTTTTGAATTTTTAAAGTTTCAAT
64 GAAAGAGC-TTTTGAACTTTTAAAGTTTCAAT
4638234 ACCTCCGTTA
Statistics
Matches: 192, Mismatches: 29, Indels: 15
0.81 0.12 0.06
Matches are distributed among these distances:
131 3 0.02
132 8 0.04
133 145 0.76
134 36 0.19
ACGTcount: A:0.30, C:0.12, G:0.15, T:0.43
Consensus pattern (132 bp):
AAAGTTTCAATGCCTTTAGTTAGAGGAGCCTTTTAAAATTTTAAAGTTTCAAGCCTCTAGTTAGA
AAGAGCTTTTGAACTTTTAAAGTTTCAATGCCCTTATTGAGGAGAAGCTTTCTAATTTTGAATTT
TT
Found at i:4638257 original size:43 final size:43
Alignment explanation
Indices: 4638126--4638257 Score: 126
Period size: 43 Copynumber: 3.1 Consensus size: 43
4638116 AAGTTTTCAA
* * *
4638126 TTTTGAATTTTTAAAGTTTCAATGCCTTTGGTT-A-GAGGAGCC
1 TTTTGAATTTTTAAAGTTTCAATACC-TTCGTTAAGGAGGAGCT
* * * * * *
4638168 TTTTAAATTTTTAAAATTTCTAA-ACTTTTGTTAAGAAAGAGCT
1 TTTTGAATTTTTAAAGTTTC-AATACCTTCGTTAAGGAGGAGCT
* *
4638211 TTTTGAATTTTTAAAGTTTCAATACCTCCGTTAAGGAGGAGTT
1 TTTTGAATTTTTAAAGTTTCAATACCTTCGTTAAGGAGGAGCT
4638254 TTTT
1 TTTT
4638258 AGTTGTGATT
Statistics
Matches: 70, Mismatches: 16, Indels: 7
0.75 0.17 0.08
Matches are distributed among these distances:
41 5 0.07
42 22 0.31
43 43 0.61
ACGTcount: A:0.29, C:0.10, G:0.16, T:0.45
Consensus pattern (43 bp):
TTTTGAATTTTTAAAGTTTCAATACCTTCGTTAAGGAGGAGCT
Found at i:4638399 original size:44 final size:44
Alignment explanation
Indices: 4638333--4638454 Score: 122
Period size: 44 Copynumber: 2.8 Consensus size: 44
4638323 CTAAAGTTTT
* * * * ***
4638333 AAAGCCTTTGTTGAGGAGGAGCCTTTTGAATTTTGTTAACTTTC
1 AAAGCCTCTATTGAAGAAGAGCCTTTTGAATTTTCAAAACTTTC
* *
4638377 AAAGCCTCTATTGAAGAAGAGCCTTTTAAATTTTCAAAAGTTTC
1 AAAGCCTCTATTGAAGAAGAGCCTTTTGAATTTTCAAAACTTTC
*
4638421 AAA-CCTCTATT-AAGAAAGAGCTTTATTGAATTTT
1 AAAGCCTCTATTGAAG-AAGAGCCTT-TTGAATTTT
4638455 ATGTGATAAT
Statistics
Matches: 65, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
42 3 0.05
43 16 0.25
44 46 0.71
ACGTcount: A:0.32, C:0.14, G:0.16, T:0.38
Consensus pattern (44 bp):
AAAGCCTCTATTGAAGAAGAGCCTTTTGAATTTTCAAAACTTTC
Found at i:4640337 original size:86 final size:86
Alignment explanation
Indices: 4640239--4640405 Score: 280
Period size: 86 Copynumber: 1.9 Consensus size: 86
4640229 CTTGTGTTAG
* *
4640239 TGTTATATTTTTATATAACTATCGTTAATGGAATAATTATCACTACTATTTGGAAAATAAAAATA
1 TGTTATAATTTTATATAACTATCGTTAATGGAATAATTATCACTACTATTTGGAAAATAAAAACA
*
4640304 TAAGATGGTATTTCTAGTCAA
66 TAAAATGGTATTTCTAGTCAA
* * *
4640325 TGTTATAATTTTATATAATTATTGTTAATGGAATAATTATCACTACTGTTTGGAAAATAAAAACA
1 TGTTATAATTTTATATAACTATCGTTAATGGAATAATTATCACTACTATTTGGAAAATAAAAACA
4640390 TAAAATGGTATTTCTA
66 TAAAATGGTATTTCTA
4640406 AATAAAAATC
Statistics
Matches: 75, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
86 75 1.00
ACGTcount: A:0.40, C:0.07, G:0.11, T:0.41
Consensus pattern (86 bp):
TGTTATAATTTTATATAACTATCGTTAATGGAATAATTATCACTACTATTTGGAAAATAAAAACA
TAAAATGGTATTTCTAGTCAA
Found at i:4643764 original size:30 final size:30
Alignment explanation
Indices: 4643741--4643819 Score: 115
Period size: 30 Copynumber: 2.6 Consensus size: 30
4643731 TGGAGCTAGA
4643741 ACTCTTTATGAGAGTTTTAGTGGAATTGGG
1 ACTCTTTATGAGAGTTTTAGTGGAATTGGG
* *
4643771 AC-CTTTTATGAGAGTTTTGGTGGATTTGGG
1 ACTC-TTTATGAGAGTTTTAGTGGAATTGGG
*
4643801 ACTCTTTAGGAGAGTTTTA
1 ACTCTTTATGAGAGTTTTA
4643820 CTCTTTAAGA
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
29 1 0.02
30 41 0.95
31 1 0.02
ACGTcount: A:0.22, C:0.08, G:0.29, T:0.42
Consensus pattern (30 bp):
ACTCTTTATGAGAGTTTTAGTGGAATTGGG
Found at i:4650611 original size:21 final size:21
Alignment explanation
Indices: 4650587--4650638 Score: 104
Period size: 21 Copynumber: 2.5 Consensus size: 21
4650577 AGCCAAACCA
4650587 ACTTATAACCCTTACAGCAAC
1 ACTTATAACCCTTACAGCAAC
4650608 ACTTATAACCCTTACAGCAAC
1 ACTTATAACCCTTACAGCAAC
4650629 ACTTATAACC
1 ACTTATAACC
4650639 TAGGCTATAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.38, C:0.33, G:0.04, T:0.25
Consensus pattern (21 bp):
ACTTATAACCCTTACAGCAAC
Found at i:4652341 original size:16 final size:16
Alignment explanation
Indices: 4652320--4652350 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
4652310 GGAGGCACCC
4652320 CAAGTTTTACATTTTT
1 CAAGTTTTACATTTTT
4652336 CAAGTTTTACATTTT
1 CAAGTTTTACATTTT
4652351 CTTTGTTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.26, C:0.13, G:0.06, T:0.55
Consensus pattern (16 bp):
CAAGTTTTACATTTTT
Found at i:4653624 original size:141 final size:141
Alignment explanation
Indices: 4653370--4653652 Score: 557
Period size: 141 Copynumber: 2.0 Consensus size: 141
4653360 ATTTATCTTG
4653370 AGTCATGTACGCAAGTTTACATTAGTGAAGAGGGAATGAGAAAAGTAAATGCATGAAGTATGTTT
1 AGTCATGTACGCAAGTTTACATTAGTGAAGAGGGAATGAGAAAAGTAAATGCATGAAGTATGTTT
4653435 TATCTTTACATTGATATGTGATGGTATATGTTACATATTTTTTACTTAGATTGTATGTATAGATT
66 TATCTTTACATTGATATGTGATGGTATATGTTACATATTTTTTACTTAGATTGTATGTATAGATT
4653500 AAAGATAGATT
131 AAAGATAGATT
*
4653511 AGTCATGTACGCAAGTTTACATTAGTGAAGAGGGAATGAGGAAAGTAAATGCATGAAGTATGTTT
1 AGTCATGTACGCAAGTTTACATTAGTGAAGAGGGAATGAGAAAAGTAAATGCATGAAGTATGTTT
4653576 TATCTTTACATTGATATGTGATGGTATATGTTACATATTTTTTACTTAGATTGTATGTATAGATT
66 TATCTTTACATTGATATGTGATGGTATATGTTACATATTTTTTACTTAGATTGTATGTATAGATT
4653641 AAAGATAGATT
131 AAAGATAGATT
4653652 A
1 A
4653653 ACTTCACATA
Statistics
Matches: 141, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
141 141 1.00
ACGTcount: A:0.35, C:0.06, G:0.21, T:0.38
Consensus pattern (141 bp):
AGTCATGTACGCAAGTTTACATTAGTGAAGAGGGAATGAGAAAAGTAAATGCATGAAGTATGTTT
TATCTTTACATTGATATGTGATGGTATATGTTACATATTTTTTACTTAGATTGTATGTATAGATT
AAAGATAGATT
Found at i:4655342 original size:16 final size:16
Alignment explanation
Indices: 4655284--4655355 Score: 62
Period size: 16 Copynumber: 4.6 Consensus size: 16
4655274 TAATAGGTAA
4655284 AAAAATA-AAATCAAAAT
1 AAAAATATAAAT--AAAT
*
4655301 AAAAA-ACAAAT-AAT
1 AAAAATATAAATAAAT
*
4655315 GAATAA-ATAAATAAAT
1 -AAAAATATAAATAAAT
*
4655331 AAAAATATAAATAAGT
1 AAAAATATAAATAAAT
4655347 AAAAATATA
1 AAAAATATA
4655356 CTAACAAAAC
Statistics
Matches: 47, Mismatches: 4, Indels: 9
0.78 0.07 0.15
Matches are distributed among these distances:
14 3 0.06
15 13 0.28
16 22 0.47
17 9 0.19
ACGTcount: A:0.74, C:0.03, G:0.03, T:0.21
Consensus pattern (16 bp):
AAAAATATAAATAAAT
Found at i:4655775 original size:24 final size:26
Alignment explanation
Indices: 4655738--4655786 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 26
4655728 TTAGTGCCAC
*
4655738 TATAACTCGTACTTAAAGT-AAATTT
1 TATAACTCCTACTTAAAGTCAAATTT
*
4655763 TATAA-TCCTACTTCAAGTCAAATT
1 TATAACTCCTACTTAAAGTCAAATT
4655787 CAGTTCCATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 11 0.52
25 10 0.48
ACGTcount: A:0.39, C:0.16, G:0.06, T:0.39
Consensus pattern (26 bp):
TATAACTCCTACTTAAAGTCAAATTT
Found at i:4658119 original size:46 final size:44
Alignment explanation
Indices: 4658019--4658149 Score: 124
Period size: 46 Copynumber: 2.9 Consensus size: 44
4658009 AAAACTTTTC
* *
4658019 TCATCAGAGGCTTCACCACTTT-GAAAATAAATTTAAAAGCTCCCTT
1 TCATCAGAGGCTTCA-CAATTTAGAAAATAAA-TTAAAA-ATCCCTT
* *
4658065 T--TCTAGAGGCTTCACAATTTGAGAAAATGAATCTAAAAATTCCTT
1 TCATC-AGAGGCTTCACAATTT-AGAAAATAAAT-TAAAAATCCCTT
*
4658110 TCATCAGAGGCTCCACAAGTTTAAGAAAATAAATTAAAAA
1 TCATCAGAGGCTTCACAA-TTT-AGAAAATAAATTAAAAA
4658150 GAAGACTCCT
Statistics
Matches: 71, Mismatches: 7, Indels: 14
0.77 0.08 0.15
Matches are distributed among these distances:
44 7 0.10
45 17 0.24
46 32 0.45
47 15 0.21
ACGTcount: A:0.40, C:0.18, G:0.12, T:0.29
Consensus pattern (44 bp):
TCATCAGAGGCTTCACAATTTAGAAAATAAATTAAAAATCCCTT
Found at i:4658360 original size:51 final size:49
Alignment explanation
Indices: 4658251--4658500 Score: 225
Period size: 51 Copynumber: 5.0 Consensus size: 49
4658241 TGAAATGTTA
* ** * * * *
4658251 CTTTAAACAAAAGCTCAATAACTTTAAAAATCTCATCTTGGAAAAGGTT
1 CTTTAAACAAAGGCTTGACAACTTAAAAAATCTCATCTTAGAAAAGGCT
* * * *
4658300 TTTTAAAACAAAGGCTAGACAAGTTAAAAATATCTTATCTT-GAAAAAGGCTT
1 CTTT-AAACAAAGGCTTGACAACTTAAAAA-ATCTCATCTTAG-AAAAGGC-T
* * *
4658352 CTTTAAACAAAGGCTTGACAATTTTAAAAATCTCATCTTAGAAAAGGCC
1 CTTTAAACAAAGGCTTGACAACTTAAAAAATCTCATCTTAGAAAAGGCT
* * * *
4658401 CTTTTAAACAAAGGCTTGACAACTAAAAAAAACCTTATCTTAGAAATGGCT
1 C-TTTAAACAAAGGCTTGACAACT-TAAAAAATCTCATCTTAGAAAAGGCT
* * * *
4658452 CTCTTAAACAAAGGC-TCACAACTTTAAAAATCTCATATTGGAAAAGGCT
1 CT-TTAAACAAAGGCTTGACAACTTAAAAAATCTCATCTTAGAAAAGGCT
4658501 GATTTAAAAA
Statistics
Matches: 163, Mismatches: 30, Indels: 16
0.78 0.14 0.08
Matches are distributed among these distances:
49 23 0.14
50 65 0.40
51 71 0.44
52 4 0.02
ACGTcount: A:0.42, C:0.17, G:0.12, T:0.29
Consensus pattern (49 bp):
CTTTAAACAAAGGCTTGACAACTTAAAAAATCTCATCTTAGAAAAGGCT
Found at i:4658379 original size:101 final size:100
Alignment explanation
Indices: 4658253--4658499 Score: 302
Period size: 101 Copynumber: 2.5 Consensus size: 100
4658243 AAATGTTACT
* * **
4658253 TTAAACAAAAGCTCAATAACTTTAAAAATCTCATCTTGGAAAAGG-TTTTTTAAAACAAAGGCTA
1 TTAAACAAAGGCTC-ACAACTTTAAAAATCTCATCTTGGAAAAGGCCCTTTT-AAACAAAGGCTA
* * * *
4658317 GACAAGTTAAAAATATCTTATCTT-GAAAAAGGCT-TC
64 GACAACTAAAAAAAACCTTATCTTAG-AAAAGGCTCTC
* * * *
4658353 TTTAAACAAAGGCTTGACAATTTTAAAAATCTCATCTTAGAAAAGGCCCTTTTAAACAAAGGCTT
1 -TTAAACAAAGGC-TCACAACTTTAAAAATCTCATCTTGGAAAAGGCCCTTTTAAACAAAGGCTA
*
4658418 GACAACTAAAAAAAACCTTATCTTAGAAATGGCTCTC
64 GACAACTAAAAAAAACCTTATCTTAGAAAAGGCTCTC
*
4658455 TTAAACAAAGGCTCACAACTTTAAAAATCTCATATTGGAAAAGGC
1 TTAAACAAAGGCTCACAACTTTAAAAATCTCATCTTGGAAAAGGC
4658500 TGATTTAAAA
Statistics
Matches: 125, Mismatches: 17, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
100 29 0.23
101 88 0.70
102 8 0.06
ACGTcount: A:0.43, C:0.17, G:0.12, T:0.28
Consensus pattern (100 bp):
TTAAACAAAGGCTCACAACTTTAAAAATCTCATCTTGGAAAAGGCCCTTTTAAACAAAGGCTAGA
CAACTAAAAAAAACCTTATCTTAGAAAAGGCTCTC
Found at i:4659571 original size:57 final size:57
Alignment explanation
Indices: 4659510--4659636 Score: 155
Period size: 57 Copynumber: 2.2 Consensus size: 57
4659500 ATGTCTTTGG
* ** *
4659510 ATATCACCACTAAAAAACTGCAAATATTTTTAGATATCACCACTAAAAAGAACTTTA
1 ATATCACCACCAAAAAACAACAAATATTTTCAGATATCACCACTAAAAAGAACTTTA
* * * * **
4659567 ATATCACCACCAAAAAGCAACAAATGTTTTCGGATATCACCACTGAAAAGAACTTGG
1 ATATCACCACCAAAAAACAACAAATATTTTCAGATATCACCACTAAAAAGAACTTTA
*
4659624 ATATCGCCACCAA
1 ATATCACCACCAA
4659637 GAGGTTTTAA
Statistics
Matches: 59, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
57 59 1.00
ACGTcount: A:0.44, C:0.23, G:0.09, T:0.24
Consensus pattern (57 bp):
ATATCACCACCAAAAAACAACAAATATTTTCAGATATCACCACTAAAAAGAACTTTA
Found at i:4660280 original size:22 final size:20
Alignment explanation
Indices: 4660214--4660282 Score: 77
Period size: 22 Copynumber: 3.3 Consensus size: 20
4660204 TTTATTGCTA
*
4660214 TTTTTTC-CTTTTGTCTTTT
1 TTTTTTCTCTTTTGACTTTT
*
4660233 TTTTTTCTCTTGATAGACTTTT
1 TTTTTTCTCTT--TTGACTTTT
4660255 TTTTTTCTCTTTTGCACTTTT
1 TTTTTTCTCTTTTG-ACTTTT
4660276 GTTTTTT
1 -TTTTTT
4660283 ACCTCTTTTC
Statistics
Matches: 42, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
19 7 0.17
20 5 0.12
21 6 0.14
22 24 0.57
ACGTcount: A:0.06, C:0.14, G:0.07, T:0.72
Consensus pattern (20 bp):
TTTTTTCTCTTTTGACTTTT
Found at i:4661218 original size:24 final size:24
Alignment explanation
Indices: 4661186--4661241 Score: 112
Period size: 24 Copynumber: 2.3 Consensus size: 24
4661176 CCTTTTTATT
4661186 TTCATTTTCATACAACATTCAACA
1 TTCATTTTCATACAACATTCAACA
4661210 TTCATTTTCATACAACATTCAACA
1 TTCATTTTCATACAACATTCAACA
4661234 TTCATTTT
1 TTCATTTT
4661242 GAACTCAATC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.34, C:0.23, G:0.00, T:0.43
Consensus pattern (24 bp):
TTCATTTTCATACAACATTCAACA
Found at i:4662407 original size:22 final size:23
Alignment explanation
Indices: 4662373--4662421 Score: 57
Period size: 22 Copynumber: 2.2 Consensus size: 23
4662363 CACTCTATCA
4662373 TTTTATTCCTTTTATTT-CTTT-
1 TTTTATTCCTTTTATTTGCTTTG
* *
4662394 TTTTAATTCTTTTTTTTTGCTTTG
1 TTTT-ATTCCTTTTATTTGCTTTG
4662418 TTTT
1 TTTT
4662422 TCCTTGCCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
21 4 0.17
22 11 0.48
23 4 0.17
24 4 0.17
ACGTcount: A:0.08, C:0.10, G:0.04, T:0.78
Consensus pattern (23 bp):
TTTTATTCCTTTTATTTGCTTTG
Found at i:4665413 original size:20 final size:20
Alignment explanation
Indices: 4665375--4665413 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
4665365 CTTGATCAAT
* **
4665375 AAAGTTAAAATTAGTCAAAC
1 AAAGTCAAAATTACACAAAC
4665395 AAAGTCAAAATTACACAAA
1 AAAGTCAAAATTACACAAA
4665414 ACTTAGTCAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.59, C:0.13, G:0.08, T:0.21
Consensus pattern (20 bp):
AAAGTCAAAATTACACAAAC
Found at i:4667125 original size:12 final size:11
Alignment explanation
Indices: 4667085--4667125 Score: 55
Period size: 12 Copynumber: 3.5 Consensus size: 11
4667075 ATCCTATCTA
4667085 TCATTATTTAT
1 TCATTATTTAT
4667096 TCATTTATTTAT
1 TCA-TTATTTAT
*
4667108 CCATTATTCTAT
1 TCATTATT-TAT
4667120 TCATTA
1 TCATTA
4667126 ACATCATATA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
11 8 0.31
12 18 0.69
ACGTcount: A:0.27, C:0.15, G:0.00, T:0.59
Consensus pattern (11 bp):
TCATTATTTAT
Found at i:4671626 original size:16 final size:17
Alignment explanation
Indices: 4671605--4671638 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
4671595 TCTTTGCTTG
4671605 GTTTGTT-TTTTTTTTA
1 GTTTGTTATTTTTTTTA
4671621 GTTTGTTATTTTTTTTA
1 GTTTGTTATTTTTTTTA
4671638 G
1 G
4671639 ACAATTTTCC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.41
17 10 0.59
ACGTcount: A:0.09, C:0.00, G:0.15, T:0.76
Consensus pattern (17 bp):
GTTTGTTATTTTTTTTA
Found at i:4673316 original size:126 final size:124
Alignment explanation
Indices: 4673088--4673322 Score: 274
Period size: 126 Copynumber: 1.9 Consensus size: 124
4673078 TTGGACCAAG
* * **
4673088 AATGCCTTAAATAATCCTTTTCTTTTTTTAAAGGGCATTATTTAAGGTGGTTTTGACAAAAAACG
1 AATGCCTTAAATAATCCTTTTATTTTTTTAAAAGGCATTATTTAAGACGGTTTTGACAAAAAACG
* * * ** ** * *
4673153 TCTTAAATAATGCCCTTTAAAAATCTTTATGGTATTATTTAAGGCCTTTTTGGTCTGAA
66 CCTTAAATAATACCATTTAAAAAAATAAAAGGGATTATTTAAGGCCTTTTTGGTCTGAA
* * *
4673212 AATGTCTTAAATAATGCTTTCATATTTTTTTAAAAGGCATTATTTAAGACGTTTTTGAACAAAAA
1 AATGCCTTAAATAATCCTTT--TATTTTTTTAAAAGGCATTATTTAAGACGGTTTTG-ACAAAAA
* *
4673277 A-GCCTTAAATACTATCATTTAAAAAAATAAAAGGGATTATTTAAGG
63 ACGCCTTAAATAATACCATTTAAAAAAATAAAAGGGATTATTTAAGG
4673323 TATTTTTCAT
Statistics
Matches: 90, Mismatches: 18, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
124 18 0.20
126 64 0.71
127 8 0.09
ACGTcount: A:0.36, C:0.11, G:0.13, T:0.40
Consensus pattern (124 bp):
AATGCCTTAAATAATCCTTTTATTTTTTTAAAAGGCATTATTTAAGACGGTTTTGACAAAAAACG
CCTTAAATAATACCATTTAAAAAAATAAAAGGGATTATTTAAGGCCTTTTTGGTCTGAA
Found at i:4673329 original size:62 final size:64
Alignment explanation
Indices: 4673242--4673391 Score: 155
Period size: 63 Copynumber: 2.4 Consensus size: 64
4673232 CATATTTTTT
* *** * *
4673242 TAAAAGGCATTATTTAAGACGTTTTTGA-ACAAAAAAGCCTTAAATACTATCAT-T-TAAAAAAA
1 TAAAAGGGATTATTTAAGGTATTTTTCATACAAAAAAGCCTTAAATAAT-TCATCTATAAAAAAA
** * * * *
4673304 TAAAAGGGATTATTTAAGGTATTTTTCATTTAGAAATGTCTTAAATAATTCATCTATAAAAATA
1 TAAAAGGGATTATTTAAGGTATTTTTCATACAAAAAAGCCTTAAATAATTCATCTATAAAAAAA
4673368 TAAAA-GGATTATTTAAGGTATTTT
1 TAAAAGGGATTATTTAAGGTATTTT
4673392 CAATTCGCAA
Statistics
Matches: 73, Mismatches: 12, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
62 27 0.37
63 34 0.47
64 12 0.16
ACGTcount: A:0.44, C:0.07, G:0.11, T:0.37
Consensus pattern (64 bp):
TAAAAGGGATTATTTAAGGTATTTTTCATACAAAAAAGCCTTAAATAATTCATCTATAAAAAAA
Found at i:4673410 original size:63 final size:63
Alignment explanation
Indices: 4673278--4673415 Score: 174
Period size: 63 Copynumber: 2.2 Consensus size: 63
4673268 GAACAAAAAA
* * *
4673278 GCCTTAAATACTATCATTTAAAAAAATAAAAGGGATTATTTAAGGTATTTTTCATTTAGAAAT
1 GCCTTAAATAATATCATTTAAAAAAATAAAAGGGATTATTTAAGGTATTTTTCAATTAGAAAC
* * *
4673341 GTCTTAAATAAT-TCATCTATAAAAATATAAAA-GGATTATTTAAGGTA-TTTTCAATTCGCAAA
1 GCCTTAAATAATATCAT-T-TAAAAAAATAAAAGGGATTATTTAAGGTATTTTTCAATTAG-AAA
4673403 C
63 C
4673404 GCCTTAAATAAT
1 GCCTTAAATAAT
4673416 CCTTTTCTTA
Statistics
Matches: 65, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
62 13 0.20
63 40 0.62
64 12 0.18
ACGTcount: A:0.43, C:0.10, G:0.10, T:0.37
Consensus pattern (63 bp):
GCCTTAAATAATATCATTTAAAAAAATAAAAGGGATTATTTAAGGTATTTTTCAATTAGAAAC
Found at i:4673429 original size:63 final size:63
Alignment explanation
Indices: 4673296--4673445 Score: 167
Period size: 63 Copynumber: 2.4 Consensus size: 63
4673286 TACTATCATT
* * * * *
4673296 TAAAAAAATAAAAGGGATTATTTAAGGTATTTTTCATTTAGAAATGTCTTAAATAATTCATCTA
1 TAAAAATATAAAA-GGATTATTTAAGGTATTTTTCAATTAGAAACGCCTTAAATAATCCATCTA
* * * *
4673360 TAAAAATATAAAAGGATTATTTAAGGTA-TTTTCAATTCGCAAACGCCTTAAATAATCCTTTTC
1 TAAAAATATAAAAGGATTATTTAAGGTATTTTTCAATTAG-AAACGCCTTAAATAATCCATCTA
* * *
4673423 TTAAAATATAAATGGATCATTTA
1 TAAAAATATAAAAGGATTATTTA
4673446 CATCGCTTCT
Statistics
Matches: 73, Mismatches: 12, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
62 9 0.12
63 52 0.71
64 12 0.16
ACGTcount: A:0.43, C:0.09, G:0.10, T:0.38
Consensus pattern (63 bp):
TAAAAATATAAAAGGATTATTTAAGGTATTTTTCAATTAGAAACGCCTTAAATAATCCATCTA
Found at i:4675624 original size:21 final size:21
Alignment explanation
Indices: 4675580--4675624 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
4675570 ATTCATTTAA
* *
4675580 TATTTATTTGTATTTTATATT
1 TATTGATTTGTATTTTATACT
4675601 TATTGATTTG-ATTTTAATACT
1 TATTGATTTGTATTTT-ATACT
4675622 TAT
1 TAT
4675625 ATTTCATTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 16 0.76
ACGTcount: A:0.27, C:0.02, G:0.07, T:0.64
Consensus pattern (21 bp):
TATTGATTTGTATTTTATACT
Found at i:4683155 original size:73 final size:72
Alignment explanation
Indices: 4683025--4683204 Score: 209
Period size: 73 Copynumber: 2.5 Consensus size: 72
4683015 ATCACCCCAT
* * * ***
4683025 TGAACCAATTGATCACCTCAAGGAAGGATCGATCGGATAGGCATTTTCAAAGGCATAATTGGTTT
1 TGAACCAATCGATCACCTCATGGAAGGATCGATCGGATAGGCATTTTCAAAGGCATAAATGGCAC
4683090 CAAAACA
66 CAAAACA
* * * *
4683097 TGAACCAATCAATCACCTCATGGAAGGGATCGATTGGGTCATG-ATTTTCAAAGGCATAAATGGC
1 TGAACCAATCGATCACCTCATGGAA-GGATCGATCGGAT-AGGCATTTTCAAAGGCATAAATGGC
*
4683161 ACCTAAACA
64 ACCAAAACA
* *
4683170 TGAGCCAATCGATCCCCTCATGGAAAGGATCGATC
1 TGAACCAATCGATCACCTCATGG-AAGGATCGATC
4683205 AAGACTAGGC
Statistics
Matches: 90, Mismatches: 15, Indels: 5
0.82 0.14 0.05
Matches are distributed among these distances:
72 22 0.24
73 64 0.71
74 4 0.04
ACGTcount: A:0.34, C:0.21, G:0.21, T:0.23
Consensus pattern (72 bp):
TGAACCAATCGATCACCTCATGGAAGGATCGATCGGATAGGCATTTTCAAAGGCATAAATGGCAC
CAAAACA
Found at i:4688192 original size:16 final size:16
Alignment explanation
Indices: 4688171--4688205 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
4688161 TGTGATAACA
*
4688171 TATCTTGAGCAATTAG
1 TATCTTGAACAATTAG
*
4688187 TATCTTTAACAATTAG
1 TATCTTGAACAATTAG
4688203 TAT
1 TAT
4688206 GAGCTTGTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.34, C:0.11, G:0.11, T:0.43
Consensus pattern (16 bp):
TATCTTGAACAATTAG
Found at i:4689904 original size:73 final size:72
Alignment explanation
Indices: 4689784--4689965 Score: 174
Period size: 72 Copynumber: 2.5 Consensus size: 72
4689774 ATCACCCCCT
* * * *
4689784 TGAACCAATCGATC-CTCTCAAGAAAGGGATTGATC-AGAT-AGGCATTTTCAAAGGC-ATAATT
1 TGAACCAATCGATCAC-CTCACGAAAGAGATCGATCGAG-TCATG-ATTTTCAAA-GCTATAA-T
**
4689845 GGTTCCAAAACA
61 GGCACCAAAACA
* * * * *
4689857 TGAACCATTCGATCACCTCATGGAAGGGATCGATCGAGTCATGATTTTCAAAGCTGTAATGGCAC
1 TGAACCAATCGATCACCTCACGAAAGAGATCGATCGAGTCATGATTTTCAAAGCTATAATGGCAC
*
4689922 CTAAACA
66 CAAAACA
*
4689929 TGAACCAATCGATCCCCTCACGAAAGAGATCGATCGA
1 TGAACCAATCGATCACCTCACGAAAGAGATCGATCGA
4689966 TTCTAGGCAA
Statistics
Matches: 91, Mismatches: 14, Indels: 9
0.80 0.12 0.08
Matches are distributed among these distances:
72 44 0.48
73 42 0.46
74 5 0.05
ACGTcount: A:0.35, C:0.23, G:0.20, T:0.23
Consensus pattern (72 bp):
TGAACCAATCGATCACCTCACGAAAGAGATCGATCGAGTCATGATTTTCAAAGCTATAATGGCAC
CAAAACA
Found at i:4691273 original size:13 final size:12
Alignment explanation
Indices: 4691251--4691447 Score: 89
Period size: 13 Copynumber: 15.4 Consensus size: 12
4691241 ATTTTCTGTA
4691251 AAACCTTAAACCT
1 AAACC-TAAACCT
4691264 AAACCATAAACCCT
1 AAACC-TAAA-CCT
* *
4691278 AAATCTAAACTT
1 AAACCTAAACCT
4691290 AAACCCTAAACCT
1 AAA-CCTAAACCT
* *
4691303 AAACTTACACCTT
1 AAACCTAAACC-T
*
4691316 AAACCCTATACCT
1 AAA-CCTAAACCT
4691329 AAACTCTAAATCAC-
1 AAAC-CTAAA-C-CT
4691343 AAACCTAAACCCT
1 AAACCTAAA-CCT
*
4691356 AACCCTAAACTCT
1 AAACCTAAAC-CT
* *
4691369 CAACTTAAAACCT
1 AAACCT-AAACCT
*
4691382 AAATCTCAAACCCT
1 AAACCT-AAA-CCT
*
4691396 AAA-CAAAACCCT
1 AAACCTAAA-CCT
4691408 AAACCCT-AACCT
1 AAA-CCTAAACCT
**
4691420 AGCCCTAAACC-
1 AAACCTAAACCT
*
4691431 -AACCAAAACCTT
1 AAACCTAAACC-T
4691443 AAACC
1 AAACC
4691448 AAATCCAAAA
Statistics
Matches: 141, Mismatches: 26, Indels: 34
0.70 0.13 0.17
Matches are distributed among these distances:
10 7 0.05
11 3 0.02
12 32 0.23
13 69 0.49
14 29 0.21
15 1 0.01
ACGTcount: A:0.46, C:0.35, G:0.01, T:0.19
Consensus pattern (12 bp):
AAACCTAAACCT
Found at i:4691356 original size:7 final size:7
Alignment explanation
Indices: 4691251--4691416 Score: 79
Period size: 7 Copynumber: 25.3 Consensus size: 7
4691241 ATTTTCTGTA
*
4691251 AAACCTT
1 AAACCCT
4691258 AAA-CCT
1 AAACCCT
*
4691264 AAACCAT
1 AAACCCT
4691271 AAACCCT
1 AAACCCT
*
4691278 AAA-TCT
1 AAACCCT
*
4691284 AAA-CTT
1 AAACCCT
4691290 AAACCCT
1 AAACCCT
4691297 AAA-CCT
1 AAACCCT
*
4691303 AAA-CTT
1 AAACCCT
* *
4691309 ACACCTT
1 AAACCCT
4691316 AAACCCT
1 AAACCCT
*
4691323 ATA-CCT
1 AAACCCT
*
4691329 AAACTCT
1 AAACCCT
*
4691336 AAATCAC-
1 AAA-CCCT
4691343 AAA-CCT
1 AAACCCT
4691349 AAACCCT
1 AAACCCT
4691356 -AACCCT
1 AAACCCT
*
4691362 AAACTCT
1 AAACCCT
* *
4691369 CAA-CTT
1 AAACCCT
*
4691375 AAAACCT
1 AAACCCT
*
4691382 AAA-TCT
1 AAACCCT
4691388 CAAACCCT
1 -AAACCCT
*
4691396 AAA--CA
1 AAACCCT
4691401 AAACCCT
1 AAACCCT
4691408 AAACCCT
1 AAACCCT
4691415 AA
1 AA
4691417 CCTAGCCCTA
Statistics
Matches: 120, Mismatches: 26, Indels: 26
0.70 0.15 0.15
Matches are distributed among these distances:
5 5 0.04
6 43 0.36
7 68 0.57
8 4 0.03
ACGTcount: A:0.46, C:0.33, G:0.00, T:0.20
Consensus pattern (7 bp):
AAACCCT
Found at i:4691376 original size:59 final size:57
Alignment explanation
Indices: 4691255--4691418 Score: 188
Period size: 59 Copynumber: 2.8 Consensus size: 57
4691245 TCTGTAAAAC
* * * *
4691255 CTTAAACCTAAACCATAAACCCTAAATCTAAACTTAAACCCTAAACCTAAACTTACAC
1 CTTAAACCTAAACC-TAAACCCTAAATCAAAACCTAAACCCTAACCCTAAACTTACAA
* *
4691313 CTTAAACCCTATACCTAAACTCTAAATCACAAACCTAAACCCTAACCCTAAACTCT-CAA
1 CTTAAA-CCTAAACCTAAACCCTAAATCA-AAACCTAAACCCTAACCCTAAACT-TACAA
*
4691372 CTTAAAACCTAAATCTCAAACCCTAAA-CAAAACCCTAAACCCTAACC
1 CTT-AAACCTAAACCT-AAACCCTAAATCAAAA-CCTAAACCCTAACC
4691419 TAGCCCTAAA
Statistics
Matches: 91, Mismatches: 9, Indels: 11
0.82 0.08 0.10
Matches are distributed among these distances:
58 21 0.23
59 57 0.63
60 13 0.14
ACGTcount: A:0.45, C:0.34, G:0.00, T:0.21
Consensus pattern (57 bp):
CTTAAACCTAAACCTAAACCCTAAATCAAAACCTAAACCCTAACCCTAAACTTACAA
Found at i:4691380 original size:33 final size:32
Alignment explanation
Indices: 4691291--4691399 Score: 98
Period size: 33 Copynumber: 3.3 Consensus size: 32
4691281 TCTAAACTTA
*
4691291 AACCCTAAAC-CTAAACTT-ACACCTTAAACCCT
1 AACCCTAAACTCT-AACTTAAAACC-TAAACCCT
* *
4691323 ATA-CCTAAACTCTAAATCACAAACCTAAACCCT
1 A-ACCCTAAACTCTAACTTA-AAACCTAAACCCT
* *
4691356 AACCCTAAACTCTCAACTTAAAACCTAAATCTCA
1 AACCCTAAACTCT-AACTTAAAACCTAAA-CCCT
4691390 AACCCTAAAC
1 AACCCTAAAC
4691400 AAAACCCTAA
Statistics
Matches: 63, Mismatches: 7, Indels: 12
0.77 0.09 0.15
Matches are distributed among these distances:
32 12 0.19
33 31 0.49
34 20 0.32
ACGTcount: A:0.44, C:0.35, G:0.00, T:0.21
Consensus pattern (32 bp):
AACCCTAAACTCTAACTTAAAACCTAAACCCT
Found at i:4692637 original size:18 final size:20
Alignment explanation
Indices: 4692614--4692655 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
4692604 ATTTCATGTG
4692614 TATTTT-AATTA-TGTCATT
1 TATTTTAAATTATTGTCATT
*
4692632 TATTTTAAATTATTGTTATT
1 TATTTTAAATTATTGTCATT
4692652 TATT
1 TATT
4692656 CTATTCTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 6 0.29
19 5 0.24
20 10 0.48
ACGTcount: A:0.29, C:0.02, G:0.05, T:0.64
Consensus pattern (20 bp):
TATTTTAAATTATTGTCATT
Found at i:4693605 original size:37 final size:37
Alignment explanation
Indices: 4693555--4693833 Score: 154
Period size: 37 Copynumber: 7.6 Consensus size: 37
4693545 AAAATAGAAT
* * *
4693555 ATGCACTCCATTTCATGCATATCTTGATAGGTAGTAC
1 ATGCATTCCATTTCATGCACATCTTAATAGGTAGTAC
**
4693592 ATGCATTTAATTTCAAT--ACATCTTAATAGGTAGTAC
1 ATGCATTCCATTTC-ATGCACATCTTAATAGGTAGTAC
* ** * * *
4693628 ATGCACTCCATTTCACACATATCTTAATAGATAATAC
1 ATGCATTCCATTTCATGCACATCTTAATAGGTAGTAC
* * * *
4693665 ATGCATTCCATTTCATGCACATCTAAATAGATAATAT
1 ATGCATTCCATTTCATGCACATCTTAATAGGTAGTAC
* * ** * ** * *
4693702 ATGTAATCCATCTT-ATATATATCACAATAGATAATAC
1 ATGCATTCCAT-TTCATGCACATCTTAATAGGTAGTAC
* * ** * * ** *
4693739 ATGTAGTCCATCCCAAGTACAT-TATAATAGACA-TTC
1 ATGCATTCCATTTCATGCACATCT-TAATAGGTAGTAC
* * *
4693775 ATGCATTCCATCTCATGCACATCTTAATAGATAGTAT
1 ATGCATTCCATTTCATGCACATCTTAATAGGTAGTAC
* *
4693812 ATGCATTCCATCTCATACACAT
1 ATGCATTCCATTTCATGCACAT
4693834 TTTACCGAAA
Statistics
Matches: 189, Mismatches: 45, Indels: 16
0.76 0.18 0.06
Matches are distributed among these distances:
35 1 0.01
36 55 0.29
37 129 0.68
38 4 0.02
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.34
Consensus pattern (37 bp):
ATGCATTCCATTTCATGCACATCTTAATAGGTAGTAC
Found at i:4696959 original size:8 final size:7
Alignment explanation
Indices: 4696941--4697025 Score: 53
Period size: 7 Copynumber: 10.9 Consensus size: 7
4696931 AATCCACTAA
4696941 AAAAAAG
1 AAAAAAG
*
4696948 AAAAAGG
1 AAAAAAG
4696955 AAAAAATG
1 AAAAAA-G
4696963 ATAAAGCAAG
1 A-AAA--AAG
**
4696973 AAAAGTG
1 AAAAAAG
4696980 AAAGAAATG
1 AAA-AAA-G
4696989 AAAGAAAG
1 AAA-AAAG
4696997 AAGAAAAG
1 AA-AAAAG
*
4697005 AAAAAAAA
1 -AAAAAAG
4697013 AAAAAAG
1 AAAAAAG
4697020 AAAAAA
1 AAAAAA
4697026 ATGAGAAGAA
Statistics
Matches: 62, Mismatches: 8, Indels: 16
0.72 0.09 0.19
Matches are distributed among these distances:
7 27 0.44
8 14 0.23
9 17 0.27
10 2 0.03
11 2 0.03
ACGTcount: A:0.76, C:0.01, G:0.18, T:0.05
Consensus pattern (7 bp):
AAAAAAG
Found at i:4696960 original size:15 final size:15
Alignment explanation
Indices: 4696940--4697026 Score: 59
Period size: 15 Copynumber: 5.5 Consensus size: 15
4696930 AAATCCACTA
*
4696940 AAAAAAAGAAAAAGG
1 AAAAAAAGAAAAAAG
*
4696955 AAAAAATGATAAAGCAAG
1 AAAAAAAGA-AAA--AAG
**
4696973 -AAAAGTGAAAGAAATG
1 AAAAAAAGAAA-AAA-G
*
4696989 AAAGAAAGAAGAAAAG
1 AAAAAAAGAA-AAAAG
*
4697005 AAAAAAAAAAAAAAG
1 AAAAAAAGAAAAAAG
4697020 AAAAAAA
1 AAAAAAA
4697027 TGAGAAGAAG
Statistics
Matches: 57, Mismatches: 8, Indels: 14
0.72 0.10 0.18
Matches are distributed among these distances:
15 22 0.39
16 15 0.26
17 17 0.30
18 3 0.05
ACGTcount: A:0.77, C:0.01, G:0.17, T:0.05
Consensus pattern (15 bp):
AAAAAAAGAAAAAAG
Found at i:4697000 original size:16 final size:14
Alignment explanation
Indices: 4696980--4697046 Score: 52
Period size: 16 Copynumber: 4.8 Consensus size: 14
4696970 AAGAAAAGTG
4696980 AAAGAAATGAAAGAA
1 AAAGAAATGAAAG-A
*
4696995 AGAAGAAAAGAAA-A
1 A-AAGAAATGAAAGA
*
4697009 AAA-AAA-AAAAGA
1 AAAGAAATGAAAGA
4697021 AAA-AAATGAGAAGA
1 AAAGAAATGA-AAGA
4697035 AGAAGAAATGAA
1 A-AAGAAATGAA
4697047 TGATTGAGTG
Statistics
Matches: 43, Mismatches: 3, Indels: 12
0.74 0.05 0.21
Matches are distributed among these distances:
11 3 0.07
12 10 0.23
13 3 0.07
14 7 0.16
15 4 0.09
16 16 0.37
ACGTcount: A:0.76, C:0.00, G:0.19, T:0.04
Consensus pattern (14 bp):
AAAGAAATGAAAGA
Found at i:4697026 original size:8 final size:8
Alignment explanation
Indices: 4696940--4697026 Score: 54
Period size: 8 Copynumber: 10.9 Consensus size: 8
4696930 AAATCCACTA
4696940 AAAAAAAG
1 AAAAAAAG
*
4696948 -AAAAAGG
1 AAAAAAAG
*
4696955 AAAAAATG
1 AAAAAAAG
*
4696963 ATAAAGCAAG
1 A-AAA-AAAG
**
4696973 -AAAAGTG
1 AAAAAAAG
*
4696980 AAAGAAATG
1 AAA-AAAAG
*
4696989 AAAGAAAG
1 AAAAAAAG
*
4696997 AAGAAAAG
1 AAAAAAAG
4697005 AAAAAAA-
1 AAAAAAAG
4697012 AAAAAAAG
1 AAAAAAAG
4697020 AAAAAAA
1 AAAAAAA
4697027 TGAGAAGAAG
Statistics
Matches: 60, Mismatches: 13, Indels: 12
0.71 0.15 0.14
Matches are distributed among these distances:
7 14 0.23
8 34 0.57
9 10 0.17
10 2 0.03
ACGTcount: A:0.77, C:0.01, G:0.17, T:0.05
Consensus pattern (8 bp):
AAAAAAAG
Found at i:4697397 original size:9 final size:9
Alignment explanation
Indices: 4697383--4697408 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
4697373 TCAAAAAGGG
4697383 AAAATAAAA
1 AAAATAAAA
4697392 AAAATAAAA
1 AAAATAAAA
4697401 AAAATAAA
1 AAAATAAA
4697409 TGTGGCTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (9 bp):
AAAATAAAA
Found at i:4699551 original size:39 final size:39
Alignment explanation
Indices: 4699457--4699560 Score: 118
Period size: 40 Copynumber: 2.6 Consensus size: 39
4699447 TGAGATAAAT
* * * *
4699457 TTTAAATTTTAAAATGATTTCCAAGTCCTTTGGGCAAAA
1 TTTAAATTTTAGAATGATTTCTAAGGCCTTCGGGCAAAA
* * * *
4699496 TCTTAGATTTTTGAATGATTTCTAAGGCCTTCGGGTAGAA
1 T-TTAAATTTTAGAATGATTTCTAAGGCCTTCGGGCAAAA
*
4699536 TTTAAATTTTAGAATGATTTTTAAG
1 TTTAAATTTTAGAATGATTTCTAAG
4699561 ACCTCTAAGC
Statistics
Matches: 53, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
39 22 0.42
40 31 0.58
ACGTcount: A:0.32, C:0.10, G:0.16, T:0.42
Consensus pattern (39 bp):
TTTAAATTTTAGAATGATTTCTAAGGCCTTCGGGCAAAA
Found at i:4700041 original size:21 final size:21
Alignment explanation
Indices: 4700002--4700040 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
4699992 AACAACAAAA
4700002 AAAAAATAAAAAAATAAAAGC
1 AAAAAATAAAAAAATAAAAGC
4700023 AAAAAAT-AAAAAATAAAA
1 AAAAAATAAAAAAATAAAA
4700041 AAAAGCAAGC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.85, C:0.03, G:0.03, T:0.10
Consensus pattern (21 bp):
AAAAAATAAAAAAATAAAAGC
Found at i:4700635 original size:135 final size:137
Alignment explanation
Indices: 4700471--4700784 Score: 329
Period size: 135 Copynumber: 2.3 Consensus size: 137
4700461 AAAATTATTG
* *
4700471 AAATACCCTTTAAGAGTATTTTTGTAATTTGACATTTTCGAAGTTGGATTTTTGTGAAA-ACTTC
1 AAATACCC-TGAAGAGTATTTTTGTAATTTGAC-TTTTCGAAGTT-AATTTTTGTGAAATACTT-
* * *
4700535 CAAATCAT-ATTAAAATATTATTTGATGATTTTTTGTGCATCAAAAACC-C-T-A-ATCGCAAA-
62 CAAATCATGATT-AAATATTATTTCATGATTTTTAGTGCATCAAAAACCTCGTCATATCGAAAAG
4700594 TGTGAAATTATAA
126 TGTGAAATTA-AA
* *
4700607 AAATACCCTG-AGAAGTATTTTTGTAATTTGATCTTTCCCGAGGTTAATTTTTGTGAAATACTTC
1 AAATACCCTGAAG-AGTATTTTTGTAATTTGA-CTTT-TCGAAGTTAATTTTTGTGAAATACTTC
* * * ** * *
4700671 AGATTATGGTTTTATATTATTTCATGATTTTTAGTGCATTAAAAACCTTCGTTGCATCTCGAAAA
63 AAATCATGATTAAATATTATTTCATGATTTTTAGTGCATCAAAAACC-TCG-T-CATATCGAAAA
4700736 GTGTGAAATTAAA
125 GTGTGAAATTAAA
*
4700749 AAATACCCTTAAGAGTATTTTTGTAATTTGACTTTT
1 AAATACCCTGAAGAGTATTTTTGTAATTTGACTTTT
4700785 TTTAGATTAG
Statistics
Matches: 148, Mismatches: 16, Indels: 24
0.79 0.09 0.13
Matches are distributed among these distances:
134 2 0.01
135 71 0.48
136 21 0.14
137 1 0.01
139 1 0.01
141 5 0.03
142 35 0.24
143 12 0.08
ACGTcount: A:0.33, C:0.12, G:0.14, T:0.41
Consensus pattern (137 bp):
AAATACCCTGAAGAGTATTTTTGTAATTTGACTTTTCGAAGTTAATTTTTGTGAAATACTTCAAA
TCATGATTAAATATTATTTCATGATTTTTAGTGCATCAAAAACCTCGTCATATCGAAAAGTGTGA
AATTAAA
Found at i:4702351 original size:22 final size:20
Alignment explanation
Indices: 4702323--4702488 Score: 122
Period size: 20 Copynumber: 8.1 Consensus size: 20
4702313 TTTCCATGAC
*
4702323 CCTAAACCTTAAACTCCCTAAA
1 CCTAAACCCTAAAC-CCC-AAA
*
4702345 CCTAAACACTAAACCCCAAA
1 CCTAAACCCTAAACCCCAAA
4702365 TCCCT-AACCCTAAACCTCCCAAA
1 --CCTAAACCCTAAA-C-CCCAAA
4702388 CCTAAACCCTAAACCCCAAA
1 CCTAAACCCTAAACCCCAAA
** ** *
4702408 CCTAAATGCTAAACCATAAG
1 CCTAAACCCTAAACCCCAAA
* * **
4702428 CATAAA-CCTTAACCATAAA
1 CCTAAACCCTAAACCCCAAA
* *
4702447 TCCTAAACTCTAAACCCTAAA
1 -CCTAAACCCTAAACCCCAAA
*
4702468 CCTAAA-CCTAGACCCCAAA
1 CCTAAACCCTAAACCCCAAA
4702487 CC
1 CC
4702489 AACCCAAAGC
Statistics
Matches: 118, Mismatches: 19, Indels: 17
0.77 0.12 0.11
Matches are distributed among these distances:
19 22 0.19
20 40 0.34
21 25 0.21
22 25 0.21
23 6 0.05
ACGTcount: A:0.43, C:0.38, G:0.02, T:0.17
Consensus pattern (20 bp):
CCTAAACCCTAAACCCCAAA
Found at i:4702358 original size:7 final size:6
Alignment explanation
Indices: 4702339--4702477 Score: 80
Period size: 7 Copynumber: 20.7 Consensus size: 6
4702329 CCTTAAACTC
* *
4702339 CCTAAA CCTAAA CACTAAA CCCCAAA TCCCTAAC CCTAAA CCTCCCAAA
1 CCTAAA CCTAAA C-CTAAA -CCTAAA --CCTAAA CCTAAA CCT---AAA
* * * * *
4702388 CCTAAA CCCTAAA CCCCAAA CCTAAA TGCTAAA CCATAAG CATAAA CCTTAA
1 CCTAAA -CCTAAA -CCTAAA CCTAAA -CCTAAA CC-TAAA CCTAAA CCTAAA
4702440 CCATAAA TCCTAAA CTCTAAA CCCTAAA CCTAAA CCTA
1 CC-TAAA -CCTAAA C-CTAAA -CCTAAA CCTAAA CCTA
4702478 GACCCCAAAC
Statistics
Matches: 106, Mismatches: 14, Indels: 26
0.73 0.10 0.18
Matches are distributed among these distances:
6 44 0.42
7 47 0.44
8 9 0.08
9 6 0.06
ACGTcount: A:0.45, C:0.37, G:0.01, T:0.17
Consensus pattern (6 bp):
CCTAAA
Found at i:4702358 original size:13 final size:12
Alignment explanation
Indices: 4702339--4702477 Score: 80
Period size: 13 Copynumber: 10.3 Consensus size: 12
4702329 CCTTAAACTC
4702339 CCTAAACCTAAA
1 CCTAAACCTAAA
*
4702351 CACTAAACCCCAAA
1 C-CTAAA-CCTAAA
*
4702365 TCCCTAACCCTAAA
1 --CCTAAACCTAAA
4702379 CCTCCCAAACCTAAA
1 CCT---AAACCTAAA
*
4702394 CCCTAAACCCCAAA
1 -CCTAAA-CCTAAA
*
4702408 CCTAAATGCTAAA
1 CCTAAA-CCTAAA
* *
4702421 CCATAAGCATAAA
1 CC-TAAACCTAAA
*
4702434 CCTTAACCATAAA
1 CCTAAACC-TAAA
4702447 TCCTAAACTCTAAA
1 -CCTAAAC-CTAAA
4702461 CCCTAAACCTAAA
1 -CCTAAACCTAAA
4702474 CCTA
1 CCTA
4702478 GACCCCAAAC
Statistics
Matches: 98, Mismatches: 16, Indels: 26
0.70 0.11 0.19
Matches are distributed among these distances:
12 11 0.11
13 35 0.36
14 35 0.36
15 13 0.13
16 4 0.04
ACGTcount: A:0.45, C:0.37, G:0.01, T:0.17
Consensus pattern (12 bp):
CCTAAACCTAAA
Found at i:4702390 original size:43 final size:44
Alignment explanation
Indices: 4702322--4702486 Score: 136
Period size: 40 Copynumber: 4.0 Consensus size: 44
4702312 TTTTCCATGA
*
4702322 CCCTAAACCTTAAACTCCCTAAACCTAAACACTAAACCCCAAAT
1 CCCTAAACCCTAAACTCCCTAAACCTAAACACTAAACCCCAAAT
*
4702366 CCCT-AACCCTAAACCTCCC-AAACCTAAACCCTAAACCCCAAA-
1 CCCTAAACCCTAAA-CTCCCTAAACCTAAACACTAAACCCCAAAT
** * * * * **
4702408 -CCTAAATGCTAAA--CCATAAGCATAAAC-CTTAACCATAAAT
1 CCCTAAACCCTAAACTCCCTAAACCTAAACACTAAACCCCAAAT
* *
4702448 -CCTAAACTCTAAA--CCCTAAACCTAAAC-CTAGACCCCAAA
1 CCCTAAACCCTAAACTCCCTAAACCTAAACACTAAACCCCAAA
4702487 CCAACCCAAA
Statistics
Matches: 98, Mismatches: 19, Indels: 12
0.76 0.15 0.09
Matches are distributed among these distances:
39 11 0.11
40 38 0.39
41 3 0.03
42 7 0.07
43 30 0.31
44 9 0.09
ACGTcount: A:0.44, C:0.38, G:0.02, T:0.17
Consensus pattern (44 bp):
CCCTAAACCCTAAACTCCCTAAACCTAAACACTAAACCCCAAAT
Found at i:4706674 original size:15 final size:15
Alignment explanation
Indices: 4706634--4706675 Score: 54
Period size: 14 Copynumber: 3.0 Consensus size: 15
4706624 AAGGCCCTAA
4706634 ATTTT-TTAAT-TTT
1 ATTTTGTTAATATTT
*
4706647 ATTTTGTT-TTATTT
1 ATTTTGTTAATATTT
4706661 ATTTTGTTAATATTT
1 ATTTTGTTAATATTT
4706676 TTTAATTTCT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 6 0.25
14 13 0.54
15 5 0.21
ACGTcount: A:0.21, C:0.00, G:0.05, T:0.74
Consensus pattern (15 bp):
ATTTTGTTAATATTT
Found at i:4713571 original size:31 final size:31
Alignment explanation
Indices: 4713533--4713591 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
4713523 TAAATCTTGA
*
4713533 AATCTTGATGAACATGTTTCTTTTGATTCCT
1 AATCTTGATGAACAAGTTTCTTTTGATTCCT
* * *
4713564 AATCTTGATTATCAAGTTTGTTTTGATT
1 AATCTTGATGAACAAGTTTCTTTTGATT
4713592 AAAACTTTAG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.24, C:0.12, G:0.14, T:0.51
Consensus pattern (31 bp):
AATCTTGATGAACAAGTTTCTTTTGATTCCT
Found at i:4714268 original size:17 final size:17
Alignment explanation
Indices: 4714243--4714281 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
4714233 GATTGTAAAC
*
4714243 AAAATAGTTTTGATATA
1 AAAAAAGTTTTGATATA
4714260 AAAAAAGTTTTGATATA
1 AAAAAAGTTTTGATATA
4714277 AAAAA
1 AAAAA
4714282 TAAACAAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.56, C:0.00, G:0.10, T:0.33
Consensus pattern (17 bp):
AAAAAAGTTTTGATATA
Found at i:4722693 original size:16 final size:17
Alignment explanation
Indices: 4722672--4722704 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
4722662 TTTTAAGTTT
4722672 TCTACA-TTTATTTTCC
1 TCTACAGTTTATTTTCC
4722688 TCTACAGTTTTATTTTC
1 TCTACAG-TTTATTTTC
4722705 TTGCTTTCCA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
18 9 0.60
ACGTcount: A:0.18, C:0.21, G:0.03, T:0.58
Consensus pattern (17 bp):
TCTACAGTTTATTTTCC
Found at i:4726462 original size:48 final size:48
Alignment explanation
Indices: 4726408--4726503 Score: 183
Period size: 48 Copynumber: 2.0 Consensus size: 48
4726398 TTATATTCTA
*
4726408 CTTAGTTCTCAATTTTTTAATTCCTGTTTTACATGTAGATTGTTAGTG
1 CTTAGTTCTCAATTTTTTAATTCCTGTTTTACATATAGATTGTTAGTG
4726456 CTTAGTTCTCAATTTTTTAATTCCTGTTTTACATATAGATTGTTAGTG
1 CTTAGTTCTCAATTTTTTAATTCCTGTTTTACATATAGATTGTTAGTG
4726504 GTTGTCTAGA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 47 1.00
ACGTcount: A:0.22, C:0.12, G:0.14, T:0.52
Consensus pattern (48 bp):
CTTAGTTCTCAATTTTTTAATTCCTGTTTTACATATAGATTGTTAGTG
Found at i:4740876 original size:18 final size:17
Alignment explanation
Indices: 4740849--4740911 Score: 58
Period size: 17 Copynumber: 3.6 Consensus size: 17
4740839 ATGTTTCAAG
*
4740849 TATTTTAATTTTCTATGT
1 TATTTAAATTTT-TATGT
*
4740867 TATTTAAATTTGTTA-GC
1 TATTTAAATTT-TTATGT
*
4740884 GATTTAAATTTTTATGGT
1 TATTTAAATTTTTAT-GT
4740902 T-TTTAAATTT
1 TATTTAAATTT
4740912 ATGCAATTTA
Statistics
Matches: 37, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
16 3 0.08
17 20 0.54
18 13 0.35
19 1 0.03
ACGTcount: A:0.27, C:0.03, G:0.10, T:0.60
Consensus pattern (17 bp):
TATTTAAATTTTTATGT
Found at i:4740985 original size:49 final size:49
Alignment explanation
Indices: 4740917--4741011 Score: 122
Period size: 49 Copynumber: 1.9 Consensus size: 49
4740907 AATTTATGCA
*
4740917 ATTTACTTTCTTTGTAATTTAATTTTAAT-TCTTTAAATTTCATGCCTTT
1 ATTTACTTTCTTTGCAATTTAATTTTAATCTCTTTAAATTT-ATGCCTTT
* *
4740966 ATTTACTTT-TTATGCAATTTATTTTTCATGCTCTTTAAATTTATGC
1 ATTTACTTTCTT-TGCAATTTAATTTTAAT-CTCTTTAAATTTATGC
4741012 AATTTAAATT
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
48 2 0.05
49 23 0.57
50 4 0.10
51 11 0.28
ACGTcount: A:0.24, C:0.13, G:0.05, T:0.58
Consensus pattern (49 bp):
ATTTACTTTCTTTGCAATTTAATTTTAATCTCTTTAAATTTATGCCTTT
Found at i:4740991 original size:16 final size:15
Alignment explanation
Indices: 4740966--4741034 Score: 50
Period size: 16 Copynumber: 4.3 Consensus size: 15
4740956 TCATGCCTTT
*
4740966 ATTTACTTTTTATGCA
1 ATTTA-TTTTCATGCA
*
4740982 ATTTATTTTTCATGCT
1 ATTTA-TTTTCATGCA
* *
4740998 CTTTAAATTT-ATGCA
1 ATTT-ATTTTCATGCA
4741013 ATTTAAATTTTCATGCA
1 ATTT--ATTTTCATGCA
4741030 ATTTA
1 ATTTA
4741035 ATTATTCATC
Statistics
Matches: 42, Mismatches: 8, Indels: 7
0.74 0.14 0.12
Matches are distributed among these distances:
15 8 0.19
16 24 0.57
17 10 0.24
ACGTcount: A:0.29, C:0.12, G:0.06, T:0.54
Consensus pattern (15 bp):
ATTTATTTTCATGCA
Found at i:4741030 original size:48 final size:49
Alignment explanation
Indices: 4740972--4741072 Score: 136
Period size: 48 Copynumber: 2.1 Consensus size: 49
4740962 CTTTATTTAC
* *
4740972 TTTTTATGCAATTT-ATTTTTCATGCTCTTTAAATTT-ATGC-AATTTAAA
1 TTTTCATGCAATTTAATTATTCAT-CTC-TTAAATTTAATGCTAATTTAAA
*
4741020 TTTTCATGCAATTTAATTATTCATCTCTTAAATTTAATGCTTATTTAAA
1 TTTTCATGCAATTTAATTATTCATCTCTTAAATTTAATGCTAATTTAAA
4741069 TTTT
1 TTTT
4741073 TAAGCTTTTT
Statistics
Matches: 47, Mismatches: 3, Indels: 5
0.85 0.05 0.09
Matches are distributed among these distances:
47 8 0.17
48 20 0.43
49 19 0.40
ACGTcount: A:0.30, C:0.11, G:0.05, T:0.54
Consensus pattern (49 bp):
TTTTCATGCAATTTAATTATTCATCTCTTAAATTTAATGCTAATTTAAA
Found at i:4741035 original size:32 final size:31
Alignment explanation
Indices: 4740974--4741035 Score: 88
Period size: 32 Copynumber: 2.0 Consensus size: 31
4740964 TTATTTACTT
* **
4740974 TTTATGCAATTTATTTTTCATGCTCTTTAAA
1 TTTATGCAATTTAATTTTCATGCAATTTAAA
4741005 TTTATGCAATTTAAATTTTCATGCAATTTAA
1 TTTATGCAATTT-AATTTTCATGCAATTTAA
4741036 TTATTCATCT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
31 12 0.44
32 15 0.56
ACGTcount: A:0.31, C:0.11, G:0.06, T:0.52
Consensus pattern (31 bp):
TTTATGCAATTTAATTTTCATGCAATTTAAA
Found at i:4741042 original size:17 final size:17
Alignment explanation
Indices: 4740977--4741043 Score: 61
Period size: 17 Copynumber: 4.1 Consensus size: 17
4740967 TTTACTTTTT
*
4740977 ATGCAATTT-ATTTTTC
1 ATGCAATTTAATTATTC
** *
4740993 ATGCTCTTTAA--ATTT
1 ATGCAATTTAATTATTC
4741008 ATGCAATTTAAATT-TTC
1 ATGCAATTT-AATTATTC
4741025 ATGCAATTTAATTATTC
1 ATGCAATTTAATTATTC
4741042 AT
1 AT
4741044 CTCTTAAATT
Statistics
Matches: 39, Mismatches: 7, Indels: 9
0.71 0.13 0.16
Matches are distributed among these distances:
15 9 0.23
16 13 0.33
17 17 0.44
ACGTcount: A:0.31, C:0.12, G:0.06, T:0.51
Consensus pattern (17 bp):
ATGCAATTTAATTATTC
Found at i:4741070 original size:49 final size:48
Alignment explanation
Indices: 4740932--4741072 Score: 155
Period size: 49 Copynumber: 2.9 Consensus size: 48
4740922 CTTTCTTTGT
* * *
4740932 AATTTAATTTTAAT-TCTTTAAATTTCATGCCTTTATTT-ACTTTTTATGC
1 AATTTAATTTTCATCTCTTTAAATTT-ATG-C-TTATTTAAATTTTCATGC
* *
4740981 AATTTATTTTTCATGCTCTTTAAATTTATGC-AATTTAAATTTTCATGC
1 AATTTAATTTTCAT-CTCTTTAAATTTATGCTTATTTAAATTTTCATGC
4741029 AATTTAATTATTCATCTC-TTAAATTTAATGCTTATTTAAATTTT
1 AATTTAATT-TTCATCTCTTTAAATTT-ATGCTTATTTAAATTTT
4741073 TAAGCTTTTT
Statistics
Matches: 79, Mismatches: 7, Indels: 12
0.81 0.07 0.12
Matches are distributed among these distances:
47 12 0.15
48 24 0.30
49 29 0.37
50 3 0.04
51 11 0.14
ACGTcount: A:0.30, C:0.11, G:0.04, T:0.55
Consensus pattern (48 bp):
AATTTAATTTTCATCTCTTTAAATTTATGCTTATTTAAATTTTCATGC
Found at i:4741084 original size:49 final size:49
Alignment explanation
Indices: 4740979--4741086 Score: 123
Period size: 49 Copynumber: 2.2 Consensus size: 49
4740969 TACTTTTTAT
* *
4740979 GCAATTT-ATTTTTCATGCTCTTTAAATTTATGCAATTTAAATTTTCAT
1 GCAATTTAATTATTCATGCTCTTTAAATTTATGCAATTTAAATTTTCAA
* *
4741027 GCAATTTAATTATTCAT-CTC-TTAAATTTAATGCTTATTTAAATTTTTAA
1 GCAATTTAATTATTCATGCTCTTTAAATTT-ATGC-AATTTAAATTTTCAA
**
4741076 GCTTTTTAATT
1 GCAATTTAATT
4741087 TTTTTTAGAT
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
47 8 0.16
48 14 0.27
49 29 0.57
ACGTcount: A:0.31, C:0.11, G:0.06, T:0.53
Consensus pattern (49 bp):
GCAATTTAATTATTCATGCTCTTTAAATTTATGCAATTTAAATTTTCAA
Found at i:4741090 original size:17 final size:19
Alignment explanation
Indices: 4741052--4741089 Score: 55
Period size: 16 Copynumber: 2.2 Consensus size: 19
4741042 ATCTCTTAAA
4741052 TTTAATGCTTATTTAAATT
1 TTTAATGCTTATTTAAATT
4741071 TTTAA-GCTT-TTT-AATT
1 TTTAATGCTTATTTAAATT
4741087 TTT
1 TTT
4741090 TTTAGATTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 7 0.37
17 3 0.16
18 4 0.21
19 5 0.26
ACGTcount: A:0.26, C:0.05, G:0.05, T:0.63
Consensus pattern (19 bp):
TTTAATGCTTATTTAAATT
Found at i:4741118 original size:24 final size:23
Alignment explanation
Indices: 4741085--4741132 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 23
4741075 AGCTTTTTAA
4741085 TTTTTTTTAGATTTGAATATACC
1 TTTTTTTTAGATTTGAATATACC
4741108 TTTTTTGTTAGATTTGAATATACC
1 TTTTTT-TTAGATTTGAATATACC
4741132 T
1 T
4741133 AAGGTACCTG
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 6 0.25
24 18 0.75
ACGTcount: A:0.25, C:0.08, G:0.10, T:0.56
Consensus pattern (23 bp):
TTTTTTTTAGATTTGAATATACC
Found at i:4744165 original size:17 final size:17
Alignment explanation
Indices: 4744124--4744167 Score: 58
Period size: 15 Copynumber: 2.8 Consensus size: 17
4744114 TGCAATTGAT
*
4744124 TTTTCATGC-TTTTAAA
1 TTTTCATGCAATTTAAA
4744140 -TTT-ATGCAATTTAAA
1 TTTTCATGCAATTTAAA
4744155 TTTTCATGCAATT
1 TTTTCATGCAATT
4744168 AATTATTCAT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
14 4 0.17
15 9 0.38
16 3 0.12
17 8 0.33
ACGTcount: A:0.30, C:0.11, G:0.07, T:0.52
Consensus pattern (17 bp):
TTTTCATGCAATTTAAA
Found at i:4744171 original size:15 final size:16
Alignment explanation
Indices: 4744108--4744169 Score: 56
Period size: 16 Copynumber: 3.9 Consensus size: 16
4744098 CCCCATTTAC
* * *
4744108 TTTTTATGCAATTGAT
1 TTTTCATGCAATTAAA
**
4744124 TTTTCATGCTTTTAAA
1 TTTTCATGCAATTAAA
4744140 -TTT-ATGCAATTTAAA
1 TTTTCATGCAA-TTAAA
4744155 TTTTCATGCAATTAA
1 TTTTCATGCAATTAA
4744170 TTATTCATCT
Statistics
Matches: 36, Mismatches: 7, Indels: 6
0.73 0.14 0.12
Matches are distributed among these distances:
14 4 0.11
15 8 0.22
16 18 0.50
17 6 0.17
ACGTcount: A:0.31, C:0.10, G:0.08, T:0.52
Consensus pattern (16 bp):
TTTTCATGCAATTAAA
Found at i:4744856 original size:17 final size:18
Alignment explanation
Indices: 4744836--4744870 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
4744826 TTATTTTCTC
4744836 TAGTT-TTTTTAGATTTT
1 TAGTTCTTTTTAGATTTT
*
4744853 TAGTTCTTTTTAGGTTTT
1 TAGTTCTTTTTAGATTTT
4744871 CTTTGTATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.14, C:0.03, G:0.14, T:0.69
Consensus pattern (18 bp):
TAGTTCTTTTTAGATTTT
Found at i:4747307 original size:18 final size:19
Alignment explanation
Indices: 4747275--4747310 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
4747265 GGCTTTTTGG
*
4747275 GTTTAGGGTTTGGTTTAAC
1 GTTTAGGGTTCGGTTTAAC
4747294 GTTT-GGGTTCGGTTTAA
1 GTTTAGGGTTCGGTTTAA
4747311 AAGGTTTGGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.14, C:0.06, G:0.33, T:0.47
Consensus pattern (19 bp):
GTTTAGGGTTCGGTTTAAC
Found at i:4753183 original size:21 final size:20
Alignment explanation
Indices: 4753157--4753229 Score: 67
Period size: 21 Copynumber: 3.5 Consensus size: 20
4753147 GGGGGCATGT
4753157 AAAAAAAAAGAGAGAAAAAAG
1 AAAAAAAAAGA-AGAAAAAAG
* *
4753178 AAAAAAAGGAA-AAGGAAAATG
1 AAAAAAA--AAGAAGAAAAAAG
*
4753199 AAAAAAAAAGAAAAAAAAAGG
1 AAAAAAAAAGAAGAAAAAA-G
4753220 ACAAAAAAAA
1 A-AAAAAAAA
4753230 TGTTATGACA
Statistics
Matches: 42, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
19 2 0.05
20 6 0.14
21 23 0.55
22 9 0.21
23 2 0.05
ACGTcount: A:0.81, C:0.01, G:0.16, T:0.01
Consensus pattern (20 bp):
AAAAAAAAAGAAGAAAAAAG
Found at i:4753225 original size:22 final size:20
Alignment explanation
Indices: 4753157--4753229 Score: 67
Period size: 22 Copynumber: 3.5 Consensus size: 20
4753147 GGGGGCATGT
*
4753157 AAAAAAAAAGAGAGAAAAAAG
1 AAAAAAAAAGA-AAAAAAAAG
* *
4753178 -AAAAAAAGGAAAAGGAAAATG
1 AAAAAAAAAGAAAA--AAAAAG
4753199 AAAAAAAAAGAAAAAAAAAGG
1 AAAAAAAAAGAAAAAAAAA-G
4753220 ACAAAAAAAA
1 A-AAAAAAAA
4753230 TGTTATGACA
Statistics
Matches: 42, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
19 2 0.05
20 13 0.31
21 7 0.17
22 20 0.48
ACGTcount: A:0.81, C:0.01, G:0.16, T:0.01
Consensus pattern (20 bp):
AAAAAAAAAGAAAAAAAAAG
Found at i:4753727 original size:25 final size:24
Alignment explanation
Indices: 4753698--4753771 Score: 73
Period size: 25 Copynumber: 3.0 Consensus size: 24
4753688 AGAAAAGAAG
4753698 AAAGGAAAGAATGAAAAAGGAAAAA
1 AAAGGAAA-AATGAAAAAGGAAAAA
*
4753723 AAAGGAAAAAGTGAAACAA-TAAAAGA
1 AAAGGAAAAA-TGAAA-AAGGAAAA-A
*
4753749 AAAGCAAAAA--AAAAAGGAAAAA
1 AAAGGAAAAATGAAAAAGGAAAAA
4753771 A
1 A
4753772 GAAATGAAAT
Statistics
Matches: 42, Mismatches: 3, Indels: 11
0.75 0.05 0.20
Matches are distributed among these distances:
22 4 0.10
23 7 0.17
24 2 0.05
25 17 0.40
26 12 0.29
ACGTcount: A:0.74, C:0.03, G:0.19, T:0.04
Consensus pattern (24 bp):
AAAGGAAAAATGAAAAAGGAAAAA
Found at i:4753758 original size:12 final size:13
Alignment explanation
Indices: 4753743--4753775 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
4753733 GTGAAACAAT
*
4753743 AAAAGAAAAGCAA
1 AAAAGAAAAGGAA
4753756 AAAA-AAAAGGAA
1 AAAAGAAAAGGAA
4753768 AAAAGAAA
1 AAAAGAAA
4753776 TGAAATGAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.82, C:0.03, G:0.15, T:0.00
Consensus pattern (13 bp):
AAAAGAAAAGGAA
Found at i:4754478 original size:22 final size:22
Alignment explanation
Indices: 4754453--4754511 Score: 93
Period size: 22 Copynumber: 2.7 Consensus size: 22
4754443 GGATTCATGT
4754453 TTTTGGAAAACCTTATGTTC-G
1 TTTTGGAAAACCTTATGTTCAG
4754474 ATTTTGGAAAACCTTATGTTCAG
1 -TTTTGGAAAACCTTATGTTCAG
*
4754497 TTTTGGAAAAACTTA
1 TTTTGGAAAACCTTA
4754512 CATTTCATCT
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
22 34 0.97
23 1 0.03
ACGTcount: A:0.31, C:0.12, G:0.17, T:0.41
Consensus pattern (22 bp):
TTTTGGAAAACCTTATGTTCAG
Found at i:4754781 original size:28 final size:29
Alignment explanation
Indices: 4754749--4754885 Score: 91
Period size: 28 Copynumber: 4.6 Consensus size: 29
4754739 TAATAAAGTC
4754749 TTAAGCCTAATTTAGCTGGCACCT-AAAT
1 TTAAGCCTAATTTAGCTGGCACCTAAAAT
** * **
4754777 TTAAGTATAGTTTAGCTGGCACC-AAGTT
1 TTAAGCCTAATTTAGCTGGCACCTAAAAT
* *
4754805 TTAAGCCTAGA-TTAGCTAGCACCAATGAAATT
1 TTAAGCCTA-ATTTAGCTGGCACC--T-AAAAT
* * * *
4754837 TTAAGCTTAGTTTAGCTGGCATTAACTAAAAC
1 TTAAGCCTAATTTAGCTGGC---ACCTAAAAT
4754869 TTAAGCCTAATTTAGCT
1 TTAAGCCTAATTTAGCT
4754886 AGCATGTAAG
Statistics
Matches: 81, Mismatches: 18, Indels: 16
0.70 0.16 0.14
Matches are distributed among these distances:
28 40 0.49
32 38 0.47
33 1 0.01
35 2 0.02
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.34
Consensus pattern (29 bp):
TTAAGCCTAATTTAGCTGGCACCTAAAAT
Found at i:4754820 original size:56 final size:59
Alignment explanation
Indices: 4754744--4754889 Score: 149
Period size: 56 Copynumber: 2.4 Consensus size: 59
4754734 AGCACTAATA
*
4754744 AAGTCTTAAGCCTAATTTAGCTGGCACC-T-AAA-TTTAAG-TATAGTTTAGCTGGCACC
1 AAGTCTTAAGCCTAATTTAGCTAGCACCATGAAATTTTAAGCT-TAGTTTAGCTGGCACC
* *
4754800 AAGTTTTAAGCCTAGA-TTAGCTAGCACCAATGAAATTTTAAGCTTAGTTTAGCTGGCATTAACT
1 AAGTCTTAAGCCTA-ATTTAGCTAGCACC-ATGAAATTTTAAGCTTAGTTTAGCTGGC----ACC
**
4754864 AAAACTTAAGCCTAATTTAGCTAGCA
1 AAGTCTTAAGCCTAATTTAGCTAGCA
4754890 TGTAAGCTCA
Statistics
Matches: 73, Mismatches: 6, Indels: 14
0.78 0.06 0.15
Matches are distributed among these distances:
56 24 0.33
57 1 0.01
58 1 0.01
59 3 0.04
60 19 0.26
61 1 0.01
63 1 0.01
64 23 0.32
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (59 bp):
AAGTCTTAAGCCTAATTTAGCTAGCACCATGAAATTTTAAGCTTAGTTTAGCTGGCACC
Found at i:4754852 original size:32 final size:32
Alignment explanation
Indices: 4754684--4754857 Score: 143
Period size: 32 Copynumber: 5.7 Consensus size: 32
4754674 TGAGAAAGAA
* *
4754684 TTTAAGCCCAGTTTAGCTGGCATCAATGAAGA-
1 TTTAAGCCTAGTTTAGCTGGCACCAATGAA-AT
* * * *
4754716 TTTAAGCCTAGATTATCTAGCACTAAT-AAAGT
1 TTTAAGCCTAGTTTAGCTGGCACCAATGAAA-T
* *
4754748 CTTAAGCCTAATTTAGCTGGCACC--T-AAA-
1 TTTAAGCCTAGTTTAGCTGGCACCAATGAAAT
**
4754776 TTTAAGTATAGTTTAGCTGGCACCAA-G---T
1 TTTAAGCCTAGTTTAGCTGGCACCAATGAAAT
* *
4754804 TTTAAGCCTAGATTAGCTAGCACCAATGAAAT
1 TTTAAGCCTAGTTTAGCTGGCACCAATGAAAT
*
4754836 TTTAAGCTTAGTTTAGCTGGCA
1 TTTAAGCCTAGTTTAGCTGGCA
4754858 TTAACTAAAA
Statistics
Matches: 109, Mismatches: 23, Indels: 20
0.72 0.15 0.13
Matches are distributed among these distances:
28 42 0.39
29 1 0.01
30 5 0.05
31 2 0.02
32 59 0.54
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Consensus pattern (32 bp):
TTTAAGCCTAGTTTAGCTGGCACCAATGAAAT
Found at i:4755360 original size:33 final size:31
Alignment explanation
Indices: 4755171--4755425 Score: 122
Period size: 32 Copynumber: 7.8 Consensus size: 31
4755161 CAAATTATCC
* *
4755171 AGCACCCAACGAAATTTT-AGCCTAGCTTACTT
1 AGCA-CCAATGAAATTTTAAGCCTAGTTTA-TT
* *
4755203 AGCACCTAATAAAATTTTAAGCCTAGATTATCT
1 AGCACC-AATGAAATTTTAAGCCTAGTTTAT-T
* * * * **
4755236 AGTACCCAATGCAAATTATACGCCCAAATTATCT
1 AGCA-CCAATG-AAATTTTAAGCCTAGTTTAT-T
*
4755270 AGCACCCAATGAAAAGTTTAAGCTCTA-TTTAGTT
1 AGCA-CCAATG-AAATTTTAAGC-CTAGTTTA-TT
* * *
4755304 GGCACCTAT-AAGA-TTTAATCCTAGTTTAGTT
1 AGCACCAATGAA-ATTTTAAGCCTAGTTTA-TT
*
4755335 AGCACCAATGCAAATTTTAAGCCTAGATTATCT
1 AGCACCAATG-AAATTTTAAGCCTAGTTTAT-T
* * * * *
4755368 GGCACCAAAGAAAATTTAAGCTTAATTTAGTT
1 AGCACCAATGAAATTTTAAGCCTAGTTTA-TT
* * * *
4755400 GGCATCACTGAAAATTTAAGCCTAGT
1 AGCACCAATGAAATTTTAAGCCTAGT
4755426 GTAGCTGGCA
Statistics
Matches: 175, Mismatches: 34, Indels: 28
0.74 0.14 0.12
Matches are distributed among these distances:
30 3 0.02
31 24 0.14
32 54 0.31
33 46 0.26
34 45 0.26
35 3 0.02
ACGTcount: A:0.36, C:0.20, G:0.13, T:0.31
Consensus pattern (31 bp):
AGCACCAATGAAATTTTAAGCCTAGTTTATT
Found at i:4755403 original size:32 final size:32
Alignment explanation
Indices: 4755275--4755423 Score: 135
Period size: 32 Copynumber: 4.6 Consensus size: 32
4755265 TATCTAGCAC
4755275 CCAATGAAAAGTTTAAGCTCT-ATTTAGTTGGCA
1 CCAATGAAAA-TTTAAGC-CTAATTTAGTTGGCA
* * * * *
4755308 CCTAT-AAGATTTAATCCTAGTTTAGTTAGCA
1 CCAATGAAAATTTAAGCCTAATTTAGTTGGCA
*
4755339 CCAATGCAAATTTTAAGCCTAGA-TTA-TCTGGCA
1 CCAATG-AAAATTTAAGCCTA-ATTTAGT-TGGCA
* *
4755372 CCAAAGAAAATTTAAGCTTAATTTAGTTGGCA
1 CCAATGAAAATTTAAGCCTAATTTAGTTGGCA
* *
4755404 TCACTGAAAATTTAAGCCTA
1 CCAATGAAAATTTAAGCCTA
4755424 GTGTAGCTGG
Statistics
Matches: 91, Mismatches: 18, Indels: 15
0.73 0.15 0.12
Matches are distributed among these distances:
30 2 0.02
31 21 0.23
32 40 0.44
33 28 0.31
ACGTcount: A:0.36, C:0.17, G:0.15, T:0.33
Consensus pattern (32 bp):
CCAATGAAAATTTAAGCCTAATTTAGTTGGCA
Found at i:4755435 original size:32 final size:31
Alignment explanation
Indices: 4755350--4755436 Score: 84
Period size: 32 Copynumber: 2.7 Consensus size: 31
4755340 CAATGCAAAT
* *
4755350 TTTAAGCCTAGATTATCTGGCACCAAAGAAAA
1 TTTAAGCCTAG-TTAGCTGGCATCAAAGAAAA
* * * **
4755382 TTTAAGCTTAATTTAGTTGGCATCACTGAAAA
1 TTTAAGCCT-AGTTAGCTGGCATCAAAGAAAA
4755414 TTTAAGCCTAGTGTAGCTGGCAT
1 TTTAAGCCTAGT-TAGCTGGCAT
4755437 GTAGGCCTAG
Statistics
Matches: 43, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
31 2 0.05
32 40 0.93
33 1 0.02
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.32
Consensus pattern (31 bp):
TTTAAGCCTAGTTAGCTGGCATCAAAGAAAA
Found at i:4756060 original size:9 final size:9
Alignment explanation
Indices: 4756043--4756083 Score: 55
Period size: 9 Copynumber: 4.4 Consensus size: 9
4756033 GAAAATTCCT
*
4756043 AATAAATAA
1 AATACATAA
*
4756052 AATATATAA
1 AATACATAA
4756061 AATACATAA
1 AATACATAA
4756070 AATACATAA
1 AATACATAA
4756079 CAATA
1 -AATA
4756084 TATATAAATC
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
9 25 0.86
10 4 0.14
ACGTcount: A:0.68, C:0.07, G:0.00, T:0.24
Consensus pattern (9 bp):
AATACATAA
Found at i:4756100 original size:28 final size:27
Alignment explanation
Indices: 4756043--4756144 Score: 79
Period size: 28 Copynumber: 3.7 Consensus size: 27
4756033 GAAAATTCCT
4756043 AATAAATAAAATATATAAAATACATAA
1 AATAAATAAAATATATAAAATACATAA
*
4756070 AATACATAACAATATATATAAAT-CATTAA
1 AATAAATAA-AATATATA-AAATACA-TAA
* * *
4756099 ATTAATTATTAAATATA-AAATATAAAT-A
1 AATAA--ATAAAATATATAAA-ATACATAA
4756127 AATAAAT-AAATA-ATAAAA
1 AATAAATAAAATATATAAAA
4756145 AGCTCGGCCC
Statistics
Matches: 61, Mismatches: 6, Indels: 19
0.71 0.07 0.22
Matches are distributed among these distances:
24 2 0.03
25 8 0.13
26 2 0.03
27 8 0.13
28 17 0.28
29 14 0.23
30 7 0.11
31 3 0.05
ACGTcount: A:0.66, C:0.04, G:0.00, T:0.30
Consensus pattern (27 bp):
AATAAATAAAATATATAAAATACATAA
Found at i:4756784 original size:122 final size:122
Alignment explanation
Indices: 4756631--4756881 Score: 421
Period size: 122 Copynumber: 2.1 Consensus size: 122
4756621 ATGATAATAT
*
4756631 TATGATATCAATGGGTGATAATCTTTTCCTAGGCAATGAATAATGAAACAGCTAATTCAAAAAAC
1 TATGATATCAATGGGTGATAATCTTTTCCTAGGCAACGAATAATGAAACAGCTAATTCAAAAAAC
* * *
4756696 AGAAATAGGGATTCCAAGAAAATTACACATACATGACATTTTTTTAAAGAATTCAGA
66 AAAAATAAGGATTCCAAAAAAATTACACATACATGACATTTTTTTAAAGAATTCAGA
* * *
4756753 TGTGATATCAATGGGTGATAATCTTTTCCTAGGCAACGAATAATGAAACAGCTAATTGAAAAAAG
1 TATGATATCAATGGGTGATAATCTTTTCCTAGGCAACGAATAATGAAACAGCTAATTCAAAAAAC
* *
4756818 AAAAATAAGGATTCCAAAAAAATTAGACATACATGACATTTTTTTAAAGAATTTAGA
66 AAAAATAAGGATTCCAAAAAAATTACACATACATGACATTTTTTTAAAGAATTCAGA
4756875 TATGATA
1 TATGATA
4756882 ACTTGACGTG
Statistics
Matches: 119, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
122 119 1.00
ACGTcount: A:0.44, C:0.12, G:0.15, T:0.29
Consensus pattern (122 bp):
TATGATATCAATGGGTGATAATCTTTTCCTAGGCAACGAATAATGAAACAGCTAATTCAAAAAAC
AAAAATAAGGATTCCAAAAAAATTACACATACATGACATTTTTTTAAAGAATTCAGA
Found at i:4757168 original size:25 final size:24
Alignment explanation
Indices: 4757140--4757200 Score: 79
Period size: 25 Copynumber: 2.5 Consensus size: 24
4757130 TTTATTTGAC
4757140 ATGACCCTTTTTC-TGTTCATTCCAT
1 ATGACCCTTTTTCAT-TT-ATTCCAT
4757165 ATGACCCTTTTTTCATTTATTCCAT
1 ATGACCC-TTTTTCATTTATTCCAT
*
4757190 ATGACCATTTT
1 ATGACCCTTTT
4757201 CTTACAATAA
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
24 4 0.12
25 20 0.61
26 8 0.24
27 1 0.03
ACGTcount: A:0.20, C:0.25, G:0.07, T:0.49
Consensus pattern (24 bp):
ATGACCCTTTTTCATTTATTCCAT
Done.