Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 ID=Chr02-JGI_221_v2.0
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: 62769430
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1067035 characters in sequence are not A, C, G, or T
File 148 of 206
Found at i:45018131 original size:44 final size:43
Alignment explanation
Indices: 45018068--45018152 Score: 125
Period size: 44 Copynumber: 2.0 Consensus size: 43
45018058 AGTATAAGAA
*
45018068 AGGCATACACTCGGAACATAGGATAGGGGGTTTAGGCTATTCTT
1 AGGCATACAATCGGAACATAGGATA-GGGGTTTAGGCTATTCTT
* * *
45018112 AGGCATACAATTGGAACATAGGATAGGGTTTTAGGTTATTC
1 AGGCATACAATCGGAACATAGGATAGGGGTTTAGGCTATTC
45018153 CTAAGCTCCT
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
43 14 0.38
44 23 0.62
ACGTcount: A:0.29, C:0.13, G:0.28, T:0.29
Consensus pattern (43 bp):
AGGCATACAATCGGAACATAGGATAGGGGTTTAGGCTATTCTT
Found at i:45022480 original size:18 final size:19
Alignment explanation
Indices: 45022446--45022481 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
45022436 AATTTGGATT
*
45022446 AATTTAATGGTTTTAATTA
1 AATTTAATGGTTATAATTA
45022465 AATTTAAT-GTTATAATT
1 AATTTAATGGTTATAATT
45022482 TGTATGAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.39, C:0.00, G:0.08, T:0.53
Consensus pattern (19 bp):
AATTTAATGGTTATAATTA
Found at i:45024969 original size:21 final size:22
Alignment explanation
Indices: 45024916--45024971 Score: 69
Period size: 22 Copynumber: 2.6 Consensus size: 22
45024906 GTGTCATAGT
* *
45024916 CACACGGTCGTGTGCCTACTTT
1 CACACGGGCGTGTGCCTACTTC
45024938 CACACGGGCGTGTGCCT-CTTC
1 CACACGGGCGTGTGCCTACTTC
* *
45024959 CATATGGGCGTGT
1 CACACGGGCGTGT
45024972 TGACCCCACA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
21 14 0.47
22 16 0.53
ACGTcount: A:0.12, C:0.30, G:0.29, T:0.29
Consensus pattern (22 bp):
CACACGGGCGTGTGCCTACTTC
Found at i:45025525 original size:805 final size:798
Alignment explanation
Indices: 45023981--45025585 Score: 2471
Period size: 805 Copynumber: 2.0 Consensus size: 798
45023971 CATGACCGTA
*
45023981 TCCCGTGGGCACACAGGTGTGTCAGACTTTCACACGACCATATTTGCCCTACACTTTATTTAAGA
1 TCCCGTGGGCACACAGGTGTGTCAGACTTTCACACGACCATATTTGCCCTACACCTTATTTAAGA
* * * *
45024046 ACAAGTGGACAGAGAGTTACACGGGCTGTCCACACAGCCATGTTCCTGGGTCACACAGGCATGTG
66 ACAAGTGAACAGAGAGTGACACGAGCTGTCCACACAGCCATGTTCCTAGGTCACACAGGCATGTG
* *
45024111 TTACAGTCACACGATCGTGTACCTACTTTTACACCAGCGTGTGCCTCCTCCATATGGGCGTGTTG
131 TCACAGTCACACGATCGTGTACCTACTTTCACACCAGCGTGTGCCTCCTCCATATGGGCGTGTTG
* **
45024176 ACCCCACACGACCTAGGCACTTCCACACGGTTGTGTGCCCTTTTTTCGTAAATTTTTGTTCCGAG
196 ACCCCACACGACCTAGGAACTTCCACACGGCCGTGTGCCCTTTTTTCGTAAATTTTTGTTCCGAG
*** * *
45024241 TCGGGTTGTGATTGTTTTGTGTTCCTGTGTGTTCCTACGTTTGGCTAGGCCTTAGCAAAAGTAGT
261 TCAAATTGTGATTATTTTGTGTTCCTGTGTGTTCCTACCTTTGGCTAGGCCTTAGCAAAAGTAGT
* *
45024306 TAAGACTTCGTTTGGCTCAAATTTACGTGTTCACATAGCCCTAACTTCATGACTTGCCTAAGTGA
326 TAAGACTTCGTTTGGCTCAAATTTACCTGTTCACATAGCACTAACTTCATGACTTGCCTAAGTGA
* * *
45024371 TGTTACCTAATAGTTAGGTACCGTGACCTCTGATTCTGAATTTGGTCGTTTGACTATGTGCATTT
391 TGTTACCTAATAGTTAGGTACCGTGACCTCTGATTCTGAACTTGATCGTTTGACTATGTCCATTT
*
45024436 ATGACCCTGTTTGACTGAAGCATAGATTCTCGCAAGTTGTGTGTATTGTTTCTGTAAGTCAACTA
456 ATGACCCTGTTTGACTGAAGCATAGATGCTCGCAAGTTGTGTGTATTGTTTCTGTAAGTCAACTA
* * *
45024501 ATAATTTGTTTGCATACAAGCATTCGCGTAAAATTTATGATTCTGTATTATGTTTCTGTATATCT
521 ATAATTTGTTTGCATACAAGCAGTCACGTAAAATTTATAATTCTGTATTATGTTTCTGTATATCT
45024566 ATCTTCGAATGGTGTGCATTTTTGCATTTGCATTAAAATTTTGGGTTTGGTTGCCAAGAGAAGGA
586 ATCTTCGAATGGTGTGCATTTTTGCATTTGCATTAAAATTTTGGGTTTGGTTGCCAAGAGAAGGA
45024631 AGTCTGATATGTTTAGTTTTGGCAGTTTAACTGCAACTCATCAGTACTGCGGTTTACCGCATCAT
651 AGTCTGATATGTTTAGTTTTGGCAGTTTAACTGCAACTCATCAGTACTGCGGTTTACCGCATCAT
*
45024696 ACTACACATATGTCAGCTCTGCTACATATTATCATCTGAGTGGCCTAGTCCACATACATGGTGTG
716 ACTACACATATGTCAGCTCTGCTACATATTATCATCTGAGTGCCCTAGTCCACATACATGGTGTG
45024761 TAGGGTTGGATGGGCCTT
781 TAGGGTTGGATGGGCCTT
* * * ** * *
45024779 TCCCGTGGGCACACGGGTGTGTCAGACTTTCCCATGGTCGTGTTTGCCCTACACCTTATTTAAGA
1 TCCCGTGGGCACACAGGTGTGTCAGACTTTCACACGACCATATTTGCCCTACACCTTATTTAAGA
* * * * *
45024844 ACAAGTGAACAGAGAGTGACACGAGTTGTCCACACGGCTATGTTCTTAGGTCACACAGGCGTGTG
66 ACAAGTGAACAGAGAGTGACACGAGCTGTCCACACAGCCATGTTCCTAGGTCACACAGGCATGTG
* * * ** *
45024909 TCATAGTCACACGGTCGTGTGCCTACTTTCACACGGGCGTGTGCCTCTTCCATATGGGCGTGTTG
131 TCACAGTCACACGATCGTGTACCTACTTTCACACCAGCGTGTGCCTCCTCCATATGGGCGTGTTG
* * * *
45024974 ACCCCACACGGCCTAGGAACTTCTACACGGCCGTGTGGCCTTGTTTT-GTAAATTTTTGTTCTGA
196 ACCCCACACGACCTAGGAACTTCCACACGGCCGTGTGCCCTT-TTTTCGTAAATTTTTGTTCCGA
*
45025038 GTCAAATTGTGATTATTTTGTGTTCCTGTGTGTTCCTACCTTTGGCTAGGCCTTAGCAAGAGTAG
260 GTCAAATTGTGATTATTTTGTGTTCCTGTGTGTTCCTACCTTTGGCTAGGCCTTAGCAAAAGTAG
* **
45025103 TTGAGAC-TCTGTTTGGCTTGAATTTACCTGTTCATTATTAGCATAGCACTAACTTCATGACTTG
325 TTAAGACTTC-GTTTGGCTCAAATTTACCTGTTC------A-CATAGCACTAACTTCATGACTTG
*
45025167 CCTAAGTGATGTTACCTAATAGTTAGGTATCGTGACCTCTGATTCTGAACTTGATCGTTTGACTA
382 CCTAAGTGATGTTACCTAATAGTTAGGTACCGTGACCTCTGATTCTGAACTTGATCGTTTGACTA
*
45025232 TGTCCATTTCTGACCCTGTTTGACTGAAGCATAGATGCTCGCAAGTTGTGTGTATTGTTTCTGTA
447 TGTCCATTTATGACCCTGTTTGACTGAAGCATAGATGCTCGCAAGTTGTGTGTATTGTTTCTGTA
* * *
45025297 AGTCAACTAATGAA-TTGTTTGCATACAAGGAGTCACGTAAAATTTCTAATTCTGTGTTATGTTT
512 AGTCAACTAAT-AATTTGTTTGCATACAAGCAGTCACGTAAAATTTATAATTCTGTATTATGTTT
* * * * *
45025361 CTGTATATTTGTCTTCGAATGGTGTGTATTTTTTCATTTGCATTAAAATTTTGGGTTTGGTTGCG
576 CTGTATATCTATCTTCGAATGGTGTGCATTTTTGCATTTGCATTAAAATTTTGGGTTTGGTTGCC
* *
45025426 AAGAGAAGGAAGTTTGATATGTTCT-GTTTTGGTAGTTTAACTGCAACTCATCAGTACTGCGGTT
641 AAGAGAAGGAAGTCTGATATGTT-TAGTTTTGGCAGTTTAACTGCAACTCATCAGTACTGCGGTT
* ** * *
45025490 TACTGCATTGTACTACACATATGTCAGCTCTGCTACATATTATCATCTGATTGCCCTAGTCCACG
705 TACCGCATCATACTACACATATGTCAGCTCTGCTACATATTATCATCTGAGTGCCCTAGTCCACA
45025555 TACATGGTGTGTAGGGTTGGATGGGCCTT
770 TACATGGTGTGTAGGGTTGGATGGGCCTT
45025584 TC
1 TC
45025586 GAGGTCCTAT
Statistics
Matches: 728, Mismatches: 68, Indels: 15
0.90 0.08 0.02
Matches are distributed among these distances:
797 2 0.00
798 307 0.42
799 4 0.01
804 1 0.00
805 411 0.56
806 3 0.00
ACGTcount: A:0.22, C:0.20, G:0.22, T:0.35
Consensus pattern (798 bp):
TCCCGTGGGCACACAGGTGTGTCAGACTTTCACACGACCATATTTGCCCTACACCTTATTTAAGA
ACAAGTGAACAGAGAGTGACACGAGCTGTCCACACAGCCATGTTCCTAGGTCACACAGGCATGTG
TCACAGTCACACGATCGTGTACCTACTTTCACACCAGCGTGTGCCTCCTCCATATGGGCGTGTTG
ACCCCACACGACCTAGGAACTTCCACACGGCCGTGTGCCCTTTTTTCGTAAATTTTTGTTCCGAG
TCAAATTGTGATTATTTTGTGTTCCTGTGTGTTCCTACCTTTGGCTAGGCCTTAGCAAAAGTAGT
TAAGACTTCGTTTGGCTCAAATTTACCTGTTCACATAGCACTAACTTCATGACTTGCCTAAGTGA
TGTTACCTAATAGTTAGGTACCGTGACCTCTGATTCTGAACTTGATCGTTTGACTATGTCCATTT
ATGACCCTGTTTGACTGAAGCATAGATGCTCGCAAGTTGTGTGTATTGTTTCTGTAAGTCAACTA
ATAATTTGTTTGCATACAAGCAGTCACGTAAAATTTATAATTCTGTATTATGTTTCTGTATATCT
ATCTTCGAATGGTGTGCATTTTTGCATTTGCATTAAAATTTTGGGTTTGGTTGCCAAGAGAAGGA
AGTCTGATATGTTTAGTTTTGGCAGTTTAACTGCAACTCATCAGTACTGCGGTTTACCGCATCAT
ACTACACATATGTCAGCTCTGCTACATATTATCATCTGAGTGCCCTAGTCCACATACATGGTGTG
TAGGGTTGGATGGGCCTT
Found at i:45029283 original size:12 final size:11
Alignment explanation
Indices: 45029275--45029305 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
45029265 GCTTCTTACA
45029275 TTTTCTCTTAG
1 TTTTCTCTTAG
*
45029286 TTTTCCCTTAG
1 TTTTCTCTTAG
45029297 TTTTCTCTT
1 TTTTCTCTT
45029306 TCAGGTACTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.06, C:0.23, G:0.06, T:0.65
Consensus pattern (11 bp):
TTTTCTCTTAG
Found at i:45032087 original size:25 final size:25
Alignment explanation
Indices: 45032059--45032107 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
45032049 CTTACTCAAG
*
45032059 CTATAGATCAATATGCTCTCACGAA
1 CTATAAATCAATATGCTCTCACGAA
** *
45032084 CTATAAATCGGTATGCTCTTACGA
1 CTATAAATCAATATGCTCTCACGA
45032108 GCTGTGGGTA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.22, G:0.14, T:0.31
Consensus pattern (25 bp):
CTATAAATCAATATGCTCTCACGAA
Found at i:45038806 original size:19 final size:19
Alignment explanation
Indices: 45038782--45038821 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
45038772 ATTAATTTTG
45038782 ATCAAGTAAAATT-AAATTA
1 ATCAAGT-AAATTAAAATTA
*
45038801 ATCAAGTTAATTAAAATTA
1 ATCAAGTAAATTAAAATTA
45038820 AT
1 AT
45038822 ATCACATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 4 0.21
19 15 0.79
ACGTcount: A:0.55, C:0.05, G:0.05, T:0.35
Consensus pattern (19 bp):
ATCAAGTAAATTAAAATTA
Found at i:45041642 original size:46 final size:46
Alignment explanation
Indices: 45041533--45041699 Score: 187
Period size: 45 Copynumber: 3.7 Consensus size: 46
45041523 TTCTATCGAG
* * * * *
45041533 TAAGACCATAGCTGAAAGACACTATGACATCACGA--ATCAAACGAA
1 TAAGACCATGGTTGAAAGACACTATGGCATCACGACGA-AAAATGAA
* *
45041578 TAAGACCATAGTTGAAAGACACTATGGCAACACGACGAAAAATGAA
1 TAAGACCATGGTTGAAAGACACTATGGCATCACGACGAAAAATGAA
* * * * *
45041624 TAAGACCGTGGTTGAAAGACACTATGGCATCAAGTCG-AGAATAAA
1 TAAGACCATGGTTGAAAGACACTATGGCATCACGACGAAAAATGAA
*
45041669 TAAGACCATGGTTGAAAGACACCATGGCATC
1 TAAGACCATGGTTGAAAGACACTATGGCATC
45041700 TTCCAATCAT
Statistics
Matches: 106, Mismatches: 14, Indels: 4
0.85 0.11 0.03
Matches are distributed among these distances:
45 67 0.63
46 38 0.36
47 1 0.01
ACGTcount: A:0.43, C:0.19, G:0.20, T:0.17
Consensus pattern (46 bp):
TAAGACCATGGTTGAAAGACACTATGGCATCACGACGAAAAATGAA
Found at i:45041686 original size:45 final size:44
Alignment explanation
Indices: 45041390--45041699 Score: 182
Period size: 45 Copynumber: 6.9 Consensus size: 44
45041380 TGGGTAGAAG
* * *
45041390 GAAATGATTAACACCATAGTTGAAAGACACTATGGCA-CGATA-CC
1 GAAATGAATAAGACCATAGTTGAAAGACACTATGGCATC-A-AGTC
* * * * *
45041434 GAAAATAAATAAAACCATAGTTGAAAGACATTATGGCACCATA-CC
1 G-AAATGAATAAGACCATAGTTGAAAGACACTATGGCATCA-AGTC
* * * * *** * *
45041479 AGAAACGAGTAAGACTATAGCTGAAAGATGTTATGACATCACGATTC
1 -GAAATGAATAAGACCATAGTTGAAAGACACTATGGCATCA--AGTC
* * * * *
45041526 --TATCGAGTAAGACCATAGCTGAAAGACACTATGACATCACGAATC
1 GAAAT-GAATAAGACCATAGTTGAAAGACACTATGGCATCA--AGTC
* * * *
45041571 -AAACGAATAAGACCATAGTTGAAAGACACTATGGCAACACGAC
1 GAAATGAATAAGACCATAGTTGAAAGACACTATGGCATCAAGTC
* *
45041614 GAAAAATGAATAAGACCGTGGTTGAAAGACACTATGGCATCAAGTC
1 G--AAATGAATAAGACCATAGTTGAAAGACACTATGGCATCAAGTC
* * *
45041660 GAGAATAAATAAGACCATGGTTGAAAGACACCATGGCATC
1 GA-AATGAATAAGACCATAGTTGAAAGACACTATGGCATC
45041700 TTCCAATCAT
Statistics
Matches: 214, Mismatches: 41, Indels: 21
0.78 0.15 0.08
Matches are distributed among these distances:
43 1 0.00
44 3 0.01
45 167 0.78
46 42 0.20
47 1 0.00
ACGTcount: A:0.43, C:0.18, G:0.19, T:0.19
Consensus pattern (44 bp):
GAAATGAATAAGACCATAGTTGAAAGACACTATGGCATCAAGTC
Found at i:45041980 original size:41 final size:41
Alignment explanation
Indices: 45041862--45041991 Score: 145
Period size: 41 Copynumber: 3.2 Consensus size: 41
45041852 ATGATGTTGT
** * * * * *
45041862 GGTGTATTGTATCAAGCTTTGTGCCTAGCAGGCTTCATGCC
1 GGTGTATCATATCAGGCTTTGAGCCTAGTAGGCTTCGTGTC
* * *
45041903 AGTGTATTATATCAGGCTTT-ATGCATAGTAGGCTTCGTGTC
1 GGTGTATCATATCAGGCTTTGA-GCCTAGTAGGCTTCGTGTC
*
45041944 GGTGTGTCATATCAGGCTTTGAGCCTAGTAGGCTTCGTGTC
1 GGTGTATCATATCAGGCTTTGAGCCTAGTAGGCTTCGTGTC
45041985 GGTGTAT
1 GGTGTAT
45041992 TGTACCAAGT
Statistics
Matches: 74, Mismatches: 13, Indels: 4
0.81 0.14 0.04
Matches are distributed among these distances:
41 73 0.99
42 1 0.01
ACGTcount: A:0.18, C:0.18, G:0.28, T:0.36
Consensus pattern (41 bp):
GGTGTATCATATCAGGCTTTGAGCCTAGTAGGCTTCGTGTC
Found at i:45044608 original size:58 final size:54
Alignment explanation
Indices: 45044532--45044642 Score: 177
Period size: 58 Copynumber: 2.0 Consensus size: 54
45044522 AATATTTTTC
45044532 TAATATAAATATAGTAATTAGTGAATCTTTATTTTTTTCAGTTCAAATATGCCTCCTT
1 TAATATAAATATAGTAATTAGTGAATC--T-TTTTTTT-AGTTCAAATATGCCTCCTT
*
45044590 TAATATAAATATAGTAATTAGTGAATCTTTTTTTTAGTTCAGATATGCCTCCT
1 TAATATAAATATAGTAATTAGTGAATCTTTTTTTTAGTTCAAATATGCCTCCT
45044643 ACACCTCTTA
Statistics
Matches: 52, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
54 17 0.33
55 7 0.13
56 1 0.02
58 27 0.52
ACGTcount: A:0.32, C:0.12, G:0.10, T:0.46
Consensus pattern (54 bp):
TAATATAAATATAGTAATTAGTGAATCTTTTTTTTAGTTCAAATATGCCTCCTT
Found at i:45059284 original size:9 final size:9
Alignment explanation
Indices: 45059270--45059294 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
45059260 ATCATAGTTG
45059270 AACTCTCTA
1 AACTCTCTA
45059279 AACTCTCTA
1 AACTCTCTA
45059288 AACTCTC
1 AACTCTC
45059295 CCTATATAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.32, C:0.36, G:0.00, T:0.32
Consensus pattern (9 bp):
AACTCTCTA
Found at i:45060691 original size:44 final size:44
Alignment explanation
Indices: 45060634--45060721 Score: 122
Period size: 44 Copynumber: 2.0 Consensus size: 44
45060624 AGATCAATTG
* **
45060634 AAGGGTGATTACATCAAAGACATTTCCAACCACAGTGTTTGAAA
1 AAGGGTGATTACATCAAAGACATTGCCAACCACAACGTTTGAAA
* * *
45060678 AAGGGTGGTTACATCAAAGGCATTGCTAACCACAACGTTTGAAA
1 AAGGGTGATTACATCAAAGACATTGCCAACCACAACGTTTGAAA
45060722 GACTAGTATA
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
44 38 1.00
ACGTcount: A:0.38, C:0.18, G:0.20, T:0.24
Consensus pattern (44 bp):
AAGGGTGATTACATCAAAGACATTGCCAACCACAACGTTTGAAA
Found at i:45061293 original size:21 final size:20
Alignment explanation
Indices: 45061262--45061317 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 20
45061252 TTATTGTGAA
*
45061262 TATAA-AAAATTATTTTACAT
1 TATAATAAAATTAATTTA-AT
45061282 TATAATAAAATTAAATTTAAT
1 TATAATAAAATT-AATTTAAT
*
45061303 TATAAATTAAATTAA
1 TAT-AATAAAATTAA
45061318 AATTAAAATT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
20 5 0.16
21 13 0.42
22 13 0.42
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (20 bp):
TATAATAAAATTAATTTAAT
Found at i:45061314 original size:22 final size:21
Alignment explanation
Indices: 45061262--45061323 Score: 65
Period size: 22 Copynumber: 3.0 Consensus size: 21
45061252 TTATTGTGAA
*
45061262 TATAA-AAAATT-ATTTTACAT
1 TATAATAAAATTAAATTTA-AT
45061282 TATAATAAAATTAAATTTAAT
1 TATAATAAAATTAAATTTAAT
* *
45061303 TATAAATTAAATTAAAATTAA
1 TAT-AATAAAATTAAATTTAA
45061324 AATTTGATTA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
20 5 0.14
21 11 0.31
22 20 0.56
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (21 bp):
TATAATAAAATTAAATTTAAT
Found at i:45068998 original size:3 final size:3
Alignment explanation
Indices: 45068990--45069055 Score: 84
Period size: 3 Copynumber: 22.7 Consensus size: 3
45068980 TTACTGTTAC
* *
45068990 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TATT TAA CAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT
45069036 TAT TAT TA- TAT T-T T-T TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TA
45069056 ATCTATATAA
Statistics
Matches: 56, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
2 6 0.11
3 47 0.84
4 3 0.05
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:45069454 original size:2 final size:2
Alignment explanation
Indices: 45069447--45069477 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
45069437 TATTTATTTC
45069447 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
45069478 GCTGTTTAGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:45069994 original size:9 final size:9
Alignment explanation
Indices: 45069977--45070007 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
45069967 GGAATATGAT
45069977 TCGAATAAC
1 TCGAATAAC
*
45069986 TCGATTAAC
1 TCGAATAAC
45069995 TCGAATAAC
1 TCGAATAAC
45070004 TCGA
1 TCGA
45070008 TTCGTTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:45071191 original size:31 final size:31
Alignment explanation
Indices: 45071156--45071219 Score: 87
Period size: 31 Copynumber: 2.1 Consensus size: 31
45071146 TAACAGTTCG
45071156 ATGACTTAAAT-AAAAGCTTTTA-AATAATTCA
1 ATGACTTAAATGAAAA-C-TTTAGAATAATTCA
*
45071187 ATGACTTAAATGAAAACTTTAGAATAGTTCA
1 ATGACTTAAATGAAAACTTTAGAATAATTCA
45071218 AT
1 AT
45071220 AATCGTTTGA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
30 4 0.13
31 22 0.73
32 4 0.13
ACGTcount: A:0.47, C:0.09, G:0.09, T:0.34
Consensus pattern (31 bp):
ATGACTTAAATGAAAACTTTAGAATAATTCA
Found at i:45072161 original size:22 final size:21
Alignment explanation
Indices: 45072121--45072175 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 21
45072111 TCGTAACGGT
45072121 TCAAATAAGATGCAGAATAAA
1 TCAAATAAGATGCAGAATAAA
* * *
45072142 TCAAATATATATGCATAATAGA
1 TCAAATA-AGATGCAGAATAAA
*
45072164 TCAGAATCAGAT
1 TCA-AATAAGAT
45072176 ACAATTTCCT
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
21 7 0.26
22 17 0.63
23 3 0.11
ACGTcount: A:0.51, C:0.11, G:0.13, T:0.25
Consensus pattern (21 bp):
TCAAATAAGATGCAGAATAAA
Found at i:45074549 original size:15 final size:14
Alignment explanation
Indices: 45074513--45074545 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
45074503 ATTTAAGAAC
*
45074513 AAATAACAA-ATAA
1 AAATAATAATATAA
45074526 AAATAATAATATAA
1 AAATAATAATATAA
45074540 AAATAA
1 AAATAA
45074546 ATAAATAGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 8 0.44
14 10 0.56
ACGTcount: A:0.76, C:0.03, G:0.00, T:0.21
Consensus pattern (14 bp):
AAATAATAATATAA
Found at i:45076263 original size:26 final size:26
Alignment explanation
Indices: 45076216--45076265 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
45076206 CCCACACACC
* * *
45076216 AATATTGCAGCATAGTTACCAGTAAT
1 AATATCGCAGCAGAGCTACCAGTAAT
*
45076242 AATATCGCAGCAGAGCTGCCAGTA
1 AATATCGCAGCAGAGCTACCAGTA
45076266 TAGTATATGT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.36, C:0.20, G:0.20, T:0.24
Consensus pattern (26 bp):
AATATCGCAGCAGAGCTACCAGTAAT
Found at i:45076759 original size:17 final size:17
Alignment explanation
Indices: 45076737--45076770 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
45076727 CAACATAAAT
45076737 CAAGTTTCTTTTGAAAC
1 CAAGTTTCTTTTGAAAC
45076754 CAAGTTTCTTTTGAAAC
1 CAAGTTTCTTTTGAAAC
45076771 TTCTTTTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.29, C:0.18, G:0.12, T:0.41
Consensus pattern (17 bp):
CAAGTTTCTTTTGAAAC
Found at i:45080923 original size:40 final size:40
Alignment explanation
Indices: 45080870--45080972 Score: 136
Period size: 40 Copynumber: 2.5 Consensus size: 40
45080860 TTATATTTGT
* *
45080870 TTCCATAACAACTGATTTATATAACCATTTCGTATATCTAT
1 TTCCAT-ATAACTGATTTATATAACCATTTCGTATATCTAG
*
45080911 TTCTATATAACTGATTCT-TATAACCATTTCGTATATCTAG
1 TTCCATATAACTGATT-TATATAACCATTTCGTATATCTAG
* *
45080951 TTCCATATAACCGATTCATATA
1 TTCCATATAACTGATTTATATA
45080973 TCTATTTTTC
Statistics
Matches: 54, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
40 48 0.89
41 6 0.11
ACGTcount: A:0.33, C:0.19, G:0.06, T:0.42
Consensus pattern (40 bp):
TTCCATATAACTGATTTATATAACCATTTCGTATATCTAG
Found at i:45083748 original size:17 final size:16
Alignment explanation
Indices: 45083726--45083760 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
45083716 ATCATGTTTT
45083726 TTTAATTAATTAATTAA
1 TTTAATT-ATTAATTAA
*
45083743 TTTAATTATTTATTAA
1 TTTAATTATTAATTAA
45083759 TT
1 TT
45083761 ATAAAATTGG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 10 0.59
17 7 0.41
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (16 bp):
TTTAATTATTAATTAA
Found at i:45087971 original size:22 final size:22
Alignment explanation
Indices: 45087940--45087981 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
45087930 TGTCATTAAC
45087940 TTAAGTTAATTAAAGATTAAGGT
1 TTAAGTTAATTAAA-ATTAAGGT
*
45087963 TTAA-TTAATTATAATTAAG
1 TTAAGTTAATTAAAATTAAG
45087982 CAAACTTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 6 0.33
22 8 0.44
23 4 0.22
ACGTcount: A:0.45, C:0.00, G:0.12, T:0.43
Consensus pattern (22 bp):
TTAAGTTAATTAAAATTAAGGT
Found at i:45098638 original size:20 final size:20
Alignment explanation
Indices: 45098608--45098654 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
45098598 GGCCTTCTGC
* *
45098608 CACCGCCGCCAATGTCACGT
1 CACCACCGCCAAGGTCACGT
* *
45098628 CGCCACCGCCACGGTCACGT
1 CACCACCGCCAAGGTCACGT
45098648 CACCACC
1 CACCACC
45098655 ACCACTTGTG
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.19, C:0.51, G:0.19, T:0.11
Consensus pattern (20 bp):
CACCACCGCCAAGGTCACGT
Found at i:45098659 original size:20 final size:20
Alignment explanation
Indices: 45098621--45098659 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
45098611 CGCCGCCAAT
* *
45098621 GTCACGTCGCCACCGCCACG
1 GTCACGTCACCACCACCACG
45098641 GTCACGTCACCACCACCAC
1 GTCACGTCACCACCACCAC
45098660 TTGTGCCGTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.21, C:0.51, G:0.18, T:0.10
Consensus pattern (20 bp):
GTCACGTCACCACCACCACG
Found at i:45099556 original size:25 final size:24
Alignment explanation
Indices: 45099519--45099599 Score: 74
Period size: 24 Copynumber: 3.3 Consensus size: 24
45099509 TTTAGCATTT
**
45099519 TTATTATTTTCTTCATTATT-TTAA
1 TTATTATCATCTTCATTATTATT-A
*
45099543 TGTATTATCATCTTTTATTATTATTA
1 T-TATTATCATC-TTCATTATTATTA
* * *
45099569 TTATTATTATCTTTACTATTATTA
1 TTATTATCATCTTCATTATTATTA
45099593 TTATTAT
1 TTATTAT
45099600 TAATATTATG
Statistics
Matches: 49, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
24 20 0.41
25 17 0.35
26 10 0.20
27 2 0.04
ACGTcount: A:0.27, C:0.07, G:0.01, T:0.64
Consensus pattern (24 bp):
TTATTATCATCTTCATTATTATTA
Found at i:45099565 original size:3 final size:3
Alignment explanation
Indices: 45099557--45099623 Score: 73
Period size: 3 Copynumber: 22.3 Consensus size: 3
45099547 TTATCATCTT
*
45099557 TTA TTA TTA TTA TTA TTA TTA TCT- TTA CTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA
* ** *
45099602 ATA TTA TGG TTA TTA TTG TTA T
1 TTA TTA TTA TTA TTA TTA TTA T
45099624 GTTCTTATTT
Statistics
Matches: 52, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
2 1 0.02
3 50 0.96
4 1 0.02
ACGTcount: A:0.30, C:0.03, G:0.04, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:45102676 original size:9 final size:9
Alignment explanation
Indices: 45102662--45102713 Score: 54
Period size: 9 Copynumber: 5.9 Consensus size: 9
45102652 AGACCACTAA
45102662 TTTTATTTC
1 TTTTATTTC
45102671 TTTTATTT-
1 TTTTATTTC
*
45102679 TTCTTTTTTC
1 TT-TTATTTC
45102689 TTTT-TTTC
1 TTTTATTTC
* *
45102697 TTTTAGTTG
1 TTTTATTTC
45102706 TTTTATTT
1 TTTTATTT
45102714 TTATTTTCTT
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
8 10 0.28
9 24 0.67
10 2 0.06
ACGTcount: A:0.08, C:0.08, G:0.04, T:0.81
Consensus pattern (9 bp):
TTTTATTTC
Found at i:45102735 original size:26 final size:29
Alignment explanation
Indices: 45102706--45102772 Score: 70
Period size: 26 Copynumber: 2.4 Consensus size: 29
45102696 CTTTTAGTTG
*
45102706 TTTTATTTTTATTTTC-TTAG-ACT-TCT
1 TTTTATTTTTATTATCTTTAGAACTATCT
* *
45102732 TTTT-TTGTTTATTATCTTTTGAACTATTT
1 TTTTATT-TTTATTATCTTTAGAACTATCT
45102761 TTTTATTTTTAT
1 TTTTATTTTTAT
45102773 GTTGTTTCTA
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
25 2 0.06
26 12 0.36
27 3 0.09
28 3 0.09
29 11 0.33
30 2 0.06
ACGTcount: A:0.16, C:0.07, G:0.04, T:0.72
Consensus pattern (29 bp):
TTTTATTTTTATTATCTTTAGAACTATCT
Found at i:45129536 original size:19 final size:17
Alignment explanation
Indices: 45129501--45129533 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
45129491 AGTTTAGGGA
45129501 CAAAATCGTAATTTTTC
1 CAAAATCGTAATTTTTC
45129518 CAAAATCGTAATTTTT
1 CAAAATCGTAATTTTT
45129534 TTCTGGCCGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.36, C:0.15, G:0.06, T:0.42
Consensus pattern (17 bp):
CAAAATCGTAATTTTTC
Found at i:45129823 original size:50 final size:50
Alignment explanation
Indices: 45129748--45129989 Score: 265
Period size: 50 Copynumber: 4.9 Consensus size: 50
45129738 CATTTGGGTA
*
45129748 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGAT
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGAT
* **
45129798 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGTTACCGAGAT
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGAT
* ** * *
45129848 GAGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGATAT
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGAT
* ** * * * *
45129898 GAGAACTCCCATCTAAGACCATATCTGGGATATGGCATTGGCA--G-TAT
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGAT
** * *
45129945 AAGAAACATCCCATGTAAGACCATATCTGGGACATGGCTTTGGCA
1 AAG--AGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
45129990 TGTTATTATC
Statistics
Matches: 166, Mismatches: 24, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
47 5 0.03
48 1 0.01
49 35 0.21
50 125 0.75
ACGTcount: A:0.28, C:0.22, G:0.28, T:0.22
Consensus pattern (50 bp):
AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGAT
Found at i:45137527 original size:8 final size:9
Alignment explanation
Indices: 45137511--45137540 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
45137501 GTACATATGC
45137511 TCTTTTTTT
1 TCTTTTTTT
45137520 TCTTTTTTT
1 TCTTTTTTT
45137529 TCTTTTCTTT
1 TCTTTT-TTT
45137539 TC
1 TC
45137541 ACGAGCATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 15 0.75
10 5 0.25
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (9 bp):
TCTTTTTTT
Found at i:45140177 original size:40 final size:40
Alignment explanation
Indices: 45140122--45140202 Score: 144
Period size: 40 Copynumber: 2.0 Consensus size: 40
45140112 CAACATTTAG
45140122 TTGAAATTCCTCTTTGTCTTAAGCTACAATAGGCTCATCT
1 TTGAAATTCCTCTTTGTCTTAAGCTACAATAGGCTCATCT
* *
45140162 TTGAAATTCCTCTTTGTCTTGAGCTACAATAGGTTCATCT
1 TTGAAATTCCTCTTTGTCTTAAGCTACAATAGGCTCATCT
45140202 T
1 T
45140203 GAACCTCAAC
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.23, C:0.21, G:0.14, T:0.42
Consensus pattern (40 bp):
TTGAAATTCCTCTTTGTCTTAAGCTACAATAGGCTCATCT
Found at i:45143370 original size:10 final size:10
Alignment explanation
Indices: 45143347--45143407 Score: 61
Period size: 10 Copynumber: 6.0 Consensus size: 10
45143337 GAATATGTTG
* *
45143347 AAAATAAATC
1 AAAATTAATA
45143357 AAAATTAATA
1 AAAATTAATA
45143367 AAAATTAATTA
1 AAAATTAA-TA
*
45143378 TAAAATTAATT
1 -AAAATTAATA
45143389 AAAATTAA-A
1 AAAATTAATA
*
45143398 AATATTAATA
1 AAAATTAATA
45143408 TTTTAAGTAC
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
9 7 0.16
10 25 0.58
11 3 0.07
12 8 0.19
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.33
Consensus pattern (10 bp):
AAAATTAATA
Found at i:45144111 original size:25 final size:24
Alignment explanation
Indices: 45144075--45144218 Score: 101
Period size: 25 Copynumber: 5.8 Consensus size: 24
45144065 ACGAAAAAGC
*
45144075 CTTTG-GGAAAATTATCTAAAGAT
1 CTTTGTGGCAAATTATCTAAAGAT
* *
45144098 CGTTTGTGACAAATTATCTAAAGAGC
1 C-TTTGTGGCAAATTATCTAAAGA-T
* *
45144124 CTTTGTGGCGAATTATATAAAGACT
1 CTTTGTGGCAAATTATCTAAAGA-T
* * *
45144149 CTTTTTGGCGAATTATCTAAAGAGC
1 CTTTGTGGCAAATTATCTAAAGA-T
* ** *
45144174 CTTTTTTGGTGAATTATCTAAAGACC
1 C-TTTGTGGCAAATTATCTAAAGA-T
**
45144200 CTTTGTGGCGTATTATCTA
1 CTTTGTGGCAAATTATCTA
45144219 GAATGTCTAG
Statistics
Matches: 100, Mismatches: 17, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
23 1 0.01
24 4 0.04
25 71 0.71
26 24 0.24
ACGTcount: A:0.30, C:0.14, G:0.19, T:0.38
Consensus pattern (24 bp):
CTTTGTGGCAAATTATCTAAAGAT
Found at i:45144146 original size:50 final size:50
Alignment explanation
Indices: 45144084--45144206 Score: 149
Period size: 50 Copynumber: 2.4 Consensus size: 50
45144074 CCTTTGGGAA
45144084 AATTATCTAAAGATCGTTTGTGACAAATTATCTAAAGAGCC-TTTGTGGCG
1 AATTATCTAAAGATC-TTTGTGACAAATTATCTAAAGAGCCTTTTGTGGCG
* * * * * *
45144134 AATTATATAAAGACTCTTTTTGGCGAATTATCTAAAGAGCCTTTTTTGGTG
1 AATTATCTAAAGA-TCTTTGTGACAAATTATCTAAAGAGCCTTTTGTGGCG
*
45144185 AATTATCTAAAGACCCTTTGTG
1 AATTATCTAAAGA-TCTTTGTG
45144207 GCGTATTATC
Statistics
Matches: 62, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
50 34 0.55
51 28 0.45
ACGTcount: A:0.31, C:0.14, G:0.18, T:0.37
Consensus pattern (50 bp):
AATTATCTAAAGATCTTTGTGACAAATTATCTAAAGAGCCTTTTGTGGCG
Found at i:45144187 original size:26 final size:26
Alignment explanation
Indices: 45144109--45144218 Score: 129
Period size: 25 Copynumber: 4.3 Consensus size: 26
45144099 GTTTGTGACA
*
45144109 AATTATCTAAAGAGCC-TTTGTGGCG
1 AATTATCTAAAGAGCCTTTTTTGGCG
*
45144134 AATTATATAAAGA--CTCTTTTTGGCG
1 AATTATCTAAAGAGCCT-TTTTTGGCG
*
45144159 AATTATCTAAAGAGCCTTTTTTGGTG
1 AATTATCTAAAGAGCCTTTTTTGGCG
* *
45144185 AATTATCTAAAGA-CCCTTTGTGGCG
1 AATTATCTAAAGAGCCTTTTTTGGCG
*
45144210 TATTATCTA
1 AATTATCTA
45144219 GAATGTCTAG
Statistics
Matches: 73, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
23 1 0.01
25 49 0.67
26 21 0.29
27 2 0.03
ACGTcount: A:0.29, C:0.15, G:0.18, T:0.38
Consensus pattern (26 bp):
AATTATCTAAAGAGCCTTTTTTGGCG
Found at i:45144209 original size:51 final size:50
Alignment explanation
Indices: 45144084--45144218 Score: 171
Period size: 51 Copynumber: 2.7 Consensus size: 50
45144074 CCTTTGGGAA
* * * *
45144084 AATTATCTAAAGATCGTTTGTGACAAATTATCTAAAGAGCCTTTGTGGCG
1 AATTATCTAAAGACCCTTTGTGGCGAATTATCTAAAGAGCCTTTGTGGCG
* * * * *
45144134 AATTATATAAAGACTCTTTTTGGCGAATTATCTAAAGAGCCTTTTTTGGTG
1 AATTATCTAAAGACCCTTTGTGGCGAATTATCTAAAGAGCC-TTTGTGGCG
*
45144185 AATTATCTAAAGACCCTTTGTGGCGTATTATCTA
1 AATTATCTAAAGACCCTTTGTGGCGAATTATCTA
45144219 GAATGTCTAG
Statistics
Matches: 71, Mismatches: 13, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
50 34 0.48
51 37 0.52
ACGTcount: A:0.30, C:0.14, G:0.18, T:0.38
Consensus pattern (50 bp):
AATTATCTAAAGACCCTTTGTGGCGAATTATCTAAAGAGCCTTTGTGGCG
Found at i:45146942 original size:50 final size:50
Alignment explanation
Indices: 45146877--45147000 Score: 176
Period size: 50 Copynumber: 2.5 Consensus size: 50
45146867 CAATGCCACA
* * ** * *
45146877 TCCCAAATATTGTCTTACATGGGAGTTCTCATATCGGTGCCCATGCCATG
1 TCCCAAACATGGTCTTACATGGGACCTCTCATATCGGTGCCAACGCCATG
* *
45146927 TCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATG
1 TCCCAAACATGGTCTTACATGGGACCTCTCATATCGGTGCCAACGCCATG
45146977 TCCCAAACATGGTCTTACATGGGA
1 TCCCAAACATGGTCTTACATGGGA
45147001 TCTCATTCCC
Statistics
Matches: 65, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
50 65 1.00
ACGTcount: A:0.23, C:0.29, G:0.21, T:0.27
Consensus pattern (50 bp):
TCCCAAACATGGTCTTACATGGGACCTCTCATATCGGTGCCAACGCCATG
Found at i:45158843 original size:50 final size:50
Alignment explanation
Indices: 45158736--45158982 Score: 230
Period size: 50 Copynumber: 4.8 Consensus size: 50
45158726 ATTTGGGTAA
* *
45158736 AGAGATCCCATGTAAGATCATGTCTGGGACATGGCATTGGCATCATTGAGGTTATG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-C--CGA-G--ATG
*
45158792 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* *** * * *
45158842 AGAGGTCCCCCATAAGACCATGTTTGGGACATGGCATGGGCACCGATATG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* * * * *
45158892 AGA-ACTCCCATGTAAGACCATATCTGGGATATGTCATTGGCA--GTACAAG
1 AGAGA-TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCG-AGATG
* * * *
45158941 AAACATCCCATGTAAGACCATGTCTGGGACATTGCTTTGGCA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
45158983 TGTTATTATC
Statistics
Matches: 162, Mismatches: 26, Indels: 13
0.81 0.13 0.06
Matches are distributed among these distances:
48 1 0.01
49 37 0.23
50 80 0.49
52 1 0.01
53 2 0.01
55 1 0.01
56 40 0.25
ACGTcount: A:0.28, C:0.21, G:0.27, T:0.24
Consensus pattern (50 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
Found at i:45165014 original size:23 final size:24
Alignment explanation
Indices: 45164973--45165020 Score: 89
Period size: 23 Copynumber: 2.0 Consensus size: 24
45164963 TCATCTTTAA
45164973 TTATGCTTAGTTTTAGTTGTTTCC
1 TTATGCTTAGTTTTAGTTGTTTCC
45164997 TTATGCTTAG-TTTAGTTGTTTCC
1 TTATGCTTAGTTTTAGTTGTTTCC
45165020 T
1 T
45165021 ATATTTTTCC
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 14 0.58
24 10 0.42
ACGTcount: A:0.12, C:0.12, G:0.17, T:0.58
Consensus pattern (24 bp):
TTATGCTTAGTTTTAGTTGTTTCC
Found at i:45169302 original size:15 final size:16
Alignment explanation
Indices: 45169282--45169313 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
45169272 TATAGATATT
45169282 TCATGTTTT-TTGATA
1 TCATGTTTTGTTGATA
45169297 TCATGTTTTGTTGATA
1 TCATGTTTTGTTGATA
45169313 T
1 T
45169314 TTCAAATTCA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.19, C:0.06, G:0.16, T:0.59
Consensus pattern (16 bp):
TCATGTTTTGTTGATA
Found at i:45171019 original size:6 final size:6
Alignment explanation
Indices: 45171008--45171034 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
45170998 GTCGAAACCA
45171008 TTCCTT TTCCTT TTCCTT TTCCTT TTC
1 TTCCTT TTCCTT TTCCTT TTCCTT TTC
45171035 ATCAATGCTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (6 bp):
TTCCTT
Found at i:45176725 original size:2 final size:2
Alignment explanation
Indices: 45176713--45176774 Score: 54
Period size: 2 Copynumber: 31.5 Consensus size: 2
45176703 CAGTTATAAT
* * * * * * *
45176713 TA TA CA TA TA TA TA TA TA TA TA AA T- TA TT TA TT TT TG TA TT
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
45176754 TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA T
45176775 TAACTTTCCA
Statistics
Matches: 48, Mismatches: 11, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
1 1 0.02
2 47 0.98
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.55
Consensus pattern (2 bp):
TA
Found at i:45178157 original size:65 final size:66
Alignment explanation
Indices: 45178053--45178177 Score: 216
Period size: 65 Copynumber: 1.9 Consensus size: 66
45178043 GTTTACAAAC
*
45178053 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAG-AAAAAACGCCGCTAAAGAATTTGA
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGAATTTGA
45178117 A
66 A
*
45178118 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAAAAAAAACGCCTCTAAAGA
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAG-AAAAAAACGCCGCTAAAGA
45178178 CCATGTTCTT
Statistics
Matches: 56, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
65 39 0.70
67 17 0.30
ACGTcount: A:0.40, C:0.22, G:0.19, T:0.19
Consensus pattern (66 bp):
AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGAATTTGA
A
Found at i:45178205 original size:42 final size:42
Alignment explanation
Indices: 45178115--45178273 Score: 241
Period size: 43 Copynumber: 3.8 Consensus size: 42
45178105 TAAAGAATTT
*
45178115 GAAAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTA
1 GAAAAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTA
*
45178157 GAAAAAAAACGCCTCTAAAGACCATGTTCTTTAGCGGCGCTTA
1 G-AAAAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTA
* * * *
45178200 GAAAAAAACG-C-CTAAAAACCATATTCTTTAGCAGTGCTTA
1 GAAAAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTA
45178240 GAAAAAAACGCCGCTAAAGACCATGTTCTTTAGC
1 GAAAAAAACGCCGCTAAAGACCATGTTCTTTAGC
45178274 AGCGTTTATT
Statistics
Matches: 106, Mismatches: 8, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
40 35 0.33
41 2 0.02
42 29 0.27
43 40 0.38
ACGTcount: A:0.38, C:0.22, G:0.18, T:0.23
Consensus pattern (42 bp):
GAAAAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTA
Found at i:45178730 original size:21 final size:21
Alignment explanation
Indices: 45178682--45178731 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 21
45178672 TTTTGGCCTG
* *
45178682 CTCTGCTTCTCTCGCTGTAGC
1 CTCTGCTTCCCTCGCTGCAGC
* * *
45178703 TTTTGCTTCCCTCGCTGCCGC
1 CTCTGCTTCCCTCGCTGCAGC
45178724 CTCTGCTT
1 CTCTGCTT
45178732 TAAGTTGTAG
Statistics
Matches: 22, Mismatches: 7, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.02, C:0.40, G:0.18, T:0.40
Consensus pattern (21 bp):
CTCTGCTTCCCTCGCTGCAGC
Found at i:45184265 original size:9 final size:9
Alignment explanation
Indices: 45184253--45184483 Score: 144
Period size: 9 Copynumber: 26.4 Consensus size: 9
45184243 ATTAAGTCAA
45184253 TTATGTAAG
1 TTATGTAAG
*
45184262 TTATGTACG
1 TTATGTAAG
45184271 TGTA--TAAG
1 T-TATGTAAG
45184279 TTATGTAAG
1 TTATGTAAG
45184288 TTATGT-A-
1 TTATGTAAG
*
45184295 TTAAGTAAG
1 TTATGTAAG
* *
45184304 CTATTTAAG
1 TTATGTAAG
*
45184313 TTGTGT-A-
1 TTATGTAAG
45184320 TTATGTAAG
1 TTATGTAAG
45184329 TTATGTAAG
1 TTATGTAAG
**
45184338 TTATCAAAG
1 TTATGTAAG
* *
45184347 TAATGTATG
1 TTATGTAAG
45184356 TTATGTAAG
1 TTATGTAAG
45184365 -T-TGTAAG
1 TTATGTAAG
*
45184372 TTAT-TATG
1 TTATGTAAG
*
45184380 TATTATGTAGG
1 --TTATGTAAG
*
45184391 TTATGTAGG
1 TTATGTAAG
45184400 TTATGTAAG
1 TTATGTAAG
*
45184409 TTTTGT-A-
1 TTATGTAAG
*
45184416 TTATTTAAG
1 TTATGTAAG
*
45184425 TTGTGTAAG
1 TTATGTAAG
*
45184434 TTATGTATG
1 TTATGTAAG
* *
45184443 CTACGTAAG
1 TTATGTAAG
* *
45184452 TAATGTGTA-
1 TTATGT-AAG
45184461 TTATGTAAG
1 TTATGTAAG
*
45184470 TTTATATAAG
1 -TTATGTAAG
45184480 TTAT
1 TTAT
45184484 TATGTAACTA
Statistics
Matches: 167, Mismatches: 38, Indels: 34
0.70 0.16 0.14
Matches are distributed among these distances:
7 22 0.13
8 16 0.10
9 111 0.66
10 15 0.09
11 3 0.02
ACGTcount: A:0.31, C:0.02, G:0.21, T:0.46
Consensus pattern (9 bp):
TTATGTAAG
Found at i:45184319 original size:25 final size:25
Alignment explanation
Indices: 45184237--45184341 Score: 117
Period size: 25 Copynumber: 4.2 Consensus size: 25
45184227 TGATATATAT
45184237 TTATGTATTAAGTCAA-TTATGTAAG
1 TTATGTATTAAGT-AAGTTATGTAAG
45184262 TTATGTACGTGT-A-TAAGTTATGTAAG
1 TTATGTA--T-TAAGTAAGTTATGTAAG
* *
45184288 TTATGTATTAAGTAAGCTATTTAAG
1 TTATGTATTAAGTAAGTTATGTAAG
* *
45184313 TTGTGTATTATGTAAGTTATGTAAG
1 TTATGTATTAAGTAAGTTATGTAAG
45184338 TTAT
1 TTAT
45184342 CAAAGTAATG
Statistics
Matches: 67, Mismatches: 7, Indels: 12
0.78 0.08 0.14
Matches are distributed among these distances:
23 1 0.01
24 2 0.03
25 44 0.66
26 17 0.25
27 2 0.03
28 1 0.01
ACGTcount: A:0.32, C:0.03, G:0.19, T:0.46
Consensus pattern (25 bp):
TTATGTATTAAGTAAGTTATGTAAG
Found at i:45184337 original size:34 final size:33
Alignment explanation
Indices: 45184252--45184434 Score: 114
Period size: 34 Copynumber: 5.6 Consensus size: 33
45184242 TATTAAGTCA
* * *
45184252 ATTATGTAAGTTATGTACGTGTATAAGTTATGT
1 ATTATGTAAGTTATGTAAGTATTTAAGTTATGT
* *
45184285 AAGTTATGT-A-TTAAGTAAGCTATTTAAGTTGTGT
1 -A-TTATGTAAGTTATGTAAG-TATTTAAGTTATGT
** *
45184319 ATTATGTAAGTTATGTAAGTTATCAAAGTAATGT
1 ATTATGTAAGTTATGTAAG-TATTTAAGTTATGT
45184353 ATGTTATGTAAG-T-TGTAAG---TT-A-TTATGT
1 A--TTATGTAAGTTATGTAAGTATTTAAGTTATGT
* * * *
45184381 ATTATGTAGGTTATGTAGGTTATGTAAGTTTTGT
1 ATTATGTAAGTTATGTAAG-TATTTAAGTTATGT
* *
45184415 ATTATTTAAGTTGTGTAAGT
1 ATTATGTAAGTTATGTAAGT
45184435 TATGTATGCT
Statistics
Matches: 113, Mismatches: 22, Indels: 29
0.69 0.13 0.18
Matches are distributed among these distances:
26 8 0.07
27 1 0.01
28 11 0.10
29 1 0.01
32 7 0.06
33 11 0.10
34 58 0.51
35 7 0.06
36 9 0.08
ACGTcount: A:0.31, C:0.02, G:0.21, T:0.46
Consensus pattern (33 bp):
ATTATGTAAGTTATGTAAGTATTTAAGTTATGT
Found at i:45184416 original size:62 final size:63
Alignment explanation
Indices: 45184316--45184442 Score: 152
Period size: 62 Copynumber: 2.0 Consensus size: 63
45184306 ATTTAAGTTG
45184316 TGTATTATGTAAGTTATGTAAGTTATCAAAGTAATGTATGTTATGTAAG-T-TGTAAGTTAT-TA
1 TGTATTATGTAAGTTATGTAAGTTATCAAAGTAATGTA--TTATGTAAGTTGTGTAAGTTATGTA
* * ** ** *
45184378 TGTATTATGTAGGTTATGTAGGTTATGTAAGTTTTGTATTATTTAAGTTGTGTAAGTTATGTA
1 TGTATTATGTAAGTTATGTAAGTTATCAAAGTAATGTATTATGTAAGTTGTGTAAGTTATGTA
45184441 TG
1 TG
45184443 CTACGTAAGT
Statistics
Matches: 55, Mismatches: 7, Indels: 5
0.82 0.10 0.07
Matches are distributed among these distances:
60 8 0.15
61 1 0.02
62 42 0.76
63 4 0.07
ACGTcount: A:0.29, C:0.01, G:0.22, T:0.48
Consensus pattern (63 bp):
TGTATTATGTAAGTTATGTAAGTTATCAAAGTAATGTATTATGTAAGTTGTGTAAGTTATGTA
Found at i:45184419 original size:25 final size:25
Alignment explanation
Indices: 45184375--45184483 Score: 51
Period size: 25 Copynumber: 4.2 Consensus size: 25
45184365 TTGTAAGTTA
* *
45184375 TTATGTATTATGTAGGTTATGTAGG
1 TTATGTATTATGTAAGTTATGTAAG
* *
45184400 TTATGTAAGTTTTGT-A-TTATTTAAG
1 TTATGT-A-TTATGTAAGTTATGTAAG
* * * *
45184425 TTGTGTAAGTTATGTATGCTACGTAAG
1 TTATGT-A-TTATGTAAGTTATGTAAG
* *
45184452 TAATGTGTATTATGTAAGTTTATATAAG
1 T--TATGTATTATGTAAG-TTATGTAAG
45184480 TTAT
1 TTAT
45184484 TATGTAACTA
Statistics
Matches: 62, Mismatches: 15, Indels: 13
0.69 0.17 0.14
Matches are distributed among these distances:
25 26 0.42
26 3 0.05
27 20 0.32
28 8 0.13
29 5 0.08
ACGTcount: A:0.28, C:0.02, G:0.21, T:0.49
Consensus pattern (25 bp):
TTATGTATTATGTAAGTTATGTAAG
Found at i:45184424 original size:16 final size:16
Alignment explanation
Indices: 45184378--45184431 Score: 54
Period size: 16 Copynumber: 3.2 Consensus size: 16
45184368 TAAGTTATTA
* *
45184378 TGTATTATGTAGGTTA
1 TGTATTATGTAAGTTG
*
45184394 TGTAGGTTATGTAAGTTT
1 TGTA--TTATGTAAGTTG
*
45184412 TGTATTATTTAAGTTG
1 TGTATTATGTAAGTTG
45184428 TGTA
1 TGTA
45184432 AGTTATGTAT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
16 18 0.56
18 14 0.44
ACGTcount: A:0.24, C:0.00, G:0.24, T:0.52
Consensus pattern (16 bp):
TGTATTATGTAAGTTG
Found at i:45185160 original size:13 final size:13
Alignment explanation
Indices: 45185142--45185188 Score: 53
Period size: 13 Copynumber: 3.6 Consensus size: 13
45185132 CAAATTTTAG
45185142 TAAGTAATGTATT
1 TAAGTAATGTATT
45185155 TAAGTAAAT-TATT
1 TAAGT-AATGTATT
45185168 TAAGTAA-GATATT
1 TAAGTAATG-TATT
*
45185181 CAAGTAAT
1 TAAGTAAT
45185189 ATAATAAAGT
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
12 2 0.07
13 24 0.83
14 3 0.10
ACGTcount: A:0.45, C:0.02, G:0.13, T:0.40
Consensus pattern (13 bp):
TAAGTAATGTATT
Found at i:45185216 original size:17 final size:17
Alignment explanation
Indices: 45185194--45185227 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
45185184 GTAATATAAT
45185194 AAAGTAAATTTTAGTAA
1 AAAGTAAATTTTAGTAA
**
45185211 AAAGTATTTTTTAGTAA
1 AAAGTAAATTTTAGTAA
45185228 GTAATATGTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.12, T:0.41
Consensus pattern (17 bp):
AAAGTAAATTTTAGTAA
Found at i:45186758 original size:44 final size:44
Alignment explanation
Indices: 45186673--45186759 Score: 120
Period size: 44 Copynumber: 2.0 Consensus size: 44
45186663 GAAAAACATT
* **
45186673 TTTGCGGCGTTTTAAGCAAAGCGCCACAAAATATAGGTCAAAAA
1 TTTGCGGCGTTTTAAACAAAGCGCCACAAAATATAACTCAAAAA
* * *
45186717 TTTGCGGCGTTTTAAACTAAGCGCCACTAACTATAACTCAAAA
1 TTTGCGGCGTTTTAAACAAAGCGCCACAAAATATAACTCAAAA
45186760 TGCGGTCGTT
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
44 37 1.00
ACGTcount: A:0.37, C:0.21, G:0.17, T:0.25
Consensus pattern (44 bp):
TTTGCGGCGTTTTAAACAAAGCGCCACAAAATATAACTCAAAAA
Found at i:45187534 original size:8 final size:7
Alignment explanation
Indices: 45187495--45187534 Score: 62
Period size: 7 Copynumber: 5.6 Consensus size: 7
45187485 TTAAACATCA
45187495 AAACCCC
1 AAACCCC
45187502 AAACCCC
1 AAACCCC
*
45187509 AAACCCT
1 AAACCCC
45187516 AAACCCC
1 AAACCCC
45187523 AAACCCCC
1 AAA-CCCC
45187531 AAAC
1 AAAC
45187535 AGTAAAAGTC
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
7 23 0.77
8 7 0.23
ACGTcount: A:0.45, C:0.53, G:0.00, T:0.03
Consensus pattern (7 bp):
AAACCCC
Found at i:45188133 original size:29 final size:29
Alignment explanation
Indices: 45188099--45188155 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 29
45188089 TAAAGCCTAA
*
45188099 CCTGACACTGAATCTATAAACCTTAAATC
1 CCTGACACTGAATCTATAAACCCTAAATC
* * *
45188128 CCTGACTCTTAATCTATAACCCCTAAAT
1 CCTGACACTGAATCTATAAACCCTAAAT
45188156 TACAACCCTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.35, C:0.30, G:0.05, T:0.30
Consensus pattern (29 bp):
CCTGACACTGAATCTATAAACCCTAAATC
Found at i:45188774 original size:114 final size:113
Alignment explanation
Indices: 45188617--45189158 Score: 392
Period size: 114 Copynumber: 4.8 Consensus size: 113
45188607 TCAATAAAAG
* * *** *
45188617 CGCCGCTAATACTATGC-TTCAGCGGCGTTT-TCCCATTTGCGCCACTAATTCCAGTATACATCA
1 CGCCGCTAATACTATACATT-AGCGGCGTTTCT-TCATAAACGCCACTAATTCCAATATACATCA
* *
45188680 AGAACTAAACGCTGTGTTTTGGTTAAGATACTTTGCAGCGCGTTCCA-C-AAA
64 AG-ACCAAACGCTGCGTTTTGGTTAAGAT-CTTTGCAG-GCGTTCCAGCTAAA
* * * *
45188731 CGCCGCTAATGA-TATACTTTAGCGGCGTTT-TTCATCAAACGCCACTAATTCTAATACACCTCA
1 CGCCGCTAAT-ACTATACATTAGCGGCGTTTCTTCAT-AAACGCCACTAATTCCAATATACATCA
* * *
45188794 AGACCAAACTCTGCGTTTTGGTTAAGATATTTTG-AGGCGCTTACCA-CCAAA
64 AGACCAAACGCTGCGTTTTGGTTAAGAT-CTTTGCAGGCG-TT-CCAGCTAAA
** * * * * * ** *
45188845 CGTTGCT-ATAACTATCCTTTA-CTGGCGTTT-TCCTTAAACACCACTAATTATATTATACATCA
1 CGCCGCTAAT-ACTATACATTAGC-GGCGTTTCTTCATAAACGCCACTAATTCCAATATACATCA
* * ** ***
45188907 AGACCAACACGCTGCGTTTTGATTAAGATGTCTTGC-GGCGTTTAAGGCTCTG
64 AGACCAA-ACGCTGCGTTTTGGTTAAGATCT-TTGCAGGCGTTCCA-GCTAAA
* * **
45188959 CGCCGCTAATACTATACATTAGCGGCGTTTTCTTTATAAGCGCCACTAATTGAAATATACATCAA
1 CGCCGCTAATACTATACATTAGCGGCG-TTTCTTCATAAACGCCACTAATTCCAATATACATCAA
* * * *
45189024 GGCCAAACTCTGCGTTTTGGTTAACATCTTTTGC-GGCGCTTCCA-CTAAG
65 GACCAAACGCTGCGTTTTGGTTAAGATC-TTTGCAGGCG-TTCCAGCTAAA
* * * * * *
45189073 CGCCGCTAATACTATACATTACCGGCGTTTGTTCGTAAGCGCCACTAATGCCAATATACATCAAC
1 CGCCGCTAATACTATACATTAGCGGCGTTTCTTCATAAACGCCACTAATTCCAATATACATCAAG
*
45189138 ACCAGAACGCTGCGTGTTGGT
66 ACCA-AACGCTGCGTTTTGGT
45189159 CTTGAGATTT
Statistics
Matches: 343, Mismatches: 65, Indels: 40
0.77 0.15 0.09
Matches are distributed among these distances:
111 3 0.01
112 5 0.01
113 105 0.31
114 161 0.47
115 35 0.10
116 34 0.10
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.31
Consensus pattern (113 bp):
CGCCGCTAATACTATACATTAGCGGCGTTTCTTCATAAACGCCACTAATTCCAATATACATCAAG
ACCAAACGCTGCGTTTTGGTTAAGATCTTTGCAGGCGTTCCAGCTAAA
Found at i:45189120 original size:229 final size:228
Alignment explanation
Indices: 45188731--45189152 Score: 512
Period size: 229 Copynumber: 1.8 Consensus size: 228
45188721 GTTCCACAAA
* * *
45188731 CGCCGCTAATGATATACTTTAGCGGCGTTTTTCATCAAACGCCACTAATTCTAATACACCTCAAG
1 CGCCGCTAATGATATACATTAGCGGCGTTTTTCATCAAACGCCACTAATTCAAATACACATCAAG
* ** *
45188796 ACCAAACTCTGCGTTTTGGTTAAGATATTTTGAGGCGCTTACCACCAAACGTTGCTATAACTATC
66 ACCAAACTCTGCGTTTTGGTTAACATATTTTGAGGCGCTTACCACCAAACGCCGCTATAACTATA
* * * * * * *
45188861 CTTTACTGGCGTTTTCCTTAAACACCACTAATTATATTATACATCAAGACCA-ACACGCTGCGTT
131 CATTACCGGCGTTTTCCGTAAACACCACTAATGACAATATACATCAACACCAGA-ACGCTGCGTT
45188925 TTGATTAAGATGTCTTGCGGCGTTTAAGGCTCTG
195 TTGATTAAGATGTCTTGCGGCGTTTAAGGCTCTG
* * * *
45188959 CGCCGCTAAT-ACTATACATTAGCGGCGTTTTCTTTAT-AAGCGCCACTAATTGAAATATACATC
1 CGCCGCTAATGA-TATACATTAGCGGCG-TTT-TTCATCAAACGCCACTAATTCAAATACACATC
* * * * *
45189022 AAGGCCAAACTCTGCGTTTTGGTTAACATCTTTTGCGGCGCTT-CCACTAAGCGCCGCTA-ATAC
63 AAGACCAAACTCTGCGTTTTGGTTAACATATTTTGAGGCGCTTACCACCAAACGCCGCTATA-AC
* * * *
45189085 TATACATTACCGGCGTTTGTTCGTAAGCGCCACTAATGCCAATATACATCAACACCAGAACGCTG
127 TATACATTACCGGCGTTT-TCCGTAAACACCACTAATGACAATATACATCAACACCAGAACGCTG
45189150 CGT
191 CGT
45189153 GTTGGTCTTG
Statistics
Matches: 161, Mismatches: 27, Indels: 11
0.81 0.14 0.06
Matches are distributed among these distances:
227 2 0.01
228 53 0.33
229 101 0.63
230 5 0.03
ACGTcount: A:0.27, C:0.25, G:0.17, T:0.31
Consensus pattern (228 bp):
CGCCGCTAATGATATACATTAGCGGCGTTTTTCATCAAACGCCACTAATTCAAATACACATCAAG
ACCAAACTCTGCGTTTTGGTTAACATATTTTGAGGCGCTTACCACCAAACGCCGCTATAACTATA
CATTACCGGCGTTTTCCGTAAACACCACTAATGACAATATACATCAACACCAGAACGCTGCGTTT
TGATTAAGATGTCTTGCGGCGTTTAAGGCTCTG
Found at i:45190091 original size:28 final size:27
Alignment explanation
Indices: 45190034--45190117 Score: 64
Period size: 28 Copynumber: 3.0 Consensus size: 27
45190024 AATAAGTAAT
* * *
45190034 AATAAAATATTATTTAATATAAGTAT-A
1 AATACAATATTATTTTATTTAA-TATAA
**
45190061 AATTTAATATATATTTTATTTAATATAA
1 AATACAATAT-TATTTTATTTAATATAA
*
45190089 AATACAATTATTTATTTTACTT-ATATAA
1 AATACAA-TA-TTATTTTATTTAATATAA
45190117 A
1 A
45190118 TTAATTTAAT
Statistics
Matches: 46, Mismatches: 7, Indels: 7
0.77 0.12 0.12
Matches are distributed among these distances:
27 11 0.24
28 23 0.50
29 11 0.24
30 1 0.02
ACGTcount: A:0.49, C:0.02, G:0.01, T:0.48
Consensus pattern (27 bp):
AATACAATATTATTTTATTTAATATAA
Found at i:45195105 original size:21 final size:21
Alignment explanation
Indices: 45195075--45195115 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
45195065 TTAAATTAAA
*
45195075 TAAAAAATATGAA-AATTTTG
1 TAAAAAATATCAATAATTTTG
45195095 TAAATAAATATCAATAATTTT
1 TAAA-AAATATCAATAATTTT
45195116 ATTTAAATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 8 0.44
22 6 0.33
ACGTcount: A:0.54, C:0.02, G:0.05, T:0.39
Consensus pattern (21 bp):
TAAAAAATATCAATAATTTTG
Found at i:45196141 original size:24 final size:23
Alignment explanation
Indices: 45196087--45196141 Score: 56
Period size: 24 Copynumber: 2.3 Consensus size: 23
45196077 ATACATACTC
*
45196087 AATATATTAATAAAATTTTAATTT
1 AATAT-TTAATAAAACTTTAATTT
** *
45196111 ACCATTTAATTAAAACTTTATTTT
1 AATATTTAA-TAAAACTTTAATTT
45196135 AATATTT
1 AATATTT
45196142 TTATCATTTT
Statistics
Matches: 24, Mismatches: 6, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
23 4 0.17
24 20 0.83
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.51
Consensus pattern (23 bp):
AATATTTAATAAAACTTTAATTT
Found at i:45201868 original size:11 final size:11
Alignment explanation
Indices: 45201852--45201880 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
45201842 CCACCACATT
45201852 CTCCTCCTTAG
1 CTCCTCCTTAG
45201863 CTCCTCCTTAG
1 CTCCTCCTTAG
45201874 CTCCTCC
1 CTCCTCC
45201881 CTTATTAAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.07, C:0.52, G:0.07, T:0.34
Consensus pattern (11 bp):
CTCCTCCTTAG
Found at i:45204516 original size:30 final size:31
Alignment explanation
Indices: 45204462--45204521 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 31
45204452 TTAACATCCC
45204462 AGTGACTTAAATAAAAACTTTTGAATAGTTT
1 AGTGACTTAAATAAAAACTTTTGAATAGTTT
* *
45204493 AGTGGCTTAAAT-AAAATTTTTGAATAGTT
1 AGTGACTTAAATAAAAACTTTTGAATAGTT
45204522 CAATAACCAT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 16 0.59
31 11 0.41
ACGTcount: A:0.40, C:0.05, G:0.15, T:0.40
Consensus pattern (31 bp):
AGTGACTTAAATAAAAACTTTTGAATAGTTT
Found at i:45205718 original size:22 final size:22
Alignment explanation
Indices: 45205690--45205731 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
45205680 ATCATTAATT
*
45205690 AAACCAAAGCCTCAACAAACAA
1 AAACCAAAACCTCAACAAACAA
*
45205712 AAACCAAAATCTCAACAAAC
1 AAACCAAAACCTCAACAAAC
45205732 CCAATAACTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.60, C:0.31, G:0.02, T:0.07
Consensus pattern (22 bp):
AAACCAAAACCTCAACAAACAA
Found at i:45210081 original size:45 final size:45
Alignment explanation
Indices: 45209994--45210172 Score: 211
Period size: 45 Copynumber: 4.0 Consensus size: 45
45209984 AATAATAACA
* * * * * *
45209994 GATACACGGTGG-ATTAGCACATAGC-ACCACCCTTATAGTCAAT
1 GATACATGGTGGAATCAGCACACAACAACCACCTTTATAATCAAT
* * * *
45210037 GATACTTGGTGGAATCAGCACATAGCAACCACCTTCATAATCAAT
1 GATACATGGTGGAATCAGCACACAACAACCACCTTTATAATCAAT
* *
45210082 AGA-AAATGGTGGAATCAGCACACAACAACCACCTTTATAATAAAT
1 -GATACATGGTGGAATCAGCACACAACAACCACCTTTATAATCAAT
*
45210127 GATACCTGGTGGAATCAGCACACAACAACCACCTTTATAATCAAT
1 GATACATGGTGGAATCAGCACACAACAACCACCTTTATAATCAAT
45210172 G
1 G
45210173 GTACCCGGTA
Statistics
Matches: 117, Mismatches: 15, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
43 10 0.09
44 14 0.12
45 91 0.78
46 2 0.02
ACGTcount: A:0.38, C:0.24, G:0.16, T:0.22
Consensus pattern (45 bp):
GATACATGGTGGAATCAGCACACAACAACCACCTTTATAATCAAT
Found at i:45214741 original size:16 final size:17
Alignment explanation
Indices: 45214715--45214763 Score: 55
Period size: 16 Copynumber: 2.9 Consensus size: 17
45214705 TAGAATTGAG
*
45214715 TTGAGAAAATTATTTAA
1 TTGAGAAAATTAATTAA
45214732 TTGA-AAAATTAATTAA
1 TTGAGAAAATTAATTAA
* *
45214748 TTAATTAAAATTAATT
1 TTGA-GAAAATTAATT
45214764 TATGATTATT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
16 14 0.50
17 4 0.14
18 10 0.36
ACGTcount: A:0.51, C:0.00, G:0.06, T:0.43
Consensus pattern (17 bp):
TTGAGAAAATTAATTAA
Found at i:45214745 original size:20 final size:18
Alignment explanation
Indices: 45214722--45214763 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 18
45214712 GAGTTGAGAA
*
45214722 AATTATTTAATTGAAAAATT
1 AATTAATTAATT--AAAATT
45214742 AATTAATTAATTAAAATT
1 AATTAATTAATTAAAATT
45214760 AATT
1 AATT
45214764 TATGATTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 10 0.48
20 11 0.52
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (18 bp):
AATTAATTAATTAAAATT
Found at i:45215553 original size:26 final size:27
Alignment explanation
Indices: 45215505--45215555 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
45215495 AGTGTTCATC
*
45215505 TCTTTTTTCACTTATTATGTATTGTGT
1 TCTTTTTTCACTTATCATGTATTGTGT
45215532 TCTTTTTTCTAC-TATCAT-TATTGT
1 TCTTTTTTC-ACTTATCATGTATTGT
45215556 TAAAACTTCT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
26 6 0.27
27 14 0.64
28 2 0.09
ACGTcount: A:0.16, C:0.14, G:0.08, T:0.63
Consensus pattern (27 bp):
TCTTTTTTCACTTATCATGTATTGTGT
Found at i:45217263 original size:109 final size:110
Alignment explanation
Indices: 45217064--45217380 Score: 471
Period size: 110 Copynumber: 2.9 Consensus size: 110
45217054 AGAATTCAAG
* * * * *
45217064 AGGATATTTGGCTATTTGGTTCAATGAG--AAATCAAAACCCAGCACATTAGGGCACG-TTCCTT
1 AGGATATTTGGCTATTTGGTTGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGTTTTCTC
* *
45217126 GAATTTCCAAACGCAAAACATTACCTTATTTTGAAA-TTTTTGAA
66 GAATTTCCAAACGCAAAACATTGCCTTATTTTGAAATTTTTTAAA
*
45217170 AGGATATTTGGCTATTTGGTTGAACGAGAAAAATCGAAACCCAGCATATTAGGGCACGTTTTCTC
1 AGGATATTTGGCTATTTGGTTGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGTTTTCTC
45217235 GAATTTCCAAACGCAAAACATTGCCTTATTTTGAAATTTTTTAAA
66 GAATTTCCAAACGCAAAACATTGCCTTATTTTGAAATTTTTTAAA
* ** *
45217280 AGGATACTTAACTATTTGGTTGAACGAGAAAAATCGAAACCCAACACATTAGGGCACGTTTTCTC
1 AGGATATTTGGCTATTTGGTTGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGTTTTCTC
* * *
45217345 GAATTTCCAAACGCTAAATATTGCCTTATTTAGAAA
66 GAATTTCCAAACGCAAAACATTGCCTTATTTTGAAA
45217381 AATTTTCCTT
Statistics
Matches: 191, Mismatches: 16, Indels: 4
0.91 0.08 0.02
Matches are distributed among these distances:
106 26 0.14
108 26 0.14
109 39 0.20
110 100 0.52
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.31
Consensus pattern (110 bp):
AGGATATTTGGCTATTTGGTTGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGTTTTCTC
GAATTTCCAAACGCAAAACATTGCCTTATTTTGAAATTTTTTAAA
Found at i:45217720 original size:22 final size:22
Alignment explanation
Indices: 45217679--45217720 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
45217669 AGATAAAATA
* *
45217679 TAATATATATATATACATATTT
1 TAATATATAAAAATACATATTT
*
45217701 TAATATATAAAAATATATAT
1 TAATATATAAAAATACATAT
45217721 ATGAATAAGT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (22 bp):
TAATATATAAAAATACATATTT
Found at i:45217727 original size:22 final size:21
Alignment explanation
Indices: 45217676--45217727 Score: 50
Period size: 22 Copynumber: 2.4 Consensus size: 21
45217666 GTAAGATAAA
* *
45217676 ATATAATATATATATATACAT
1 ATATAATATATAAAAATACAT
* *
45217697 ATTTTAATATATAAAAATATAT
1 A-TATAATATATAAAAATACAT
45217719 ATATGAATA
1 ATAT-AATA
45217728 AGTATACACA
Statistics
Matches: 24, Mismatches: 5, Indels: 3
0.75 0.16 0.09
Matches are distributed among these distances:
21 3 0.12
22 21 0.88
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (21 bp):
ATATAATATATAAAAATACAT
Found at i:45217873 original size:3 final size:3
Alignment explanation
Indices: 45217865--45217938 Score: 62
Period size: 3 Copynumber: 24.3 Consensus size: 3
45217855 AAGCTATTAT
* * * *
45217865 ATA ATA AT- ATG ATA AGTA ACA ATA AT- ATAA ACA ATA ATA AAA ATA
1 ATA ATA ATA ATA ATA A-TA ATA ATA ATA AT-A ATA ATA ATA ATA ATA
*
45217910 AAA ATAA ATA ATA ATA ATA ATA ATA ATA A
1 ATA AT-A ATA ATA ATA ATA ATA ATA ATA A
45217939 AATTTCTGGA
Statistics
Matches: 57, Mismatches: 9, Indels: 10
0.75 0.12 0.13
Matches are distributed among these distances:
2 4 0.07
3 46 0.81
4 7 0.12
ACGTcount: A:0.68, C:0.03, G:0.03, T:0.27
Consensus pattern (3 bp):
ATA
Found at i:45217916 original size:22 final size:22
Alignment explanation
Indices: 45217891--45217939 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
45217881 TAACAATAAT
45217891 ATAAACAATAATAAAAATAAAA
1 ATAAACAATAATAAAAATAAAA
* * *
45217913 ATAAATAATAATAATAATAATA
1 ATAAACAATAATAAAAATAAAA
45217935 ATAAA
1 ATAAA
45217940 ATTTCTGGAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.24
Consensus pattern (22 bp):
ATAAACAATAATAAAAATAAAA
Found at i:45217921 original size:19 final size:19
Alignment explanation
Indices: 45217897--45217935 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
45217887 TAATATAAAC
45217897 AATAATAAAAATAAAAATA
1 AATAATAAAAATAAAAATA
* *
45217916 AATAATAATAATAATAATA
1 AATAATAAAAATAAAAATA
45217935 A
1 A
45217936 TAAAATTTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (19 bp):
AATAATAAAAATAAAAATA
Found at i:45219631 original size:132 final size:130
Alignment explanation
Indices: 45219387--45219845 Score: 676
Period size: 132 Copynumber: 3.5 Consensus size: 130
45219377 TTAGGGGGAC
*
45219387 AGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCGCCATCTTCGATCT
1 AGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCTTCGATCT
* * * ***
45219452 GCTCCACTACTTCTTAGGGAGATTAGATCTGCAATCTTCAATCTATTCCATTGCTGCCCAGGGAG
66 GCT-CACTAC-TCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGCCAACCAGGGAG
45219517 AT
129 AT
* * *
45219519 AAAATTTCTGGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAAT-TCGCCATCTTCGATC
1 AGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCT-GCCATCTTCGATC
*
45219583 TGCTCTACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTACCAACCAGGGA
65 TGCTC-ACTACT-CTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGCCAACCAGGGA
45219648 GAT
128 GAT
* * *
45219651 AGAATTACTGGCTTCAATGTACTCCACTGTAATCACAGGGAGGTAAAATCTTCCATCTTCTATCT
1 AGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCTTCGATCT
* * *
45219716 ACTC-C-A--CTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGCCAATCAGAGAGAT
66 GCTCACTACTCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGCCAACCAGGGAGAT
*
45219777 AGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCTTCGGTCT
1 AGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCTTCGATCT
45219842 GCTC
66 GCTC
45219846 CACTGTCGAT
Statistics
Matches: 297, Mismatches: 26, Indels: 14
0.88 0.08 0.04
Matches are distributed among these distances:
126 116 0.39
129 1 0.00
130 1 0.00
131 2 0.01
132 176 0.59
133 1 0.00
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.29
Consensus pattern (130 bp):
AGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCTTCGATCT
GCTCACTACTCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGCCAACCAGGGAGAT
Found at i:45219889 original size:45 final size:45
Alignment explanation
Indices: 45219840--45219982 Score: 134
Period size: 45 Copynumber: 3.2 Consensus size: 45
45219830 CATCTTCGGT
45219840 CTGCTCCACTGTCGATGCAGGAGGGCAAGATCTGCTATCTTCAAC
1 CTGCTCCACTGTCGATGCAGGAGGGCAAGATCTGCTATCTTCAAC
* ** * * *
45219885 CTGCTCCACT-AC-AACCGAGG-GAGGCAAG-GCTTG-TGTCTTCAAT
1 CTGCTCCACTGTCGATGC-AGGAG-GGCAAGATC-TGCTATCTTCAAC
* * * *
45219928 CTGCTTCGCTGTCGATGCAGGAAGGCAAAATCTGCTATCTTCAAC
1 CTGCTCCACTGTCGATGCAGGAGGGCAAGATCTGCTATCTTCAAC
45219973 CTGCTCCACT
1 CTGCTCCACT
45219983 ACTGCTCAGG
Statistics
Matches: 72, Mismatches: 18, Indels: 16
0.68 0.17 0.15
Matches are distributed among these distances:
43 20 0.28
44 23 0.32
45 29 0.40
ACGTcount: A:0.22, C:0.29, G:0.23, T:0.25
Consensus pattern (45 bp):
CTGCTCCACTGTCGATGCAGGAGGGCAAGATCTGCTATCTTCAAC
Found at i:45221308 original size:12 final size:12
Alignment explanation
Indices: 45221291--45221343 Score: 54
Period size: 12 Copynumber: 4.2 Consensus size: 12
45221281 CCTCTCCTTC
45221291 CTTTTTTCTTTT
1 CTTTTTTCTTTT
45221303 CTTTTTTCTTCTT
1 CTTTTTTCTT-TT
*
45221316 -TTTCCTCTTTTTTT
1 CTTT--T-TTCTTTT
45221330 CTTTTTTCTTTT
1 CTTTTTTCTTTT
45221342 CT
1 CT
45221344 GAATCTGAAC
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
12 21 0.62
13 3 0.09
14 3 0.09
15 7 0.21
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (12 bp):
CTTTTTTCTTTT
Found at i:45221309 original size:7 final size:7
Alignment explanation
Indices: 45221291--45221341 Score: 50
Period size: 7 Copynumber: 6.7 Consensus size: 7
45221281 CCTCTCCTTC
45221291 CTTTTTT
1 CTTTTTT
45221298 CTTTTCTT
1 CTTTT-TT
45221306 -TTTTCTT
1 CTTTT-TT
45221313 CTTTTTCCT
1 CTTTTT--T
45221322 CTTTTTTT
1 C-TTTTTT
45221330 CTTTTTT
1 CTTTTTT
45221337 CTTTT
1 CTTTT
45221342 CTGAATCTGA
Statistics
Matches: 39, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
7 24 0.62
8 8 0.21
9 2 0.05
10 5 0.13
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (7 bp):
CTTTTTT
Found at i:45225807 original size:109 final size:110
Alignment explanation
Indices: 45225613--45225928 Score: 428
Period size: 109 Copynumber: 2.9 Consensus size: 110
45225603 AGAATTCAAG
* * *
45225613 AGGATATTTGGCTATTTGGTT-AA--ATAAGAAATCAAAACCCAGCACATTAGGGCACG-TTCCT
1 AGGATATTTGGCTATTTGGTTGAACGAGAA-AAATCGAAACCCAGCACATTAGGGCACGTTTTCT
* *
45225674 CGAATTTCCAAACACAAAACATTGCCTTATTTTGAAA-TTTTTGAA
65 CGAATTTCCAAACGCAAAACATTGCCTTATTTTGAAATTTTTTAAA
* *
45225719 AGGATATTTGGCTATTTGGTTGAACGAGAAAAATTGAAACCCAGCATATTAGGGCACGTTTTCTC
1 AGGATATTTGGCTATTTGGTTGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGTTTTCTC
45225784 GAATTTCCAAACGCAAAACATTGCCTTATTTTGAAATTTTTTAAA
66 GAATTTCCAAACGCAAAACATTGCCTTATTTTGAAATTTTTTAAA
* ** * * *
45225829 AGGATACTTAACTA-TTGGTTGAACGAGAAAAATCGAAACCCAACACATTAGGGCACGTTTTATT
1 AGGATATTTGGCTATTTGGTTGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGTTTTCTC
* * * *
45225893 GAATTTGCAAACGCTAAATATTGCCTTATTTAGAAA
66 GAATTTCCAAACGCAAAACATTGCCTTATTTTGAAA
45225929 AATTTTCCTT
Statistics
Matches: 186, Mismatches: 19, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
106 21 0.11
107 2 0.01
108 25 0.13
109 120 0.65
110 18 0.10
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.31
Consensus pattern (110 bp):
AGGATATTTGGCTATTTGGTTGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGTTTTCTC
GAATTTCCAAACGCAAAACATTGCCTTATTTTGAAATTTTTTAAA
Found at i:45226219 original size:2 final size:2
Alignment explanation
Indices: 45226207--45226261 Score: 53
Period size: 2 Copynumber: 29.0 Consensus size: 2
45226197 GTAAGATAAA
* * *
45226207 AT AT A- AT AT AT AT AT AT AT AT AA AT AT AC AT AT -T TT A- AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
45226246 AT AT AA AT AT AT AT AT
1 AT AT AT AT AT AT AT AT
45226262 GAATAAGTAT
Statistics
Matches: 43, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
1 3 0.07
2 40 0.93
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:45226406 original size:3 final size:3
Alignment explanation
Indices: 45226400--45226454 Score: 51
Period size: 3 Copynumber: 18.3 Consensus size: 3
45226390 AAGTTATTAT
* * *
45226400 ATA ATA AT- ATG ATA AGTA ACA ATA AT- ATAA ACA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA A-TA ATA ATA ATA AT-A ATA ATA ATA ATA ATA
45226445 ATA ATA ATA A
1 ATA ATA ATA A
45226455 AATTACTGAA
Statistics
Matches: 43, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
2 4 0.09
3 35 0.81
4 4 0.09
ACGTcount: A:0.64, C:0.04, G:0.04, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:45228239 original size:16 final size:16
Alignment explanation
Indices: 45228218--45228251 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
45228208 GAAGATAATT
45228218 TATCATTCACTACCTA
1 TATCATTCACTACCTA
45228234 TATCATTCACTACCTA
1 TATCATTCACTACCTA
45228250 TA
1 TA
45228252 ATCAACTTGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.32, C:0.29, G:0.00, T:0.38
Consensus pattern (16 bp):
TATCATTCACTACCTA
Found at i:45228596 original size:26 final size:27
Alignment explanation
Indices: 45228567--45228617 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
45228557 TAAAATAGGG
* *
45228567 TTTGTT-GTATTTTCGTCACTCTAAAT
1 TTTGTTCGTAATTTAGTCACTCTAAAT
*
45228593 TTTGTTCTTAATTTAGTCACTCTAA
1 TTTGTTCGTAATTTAGTCACTCTAA
45228618 TTAAGATTAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 6 0.29
27 15 0.71
ACGTcount: A:0.22, C:0.16, G:0.10, T:0.53
Consensus pattern (27 bp):
TTTGTTCGTAATTTAGTCACTCTAAAT
Found at i:45233304 original size:37 final size:37
Alignment explanation
Indices: 45233249--45233328 Score: 142
Period size: 37 Copynumber: 2.2 Consensus size: 37
45233239 ATAATAATTT
*
45233249 AATTAAATTATCCAATTCAATTACTTAAAAATACTTA
1 AATTCAATTATCCAATTCAATTACTTAAAAATACTTA
*
45233286 AATTCAATTATCCAATTCAATTACTTTAAAATACTTA
1 AATTCAATTATCCAATTCAATTACTTAAAAATACTTA
45233323 AATTCA
1 AATTCA
45233329 TGTAATTGAA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 41 1.00
ACGTcount: A:0.46, C:0.15, G:0.00, T:0.39
Consensus pattern (37 bp):
AATTCAATTATCCAATTCAATTACTTAAAAATACTTA
Found at i:45234143 original size:15 final size:15
Alignment explanation
Indices: 45234123--45234158 Score: 72
Period size: 15 Copynumber: 2.4 Consensus size: 15
45234113 ACAAGGTCCT
45234123 AAAACCTTATTTCCC
1 AAAACCTTATTTCCC
45234138 AAAACCTTATTTCCC
1 AAAACCTTATTTCCC
45234153 AAAACC
1 AAAACC
45234159 ACTTGACTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.39, C:0.33, G:0.00, T:0.28
Consensus pattern (15 bp):
AAAACCTTATTTCCC
Found at i:45237271 original size:39 final size:39
Alignment explanation
Indices: 45237204--45237342 Score: 152
Period size: 39 Copynumber: 3.6 Consensus size: 39
45237194 CATGTTTTTT
* *
45237204 AGTATTGCGATATATGATTGAATGTTATGTGATTATATA
1 AGTATTGCGATATATGCTTAAATGTTATGTGATTATATA
* ** * *
45237243 AGTATTGCGATATGTGCTTAAACATTATGTAATTATATG
1 AGTATTGCGATATATGCTTAAATGTTATGTGATTATATA
* * *
45237282 AGTATCGTGATATATGCTTAAATGTTATGTGATTATATG
1 AGTATTGCGATATATGCTTAAATGTTATGTGATTATATA
* * * *
45237321 TGTAATGTGATATATGTTTAAA
1 AGTATTGCGATATATGCTTAAA
45237343 AGTGAATATG
Statistics
Matches: 83, Mismatches: 17, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
39 83 1.00
ACGTcount: A:0.33, C:0.04, G:0.19, T:0.43
Consensus pattern (39 bp):
AGTATTGCGATATATGCTTAAATGTTATGTGATTATATA
Found at i:45242646 original size:50 final size:50
Alignment explanation
Indices: 45242571--45242965 Score: 316
Period size: 50 Copynumber: 7.7 Consensus size: 50
45242561 TTTTCTGTAT
* * ** *
45242571 TGCCAATGCCATATCCCAGATATGGTCTTACATGAGAGTTCTCATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATATCGA
* * ** * *
45242621 TGCCCATGCCATGTCCTAGACATGGTCTTACGGGGGACCTCTCATCTCGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATATCGA
* * * * *
45242671 TGCCAACGCCATGTCCCAAACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATATCGA
* * * *
45242721 TGCCAACGCTATGTCCTAGACATGGTCTTACATGGGACCTCTCATAATCTCAATGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCAT-A--TC---GA
* * *
45242777 TGCCAATGTCATGTCCTAGACATGGTCTTACATGAGACTTCTCATAATCTCAATGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCAT-A--TC---GA
* * *
45242833 TGCCAATGCCATGTCCCAGACATAGTCTGACACTG-G--CTCACATATCGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACA-TGAGACCTCTCATATCGA
* * * *
45242881 TGTCGATGCCATGTCCCAGACATGGTCTTACATTG-G--CTCACATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACA-TGAGACCTCTCATATCGA
* * * *
45242929 TGTCGATGCCATGTCTCAGACATGGTCTTATATGAGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGAGA
45242966 TCGTACGCCG
Statistics
Matches: 294, Mismatches: 42, Indels: 19
0.83 0.12 0.05
Matches are distributed among these distances:
47 2 0.01
48 75 0.26
50 124 0.42
51 2 0.01
53 3 0.01
54 5 0.02
56 81 0.28
57 2 0.01
ACGTcount: A:0.24, C:0.27, G:0.20, T:0.28
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATATCGA
Found at i:45242782 original size:56 final size:56
Alignment explanation
Indices: 45242721--45242860 Score: 210
Period size: 56 Copynumber: 2.5 Consensus size: 56
45242711 CTCATCTCGG
* *
45242721 TGCCAACGCTATGTCCTAGACATGGTCTTACATGGGACCTCTCATAATCTCAATGA
1 TGCCAATGCTATGTCCTAGACATGGTCTTACATGAGACCTCTCATAATCTCAATGA
*
45242777 TGCCAATG-TCATGTCCTAGACATGGTCTTACATGAGACTTCTCATAATCTCAATGA
1 TGCCAATGCT-ATGTCCTAGACATGGTCTTACATGAGACCTCTCATAATCTCAATGA
* * *
45242833 TGCCAATGCCATGTCCCAGACATAGTCT
1 TGCCAATGCTATGTCCTAGACATGGTCT
45242861 GACACTGGCT
Statistics
Matches: 76, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
55 1 0.01
56 75 0.99
ACGTcount: A:0.27, C:0.26, G:0.17, T:0.29
Consensus pattern (56 bp):
TGCCAATGCTATGTCCTAGACATGGTCTTACATGAGACCTCTCATAATCTCAATGA
Found at i:45242918 original size:48 final size:48
Alignment explanation
Indices: 45242838--45242958 Score: 197
Period size: 48 Copynumber: 2.5 Consensus size: 48
45242828 AATGATGCCA
* *
45242838 ATGCCATGTCCCAGACATAGTCTGACACTGGCTCACATATCGATGTCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCGATGTCG
* *
45242886 ATGCCATGTCCCAGACATGGTCTTACATTGGCTCACATATCGGTGTCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCGATGTCG
*
45242934 ATGCCATGTCTCAGACATGGTCTTA
1 ATGCCATGTCCCAGACATGGTCTTA
45242959 TATGAGATCG
Statistics
Matches: 68, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 68 1.00
ACGTcount: A:0.23, C:0.27, G:0.21, T:0.28
Consensus pattern (48 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCGATGTCG
Found at i:45250211 original size:25 final size:25
Alignment explanation
Indices: 45250073--45250210 Score: 161
Period size: 25 Copynumber: 5.5 Consensus size: 25
45250063 TTAACTATCC
* *
45250073 CCTCTACTACATCGCCGTCAACACT
1 CCTCTACTGCATCGCCGTCGACACT
* * * * *
45250098 CCTCTGCCGCATCGGCATCAACACT
1 CCTCTACTGCATCGCCGTCGACACT
* *
45250123 CCTCTACCGCATCGCCATCGACACT
1 CCTCTACTGCATCGCCGTCGACACT
45250148 CCTCTA-TCGCATCGCCGTCGACACT
1 CCTCTACT-GCATCGCCGTCGACACT
* *
45250173 CCTCTATTGCATCACCGTCGACACT
1 CCTCTACTGCATCGCCGTCGACACT
45250198 CCTCTACTGCATC
1 CCTCTACTGCATC
45250211 ATCATGTAAG
Statistics
Matches: 99, Mismatches: 12, Indels: 4
0.86 0.10 0.03
Matches are distributed among these distances:
25 98 0.99
26 1 0.01
ACGTcount: A:0.20, C:0.44, G:0.12, T:0.24
Consensus pattern (25 bp):
CCTCTACTGCATCGCCGTCGACACT
Found at i:45250341 original size:14 final size:14
Alignment explanation
Indices: 45250310--45250348 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
45250300 TGTTCTGTAT
45250310 AAACAACAACCCAA
1 AAACAACAACCCAA
* **
45250324 AAACAGCAACCCGG
1 AAACAACAACCCAA
45250338 AAACAACAACC
1 AAACAACAACC
45250349 TCATCTGGTA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.56, C:0.36, G:0.08, T:0.00
Consensus pattern (14 bp):
AAACAACAACCCAA
Found at i:45251718 original size:19 final size:19
Alignment explanation
Indices: 45251691--45251761 Score: 115
Period size: 19 Copynumber: 3.7 Consensus size: 19
45251681 TCTTCAAGAT
*
45251691 TATGCAATCTTAGATGTGA
1 TATGCAATCTTAGATATGA
*
45251710 TATGTAATCTTAGATATGA
1 TATGCAATCTTAGATATGA
*
45251729 TATGTAATCTTAGATATGA
1 TATGCAATCTTAGATATGA
45251748 TATGCAATCTTAGA
1 TATGCAATCTTAGA
45251762 AGATATGATT
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 49 1.00
ACGTcount: A:0.35, C:0.08, G:0.17, T:0.39
Consensus pattern (19 bp):
TATGCAATCTTAGATATGA
Found at i:45251740 original size:38 final size:36
Alignment explanation
Indices: 45251686--45251768 Score: 112
Period size: 38 Copynumber: 2.2 Consensus size: 36
45251676 CATAATCTTC
* *
45251686 AAGATTATGCAATCTTAGATGTGATATGTAATCTTAG
1 AAGA-TATGCAATCTTAGATATGATATGCAATCTTAG
*
45251723 ATATGATATGTAATCTTAGATATGATATGCAATCTTAG
1 A-A-GATATGCAATCTTAGATATGATATGCAATCTTAG
45251761 AAGATATG
1 AAGATATG
45251769 ATTTTGTAAT
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
36 6 0.15
37 2 0.05
38 31 0.76
39 2 0.05
ACGTcount: A:0.37, C:0.07, G:0.18, T:0.37
Consensus pattern (36 bp):
AAGATATGCAATCTTAGATATGATATGCAATCTTAG
Found at i:45252012 original size:23 final size:23
Alignment explanation
Indices: 45251968--45252012 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
45251958 TCTTATTTTG
* *
45251968 TTGATTTGTGTATAATTTATTTA
1 TTGATTTGTATATAATTGATTTA
**
45251991 TTGATTTGTATATTGTTGATTT
1 TTGATTTGTATATAATTGATTT
45252013 CAAATCTCTT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.22, C:0.00, G:0.16, T:0.62
Consensus pattern (23 bp):
TTGATTTGTATATAATTGATTTA
Found at i:45252280 original size:6 final size:6
Alignment explanation
Indices: 45252247--45252277 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
45252237 TAATTATTAT
*
45252247 TTTTTA TTTTTA TTTTTA TTTTTA TATTTA T
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA T
45252278 ATTCATGTGC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (6 bp):
TTTTTA
Found at i:45252354 original size:23 final size:22
Alignment explanation
Indices: 45252306--45252362 Score: 60
Period size: 23 Copynumber: 2.5 Consensus size: 22
45252296 TTTTTATGTA
*
45252306 ATATATATTGTTTTATATATAGT
1 ATATATA-TGTTATATATATAGT
**
45252329 ATATATATGCTTATATATATTTT
1 ATATATATG-TTATATATATAGT
*
45252352 ATACATATGTT
1 ATATATATGTT
45252363 TTTATTTTTA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
22 4 0.14
23 25 0.86
ACGTcount: A:0.35, C:0.04, G:0.07, T:0.54
Consensus pattern (22 bp):
ATATATATGTTATATATATAGT
Found at i:45254021 original size:28 final size:28
Alignment explanation
Indices: 45253989--45254081 Score: 91
Period size: 32 Copynumber: 3.2 Consensus size: 28
45253979 AATTTTTGAT
45253989 TAATTAAATAAATAATCATATTTCATAA
1 TAATTAAATAAATAATCATATTTCATAA
* * *
45254017 TAATTCTATGAATAATTAATTAGT-TTTCA-AT
1 TAA-T-TA--AATAAATAATCA-TATTTCATAA
*
45254048 TAATTAAATAAATAATCATATTTTATAA
1 TAATTAAATAAATAATCATATTTCATAA
45254076 TAATTA
1 TAATTA
45254082 TAGCACGAAA
Statistics
Matches: 51, Mismatches: 7, Indels: 14
0.71 0.10 0.19
Matches are distributed among these distances:
26 1 0.02
27 14 0.27
28 10 0.20
29 3 0.06
30 3 0.06
31 4 0.08
32 15 0.29
33 1 0.02
ACGTcount: A:0.48, C:0.05, G:0.02, T:0.44
Consensus pattern (28 bp):
TAATTAAATAAATAATCATATTTCATAA
Found at i:45254034 original size:59 final size:59
Alignment explanation
Indices: 45253942--45254080 Score: 242
Period size: 59 Copynumber: 2.4 Consensus size: 59
45253932 ATTTAACTAT
**
45253942 TAATCATATTTCATAATAATTCTATGAATAATTAATTAATTTTTGATTAATTAAATAAA
1 TAATCATATTTCATAATAATTCTATGAATAATTAATTAATTTTCAATTAATTAAATAAA
*
45254001 TAATCATATTTCATAATAATTCTATGAATAATTAATTAGTTTTCAATTAATTAAATAAA
1 TAATCATATTTCATAATAATTCTATGAATAATTAATTAATTTTCAATTAATTAAATAAA
*
45254060 TAATCATATTTTATAATAATT
1 TAATCATATTTCATAATAATT
45254081 ATAGCACGAA
Statistics
Matches: 76, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
59 76 1.00
ACGTcount: A:0.45, C:0.06, G:0.03, T:0.46
Consensus pattern (59 bp):
TAATCATATTTCATAATAATTCTATGAATAATTAATTAATTTTCAATTAATTAAATAAA
Found at i:45254045 original size:32 final size:31
Alignment explanation
Indices: 45253940--45254045 Score: 89
Period size: 32 Copynumber: 3.5 Consensus size: 31
45253930 AGATTTAACT
*
45253940 ATTAATCATATTTCATAATAATTCTATGAATA
1 ATTAATTAT-TTTCATAATAATTCTATGAATA
*
45253972 ATTAATTAATTTT--TGATTAA-T-TA--AATA
1 ATTAATT-ATTTTCAT-AATAATTCTATGAATA
* *
45253999 AATAATCATATTTCATAATAATTCTATGAATA
1 ATTAATTAT-TTTCATAATAATTCTATGAATA
45254031 ATTAATTAGTTTTCA
1 ATTAATTA-TTTTCA
45254046 ATTAATTAAA
Statistics
Matches: 57, Mismatches: 7, Indels: 20
0.68 0.08 0.24
Matches are distributed among these distances:
26 2 0.04
27 12 0.21
28 4 0.07
29 4 0.07
30 4 0.07
31 4 0.07
32 24 0.42
33 3 0.05
ACGTcount: A:0.43, C:0.07, G:0.04, T:0.46
Consensus pattern (31 bp):
ATTAATTATTTTCATAATAATTCTATGAATA
Found at i:45262698 original size:6 final size:6
Alignment explanation
Indices: 45262689--45262753 Score: 58
Period size: 6 Copynumber: 10.8 Consensus size: 6
45262679 AGGAAATGAA
** * * * *
45262689 ATATGG ATATGG ATATGG ATATGG ATAAAG ATGTGG ATGTGA ATATGA
1 ATATGG ATATGG ATATGG ATATGG ATATGG ATATGG ATATGG ATATGG
* *
45262737 ATATGA ATATGA ATATG
1 ATATGG ATATGG ATATG
45262754 AGAAGATATT
Statistics
Matches: 52, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 52 1.00
ACGTcount: A:0.40, C:0.00, G:0.28, T:0.32
Consensus pattern (6 bp):
ATATGG
Found at i:45266917 original size:6 final size:6
Alignment explanation
Indices: 45266906--45266948 Score: 77
Period size: 6 Copynumber: 7.2 Consensus size: 6
45266896 CTCCGTCCCC
*
45266906 CTTCAT CTTCAT CTTCAT CTTCAT CTTCAT CTTCAC CTTCAT C
1 CTTCAT CTTCAT CTTCAT CTTCAT CTTCAT CTTCAT CTTCAT C
45266949 CATCCTAATT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
6 35 1.00
ACGTcount: A:0.16, C:0.37, G:0.00, T:0.47
Consensus pattern (6 bp):
CTTCAT
Found at i:45270035 original size:50 final size:50
Alignment explanation
Indices: 45269927--45270124 Score: 225
Period size: 50 Copynumber: 3.8 Consensus size: 50
45269917 ATTTGGGTAA
* * *
45269927 AGAGATCCCATGTAAGACCATGTTTGGGACATGGCATTGACATCATTGAGGTTATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATC---GA-G--ATG
*
45269983 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCATCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGAGATG
* * * * *
45270033 AGAGGTCCCTTGTAAGACCATGTTTGGGACATGGCATGGGCACCGAAATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGAGATG
** * *
45270083 AGAACTCCCATGTAAGACCATATCTGGGATATGGCATTGGCA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
45270125 GTACAGAAAA
Statistics
Matches: 125, Mismatches: 17, Indels: 6
0.84 0.11 0.04
Matches are distributed among these distances:
50 82 0.66
52 1 0.01
53 2 0.02
56 40 0.32
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.24
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGAGATG
Found at i:45270378 original size:12 final size:12
Alignment explanation
Indices: 45270361--45270399 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
45270351 ATGAGTTATT
45270361 TAAGTAAGCAAG
1 TAAGTAAGCAAG
*
45270373 TAAGTAAACAAG
1 TAAGTAAGCAAG
* *
45270385 TAAGTGAGTAAG
1 TAAGTAAGCAAG
45270397 TAA
1 TAA
45270400 AGAAGCGAGT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.51, C:0.05, G:0.23, T:0.21
Consensus pattern (12 bp):
TAAGTAAGCAAG
Found at i:45271584 original size:21 final size:21
Alignment explanation
Indices: 45271558--45271597 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
45271548 CAACGTAGCA
45271558 AGTTAACTGGCCACATCAGTT
1 AGTTAACTGGCCACATCAGTT
**
45271579 AGTTAACTTTCCACATCAG
1 AGTTAACTGGCCACATCAG
45271598 CGGTCCCCTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.30
Consensus pattern (21 bp):
AGTTAACTGGCCACATCAGTT
Found at i:45274237 original size:23 final size:23
Alignment explanation
Indices: 45274194--45274238 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
45274184 CTTTCCTCCC
**
45274194 TTTTCTTCCTCTTTCTTTCCTTG
1 TTTTCTTCCTCTTTCACTCCTTG
45274217 TTTTC-TCCTCTTTTCACTCCTT
1 TTTTCTTCCTC-TTTCACTCCTT
45274239 TTGTTCACTC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.02, C:0.33, G:0.02, T:0.62
Consensus pattern (23 bp):
TTTTCTTCCTCTTTCACTCCTTG
Found at i:45276674 original size:6 final size:6
Alignment explanation
Indices: 45276658--45276693 Score: 54
Period size: 6 Copynumber: 5.8 Consensus size: 6
45276648 TATGTTTCTC
*
45276658 AAAATG GAAATG AAAATG AAAATG AAAATG AGAAAT
1 AAAATG AAAATG AAAATG AAAATG AAAATG A-AAAT
45276694 ACTTCATTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
6 23 0.85
7 4 0.15
ACGTcount: A:0.64, C:0.00, G:0.19, T:0.17
Consensus pattern (6 bp):
AAAATG
Found at i:45277927 original size:21 final size:23
Alignment explanation
Indices: 45277887--45277929 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 23
45277877 TGATATGCAA
45277887 TCTTAGAAGATGTGATTTTGTAC
1 TCTTAGAAGATGTGATTTTGTAC
*
45277910 TCTTAG-AGAT-TTATTTTGTA
1 TCTTAGAAGATGTGATTTTGTA
45277930 GATACCCTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 9 0.47
22 4 0.21
23 6 0.32
ACGTcount: A:0.26, C:0.07, G:0.19, T:0.49
Consensus pattern (23 bp):
TCTTAGAAGATGTGATTTTGTAC
Found at i:45278639 original size:2 final size:2
Alignment explanation
Indices: 45278626--45278660 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
45278616 GAATATGTTT
* *
45278626 TA TA TT TA TA TA TA TA TA GA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
45278661 CTATGTTTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (2 bp):
TA
Found at i:45279001 original size:13 final size:13
Alignment explanation
Indices: 45278953--45279003 Score: 52
Period size: 13 Copynumber: 3.8 Consensus size: 13
45278943 ATGTCATGGA
45278953 TTATGATTATTT-T
1 TTAT-ATTATTTGT
*
45278966 GTATATTAATTTCGT
1 TTATATT-ATTT-GT
45278981 TTAT-TTATTTGT
1 TTATATTATTTGT
45278993 TTATATTATTT
1 TTATATTATTT
45279004 CTATGCCATT
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
12 9 0.28
13 17 0.53
14 2 0.06
15 4 0.12
ACGTcount: A:0.24, C:0.02, G:0.08, T:0.67
Consensus pattern (13 bp):
TTATATTATTTGT
Found at i:45282215 original size:27 final size:27
Alignment explanation
Indices: 45282185--45282289 Score: 88
Period size: 27 Copynumber: 3.9 Consensus size: 27
45282175 CTATCACGAC
* *
45282185 AGACTACCCCGTGTTTATTGTCCTAGT
1 AGACTACCCCATGTTTACTGTCCTAGT
* * *
45282212 AGACTACTCCATGTTTACTAT-CTCG-
1 AGACTACCCCATGTTTACTGTCCTAGT
* * * *
45282237 ACGGAATACCCCGTGTTTACTGTCCCAAT
1 A--GACTACCCCATGTTTACTGTCCTAGT
*
45282266 GGACTACCCCATGTTTACTGTCCT
1 AGACTACCCCATGTTTACTGTCCT
45282290 TACGAACTAT
Statistics
Matches: 58, Mismatches: 16, Indels: 8
0.71 0.20 0.10
Matches are distributed among these distances:
25 1 0.02
26 3 0.05
27 53 0.91
28 1 0.02
ACGTcount: A:0.21, C:0.30, G:0.16, T:0.33
Consensus pattern (27 bp):
AGACTACCCCATGTTTACTGTCCTAGT
Found at i:45282251 original size:54 final size:54
Alignment explanation
Indices: 45282169--45282284 Score: 160
Period size: 54 Copynumber: 2.1 Consensus size: 54
45282159 TGTAACTTCG
* * * * *
45282169 TGTTTACTATCACGACAGACTACCCCGTGTTTATTGTCCTAGTAGACTACTCCA
1 TGTTTACTATCACGACAGAATACCCCGTGTTTACTGTCCCAATAGACTACCCCA
* * *
45282223 TGTTTACTATCTCGACGGAATACCCCGTGTTTACTGTCCCAATGGACTACCCCA
1 TGTTTACTATCACGACAGAATACCCCGTGTTTACTGTCCCAATAGACTACCCCA
45282277 TGTTTACT
1 TGTTTACT
45282285 GTCCTTACGA
Statistics
Matches: 54, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
54 54 1.00
ACGTcount: A:0.22, C:0.28, G:0.16, T:0.34
Consensus pattern (54 bp):
TGTTTACTATCACGACAGAATACCCCGTGTTTACTGTCCCAATAGACTACCCCA
Found at i:45292130 original size:21 final size:21
Alignment explanation
Indices: 45292104--45292147 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
45292094 TTTAGCTAAT
45292104 TCTTTTCCTGCTATTATTCTA
1 TCTTTTCCTGCTATTATTCTA
45292125 TCTTTTCCTGCTATTATTCTA
1 TCTTTTCCTGCTATTATTCTA
45292146 TC
1 TC
45292148 CCATAACATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.14, C:0.25, G:0.05, T:0.57
Consensus pattern (21 bp):
TCTTTTCCTGCTATTATTCTA
Found at i:45296150 original size:2 final size:2
Alignment explanation
Indices: 45296143--45296168 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
45296133 GATGATAATG
45296143 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
45296169 GAGATGATCC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:45312487 original size:38 final size:38
Alignment explanation
Indices: 45312445--45312521 Score: 154
Period size: 38 Copynumber: 2.0 Consensus size: 38
45312435 TTACCTTCAC
45312445 CTATTTTTAGTAAACTTAAACCTATTTCCATCATCCCT
1 CTATTTTTAGTAAACTTAAACCTATTTCCATCATCCCT
45312483 CTATTTTTAGTAAACTTAAACCTATTTCCATCATCCCT
1 CTATTTTTAGTAAACTTAAACCTATTTCCATCATCCCT
45312521 C
1 C
45312522 ATCACTCAAC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.29, C:0.27, G:0.03, T:0.42
Consensus pattern (38 bp):
CTATTTTTAGTAAACTTAAACCTATTTCCATCATCCCT
Found at i:45314572 original size:25 final size:25
Alignment explanation
Indices: 45314543--45314603 Score: 104
Period size: 25 Copynumber: 2.4 Consensus size: 25
45314533 AACTACATCG
45314543 AGCTTCTGTGGTGAGTTATCTGTAA
1 AGCTTCTGTGGTGAGTTATCTGTAA
*
45314568 AGCTTTTGTGGTGAGTTATCTGTAA
1 AGCTTCTGTGGTGAGTTATCTGTAA
*
45314593 AGCCTCTGTGG
1 AGCTTCTGTGG
45314604 CAAGCTATCT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.18, C:0.13, G:0.30, T:0.39
Consensus pattern (25 bp):
AGCTTCTGTGGTGAGTTATCTGTAA
Done.