Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A09
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 81831061
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 3560000 characters in sequence are not A, C, G, or T
File 24 of 259
Found at i:6600839 original size:20 final size:20
Alignment explanation
Indices: 6600801--6600848 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
6600791 TGAATTCTAA
* **
6600801 AAAGATAAATACATTTAATT
1 AAAGATAAATAAAGATAATT
6600821 AAAGATAAATAAAGATAATT
1 AAAGATAAATAAAGATAATT
6600841 AAA-ATAAA
1 AAAGATAAA
6600849 ATCCTAAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 5 0.20
20 20 0.80
ACGTcount: A:0.65, C:0.02, G:0.06, T:0.27
Consensus pattern (20 bp):
AAAGATAAATAAAGATAATT
Found at i:6602335 original size:94 final size:94
Alignment explanation
Indices: 6602174--6602358 Score: 361
Period size: 94 Copynumber: 2.0 Consensus size: 94
6602164 ATAGAGGAAA
6602174 CAAAAATTAGAGATGCGGGGTATCGATCCCCATACCTCTCGCATGCTAAGCGAGCGCTCTACCAT
1 CAAAAATTAGAGATGCGGGGTATCGATCCCCATACCTCTCGCATGCTAAGCGAGCGCTCTACCAT
6602239 CTGAGCTACATCCCCTCTTCTTGTACGCT
66 CTGAGCTACATCCCCTCTTCTTGTACGCT
*
6602268 CAAAAATTGGAGATGCGGGGTATCGATCCCCATACCTCTCGCATGCTAAGCGAGCGCTCTACCAT
1 CAAAAATTAGAGATGCGGGGTATCGATCCCCATACCTCTCGCATGCTAAGCGAGCGCTCTACCAT
6602333 CTGAGCTACATCCCCTCTTCTTGTAC
66 CTGAGCTACATCCCCTCTTCTTGTAC
6602359 CCTTTTCACT
Statistics
Matches: 90, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
94 90 1.00
ACGTcount: A:0.23, C:0.32, G:0.19, T:0.25
Consensus pattern (94 bp):
CAAAAATTAGAGATGCGGGGTATCGATCCCCATACCTCTCGCATGCTAAGCGAGCGCTCTACCAT
CTGAGCTACATCCCCTCTTCTTGTACGCT
Found at i:6602870 original size:7 final size:6
Alignment explanation
Indices: 6602833--6602868 Score: 54
Period size: 6 Copynumber: 5.8 Consensus size: 6
6602823 TCTTATGTAT
*
6602833 AAAAATG AAAATG AAAAAG AAAAAG AAAAAG AAAAA
1 AAAAA-G AAAAAG AAAAAG AAAAAG AAAAAG AAAAA
6602869 AGGACAAGTG
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:0.81, C:0.00, G:0.14, T:0.06
Consensus pattern (6 bp):
AAAAAG
Found at i:6604291 original size:29 final size:29
Alignment explanation
Indices: 6604249--6604313 Score: 121
Period size: 29 Copynumber: 2.2 Consensus size: 29
6604239 AAACATTTTA
*
6604249 AAAATGAGGTTGAGAATTTGTTTAATAAG
1 AAAATCAGGTTGAGAATTTGTTTAATAAG
6604278 AAAATCAGGTTGAGAATTTGTTTAATAAG
1 AAAATCAGGTTGAGAATTTGTTTAATAAG
6604307 AAAATCA
1 AAAATCA
6604314 AAGTGTTTCG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.45, C:0.03, G:0.20, T:0.32
Consensus pattern (29 bp):
AAAATCAGGTTGAGAATTTGTTTAATAAG
Found at i:6609696 original size:11 final size:11
Alignment explanation
Indices: 6609676--6609729 Score: 83
Period size: 11 Copynumber: 5.0 Consensus size: 11
6609666 TAGAATATAC
*
6609676 CCCATTCCTTG
1 CCCATACCTTG
6609687 CCCATACCTTG
1 CCCATACCTTG
6609698 CCCATACCTTG
1 CCCATACCTTG
*
6609709 CCCATACC-TA
1 CCCATACCTTG
6609719 CCCATACCTTG
1 CCCATACCTTG
6609730 GAAAGATCAA
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
10 9 0.23
11 30 0.77
ACGTcount: A:0.19, C:0.46, G:0.07, T:0.28
Consensus pattern (11 bp):
CCCATACCTTG
Found at i:6610325 original size:18 final size:18
Alignment explanation
Indices: 6610263--6610337 Score: 87
Period size: 18 Copynumber: 4.2 Consensus size: 18
6610253 TACGACCATT
*
6610263 TACGGTACTATTCACGTA
1 TACGATACTATTCACGTA
* * *
6610281 TTCAACACTATTCACGTA
1 TACGATACTATTCACGTA
*
6610299 TATGATACTATTCACGTA
1 TACGATACTATTCACGTA
* *
6610317 TACGGTACTGTTCACGTA
1 TACGATACTATTCACGTA
6610335 TAC
1 TAC
6610338 AGTAGTTGGG
Statistics
Matches: 46, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 46 1.00
ACGTcount: A:0.29, C:0.23, G:0.13, T:0.35
Consensus pattern (18 bp):
TACGATACTATTCACGTA
Found at i:6614404 original size:11 final size:11
Alignment explanation
Indices: 6614384--6614426 Score: 52
Period size: 11 Copynumber: 4.0 Consensus size: 11
6614374 TAGAATATAC
*
6614384 CCCATTCCTTG
1 CCCATACCTTG
*
6614395 CCCATACCTTT
1 CCCATACCTTG
*
6614406 CCCATACC-TA
1 CCCATACCTTG
6614416 CCCATACCTTG
1 CCCATACCTTG
6614427 GAAAGGTCAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
10 9 0.33
11 18 0.67
ACGTcount: A:0.19, C:0.47, G:0.05, T:0.30
Consensus pattern (11 bp):
CCCATACCTTG
Found at i:6615617 original size:35 final size:35
Alignment explanation
Indices: 6615570--6615662 Score: 116
Period size: 35 Copynumber: 2.7 Consensus size: 35
6615560 TAGAAAAAAA
* *
6615570 ATTGCCTTAGACGTGTCTATCTCAACCTTTTAAAG
1 ATTGCCTTAGACGAGTCTATCCCAACCTTTTAAAG
* *
6615605 ATTGCCTCAGACGAGTTTATCCCAACCTTTTAAAG
1 ATTGCCTTAGACGAGTCTATCCCAACCTTTTAAAG
* * *
6615640 GTT-CCTTAGACGGGTCTACCCCA
1 ATTGCCTTAGACGAGTCTATCCCA
6615663 TTAAGGTTGG
Statistics
Matches: 49, Mismatches: 9, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
34 16 0.33
35 33 0.67
ACGTcount: A:0.25, C:0.27, G:0.16, T:0.32
Consensus pattern (35 bp):
ATTGCCTTAGACGAGTCTATCCCAACCTTTTAAAG
Found at i:6617078 original size:3 final size:3
Alignment explanation
Indices: 6617070--6617134 Score: 130
Period size: 3 Copynumber: 21.7 Consensus size: 3
6617060 CTTATAACGT
6617070 TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG
1 TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG
6617118 TAG TAG TAG TAG TAG TA
1 TAG TAG TAG TAG TAG TA
6617135 CGTTTCTATT
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 62 1.00
ACGTcount: A:0.34, C:0.00, G:0.32, T:0.34
Consensus pattern (3 bp):
TAG
Found at i:6620097 original size:21 final size:21
Alignment explanation
Indices: 6620058--6620097 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
6620048 TCTCATACGC
** *
6620058 CTGTGTGCCCATCAGACACGA
1 CTGTGTGCCCAAAACACACGA
6620079 CTGTGTGCCCAAAACACAC
1 CTGTGTGCCCAAAACACAC
6620098 ACCTATGTGG
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:0.28, C:0.35, G:0.20, T:0.17
Consensus pattern (21 bp):
CTGTGTGCCCAAAACACACGA
Found at i:6621282 original size:65 final size:65
Alignment explanation
Indices: 6621199--6621369 Score: 333
Period size: 65 Copynumber: 2.6 Consensus size: 65
6621189 CTAACTTTTC
6621199 CCCATGGCCAACAGACACGCCCGTGTGCTATGGCCGTGTGGTTCTTAACTAGCTATTGACTTAAG
1 CCCATGGCCAACAGACACGCCCGTGTGCTATGGCCGTGTGGTTCTTAACTAGCTATTGACTTAAG
6621264 CCCATGGCCAACAGACACGCCCGTGTGCTATGGCCGTGTGGTTCTTAACTAGCTATTGACTTAAG
1 CCCATGGCCAACAGACACGCCCGTGTGCTATGGCCGTGTGGTTCTTAACTAGCTATTGACTTAAG
*
6621329 CCCATGGCCAACAGGCACGCCCGTGTGCTATGGCCGTGTGG
1 CCCATGGCCAACAGACACGCCCGTGTGCTATGGCCGTGTGG
6621370 CACAATGCAA
Statistics
Matches: 105, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
65 105 1.00
ACGTcount: A:0.20, C:0.29, G:0.27, T:0.24
Consensus pattern (65 bp):
CCCATGGCCAACAGACACGCCCGTGTGCTATGGCCGTGTGGTTCTTAACTAGCTATTGACTTAAG
Found at i:6630197 original size:30 final size:29
Alignment explanation
Indices: 6630154--6630214 Score: 104
Period size: 30 Copynumber: 2.1 Consensus size: 29
6630144 CAAGTAGCTG
6630154 AAGCTAGTTAAATCGCACACTTAGTGCCA
1 AAGCTAGTTAAATCGCACACTTAGTGCCA
*
6630183 AAGCTAGTTTAAATCTCACACTTAGTGCCA
1 AAGCTAG-TTAAATCGCACACTTAGTGCCA
6630213 AA
1 AA
6630215 ACTTCTGATT
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 7 0.23
30 23 0.77
ACGTcount: A:0.36, C:0.23, G:0.15, T:0.26
Consensus pattern (29 bp):
AAGCTAGTTAAATCGCACACTTAGTGCCA
Found at i:6633031 original size:6 final size:6
Alignment explanation
Indices: 6633020--6633044 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
6633010 TCCTCCTTTT
6633020 TTTCTC TTTCTC TTTCTC TTTCTC T
1 TTTCTC TTTCTC TTTCTC TTTCTC T
6633045 CCTTTTATAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (6 bp):
TTTCTC
Found at i:6633750 original size:41 final size:36
Alignment explanation
Indices: 6633659--6633752 Score: 98
Period size: 37 Copynumber: 2.4 Consensus size: 36
6633649 CTTCTTCGAG
*
6633659 TCGATGAGGCACTGGGTGCCAATTTACTTCAGTTTA
1 TCGATGAGACACTGGGTGCCAATTTACTTCAGTTTA
* * *
6633695 ACTGAAGAGACACTGGGTGTCAATTTATTACTTCAGATTTA
1 TC-GATGAGACACTGGGTGCCAA--T-TTACTTCAG-TTTA
6633736 TTCGATGAGACACTGGG
1 -TCGATGAGACACTGGG
6633753 ACTTTGAATT
Statistics
Matches: 46, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
36 1 0.02
37 17 0.37
39 1 0.02
40 9 0.20
41 17 0.37
42 1 0.02
ACGTcount: A:0.27, C:0.17, G:0.24, T:0.32
Consensus pattern (36 bp):
TCGATGAGACACTGGGTGCCAATTTACTTCAGTTTA
Found at i:6636532 original size:12 final size:13
Alignment explanation
Indices: 6636510--6636544 Score: 54
Period size: 12 Copynumber: 2.8 Consensus size: 13
6636500 CAATTCAAAT
6636510 ATTATAATAAAAA
1 ATTATAATAAAAA
*
6636523 ATTA-AATAAATA
1 ATTATAATAAAAA
6636535 ATTATAATAA
1 ATTATAATAA
6636545 TTTTTTCATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
12 11 0.55
13 9 0.45
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (13 bp):
ATTATAATAAAAA
Found at i:6638144 original size:4 final size:4
Alignment explanation
Indices: 6638135--6638161 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
6638125 GGTATACAAT
6638135 TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTT
6638162 TTCTTTTCAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTA
Found at i:6638680 original size:28 final size:28
Alignment explanation
Indices: 6638649--6638712 Score: 71
Period size: 28 Copynumber: 2.3 Consensus size: 28
6638639 GGAAAAAAAA
6638649 TAAAAAATAAATAAA-GAG-AGAAGTAATG
1 TAAAAAATAAA-AAAGGAGAAGAAG-AATG
*
6638677 TAAAAGAA-AAAAAAGGAGAAGAAGAATT
1 TAAAA-AATAAAAAAGGAGAAGAAGAATG
6638705 TAAAAAAT
1 TAAAAAAT
6638713 GTTTTTAAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
27 5 0.16
28 19 0.61
29 7 0.23
ACGTcount: A:0.67, C:0.00, G:0.17, T:0.16
Consensus pattern (28 bp):
TAAAAAATAAAAAAGGAGAAGAAGAATG
Found at i:6643517 original size:21 final size:21
Alignment explanation
Indices: 6643491--6643531 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
6643481 AGATGAGCAA
* *
6643491 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
6643512 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
6643532 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:6649251 original size:24 final size:24
Alignment explanation
Indices: 6649223--6649298 Score: 68
Period size: 24 Copynumber: 3.2 Consensus size: 24
6649213 AACCTAAAGT
*
6649223 AATAAAATAAACAAGTTTAATACA
1 AATAAAATAAATAAGTTTAATACA
* * *
6649247 AAT--AATATATGAGATATTAA-AAA
1 AATAAAATAAATAAG-T-TTAATACA
*
6649270 AATAAAATAAATAAGCTTAATACA
1 AATAAAATAAATAAGTTTAATACA
6649294 AATAA
1 AATAA
6649299 TATATGTAAA
Statistics
Matches: 39, Mismatches: 8, Indels: 10
0.68 0.14 0.18
Matches are distributed among these distances:
22 7 0.18
23 10 0.26
24 14 0.36
25 8 0.21
ACGTcount: A:0.63, C:0.05, G:0.05, T:0.26
Consensus pattern (24 bp):
AATAAAATAAATAAGTTTAATACA
Found at i:6655515 original size:13 final size:13
Alignment explanation
Indices: 6655497--6655533 Score: 74
Period size: 13 Copynumber: 2.8 Consensus size: 13
6655487 CTCAGTAGGG
6655497 ACACGCCCGTGGC
1 ACACGCCCGTGGC
6655510 ACACGCCCGTGGC
1 ACACGCCCGTGGC
6655523 ACACGCCCGTG
1 ACACGCCCGTG
6655534 TTCGATTACT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.16, C:0.46, G:0.30, T:0.08
Consensus pattern (13 bp):
ACACGCCCGTGGC
Found at i:6661304 original size:19 final size:19
Alignment explanation
Indices: 6661280--6661317 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
6661270 GTTATCTATC
*
6661280 CAAATTTACTTTAATTATA
1 CAAATTTACCTTAATTATA
6661299 CAAATTTACCTTAATTATA
1 CAAATTTACCTTAATTATA
6661318 AAAAGTTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.42, C:0.13, G:0.00, T:0.45
Consensus pattern (19 bp):
CAAATTTACCTTAATTATA
Found at i:6663943 original size:20 final size:20
Alignment explanation
Indices: 6663920--6663966 Score: 53
Period size: 19 Copynumber: 2.4 Consensus size: 20
6663910 TTTTTTATAA
6663920 TTTTTAATATTTT-CTAATAC
1 TTTTTAATATTTTCCTAA-AC
* *
6663940 TTTTT-TTATTTTCCTAAAT
1 TTTTTAATATTTTCCTAAAC
6663959 TTTTTAAT
1 TTTTTAAT
6663967 CAATTTCTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 4
0.76 0.10 0.14
Matches are distributed among these distances:
19 12 0.55
20 10 0.45
ACGTcount: A:0.26, C:0.09, G:0.00, T:0.66
Consensus pattern (20 bp):
TTTTTAATATTTTCCTAAAC
Found at i:6663982 original size:19 final size:19
Alignment explanation
Indices: 6663960--6664001 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
6663950 TTCCTAAATT
6663960 TTTTAATCAA-TTTCTTAAA
1 TTTTAA-CAATTTTCTTAAA
*
6663979 TTTTAACAATTTTTTTAAA
1 TTTTAACAATTTTCTTAAA
6663998 TTTT
1 TTTT
6664002 TTTTACAATC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 3 0.14
19 18 0.86
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.60
Consensus pattern (19 bp):
TTTTAACAATTTTCTTAAA
Found at i:6664077 original size:19 final size:19
Alignment explanation
Indices: 6664053--6664097 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
6664043 ATATTTCAAA
6664053 AATTTTAGT-AATT-TTTAAT
1 AATTTTA-TAAATTATTT-AT
6664072 AATTTTATAAATTATTTAT
1 AATTTTATAAATTATTTAT
6664091 AATTTTA
1 AATTTTA
6664098 CATTTAAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
18 1 0.04
19 20 0.83
20 3 0.12
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (19 bp):
AATTTTATAAATTATTTAT
Found at i:6670758 original size:22 final size:22
Alignment explanation
Indices: 6670732--6670773 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
6670722 TAAATAAATA
6670732 ATTTAAAAAAAATTAATTTAAT
1 ATTTAAAAAAAATTAATTTAAT
*
6670754 ATTTAAAATAAATTAATTTA
1 ATTTAAAAAAAATTAATTTA
6670774 CTTATTTCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (22 bp):
ATTTAAAAAAAATTAATTTAAT
Found at i:6677432 original size:18 final size:19
Alignment explanation
Indices: 6677396--6677434 Score: 55
Period size: 18 Copynumber: 2.1 Consensus size: 19
6677386 TATGACAACG
6677396 AATGATATGAATGTATATA
1 AATGATATGAATGTATATA
6677415 AATGA-ATGATATGT-TATA
1 AATGATATGA-ATGTATATA
6677433 AA
1 AA
6677435 CGCTCGTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 10 0.53
19 9 0.47
ACGTcount: A:0.49, C:0.00, G:0.15, T:0.36
Consensus pattern (19 bp):
AATGATATGAATGTATATA
Found at i:6679313 original size:21 final size:21
Alignment explanation
Indices: 6679289--6679341 Score: 97
Period size: 21 Copynumber: 2.5 Consensus size: 21
6679279 TTGAATTGAT
*
6679289 TCGAGTGAAATGAAATTCGAA
1 TCGAGTGAAATGAAATTCAAA
6679310 TCGAGTGAAATGAAATTCAAA
1 TCGAGTGAAATGAAATTCAAA
6679331 TCGAGTGAAAT
1 TCGAGTGAAAT
6679342 TGTTAGAGTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.43, C:0.09, G:0.23, T:0.25
Consensus pattern (21 bp):
TCGAGTGAAATGAAATTCAAA
Found at i:6679639 original size:18 final size:20
Alignment explanation
Indices: 6679618--6679659 Score: 61
Period size: 18 Copynumber: 2.2 Consensus size: 20
6679608 AAATTTTGAA
*
6679618 AATTTTATAAA-TA-TTTTG
1 AATTTTAGAAATTATTTTTG
6679636 AATTTTAGAAATTATTTTTG
1 AATTTTAGAAATTATTTTTG
6679656 AATT
1 AATT
6679660 ATTTTAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 10 0.48
19 2 0.10
20 9 0.43
ACGTcount: A:0.38, C:0.00, G:0.07, T:0.55
Consensus pattern (20 bp):
AATTTTAGAAATTATTTTTG
Found at i:6680515 original size:29 final size:29
Alignment explanation
Indices: 6680473--6680534 Score: 97
Period size: 29 Copynumber: 2.1 Consensus size: 29
6680463 TGAACAGGTT
6680473 GTGTGTCTCACACGGCATTAGACACACCC
1 GTGTGTCTCACACGGCATTAGACACACCC
* * *
6680502 GTGTGTCTTACACGGTATTAGACACGCCC
1 GTGTGTCTCACACGGCATTAGACACACCC
6680531 GTGT
1 GTGT
6680535 ATCTAAGCCA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (29 bp):
GTGTGTCTCACACGGCATTAGACACACCC
Found at i:6684560 original size:20 final size:20
Alignment explanation
Indices: 6684537--6684576 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
6684527 TCAAATAGAA
*
6684537 GTAATGCAGTAGATGAAAAC
1 GTAATGCAGCAGATGAAAAC
6684557 GTAATGCAGCAGATGAAAAC
1 GTAATGCAGCAGATGAAAAC
6684577 ATCTTATTCT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.45, C:0.12, G:0.25, T:0.17
Consensus pattern (20 bp):
GTAATGCAGCAGATGAAAAC
Found at i:6684799 original size:26 final size:26
Alignment explanation
Indices: 6684752--6684801 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
6684742 TTCATCATGA
* *
6684752 CACAAATTCTCAATAAATAAGTTCAT
1 CACAAATTCTCAACAAACAAGTTCAT
* *
6684778 CACAAATTCTTAACGAACAAGTTC
1 CACAAATTCTCAACAAACAAGTTC
6684802 TCCACCTCTT
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:0.44, C:0.22, G:0.06, T:0.28
Consensus pattern (26 bp):
CACAAATTCTCAACAAACAAGTTCAT
Found at i:6692458 original size:42 final size:40
Alignment explanation
Indices: 6692411--6692564 Score: 155
Period size: 42 Copynumber: 3.7 Consensus size: 40
6692401 CGAGAGTATG
6692411 TGTAAGACCATATCTAGGATATGGCATCATTATGAGACTTCA
1 TGTAAGACCATATCTAGGATATGGCATCA-TATGAGA-TTCA
* *
6692453 TGTAAGACCATATCTGGGATATGGCATCGATATGAGATTTCG
1 TGTAAGACCATATCTAGGATATGGCATC-ATATGAGA-TTCA
* * * * * * *
6692495 TGTAAGACCATAGCTGGGCTATTGGCATGGAAACGAGATCCCA
1 TGTAAGACCATATCTAGGATA-TGGCAT-CATATGAGAT-TCA
*
6692538 TGTAAGACTATATCTAGGATATGGCAT
1 TGTAAGACCATATCTAGGATATGGCAT
6692565 TGCTGTGGTA
Statistics
Matches: 94, Mismatches: 14, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
42 63 0.67
43 31 0.33
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.29
Consensus pattern (40 bp):
TGTAAGACCATATCTAGGATATGGCATCATATGAGATTCA
Found at i:6699015 original size:20 final size:20
Alignment explanation
Indices: 6698990--6699027 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
6698980 TTTATTTTAT
6698990 ATTTTTATATATATATTTGA
1 ATTTTTATATATATATTTGA
*
6699010 ATTTTTATATATTTATTT
1 ATTTTTATATATATATTT
6699028 TTTTAAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.66
Consensus pattern (20 bp):
ATTTTTATATATATATTTGA
Found at i:6700223 original size:17 final size:17
Alignment explanation
Indices: 6700201--6700237 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
6700191 TAAGAAAGAA
6700201 TAATTAAAAATTTTAAT
1 TAATTAAAAATTTTAAT
**
6700218 TAATTAAATTTTTTAAT
1 TAATTAAAAATTTTAAT
6700235 TAA
1 TAA
6700238 AAATCTATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
TAATTAAAAATTTTAAT
Found at i:6702908 original size:117 final size:120
Alignment explanation
Indices: 6702672--6702926 Score: 380
Period size: 117 Copynumber: 2.1 Consensus size: 120
6702662 TTATTAAATT
6702672 TTAATA-AGATTATTATT-AAATATAATTTAATAAAAATAAAAAGTAAATAATTTAATCATATTT
1 TTAATATA-ATTATTATTAAAATATAATTTAATAAAAATAAAAAGTAAATAATTTAATCATATTT
* *
6702735 TAACATAATTATTATTAAATACAATTTAATAAAATGATATATAATTTGAAATCATTA
65 TAACATAA-TATTATTAAATACAATTTAATAAAATAATATATAATTTGAAAACATTA
* * *
6702792 TTAATATAATTATTATTAAAATATGAA-TTAATAAAAATCATAA-TAAATAATTTAATTATATTT
1 TTAATATAATTATTATTAAAATAT-AATTTAATAAAAATAAAAAGTAAATAATTTAATCATATTT
6702855 TAACAT-A-ATTATTAAATACAATTTAATAAAATAATATATAATTT-AATAACATTA
65 TAACATAATATTATTAAATACAATTTAATAAAATAATATATAATTTGAA-AACATTA
6702909 TTAATATAATTATTATTA
1 TTAATATAATTATTATTA
6702927 TTTTAGGTAT
Statistics
Matches: 126, Mismatches: 5, Indels: 11
0.89 0.04 0.08
Matches are distributed among these distances:
116 2 0.02
117 60 0.48
119 1 0.01
120 40 0.32
121 21 0.17
122 2 0.02
ACGTcount: A:0.53, C:0.03, G:0.02, T:0.42
Consensus pattern (120 bp):
TTAATATAATTATTATTAAAATATAATTTAATAAAAATAAAAAGTAAATAATTTAATCATATTTT
AACATAATATTATTAAATACAATTTAATAAAATAATATATAATTTGAAAACATTA
Found at i:6710816 original size:6 final size:5
Alignment explanation
Indices: 6710788--6710891 Score: 65
Period size: 5 Copynumber: 20.8 Consensus size: 5
6710778 TATAGTGCAT
* *
6710788 AATAA AATAA AATAA AATAA AAGTAA AAGTAA AA-AA AA-AA CA-AA AACAA
1 AATAA AATAA AATAA AATAA AA-TAA AA-TAA AATAA AATAA AATAA AATAA
* * * * *
6710837 AAAAA AACAA AAAAA CAAAAA AACAA AA-AA AATAAA AATAA AA-ATA
1 AATAA AATAA AATAA -AATAA AATAA AATAA AAT-AA AATAA AATA-A
6710883 AATAA AATA
1 AATAA AATA
6710892 TAAAACTAAA
Statistics
Matches: 86, Mismatches: 6, Indels: 14
0.81 0.06 0.13
Matches are distributed among these distances:
4 15 0.17
5 49 0.57
6 22 0.26
ACGTcount: A:0.83, C:0.05, G:0.02, T:0.11
Consensus pattern (5 bp):
AATAA
Found at i:6710824 original size:1 final size:1
Alignment explanation
Indices: 6710818--6710880 Score: 63
Period size: 1 Copynumber: 63.0 Consensus size: 1
6710808 AAGTAAAAGT
* * * * * * *
6710818 AAAAAAAAAACAAAAACAAAAAAAAACAAAAAAACAAAAAAACAAAAAAAATAAAAATAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
6710881 TAAATAAAAT
Statistics
Matches: 48, Mismatches: 14, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
1 48 1.00
ACGTcount: A:0.89, C:0.08, G:0.00, T:0.03
Consensus pattern (1 bp):
A
Found at i:6710832 original size:8 final size:8
Alignment explanation
Indices: 6710821--6710880 Score: 79
Period size: 8 Copynumber: 7.6 Consensus size: 8
6710811 TAAAAGTAAA
6710821 AAAAAAAC
1 AAAAAAAC
6710829 AAAAACAA-
1 AAAAA-AAC
6710837 AAAAAAAC
1 AAAAAAAC
6710845 AAAAAAAC
1 AAAAAAAC
6710853 AAAAAAAC
1 AAAAAAAC
6710861 AAAAAAA-
1 AAAAAAAC
* *
6710868 ATAAAAAT
1 AAAAAAAC
6710876 AAAAA
1 AAAAA
6710881 TAAATAAAAT
Statistics
Matches: 47, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
7 8 0.17
8 37 0.79
9 2 0.04
ACGTcount: A:0.88, C:0.08, G:0.00, T:0.03
Consensus pattern (8 bp):
AAAAAAAC
Found at i:6710838 original size:16 final size:15
Alignment explanation
Indices: 6710818--6710880 Score: 90
Period size: 16 Copynumber: 4.1 Consensus size: 15
6710808 AAGTAAAAGT
6710818 AAAAAAAAAACAAAA
1 AAAAAAAAAACAAAA
6710833 ACAAAAAAAAACAAAA
1 A-AAAAAAAAACAAAA
6710849 AAACAAAAAAACAAAA
1 AAA-AAAAAAACAAAA
* *
6710865 AAAATAAAAATAAAA
1 AAAAAAAAAACAAAA
6710880 A
1 A
6710881 TAAATAAAAT
Statistics
Matches: 44, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
15 14 0.32
16 30 0.68
ACGTcount: A:0.89, C:0.08, G:0.00, T:0.03
Consensus pattern (15 bp):
AAAAAAAAAACAAAA
Found at i:6710885 original size:16 final size:16
Alignment explanation
Indices: 6710791--6710902 Score: 77
Period size: 16 Copynumber: 6.9 Consensus size: 16
6710781 AGTGCATAAT
6710791 AAAAT-AAAATAAAATA
1 AAAATAAAAAT-AAATA
* * *
6710807 AAAGTAAAAGTAAAAAA
1 AAAATAAAAAT-AAATA
* * *
6710824 AAAACAAAAACAAAAA
1 AAAATAAAAATAAATA
* *
6710840 AAAACAAAAA-AACAAA
1 AAAATAAAAATAA-ATA
*
6710856 AAAACAAAAA-AAATA
1 AAAATAAAAATAAATA
6710871 AAAATAAAAATAAATA
1 AAAATAAAAATAAATA
*
6710887 AAATATAAAACTAAAT
1 AAA-ATAAAAATAAAT
6710903 GAAATCAGTT
Statistics
Matches: 82, Mismatches: 10, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
15 13 0.16
16 42 0.51
17 27 0.33
ACGTcount: A:0.81, C:0.05, G:0.02, T:0.12
Consensus pattern (16 bp):
AAAATAAAAATAAATA
Found at i:6710896 original size:17 final size:17
Alignment explanation
Indices: 6710861--6710907 Score: 62
Period size: 17 Copynumber: 2.9 Consensus size: 17
6710851 ACAAAAAAAC
6710861 AAAAA-AAATAAAA-AT
1 AAAAATAAATAAAATAT
6710876 AAAAATAAATAAAATAT
1 AAAAATAAATAAAATAT
* *
6710893 AAAACTAAATGAAAT
1 AAAAATAAATAAAAT
6710908 CAGTTGGGTA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
15 5 0.18
16 8 0.29
17 15 0.54
ACGTcount: A:0.77, C:0.02, G:0.02, T:0.19
Consensus pattern (17 bp):
AAAAATAAATAAAATAT
Found at i:6723719 original size:42 final size:42
Alignment explanation
Indices: 6723655--6723740 Score: 163
Period size: 42 Copynumber: 2.0 Consensus size: 42
6723645 TTCCTGGGTG
*
6723655 ATAATCAATAACCAGATCATAATCTTTCAGTAGCTCTAACCA
1 ATAACCAATAACCAGATCATAATCTTTCAGTAGCTCTAACCA
6723697 ATAACCAATAACCAGATCATAATCTTTCAGTAGCTCTAACCA
1 ATAACCAATAACCAGATCATAATCTTTCAGTAGCTCTAACCA
6723739 AT
1 AT
6723741 GTCATTGTCT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.41, C:0.24, G:0.07, T:0.28
Consensus pattern (42 bp):
ATAACCAATAACCAGATCATAATCTTTCAGTAGCTCTAACCA
Found at i:6724888 original size:26 final size:25
Alignment explanation
Indices: 6724858--6724908 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
6724848 ACAGAGGACA
6724858 TATGCCCATTTGAACAGGCCGTGTGT
1 TATGCCCATTT-AACAGGCCGTGTGT
* *
6724884 TATGCTCGTTTAACAGGCCGTGTGT
1 TATGCCCATTTAACAGGCCGTGTGT
6724909 CTCACACGGC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 14 0.61
26 9 0.39
ACGTcount: A:0.18, C:0.22, G:0.27, T:0.33
Consensus pattern (25 bp):
TATGCCCATTTAACAGGCCGTGTGT
Found at i:6730989 original size:20 final size:20
Alignment explanation
Indices: 6730964--6731010 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
6730954 GATATGATAT
*
6730964 ACATGAT-TGAGATGATATGC
1 ACATGATATG-GATGAAATGC
*
6730984 ACATGATATGTATGAAATGC
1 ACATGATATGGATGAAATGC
6731004 ACATGAT
1 ACATGAT
6731011 GAATTCATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 22 0.92
21 2 0.08
ACGTcount: A:0.38, C:0.11, G:0.21, T:0.30
Consensus pattern (20 bp):
ACATGATATGGATGAAATGC
Found at i:6731118 original size:24 final size:26
Alignment explanation
Indices: 6731060--6731118 Score: 88
Period size: 26 Copynumber: 2.3 Consensus size: 26
6731050 GAGGAAGTGC
6731060 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
6731086 AAAAGGGCTT-TGCCCCAG-TTATT-
1 AAAAGGGCTTATGCCCCAGTTTATTG
6731109 AAAAGAGGCT
1 AAAAG-GGCT
6731119 AGGCCTCCAG
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
23 5 0.16
24 9 0.28
25 8 0.25
26 10 0.31
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.27
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTATTG
Found at i:6731128 original size:25 final size:25
Alignment explanation
Indices: 6731060--6731128 Score: 70
Period size: 25 Copynumber: 2.7 Consensus size: 25
6731050 GAGGAAGTGC
*
6731060 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGC-TAGGCCCCAGTTTATTG
**
6731086 AAAAGGGCTTTGCCCCAG-TTATT-
1 AAAAGGGCTAGGCCCCAGTTTATTG
6731109 AAAAGAGGCTAGGCCTCCAG
1 AAAAG-GGCTAGGCC-CCAG
6731129 ATATATGATA
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
23 5 0.13
24 12 0.32
25 13 0.34
26 8 0.21
ACGTcount: A:0.29, C:0.22, G:0.25, T:0.25
Consensus pattern (25 bp):
AAAAGGGCTAGGCCCCAGTTTATTG
Found at i:6736232 original size:43 final size:43
Alignment explanation
Indices: 6736102--6736237 Score: 213
Period size: 42 Copynumber: 3.2 Consensus size: 43
6736092 AAATCCCGTA
*
6736102 ATAATATCCTATAATATCCCATTAGGAATCAAATTGCTAAGAG
1 ATAATATCCTACAATATCCCATTAGGAATCAAATTGCTAAGAG
6736145 ATAATATCCTAC-ATATCCCATTAGGAATCAAATTGCTAAGAG
1 ATAATATCCTACAATATCCCATTAGGAATCAAATTGCTAAGAG
* * *
6736187 ATAATATCCTACAATATCCCATT-GAAATAAAATTGCTAAAAAG
1 ATAATATCCTACAATATCCCATTAGGAATCAAATTGCT-AAGAG
6736230 ATAATATC
1 ATAATATC
6736238 TCATAATAAT
Statistics
Matches: 87, Mismatches: 4, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
42 54 0.62
43 33 0.38
ACGTcount: A:0.44, C:0.17, G:0.10, T:0.29
Consensus pattern (43 bp):
ATAATATCCTACAATATCCCATTAGGAATCAAATTGCTAAGAG
Found at i:6739119 original size:22 final size:23
Alignment explanation
Indices: 6739092--6739134 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
6739082 TATAACTTTC
6739092 TTTTGGA-T-AAATATTTATAAAA
1 TTTTGGATTAAAAT-TTTATAAAA
6739114 TTTTGGATTAAAATTTTATAA
1 TTTTGGATTAAAATTTTATAA
6739135 CATAAAAGGA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
22 7 0.37
23 8 0.42
24 4 0.21
ACGTcount: A:0.42, C:0.00, G:0.09, T:0.49
Consensus pattern (23 bp):
TTTTGGATTAAAATTTTATAAAA
Found at i:6739854 original size:23 final size:23
Alignment explanation
Indices: 6739828--6739873 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
6739818 GGTGATAAAA
* * *
6739828 GTATGCAAATGTAATAATAATAT
1 GTATACAAATGTAACAAAAATAT
*
6739851 GTATACAATTGTAACAAAAATAT
1 GTATACAAATGTAACAAAAATAT
6739874 TTAATTACTT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.50, C:0.07, G:0.11, T:0.33
Consensus pattern (23 bp):
GTATACAAATGTAACAAAAATAT
Found at i:6741766 original size:47 final size:47
Alignment explanation
Indices: 6741665--6741768 Score: 111
Period size: 47 Copynumber: 2.2 Consensus size: 47
6741655 GCACCTTGTG
* ** * * *
6741665 TGTCGTATTGTTACTGTTACTTCGGTTTAATCCAATGAGGTACTGAG
1 TGTCGTACTGTTACTGTTACTTCGGTCAAAGCCAATGAGGCACTGAA
** *
6741712 TACCGTACTGTTACTGTTTACTTCGG-CAAAGCCGATGAGGCACTGAA
1 TGTCGTACTGTTACTG-TTACTTCGGTCAAAGCCAATGAGGCACTGAA
6741759 TGTCGTACTG
1 TGTCGTACTG
6741769 GTGTGTTGGT
Statistics
Matches: 45, Mismatches: 11, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
47 36 0.80
48 9 0.20
ACGTcount: A:0.22, C:0.19, G:0.24, T:0.35
Consensus pattern (47 bp):
TGTCGTACTGTTACTGTTACTTCGGTCAAAGCCAATGAGGCACTGAA
Found at i:6742266 original size:39 final size:40
Alignment explanation
Indices: 6742209--6742285 Score: 104
Period size: 39 Copynumber: 1.9 Consensus size: 40
6742199 ATTGAAAGAC
*
6742209 TAAAGTTACTGAATAACTAA-TGATTACTGAATGATTATAT
1 TAAAGTTACTGAACAACTAATTG-TTACTGAATGATTATAT
* *
6742249 TAAAG-TACTGAACAACTAATTGTTATTGATTGATTAT
1 TAAAGTTACTGAACAACTAATTGTTACTGAATGATTAT
6742286 GAATAGAAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
39 26 0.79
40 7 0.21
ACGTcount: A:0.40, C:0.08, G:0.13, T:0.39
Consensus pattern (40 bp):
TAAAGTTACTGAACAACTAATTGTTACTGAATGATTATAT
Found at i:6748847 original size:16 final size:16
Alignment explanation
Indices: 6748819--6748884 Score: 71
Period size: 16 Copynumber: 4.0 Consensus size: 16
6748809 CCATACTAAT
6748819 CATA-AATCTCATGTAA
1 CATATAATC-CATGTAA
6748835 CATATAATCCATGTAAA
1 CATATAATCCATGT-AA
*
6748852 CCTTATAATCCATGTAA
1 -CATATAATCCATGTAA
* *
6748869 CATGTAATTCATGTAA
1 CATATAATCCATGTAA
6748885 GGTATATTAT
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
16 22 0.51
17 8 0.19
18 13 0.30
ACGTcount: A:0.41, C:0.18, G:0.08, T:0.33
Consensus pattern (16 bp):
CATATAATCCATGTAA
Found at i:6748900 original size:34 final size:34
Alignment explanation
Indices: 6748827--6748908 Score: 94
Period size: 34 Copynumber: 2.4 Consensus size: 34
6748817 ATCATAAATC
*
6748827 TCATGTAACATATAATCCATGTAAACCTTATAAT
1 TCATGTAACATGTAATCCATGTAAACCTTATAAT
* * ** *
6748861 CCATGTAACATGTAATTCATGT-AAGGTATATTAT
1 TCATGTAACATGTAATCCATGTAAACCT-TATAAT
6748895 TCATGTAACATGTA
1 TCATGTAACATGTA
6748909 CTCTATGTTT
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
33 3 0.08
34 37 0.93
ACGTcount: A:0.38, C:0.15, G:0.11, T:0.37
Consensus pattern (34 bp):
TCATGTAACATGTAATCCATGTAAACCTTATAAT
Found at i:6749131 original size:23 final size:23
Alignment explanation
Indices: 6749091--6749198 Score: 123
Period size: 23 Copynumber: 4.7 Consensus size: 23
6749081 AGCTGAATGA
6749091 TAAGCTCCGT-AGAGCTGAAACGG
1 TAAGCTCC-TAAGAGCTGAAACGG
* *
6749114 TAAGCCCCTAAG-GACTGAAACTG
1 TAAGCTCCTAAGAG-CTGAAACGG
*
6749137 TAAGCTCCGAAGAGCTG-AACGG
1 TAAGCTCCTAAGAGCTGAAACGG
*
6749159 TAAGCTCATAAGAGCTGAAACGG
1 TAAGCTCCTAAGAGCTGAAACGG
* *
6749182 TAAGCTCATACGAGCTG
1 TAAGCTCCTAAGAGCTG
6749199 TGGTGAGTCT
Statistics
Matches: 73, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
22 21 0.29
23 51 0.70
24 1 0.01
ACGTcount: A:0.33, C:0.22, G:0.27, T:0.18
Consensus pattern (23 bp):
TAAGCTCCTAAGAGCTGAAACGG
Found at i:6749177 original size:45 final size:46
Alignment explanation
Indices: 6749067--6749188 Score: 137
Period size: 45 Copynumber: 2.7 Consensus size: 46
6749057 ACCGATAAAA
* *
6749067 GGTAAGCTCA-ATTGAGCTG-AA-TGATAAGCTCCGTAGAGCTGAAAC
1 GGTAAGCTCATA-AGAGCTGAAACTG-TAAGCTCCGAAGAGCTGAAAC
* *
6749112 GGTAAGCCCCTAAG-GACTGAAACTGTAAGCTCCGAAGAGCTG-AAC
1 GGTAAGCTCATAAGAG-CTGAAACTGTAAGCTCCGAAGAGCTGAAAC
*
6749157 GGTAAGCTCATAAGAGCTGAAACGGTAAGCTC
1 GGTAAGCTCATAAGAGCTGAAACTGTAAGCTC
6749189 ATACGAGCTG
Statistics
Matches: 65, Mismatches: 7, Indels: 10
0.79 0.09 0.12
Matches are distributed among these distances:
44 1 0.02
45 42 0.65
46 20 0.31
47 2 0.03
ACGTcount: A:0.34, C:0.20, G:0.27, T:0.19
Consensus pattern (46 bp):
GGTAAGCTCATAAGAGCTGAAACTGTAAGCTCCGAAGAGCTGAAAC
Found at i:6752176 original size:26 final size:24
Alignment explanation
Indices: 6752135--6752184 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 24
6752125 GTCATCACTA
* *
6752135 ACTAAAAATTAATTTATAATAATT
1 ACTAAAAAATAATTTAAAATAATT
6752159 ACTAACAAAATAACTTTAAAATAATT
1 ACTAA-AAAATAA-TTTAAAATAATT
6752185 TAAAAACAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 5 0.23
25 6 0.27
26 11 0.50
ACGTcount: A:0.56, C:0.08, G:0.00, T:0.36
Consensus pattern (24 bp):
ACTAAAAAATAATTTAAAATAATT
Found at i:6752346 original size:10 final size:10
Alignment explanation
Indices: 6752331--6752360 Score: 51
Period size: 10 Copynumber: 2.9 Consensus size: 10
6752321 TCTACTATCC
6752331 TTTTTTCTTTT
1 TTTTTTC-TTT
6752342 TTTTTTCTTT
1 TTTTTTCTTT
6752352 TTTTTTCTT
1 TTTTTTCTT
6752361 CTCCTTTCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 12 0.63
11 7 0.37
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (10 bp):
TTTTTTCTTT
Found at i:6752347 original size:11 final size:11
Alignment explanation
Indices: 6752331--6752357 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
6752321 TCTACTATCC
6752331 TTTTTTCTTTT
1 TTTTTTCTTTT
6752342 TTTTTTCTTTT
1 TTTTTTCTTTT
6752353 TTTTT
1 TTTTT
6752358 CTTCTCCTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.00, C:0.07, G:0.00, T:0.93
Consensus pattern (11 bp):
TTTTTTCTTTT
Found at i:6752488 original size:23 final size:21
Alignment explanation
Indices: 6752451--6752492 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 21
6752441 TTCTTCTCTT
*
6752451 CTACTTTCCTTTTTTTAAAAAA
1 CTACTTTCC-TGTTTTAAAAAA
6752473 CTACTTCTCCTGTTTTAAAA
1 CTACTT-TCCTGTTTTAAAA
6752493 CTACACAGGG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 15 0.83
23 3 0.17
ACGTcount: A:0.29, C:0.21, G:0.02, T:0.48
Consensus pattern (21 bp):
CTACTTTCCTGTTTTAAAAAA
Found at i:6752865 original size:43 final size:42
Alignment explanation
Indices: 6752789--6752874 Score: 163
Period size: 43 Copynumber: 2.0 Consensus size: 42
6752779 CCTCTATCCC
6752789 TCAAACATCCTATACTCGTATCTAATTGGACATACATATTAT
1 TCAAACATCCTATACTCGTATCTAATTGGACATACATATTAT
6752831 TCAAACATCCTATACTCAGTATCTAATTGGACATACATATTAT
1 TCAAACATCCTATACTC-GTATCTAATTGGACATACATATTAT
6752874 T
1 T
6752875 TTCAAATTTA
Statistics
Matches: 43, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
42 17 0.40
43 26 0.60
ACGTcount: A:0.36, C:0.21, G:0.07, T:0.36
Consensus pattern (42 bp):
TCAAACATCCTATACTCGTATCTAATTGGACATACATATTAT
Found at i:6753190 original size:13 final size:13
Alignment explanation
Indices: 6753172--6753196 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6753162 AATCATGAAG
6753172 TTTCCACAATAAC
1 TTTCCACAATAAC
6753185 TTTCCACAATAA
1 TTTCCACAATAA
6753197 TCACTCTGCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.28, G:0.00, T:0.32
Consensus pattern (13 bp):
TTTCCACAATAAC
Found at i:6759107 original size:19 final size:20
Alignment explanation
Indices: 6759083--6759121 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
6759073 TTTATGAAAA
6759083 TATTTTCTAATTT-ATTTTC
1 TATTTTCTAATTTCATTTTC
*
6759102 TATTTTCTATTTTCATTTTC
1 TATTTTCTAATTTCATTTTC
6759122 AAAAAATAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.18, C:0.13, G:0.00, T:0.69
Consensus pattern (20 bp):
TATTTTCTAATTTCATTTTC
Found at i:6763633 original size:14 final size:14
Alignment explanation
Indices: 6763614--6763643 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
6763604 CATCTCCATG
6763614 TTTCTCTACTTTCA
1 TTTCTCTACTTTCA
6763628 TTTCTCTACTTTCA
1 TTTCTCTACTTTCA
6763642 TT
1 TT
6763644 CTCCACAACT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.13, C:0.27, G:0.00, T:0.60
Consensus pattern (14 bp):
TTTCTCTACTTTCA
Found at i:6763999 original size:65 final size:65
Alignment explanation
Indices: 6763895--6764029 Score: 218
Period size: 65 Copynumber: 2.1 Consensus size: 65
6763885 TTTCTAACTT
*
6763895 CATTTTCATAGTCACATAGGCTATTAAACTCATAGCTTACCCTTCCATTTATTACCTTCAGTGCC
1 CATTTCCATAGTCACATAGGCTATTAAACTCATAGCTTACCCTTCCATTTATTACCTTCAGTGCC
* *
6763960 CATTTCCATAGTC-CTATAGGCTATTAAACTCATAGCTTACCCTTGCATTTATTTCCTTCAGTGC
1 CATTTCCATAGTCAC-ATAGGCTATTAAACTCATAGCTTACCCTTCCATTTATTACCTTCAGTGC
*
6764024 T
65 C
6764025 CATTT
1 CATTT
6764030 TCTAGCCCTA
Statistics
Matches: 65, Mismatches: 4, Indels: 2
0.92 0.06 0.03
Matches are distributed among these distances:
64 1 0.02
65 64 0.98
ACGTcount: A:0.24, C:0.27, G:0.10, T:0.39
Consensus pattern (65 bp):
CATTTCCATAGTCACATAGGCTATTAAACTCATAGCTTACCCTTCCATTTATTACCTTCAGTGCC
Found at i:6771343 original size:46 final size:45
Alignment explanation
Indices: 6771276--6771450 Score: 199
Period size: 46 Copynumber: 3.8 Consensus size: 45
6771266 TGTAACCCGC
6771276 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGC-TTCGCAT
* * *
6771322 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--GCTTCGCAT
* *** * * *
6771368 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTAGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGGC-TTCGCAT
*
6771415 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
6771451 ATGCTCAACC
Statistics
Matches: 106, Mismatches: 18, Indels: 10
0.79 0.13 0.07
Matches are distributed among these distances:
45 1 0.01
46 70 0.66
47 33 0.31
48 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCTTCGCAT
Found at i:6771396 original size:93 final size:93
Alignment explanation
Indices: 6771284--6771454 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
6771274 GCCCATAAGT
* * *
6771284 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTAGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
6771349 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
*
6771377 GAACTCGGACTCAACTCAACGAGTTAGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTAGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
6771442 CGAGTTCGGATGC
66 CGAGCTCGGATGC
6771455 TCAACCATCC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTAGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:6771470 original size:46 final size:46
Alignment explanation
Indices: 6771281--6771470 Score: 135
Period size: 46 Copynumber: 4.1 Consensus size: 46
6771271 CCCGCCCATA
** * *
6771281 AGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTC--GCATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCTCAACCATCC-T
6771326 AAGTGAACTCGGACTCAACTCAACGAGCTCGGATGC-CTAGTTA-CATCTCT
1 -AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCTC-A---ACCATC-CT
* * * * * * *
6771376 --CGAACTCGGACTCAACTCAACGAGTTAGGACATTCGCATCCAT--A
1 AGTGAACTCGGACTCAACTCAACGAGCTCGG--ATGCTCAACCATCCT
*
6771420 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
1 AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCTCAACCATCCT
6771466 AGTGA
1 AGTGA
6771471 CATGTCACTT
Statistics
Matches: 114, Mismatches: 15, Indels: 30
0.72 0.09 0.19
Matches are distributed among these distances:
44 9 0.08
45 1 0.01
46 64 0.56
47 29 0.25
49 4 0.04
50 6 0.05
51 1 0.01
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (46 bp):
AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCTCAACCATCCT
Found at i:6780247 original size:25 final size:28
Alignment explanation
Indices: 6780213--6780267 Score: 71
Period size: 25 Copynumber: 2.1 Consensus size: 28
6780203 TGTCAAAAAG
*
6780213 GAAAGAAAATGA-AA-AAGGGAG-AAAT
1 GAAAAAAAATGAGAATAAGGGAGCAAAT
*
6780238 GAAAAAAAATGAGAATATGGGAGCAAAT
1 GAAAAAAAATGAGAATAAGGGAGCAAAT
6780266 GA
1 GA
6780268 GTGGCATGGA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 11 0.44
26 2 0.08
27 6 0.24
28 6 0.24
ACGTcount: A:0.60, C:0.02, G:0.27, T:0.11
Consensus pattern (28 bp):
GAAAAAAAATGAGAATAAGGGAGCAAAT
Found at i:6780729 original size:11 final size:11
Alignment explanation
Indices: 6780715--6780754 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
6780705 TATTTTCTCC
6780715 CTATTTTGCTA
1 CTATTTTGCTA
*
6780726 CTATTTTACTA
1 CTATTTTGCTA
* *
6780737 TTATGTTGCTA
1 CTATTTTGCTA
6780748 CTATTTT
1 CTATTTT
6780755 ATTATTATTA
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.20, C:0.15, G:0.07, T:0.57
Consensus pattern (11 bp):
CTATTTTGCTA
Found at i:6780760 original size:22 final size:22
Alignment explanation
Indices: 6780720--6780762 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
6780710 TCTCCCTATT
6780720 TTGCTACTATTTTACTATTATG
1 TTGCTACTATTTTACTATTATG
*
6780742 TTGCTACTATTTTATTATTAT
1 TTGCTACTATTTTACTATTAT
6780763 TATTATTTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.23, C:0.12, G:0.07, T:0.58
Consensus pattern (22 bp):
TTGCTACTATTTTACTATTATG
Found at i:6781613 original size:13 final size:13
Alignment explanation
Indices: 6781595--6781619 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6781585 ATAAACTGTA
6781595 ATATACATACATG
1 ATATACATACATG
6781608 ATATACATACAT
1 ATATACATACAT
6781620 ATTTTAAACA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.16, G:0.04, T:0.32
Consensus pattern (13 bp):
ATATACATACATG
Found at i:6781655 original size:16 final size:16
Alignment explanation
Indices: 6781634--6781665 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
6781624 TAAACAATGC
*
6781634 TAAACATAACATACAT
1 TAAACACAACATACAT
6781650 TAAACACAACATACAT
1 TAAACACAACATACAT
6781666 ACATAAAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.56, C:0.22, G:0.00, T:0.22
Consensus pattern (16 bp):
TAAACACAACATACAT
Found at i:6784557 original size:54 final size:54
Alignment explanation
Indices: 6784475--6784584 Score: 220
Period size: 54 Copynumber: 2.0 Consensus size: 54
6784465 GTCTTTACAG
6784475 CTGGGCGAACCATAATACTTAAAAGATTTCATTTTTCGTTTTTTGCATGACATA
1 CTGGGCGAACCATAATACTTAAAAGATTTCATTTTTCGTTTTTTGCATGACATA
6784529 CTGGGCGAACCATAATACTTAAAAGATTTCATTTTTCGTTTTTTGCATGACATA
1 CTGGGCGAACCATAATACTTAAAAGATTTCATTTTTCGTTTTTTGCATGACATA
6784583 CT
1 CT
6784585 TTTGCATGTG
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 56 1.00
ACGTcount: A:0.29, C:0.17, G:0.15, T:0.39
Consensus pattern (54 bp):
CTGGGCGAACCATAATACTTAAAAGATTTCATTTTTCGTTTTTTGCATGACATA
Found at i:6801810 original size:24 final size:25
Alignment explanation
Indices: 6801782--6801845 Score: 78
Period size: 24 Copynumber: 2.6 Consensus size: 25
6801772 TCAACCGAAT
* * *
6801782 TCGCACACATAGTGCTA-ATTAAGC
1 TCGCACACATAGTGCCATACTAAAC
*
6801806 TCGCACACATAATGCCATACTAAAC
1 TCGCACACATAGTGCCATACTAAAC
6801831 -CGCACACATAGTGCC
1 TCGCACACATAGTGCC
6801846 TAAAATTTTC
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
24 29 0.85
25 5 0.15
ACGTcount: A:0.34, C:0.31, G:0.14, T:0.20
Consensus pattern (25 bp):
TCGCACACATAGTGCCATACTAAAC
Found at i:6801998 original size:24 final size:24
Alignment explanation
Indices: 6801971--6802072 Score: 96
Period size: 24 Copynumber: 4.0 Consensus size: 24
6801961 GAATATAAAA
*
6801971 TCTGCACACAAAGTGACTTTTAAT
1 TCTGCACACAAAGTGACATTTAAT
* * * *
6801995 TCTGCACACATAGTGCCAATCAAATAAAA
1 TCTGCACACAAAGTG---A-C-ATTTAAT
6802024 TCTGCACACAAAGTGACATTTAAT
1 TCTGCACACAAAGTGACATTTAAT
*
6802048 TCCGCACACAAAGTGACATTATAAT
1 TCTGCACACAAAGTGACATT-TAAT
6802073 AAGGCAATTT
Statistics
Matches: 62, Mismatches: 10, Indels: 11
0.75 0.12 0.13
Matches are distributed among these distances:
24 37 0.60
25 5 0.08
26 1 0.02
27 1 0.02
28 1 0.02
29 17 0.27
ACGTcount: A:0.39, C:0.23, G:0.12, T:0.26
Consensus pattern (24 bp):
TCTGCACACAAAGTGACATTTAAT
Found at i:6802074 original size:53 final size:53
Alignment explanation
Indices: 6801965--6802065 Score: 166
Period size: 53 Copynumber: 1.9 Consensus size: 53
6801955 CAAATAGAAT
* * * *
6801965 ATAAAATCTGCACACAAAGTGACTTTTAATTCTGCACACATAGTGCCAATCAA
1 ATAAAATCTGCACACAAAGTGACATTTAATTCCGCACACAAAGTGACAATCAA
6802018 ATAAAATCTGCACACAAAGTGACATTTAATTCCGCACACAAAGTGACA
1 ATAAAATCTGCACACAAAGTGACATTTAATTCCGCACACAAAGTGACA
6802066 TTATAATAAG
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
53 44 1.00
ACGTcount: A:0.42, C:0.23, G:0.12, T:0.24
Consensus pattern (53 bp):
ATAAAATCTGCACACAAAGTGACATTTAATTCCGCACACAAAGTGACAATCAA
Found at i:6818885 original size:16 final size:16
Alignment explanation
Indices: 6818864--6818895 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
6818854 GAGAATGGAG
6818864 AATAGAGACAAAGAAC
1 AATAGAGACAAAGAAC
6818880 AATAGAGACAAAGAAC
1 AATAGAGACAAAGAAC
6818896 GTTGTTGCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.62, C:0.12, G:0.19, T:0.06
Consensus pattern (16 bp):
AATAGAGACAAAGAAC
Found at i:6821806 original size:24 final size:23
Alignment explanation
Indices: 6821750--6821866 Score: 119
Period size: 23 Copynumber: 4.9 Consensus size: 23
6821740 GACTCACCTT
*
6821750 AGCTCGTATGAGCTTACTGATATATC
1 AGCTCGTAAGAGCTTACTG-T-T-TC
6821776 AGCTCGTAAGAGCTTACTGTTCTC
1 AGCTCGTAAGAGCTTACTGTT-TC
* *
6821800 AGCTCGTATGAGCTTACTATTTC
1 AGCTCGTAAGAGCTTACTGTTTC
* * *
6821823 AGCTCATTAGAGCTTACCGTTTC
1 AGCTCGTAAGAGCTTACTGTTTC
*
6821846 AGCTC-AATAGAGCTTACTGTT
1 AGCTCGTA-AGAGCTTACTGTT
6821867 CATAGCTCGA
Statistics
Matches: 78, Mismatches: 12, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
23 37 0.47
24 22 0.28
25 1 0.01
26 18 0.23
ACGTcount: A:0.24, C:0.22, G:0.19, T:0.35
Consensus pattern (23 bp):
AGCTCGTAAGAGCTTACTGTTTC
Found at i:6821874 original size:47 final size:47
Alignment explanation
Indices: 6821750--6821863 Score: 133
Period size: 47 Copynumber: 2.4 Consensus size: 47
6821740 GACTCACCTT
* * * *
6821750 AGCTCGTATGAGCTTACTGATATATCAGCTCGTAAGAGCTTACTGTTCTC
1 AGCTCATATGAGCTTACT-AT-T-TCAGCTCATTAGAGCTTACCGTTCTC
*
6821800 AGCTCGTATGAGCTTACTATTTCAGCTCATTAGAGCTTACCGTT-TC
1 AGCTCATATGAGCTTACTATTTCAGCTCATTAGAGCTTACCGTTCTC
6821846 AGCTCA-ATAGAGCTTACT
1 AGCTCATAT-GAGCTTACT
6821864 GTTCATAGCT
Statistics
Matches: 59, Mismatches: 4, Indels: 6
0.86 0.06 0.09
Matches are distributed among these distances:
45 2 0.03
46 16 0.27
47 20 0.34
48 1 0.02
49 2 0.03
50 18 0.31
ACGTcount: A:0.25, C:0.23, G:0.18, T:0.34
Consensus pattern (47 bp):
AGCTCATATGAGCTTACTATTTCAGCTCATTAGAGCTTACCGTTCTC
Found at i:6821881 original size:24 final size:23
Alignment explanation
Indices: 6821750--6821881 Score: 99
Period size: 23 Copynumber: 5.5 Consensus size: 23
6821740 GACTCACCTT
* *
6821750 AGCTCGTATGAGCTTACTGATATATC
1 AGCTCGAAAGAGCTTACTG-T-T-TC
*
6821776 AGCTCGTAAGAGCTTACTGTTCTC
1 AGCTCGAAAGAGCTTACTGTT-TC
* * *
6821800 AGCTCGTATGAGCTTACTATTTC
1 AGCTCGAAAGAGCTTACTGTTTC
* *
6821823 AGCTC-ATTAGAGCTTACCGTTTC
1 AGCTCGA-AAGAGCTTACTGTTTC
6821846 AGCTC-AATAGAGCTTACTG-TTC
1 AGCTCGAA-AGAGCTTACTGTTTC
6821868 ATAGCTCGAAAGAG
1 --AGCTCGAAAGAG
6821882 TGGAAAATGA
Statistics
Matches: 90, Mismatches: 11, Indels: 12
0.80 0.10 0.11
Matches are distributed among these distances:
22 3 0.03
23 35 0.39
24 31 0.34
25 3 0.03
26 18 0.20
ACGTcount: A:0.26, C:0.22, G:0.20, T:0.33
Consensus pattern (23 bp):
AGCTCGAAAGAGCTTACTGTTTC
Found at i:6822988 original size:66 final size:65
Alignment explanation
Indices: 6822866--6822993 Score: 143
Period size: 66 Copynumber: 1.9 Consensus size: 65
6822856 GGTCTCACGT
* * * * *
6822866 ACGGGCGTGTGACTGGTCGTGTGGTACAAGTCAGTATACCCCTAATTTTGGCGCACGGCCTATCG
1 ACGGGCGTGTGACTGGCCGTGTGGCACAAGTCAGTATACCCCTAAGTTT-GAGCACGACCTATCG
6822931 C
65 C
* *
6822932 ACGGGCGTGTGACTTGGCCGTGTTGCATAAGTCAGTATA-CCCTACAGGTTT-AGCACGACCTA
1 ACGGGCGTGTGAC-TGGCCGTGTGGCACAAGTCAGTATACCCCTA-A-GTTTGAGCACGACCTA
6822994 GTACACGACC
Statistics
Matches: 52, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
66 27 0.52
67 22 0.42
68 3 0.06
ACGTcount: A:0.20, C:0.25, G:0.29, T:0.26
Consensus pattern (65 bp):
ACGGGCGTGTGACTGGCCGTGTGGCACAAGTCAGTATACCCCTAAGTTTGAGCACGACCTATCGC
Found at i:6824044 original size:24 final size:24
Alignment explanation
Indices: 6824017--6824064 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
6824007 ATGTTTAAAA
*
6824017 TGTGCTGTATTACTGTTGAGAGAC
1 TGTGCTGTATCACTGTTGAGAGAC
6824041 TGTGCTGTATCACTGTTGAGAGAC
1 TGTGCTGTATCACTGTTGAGAGAC
6824065 ACTATGTATC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.21, C:0.15, G:0.29, T:0.35
Consensus pattern (24 bp):
TGTGCTGTATCACTGTTGAGAGAC
Found at i:6829606 original size:24 final size:24
Alignment explanation
Indices: 6829569--6829614 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
6829559 ACCGATATAT
*
6829569 CAGCTCGTAAGAGCTTACTGTTCC
1 CAGCTCATAAGAGCTTACTGTTCC
*
6829593 CAGCTCATATGAGCTTACTGTT
1 CAGCTCATAAGAGCTTACTGTT
6829615 TATCCGCTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.22, C:0.26, G:0.20, T:0.33
Consensus pattern (24 bp):
CAGCTCATAAGAGCTTACTGTTCC
Found at i:6833595 original size:17 final size:17
Alignment explanation
Indices: 6833573--6833605 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
6833563 TTTAAATAAA
6833573 TAAATAAATTTCTCAAT
1 TAAATAAATTTCTCAAT
6833590 TAAATAAATTTCTCAA
1 TAAATAAATTTCTCAA
6833606 ACCAATTCTA
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:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (17 bp):
TAAATAAATTTCTCAAT
Found at i:6837161 original size:25 final size:27
Alignment explanation
Indices: 6837100--6837170 Score: 92
Period size: 26 Copynumber: 2.7 Consensus size: 27
6837090 ATATTTTCTC
6837100 AAAATTTTACTAGAGGTAAAATCATCA
1 AAAATTTTACTAGAGGTAAAATCATCA
* * *
6837127 AAAATTTTACCAG-GGTAAAATCGT-T
1 AAAATTTTACTAGAGGTAAAATCATCA
*
6837152 AAAATTTTACTAGCGGTAA
1 AAAATTTTACTAGAGGTAA
6837171 TATGGGGATG
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
25 12 0.31
26 15 0.38
27 12 0.31
ACGTcount: A:0.44, C:0.11, G:0.14, T:0.31
Consensus pattern (27 bp):
AAAATTTTACTAGAGGTAAAATCATCA
Found at i:6840679 original size:90 final size:90
Alignment explanation
Indices: 6840517--6840717 Score: 242
Period size: 90 Copynumber: 2.2 Consensus size: 90
6840507 TGCTTTCTAA
* * * * * * *
6840517 CCTCGAAGAGTGTGTGATCAAATAATTAAAATTTGGCTAAGTGACTTAGAAGGCTAGCATTCGAT
1 CCTCAAAGGGTGTGTGCTCAAATAATTAAAATTTGGCTAACTGACTTAAAAGGCTACCATACGAT
* * *
6840582 TTGCTATTAACTTATCAAGAAGTAC
66 CTGCTATTAACCTAGCAAGAAGTAC
* * *
6840607 CCTCAAAGGGTGTGTGCTCAAATTATTAAAATTTGGCTAACTGCCTTAAAAGGCTACCA-ACGGC
1 CCTCAAAGGGTGTGTGCTCAAATAATTAAAATTTGGCTAACTGACTTAAAAGGCTACCATAC-GA
*
6840671 TCTGCTATTAACCTAGCAAGTAGTAC
65 TCTGCTATTAACCTAGCAAGAAGTAC
*
6840697 CCTCGAAAGGGCGTGTGCTCA
1 CCTC-AAAGGGTGTGTGCTCA
6840718 TATATGAATT
Statistics
Matches: 94, Mismatches: 15, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
89 1 0.01
90 78 0.83
91 15 0.16
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.28
Consensus pattern (90 bp):
CCTCAAAGGGTGTGTGCTCAAATAATTAAAATTTGGCTAACTGACTTAAAAGGCTACCATACGAT
CTGCTATTAACCTAGCAAGAAGTAC
Found at i:6841772 original size:14 final size:15
Alignment explanation
Indices: 6841746--6841802 Score: 59
Period size: 15 Copynumber: 3.9 Consensus size: 15
6841736 TTTCCCAAAA
6841746 TAAATATAA-TTT-AT
1 TAAAT-TAATTTTAAT
6841760 TAAATTAATTTTAAT
1 TAAATTAATTTTAAT
6841775 T-AATTAAATTTTCAAT
1 TAAATT-AATTTT-AAT
6841791 TAAA-TAATTTTA
1 TAAATTAATTTTA
6841803 TAAACTCAAT
Statistics
Matches: 38, Mismatches: 0, Indels: 10
0.79 0.00 0.21
Matches are distributed among these distances:
13 3 0.08
14 13 0.34
15 15 0.39
16 5 0.13
17 2 0.05
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (15 bp):
TAAATTAATTTTAAT
Found at i:6843953 original size:4 final size:4
Alignment explanation
Indices: 6843944--6844010 Score: 134
Period size: 4 Copynumber: 16.8 Consensus size: 4
6843934 TTATTGTGTT
6843944 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
6843992 TATG TATG TATG TATG TAT
1 TATG TATG TATG TATG TAT
6844011 TATTTGTGAT
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 63 1.00
ACGTcount: A:0.25, C:0.00, G:0.24, T:0.51
Consensus pattern (4 bp):
TATG
Found at i:6851661 original size:18 final size:18
Alignment explanation
Indices: 6851638--6851684 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 18
6851628 TCATCAGAAC
6851638 AGCTCACCAAGAA-CTACA
1 AGCTCACCAA-AATCTACA
* *
6851656 AGCTCACTAAAATGTACA
1 AGCTCACCAAAATCTACA
6851674 AGCTCACCAAA
1 AGCTCACCAAA
6851685 TGTGTGAGCT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
17 2 0.08
18 23 0.92
ACGTcount: A:0.45, C:0.30, G:0.11, T:0.15
Consensus pattern (18 bp):
AGCTCACCAAAATCTACA
Found at i:6853223 original size:24 final size:24
Alignment explanation
Indices: 6853191--6853237 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
6853181 ACACCATCAA
6853191 GTACTAAACTTGTTACAAATGTTG
1 GTACTAAACTTGTTACAAATGTTG
*
6853215 GTACTAAACTTGTTATAAATGTT
1 GTACTAAACTTGTTACAAATGTT
6853238 CTTTTAGTCC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.34, C:0.11, G:0.15, T:0.40
Consensus pattern (24 bp):
GTACTAAACTTGTTACAAATGTTG
Found at i:6856124 original size:17 final size:17
Alignment explanation
Indices: 6856070--6856146 Score: 77
Period size: 18 Copynumber: 4.4 Consensus size: 17
6856060 TCACCAGAAC
6856070 AGCTCACCAAGAACT-ACG
1 AGCTCACCAA-AA-TGACG
6856088 AGCTCACCAAAATGTACG
1 AGCTCACCAAAATG-ACG
6856106 AGCTCACCAAATATG-CG
1 AGCTCACCAAA-ATGACG
* * *
6856123 AGCTCACCAAGATCACA
1 AGCTCACCAAAATGACG
6856140 AGCTCAC
1 AGCTCAC
6856147 TAACACTGCG
Statistics
Matches: 52, Mismatches: 3, Indels: 9
0.81 0.05 0.14
Matches are distributed among these distances:
16 3 0.06
17 22 0.42
18 24 0.46
19 3 0.06
ACGTcount: A:0.38, C:0.32, G:0.16, T:0.14
Consensus pattern (17 bp):
AGCTCACCAAAATGACG
Found at i:6856340 original size:3 final size:3
Alignment explanation
Indices: 6856332--6856388 Score: 114
Period size: 3 Copynumber: 19.0 Consensus size: 3
6856322 AAGCCAAGTT
6856332 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
6856380 TTA TTA TTA
1 TTA TTA TTA
6856389 GCTTATTTAA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 54 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:6857723 original size:5 final size:5
Alignment explanation
Indices: 6857713--6857774 Score: 124
Period size: 5 Copynumber: 12.4 Consensus size: 5
6857703 TTATGTTTTA
6857713 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT
6857763 ATTAT ATTAT AT
1 ATTAT ATTAT AT
6857775 AAACTAAAGA
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 57 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
ATTAT
Found at i:6859086 original size:14 final size:15
Alignment explanation
Indices: 6859045--6859078 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
6859035 CGATGAATTT
*
6859045 ATTGAATTTATATTG
1 ATTGAAATTATATTG
6859060 ATTGAAATTATATTG
1 ATTGAAATTATATTG
6859075 ATTG
1 ATTG
6859079 GATTATATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.35, C:0.00, G:0.15, T:0.50
Consensus pattern (15 bp):
ATTGAAATTATATTG
Found at i:6859489 original size:23 final size:23
Alignment explanation
Indices: 6859459--6859544 Score: 83
Period size: 23 Copynumber: 4.0 Consensus size: 23
6859449 GCTTTACCGA
* *
6859459 TCAGGCACTTTATGTGTCGTATT
1 TCAGGCACCTCATGTGTCGTATT
*
6859482 TCAGGCACCTCGTGTGTCGTA--
1 TCAGGCACCTCATGTGTCGTATT
*
6859503 TC-GGCACCTCGTGTGTCGT-TT
1 TCAGGCACCTCATGTGTCGTATT
* *
6859524 T-AGGCACTTTATGTGTCGTAT
1 TCAGGCACCTCATGTGTCGTAT
6859545 ACTGATCAAG
Statistics
Matches: 53, Mismatches: 6, Indels: 9
0.78 0.09 0.13
Matches are distributed among these distances:
20 17 0.32
21 17 0.32
22 1 0.02
23 18 0.34
ACGTcount: A:0.14, C:0.22, G:0.26, T:0.38
Consensus pattern (23 bp):
TCAGGCACCTCATGTGTCGTATT
Found at i:6859510 original size:20 final size:22
Alignment explanation
Indices: 6859471--6859544 Score: 82
Period size: 20 Copynumber: 3.5 Consensus size: 22
6859461 AGGCACTTTA
6859471 TGTGTCGTATTTCAGGCACCTCG
1 TGTGTCGTA-TTCAGGCACCTCG
6859494 TGTGTCGTA-TC-GGCACCTCG
1 TGTGTCGTATTCAGGCACCTCG
* * **
6859514 TGTGTCGT-TTTAGGCACTTTA
1 TGTGTCGTATTCAGGCACCTCG
6859535 TGTGTCGTAT
1 TGTGTCGTAT
6859545 ACTGATCAAG
Statistics
Matches: 44, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
20 18 0.41
21 16 0.36
22 1 0.02
23 9 0.20
ACGTcount: A:0.12, C:0.22, G:0.27, T:0.39
Consensus pattern (22 bp):
TGTGTCGTATTCAGGCACCTCG
Found at i:6860692 original size:14 final size:15
Alignment explanation
Indices: 6860673--6860705 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
6860663 TAGGGACAAC
*
6860673 TAAAAAT-TTTGTAT
1 TAAAAATATTTGAAT
6860687 TAAAAATATTTGAAT
1 TAAAAATATTTGAAT
6860702 TAAA
1 TAAA
6860706 CTATTAATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 7 0.41
15 10 0.59
ACGTcount: A:0.52, C:0.00, G:0.06, T:0.42
Consensus pattern (15 bp):
TAAAAATATTTGAAT
Found at i:6861054 original size:13 final size:12
Alignment explanation
Indices: 6861019--6861057 Score: 53
Period size: 13 Copynumber: 3.2 Consensus size: 12
6861009 TTTAATAATA
6861019 TAATAAATTA-T
1 TAATAAATTATT
6861030 TAATACAATTATT
1 TAATA-AATTATT
6861043 TCAATAAATTATT
1 T-AATAAATTATT
6861056 TA
1 TA
6861058 TTAATATAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
11 5 0.20
12 6 0.24
13 10 0.40
14 4 0.16
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (12 bp):
TAATAAATTATT
Found at i:6863482 original size:24 final size:23
Alignment explanation
Indices: 6863454--6863510 Score: 73
Period size: 24 Copynumber: 2.5 Consensus size: 23
6863444 TAATTTTAAA
6863454 TTTAAATAATATTCTTAAT-ATAT
1 TTTAAATAATATT-TTAATAATAT
*
6863477 TATTAAAAAATATTTTAATAATAT
1 T-TTAAATAATATTTTAATAATAT
6863501 TTT-AATAATA
1 TTTAAATAATA
6863511 AATATATATT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
22 6 0.20
23 8 0.27
24 16 0.53
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (23 bp):
TTTAAATAATATTTTAATAATAT
Found at i:6863499 original size:11 final size:11
Alignment explanation
Indices: 6863453--6863510 Score: 64
Period size: 11 Copynumber: 5.1 Consensus size: 11
6863443 ATAATTTTAA
*
6863453 ATTTAAATAAT
1 ATTTTAATAAT
6863464 ATTCTTAAT-AT
1 ATT-TTAATAAT
*
6863475 ATTATTAAAAAAT
1 ATT-TT-AATAAT
6863488 ATTTTAATAAT
1 ATTTTAATAAT
6863499 ATTTTAATAAT
1 ATTTTAATAAT
6863510 A
1 A
6863511 AATATATATT
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
11 27 0.68
12 8 0.20
13 5 0.12
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (11 bp):
ATTTTAATAAT
Found at i:6863578 original size:18 final size:18
Alignment explanation
Indices: 6863552--6863590 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
6863542 ACAAATGTTT
*
6863552 TATAGTATAATATATTAA
1 TATAGTATAATATATAAA
* *
6863570 TATATTATACTATATAAA
1 TATAGTATAATATATAAA
6863588 TAT
1 TAT
6863591 GAATATTTGT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.46
Consensus pattern (18 bp):
TATAGTATAATATATAAA
Found at i:6864247 original size:19 final size:19
Alignment explanation
Indices: 6864223--6864259 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
6864213 AAAACAGAAT
6864223 ATGGAC-ATGTGAAATTTGC
1 ATGGACAATGT-AAATTTGC
6864242 ATGGACAATGTAAATTTG
1 ATGGACAATGTAAATTTG
6864260 TCTTTAATTG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.35, C:0.08, G:0.24, T:0.32
Consensus pattern (19 bp):
ATGGACAATGTAAATTTGC
Found at i:6867752 original size:43 final size:44
Alignment explanation
Indices: 6867704--6867791 Score: 142
Period size: 43 Copynumber: 2.0 Consensus size: 44
6867694 TTTGCTGGCG
* *
6867704 TGGCTACAGGCTTGCAGTCTTTCATTCTGAATTTA-TTTAAAAT
1 TGGCTACAGGCTTGCAATCCTTCATTCTGAATTTATTTTAAAAT
*
6867747 TGGCTACATGCTTGCAATCCTTCATTCTGAATTTATTTTAAAAT
1 TGGCTACAGGCTTGCAATCCTTCATTCTGAATTTATTTTAAAAT
6867791 T
1 T
6867792 TGTTTTGCAT
Statistics
Matches: 41, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
43 32 0.78
44 9 0.22
ACGTcount: A:0.26, C:0.17, G:0.14, T:0.43
Consensus pattern (44 bp):
TGGCTACAGGCTTGCAATCCTTCATTCTGAATTTATTTTAAAAT
Found at i:6868906 original size:40 final size:41
Alignment explanation
Indices: 6868847--6868932 Score: 138
Period size: 40 Copynumber: 2.1 Consensus size: 41
6868837 GCAAAAATTG
*
6868847 TAAAACACAGAGCAATAGCGGCGTTTTTGGTAAAACGCCGC
1 TAAAACACAGAGCAATAGCGGCGCTTTTGGTAAAACGCCGC
* *
6868888 TAAAA-ACCGAGCATTAGCGGCGCTTTTGGTAAAACGCCGC
1 TAAAACACAGAGCAATAGCGGCGCTTTTGGTAAAACGCCGC
6868928 TAAAA
1 TAAAA
6868933 GTCATATAAC
Statistics
Matches: 42, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
40 37 0.88
41 5 0.12
ACGTcount: A:0.35, C:0.22, G:0.23, T:0.20
Consensus pattern (41 bp):
TAAAACACAGAGCAATAGCGGCGCTTTTGGTAAAACGCCGC
Found at i:6869572 original size:24 final size:24
Alignment explanation
Indices: 6869545--6869593 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
6869535 CGTATATTTG
6869545 TTAAAAGTTTATATAAAAATTAAT
1 TTAAAAGTTTATATAAAAATTAAT
6869569 TTAAAAGTTTATATAAAAATTAAT
1 TTAAAAGTTTATATAAAAATTAAT
6869593 T
1 T
6869594 GTTATTTTGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.43
Consensus pattern (24 bp):
TTAAAAGTTTATATAAAAATTAAT
Found at i:6882676 original size:15 final size:15
Alignment explanation
Indices: 6882656--6882686 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
6882646 CTTTCGATCC
6882656 TTACGCTTCTTCTCT
1 TTACGCTTCTTCTCT
6882671 TTACGCTTCTTCTCT
1 TTACGCTTCTTCTCT
6882686 T
1 T
6882687 CATCTGTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.06, C:0.32, G:0.06, T:0.55
Consensus pattern (15 bp):
TTACGCTTCTTCTCT
Found at i:6883988 original size:50 final size:50
Alignment explanation
Indices: 6883891--6884012 Score: 154
Period size: 50 Copynumber: 2.4 Consensus size: 50
6883881 GATGAGGGTG
* * * * *
6883891 GGACAATTTGCCACGTCGTGACGAGGAATCCCTTCACCAAGATGAGGCCA
1 GGACAGTTTGTCACGTCGTGACAAGGAATCCCATCACCAAGACGAGGCCA
* * *
6883941 GGACAGTTTGTCACGTCGTGACAAGGAATCCCATCATCACGACGAGGCCG
1 GGACAGTTTGTCACGTCGTGACAAGGAATCCCATCACCAAGACGAGGCCA
* *
6883991 GGATAGTTTGTCACATCGTGAC
1 GGACAGTTTGTCACGTCGTGAC
6884013 GAGAAACCCT
Statistics
Matches: 62, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
50 62 1.00
ACGTcount: A:0.26, C:0.26, G:0.27, T:0.20
Consensus pattern (50 bp):
GGACAGTTTGTCACGTCGTGACAAGGAATCCCATCACCAAGACGAGGCCA
Found at i:6884531 original size:19 final size:18
Alignment explanation
Indices: 6884498--6884533 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
6884488 TTATATTAGT
*
6884498 TAAACATGTTTAATTAAA
1 TAAACATGATTAATTAAA
6884516 TAAACTATGATTAATTAA
1 TAAAC-ATGATTAATTAA
6884534 TTTTTAATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.50, C:0.06, G:0.06, T:0.39
Consensus pattern (18 bp):
TAAACATGATTAATTAAA
Found at i:6886569 original size:8 final size:8
Alignment explanation
Indices: 6886556--6886583 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
6886546 GTATTTATTA
6886556 TATTTTAT
1 TATTTTAT
6886564 TATTTTAT
1 TATTTTAT
6886572 TATTTTAT
1 TATTTTAT
6886580 TATT
1 TATT
6886584 CTGAATTCTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (8 bp):
TATTTTAT
Found at i:6892698 original size:31 final size:31
Alignment explanation
Indices: 6892660--6892727 Score: 136
Period size: 31 Copynumber: 2.2 Consensus size: 31
6892650 TGAAATGTTA
6892660 TTAGGTTGTTCTTAGAACTAGGCATAAAATG
1 TTAGGTTGTTCTTAGAACTAGGCATAAAATG
6892691 TTAGGTTGTTCTTAGAACTAGGCATAAAATG
1 TTAGGTTGTTCTTAGAACTAGGCATAAAATG
6892722 TTAGGT
1 TTAGGT
6892728 GTTAATTCAG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 37 1.00
ACGTcount: A:0.31, C:0.09, G:0.24, T:0.37
Consensus pattern (31 bp):
TTAGGTTGTTCTTAGAACTAGGCATAAAATG
Found at i:6895257 original size:28 final size:28
Alignment explanation
Indices: 6895198--6895257 Score: 77
Period size: 28 Copynumber: 2.1 Consensus size: 28
6895188 TTGGTGTCGA
* *
6895198 TTTTGTATCATGTTTAAATTATCAGATC
1 TTTTGTATCATGTTTAAAGTATCAAATC
*
6895226 TTTTGTATCATGTTTAAAAGTAT-AAATT
1 TTTTGTATCATGTTT-AAAGTATCAAATC
6895254 TTTT
1 TTTT
6895258 TTTTGATTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
28 22 0.79
29 6 0.21
ACGTcount: A:0.30, C:0.07, G:0.10, T:0.53
Consensus pattern (28 bp):
TTTTGTATCATGTTTAAAGTATCAAATC
Found at i:6896491 original size:202 final size:201
Alignment explanation
Indices: 6896119--6896523 Score: 801
Period size: 202 Copynumber: 2.0 Consensus size: 201
6896109 TACTTAGAAA
6896119 ATTTCTGTTCAATAAAGAAAAAGTACTTGAAATTTTCTAGAATCATTTATAATGTATTTTGGCAC
1 ATTTCTGTTCAATAAAGAAAAAGTACTTGAAATTTTCTAGAATCATTTATAATGTATTTTGGCAC
6896184 ACTTAATGTGTGGATGAAAAAAAAATTAACAAATATATTTATAAAAAATTGATATAGAAACAATT
66 ACTTAATGTGTGGATGAAAAAAAAATTAACAAATATATTTATAAAAAATTGATATAGAAACAATT
6896249 GAGACTTTAATTGGAATGATAAATTTGAGACTTCAAAAGTTATGGTCTTTTGGGTTCAAATTCTA
131 GAGACTTTAATTGGAATGATAAATTTGAGACTTCAAAAGTTATGGTCTTTTGGGTTCAAATTCTA
6896314 TCTTAT
196 TCTTAT
6896320 ATTTCTGTTCAATAAAGAAAAAGTACTTGAAATTTTCTAGAATCATTTATAATGTATTTTGGCAC
1 ATTTCTGTTCAATAAAGAAAAAGTACTTGAAATTTTCTAGAATCATTTATAATGTATTTTGGCAC
6896385 ACTTAATGTGTGGATGAAAAAAAAAATTAACAAATATATTTATAAAAAATTGATATAGAAACAAT
66 ACTTAATGTGTGGATG-AAAAAAAAATTAACAAATATATTTATAAAAAATTGATATAGAAACAAT
6896450 TGAGACTTTAATTGGAATGATAAATTTGAGACTTCAAAAGTTATGGTCTTTTGGGTTCAAATTCT
130 TGAGACTTTAATTGGAATGATAAATTTGAGACTTCAAAAGTTATGGTCTTTTGGGTTCAAATTCT
6896515 ATCTTAT
195 ATCTTAT
6896522 AT
1 AT
6896524 GTATTTTTTT
Statistics
Matches: 203, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
201 81 0.40
202 122 0.60
ACGTcount: A:0.40, C:0.08, G:0.14, T:0.37
Consensus pattern (201 bp):
ATTTCTGTTCAATAAAGAAAAAGTACTTGAAATTTTCTAGAATCATTTATAATGTATTTTGGCAC
ACTTAATGTGTGGATGAAAAAAAAATTAACAAATATATTTATAAAAAATTGATATAGAAACAATT
GAGACTTTAATTGGAATGATAAATTTGAGACTTCAAAAGTTATGGTCTTTTGGGTTCAAATTCTA
TCTTAT
Found at i:6898184 original size:13 final size:13
Alignment explanation
Indices: 6898168--6898201 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
6898158 ATTATTAATG
*
6898168 TAATTTATTATTT
1 TAATTAATTATTT
*
6898181 TAATAAATTATTT
1 TAATTAATTATTT
6898194 TAATTAAT
1 TAATTAAT
6898202 AAATTTTAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (13 bp):
TAATTAATTATTT
Found at i:6898219 original size:16 final size:16
Alignment explanation
Indices: 6898190--6898231 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
6898180 TTAATAAATT
*
6898190 ATTTTAATTAAT-A-A
1 ATTTTAAATAATAATA
6898204 ATTTTAAA-AATAATA
1 ATTTTAAATAATAATA
6898219 ATTTTAAATAATA
1 ATTTTAAATAATA
6898232 TGTTTCTTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
13 3 0.12
14 8 0.33
15 9 0.38
16 4 0.17
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
ATTTTAAATAATAATA
Found at i:6898300 original size:34 final size:31
Alignment explanation
Indices: 6898240--6898307 Score: 91
Period size: 34 Copynumber: 2.1 Consensus size: 31
6898230 TATGTTTCTT
* *
6898240 AATAATATTCAATTTCAATATTTTAATAATA
1 AATAATATTCAATTTAAATATATTAATAATA
6898271 AATAATTATTACAATTATAAATATATTAATAATA
1 AATAA-TATT-CAATT-TAAATATATTAATAATA
6898305 AAT
1 AAT
6898308 TGTTATAATA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
31 5 0.16
32 4 0.12
33 5 0.16
34 18 0.56
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.43
Consensus pattern (31 bp):
AATAATATTCAATTTAAATATATTAATAATA
Found at i:6898305 original size:15 final size:15
Alignment explanation
Indices: 6898256--6898307 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 15
6898246 ATTCAATTTC
*
6898256 AATATTTTAATAATA
1 AATATATTAATAATA
*
6898271 AATAATTATTACAATTATA
1 AAT-A-TATT--AATAATA
6898290 AATATATTAATAATA
1 AATATATTAATAATA
6898305 AAT
1 AAT
6898308 TGTTATAATA
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
15 12 0.40
16 1 0.03
17 7 0.23
18 1 0.03
19 9 0.30
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (15 bp):
AATATATTAATAATA
Found at i:6912720 original size:12 final size:12
Alignment explanation
Indices: 6912705--6912761 Score: 51
Period size: 12 Copynumber: 4.8 Consensus size: 12
6912695 TCCCTCCTCT
*
6912705 CTTTCCTCTACC
1 CTTTCCTCCACC
* * *
6912717 CTTTCCACCGCT
1 CTTTCCTCCACC
*
6912729 CTTTCCTCCGCC
1 CTTTCCTCCACC
*
6912741 CTTTCCTCTACC
1 CTTTCCTCCACC
*
6912753 CCTTCCTCC
1 CTTTCCTCC
6912762 CTCCGTTCAC
Statistics
Matches: 35, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
12 35 1.00
ACGTcount: A:0.05, C:0.54, G:0.04, T:0.37
Consensus pattern (12 bp):
CTTTCCTCCACC
Found at i:6915551 original size:25 final size:25
Alignment explanation
Indices: 6915517--6915564 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
6915507 TGTCAGCTAT
6915517 AGTTTAGGTTAGTAGCTTATGAACA
1 AGTTTAGGTTAGTAGCTTATGAACA
6915542 AGTTTAGGTTAGTAGCTTATGAA
1 AGTTTAGGTTAGTAGCTTATGAA
6915565 GATGATATGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.31, C:0.06, G:0.25, T:0.38
Consensus pattern (25 bp):
AGTTTAGGTTAGTAGCTTATGAACA
Found at i:6916561 original size:103 final size:103
Alignment explanation
Indices: 6916437--6916628 Score: 359
Period size: 104 Copynumber: 1.9 Consensus size: 103
6916427 ATTTCATTAG
*
6916437 AAAAAAAAAATTGTAAATGTTTCATAT-TGATGAAGAAGGTTATATAGCACCAAATTGTCCTAAT
1 AAAAAAAAAAATGTAAATGTTTCATATGTGATGAAGAAGGTTATATAGCACCAAATTGTCCTAAT
6916501 AAGGGAAAAAGTGCAAGAAAAATTTCTAAAAAAATCTA
66 AAGGGAAAAAGTGCAAGAAAAATTTCTAAAAAAATCTA
6916539 AAAAAACAAAAATGTAAATGTTTCATATGTGATGAAGAAGGTTATATAGCACCAAATTGTCCTAA
1 AAAAAA-AAAAATGTAAATGTTTCATATGTGATGAAGAAGGTTATATAGCACCAAATTGTCCTAA
6916604 TAAGGGAAAAAGTGCAAGAAAAATT
65 TAAGGGAAAAAGTGCAAGAAAAATT
6916629 ATTAAAACAC
Statistics
Matches: 87, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
102 6 0.07
103 20 0.23
104 61 0.70
ACGTcount: A:0.49, C:0.09, G:0.16, T:0.26
Consensus pattern (103 bp):
AAAAAAAAAAATGTAAATGTTTCATATGTGATGAAGAAGGTTATATAGCACCAAATTGTCCTAAT
AAGGGAAAAAGTGCAAGAAAAATTTCTAAAAAAATCTA
Found at i:6917259 original size:15 final size:15
Alignment explanation
Indices: 6917239--6917267 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
6917229 AGCCAAATTG
6917239 CTTTATATCTATTAA
1 CTTTATATCTATTAA
6917254 CTTTATATCTATTA
1 CTTTATATCTATTA
6917268 TAGATATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.31, C:0.14, G:0.00, T:0.55
Consensus pattern (15 bp):
CTTTATATCTATTAA
Done.