Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1106
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: 101264
ACGTcount: A:0.32, C:0.16, G:0.17, T:0.35
Found at i:620 original size:20 final size:20
Alignment explanation
Indices: 595--666 Score: 99
Period size: 20 Copynumber: 3.6 Consensus size: 20
585 TACCCAGATA
595 TATCGATACATTTTTCAATG
1 TATCGATACATTTTTCAATG
* * * *
615 TATCGATATATGTATGAATG
1 TATCGATACATTTTTCAATG
*
635 TATCGATACATTCTTCAATG
1 TATCGATACATTTTTCAATG
655 TATCGATACATT
1 TATCGATACATT
667 CTATCTTTTT
Statistics
Matches: 43, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.32, C:0.14, G:0.12, T:0.42
Consensus pattern (20 bp):
TATCGATACATTTTTCAATG
Found at i:3027 original size:20 final size:20
Alignment explanation
Indices: 2965--3041 Score: 68
Period size: 20 Copynumber: 3.9 Consensus size: 20
2955 TTCTTACCCA
*
2965 AATGTATCAATACATTTTTC
1 AATGTATCAATACATTCTTC
* * *
2985 AAT-TATCAATAGATGT-ATG
1 AATGTATCAATACAT-TCTTC
*
3004 AATGTATCGATACATTCTTC
1 AATGTATCAATACATTCTTC
* *
3024 AATGTATCGATACGTTCT
1 AATGTATCAATACATTCT
3042 GTCTTTTTTC
Statistics
Matches: 46, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
19 15 0.33
20 31 0.67
ACGTcount: A:0.34, C:0.14, G:0.12, T:0.40
Consensus pattern (20 bp):
AATGTATCAATACATTCTTC
Found at i:3426 original size:27 final size:27
Alignment explanation
Indices: 3360--3684 Score: 330
Period size: 27 Copynumber: 11.8 Consensus size: 27
3350 GACCTCTTCA
* * *
3360 AAGTCCACAATTCAGTGGCATTTCTTTTCA
1 AAGTCCACAACTCCGTGGCA--TCTTTT-T
* *
3390 AAGTCTACAACTCCATGGCATCTTTTT
1 AAGTCCACAACTCCGTGGCATCTTTTT
*
3417 AAGTCCACAACTCC-TGGCATCCTTTTA
1 AAGTCCACAACTCCGTGGCAT-CTTTTT
* *
3444 AAGTCCACAACTCCGTGGTATCCTTTT
1 AAGTCCACAACTCCGTGGCATCTTTTT
* * *
3471 AAGTCCATAACTCCGTGGCACCCTTTTA
1 AAGTCCACAACTCCGTGGCA-TCTTTTT
*
3499 AAGTCCACAACTCCGTGGCATCCTTTT
1 AAGTCCACAACTCCGTGGCATCTTTTT
** * *
3526 AAGTCCACAACTCTATGGCACCCTTTT
1 AAGTCCACAACTCCGTGGCATCTTTTT
*
3553 AAGTCCACAACTCCGTGGCATCTATTTC
1 AAGTCCACAACTCCGTGGCATCT-TTTT
* *
3581 AAGTCCACAACTCCGTGGCGTTCTTTTA
1 AAGTCCACAACTCCGTGGC-ATCTTTTT
* *
3609 AAGTCCACAACTCCGTGGCACCCTTTT
1 AAGTCCACAACTCCGTGGCATCTTTTT
*
3636 AAGTCCACAACTTCGTGGCA-CTCTTTT
1 AAGTCCACAACTCCGTGGCATCT-TTTT
* * * *
3663 AATTCCATAATTTCGTGGCATC
1 AAGTCCACAACTCCGTGGCATC
3685 ATTCTCAAAG
Statistics
Matches: 250, Mismatches: 38, Indels: 16
0.82 0.12 0.05
Matches are distributed among these distances:
26 7 0.03
27 145 0.58
28 79 0.32
29 3 0.01
30 16 0.06
ACGTcount: A:0.24, C:0.30, G:0.14, T:0.32
Consensus pattern (27 bp):
AAGTCCACAACTCCGTGGCATCTTTTT
Found at i:3496 original size:55 final size:55
Alignment explanation
Indices: 3360--3664 Score: 391
Period size: 55 Copynumber: 5.5 Consensus size: 55
3350 GACCTCTTCA
* * ** * * *
3360 AAGTCCACAATTCAGTGGCATTTCTTTTCAAAGTCTACAACTCCATGGCATCTTTTT
1 AAGTCCACAACTCCGTGGCA-CCCTTTT-AAAGTCCACAACTCCGTGGCATCCTTTT
* *
3417 AAGTCCACAACTCC-TGGCATCCTTTTAAAGTCCACAACTCCGTGGTATCCTTTT
1 AAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCATCCTTTT
*
3471 AAGTCCATAACTCCGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCATCCTTTT
1 AAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCATCCTTTT
**
3526 AAGTCCACAACTCTATGGCACCCTTTT-AAGTCCACAACTCCGTGGCAT-CTATTT
1 AAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCATCCT-TTT
*** *
3580 CAAGTCCACAACTCCGTGGCGTTCTTTTAAAGTCCACAACTCCGTGGCACCCTTTT
1 -AAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCATCCTTTT
* *
3636 AAGTCCACAACTTCGTGGCACTCTTTTAA
1 AAGTCCACAACTCCGTGGCACCCTTTTAA
3665 TTCCATAATT
Statistics
Matches: 221, Mismatches: 22, Indels: 12
0.87 0.09 0.05
Matches are distributed among these distances:
53 2 0.01
54 61 0.28
55 116 0.52
56 28 0.13
57 14 0.06
ACGTcount: A:0.25, C:0.30, G:0.14, T:0.31
Consensus pattern (55 bp):
AAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCATCCTTTT
Found at i:3530 original size:82 final size:82
Alignment explanation
Indices: 3390--3664 Score: 392
Period size: 82 Copynumber: 3.3 Consensus size: 82
3380 TTTCTTTTCA
* * *
3390 AAGTCTACAACTCCATGGCATCTTTTTAAGTCCACAACTCC-TGGCATCCTTTTAAAGTCCACAA
1 AAGTCCACAACTCCGTGGCATCTTTTAAAGTCCACAACTCCGTGGCATCCTTTTAAAGTCCACAA
* *
3454 CTCCGTGGTATCCTTTT
66 CTCCGTGGCACCCTTTT
* *
3471 AAGTCCATAACTCCGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCATCCTTTT-AAGTCCACA
1 AAGTCCACAACTCCGTGGCA-TCTTTTAAAGTCCACAACTCCGTGGCATCCTTTTAAAGTCCACA
**
3535 ACTCTATGGCACCCTTTT
65 ACTCCGTGGCACCCTTTT
* * *
3553 AAGTCCACAACTCCGTGGCATCTATTTCAAGTCCACAACTCCGTGGCGTTCTTTTAAAGTCCACA
1 AAGTCCACAACTCCGTGGCATCT-TTTAAAGTCCACAACTCCGTGGCATCCTTTTAAAGTCCACA
3618 ACTCCGTGGCACCCTTTT
65 ACTCCGTGGCACCCTTTT
*
3636 AAGTCCACAACTTCGTGGCACTCTTTTAA
1 AAGTCCACAACTCCGTGGCA-TCTTTTAA
3665 TTCCATAATT
Statistics
Matches: 171, Mismatches: 18, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
81 19 0.11
82 89 0.52
83 60 0.35
84 3 0.02
ACGTcount: A:0.24, C:0.31, G:0.14, T:0.31
Consensus pattern (82 bp):
AAGTCCACAACTCCGTGGCATCTTTTAAAGTCCACAACTCCGTGGCATCCTTTTAAAGTCCACAA
CTCCGTGGCACCCTTTT
Found at i:3729 original size:29 final size:29
Alignment explanation
Indices: 3677--4917 Score: 1468
Period size: 28 Copynumber: 42.8 Consensus size: 29
3667 CCATAATTTC
* * *
3677 GTGGCATCATTCTCAAAGCTCACAAGTGA
1 GTGGCATCCTTCTCAAAGCCCACAAGTCA
* * *
3706 GTGACATCCTTCTCAAAACCCACACAAGTCG
1 GTGGCATCCTTCTC-AAAGCC-CACAAGTCA
*
3737 GTGGCAACCCATT-TCAAAGCCCACAAGTCA
1 GTGGC-ATCC-TTCTCAAAGCCCACAAGTCA
* *
3767 GTAGCATCCTTTTCAAAGCCCACAAGTCA
1 GTGGCATCCTTCTCAAAGCCCACAAGTCA
* * *
3796 ATGGC-TCCTTTTTAAAGCCCACAAGTCA
1 GTGGCATCCTTCTCAAAGCCCACAAGTCA
*
3824 GTGGCAT-CTTCTCAAAGCCCACACAAGTCG
1 GTGGCATCCTTCTCAAAG-CC-CACAAGTCA
* *
3854 GTGGTAACCCATT-TCAAAGCCCACAAGTCA
1 GTGG-CATCC-TTCTCAAAGCCCACAAGTCA
*
3884 GTGGCATTCTTCTCAAAGCCCACAAGTCA
1 GTGGCATCCTTCTCAAAGCCCACAAGTCA
*
3913 GTGGCATTCTTCTCAAAGCCCACAAGTCA
1 GTGGCATCCTTCTCAAAGCCCACAAGTCA
*
3942 GTGGCATCCTTCTCAAAGCCCACACAAATCA
1 GTGGCATCCTTCTCAAAG-CC-CACAAGTCA
* *
3973 GTGGCATCCTT-TCAAAGTCCATAAGTCA
1 GTGGCATCCTTCTCAAAGCCCACAAGTCA
* * *
4001 ATGGCATCCTT-TCAAAGCCCCCAAATCA
1 GTGGCATCCTTCTCAAAGCCCACAAGTCA
4029 GTGGCATCCTT-TCAAAGCCCACAAGTCA
1 GTGGCATCCTTCTCAAAGCCCACAAGTCA
* * *
4057 ATGGCAT-TTTCCTCAAAGCCCACAAGTTA
1 GTGGCATCCTT-CTCAAAGCCCACAAGTCA
*
4086 GTGGCATCCTT-TCAAATCCCACAAGTCA
1 GTGGCATCCTTCTCAAAGCCCACAAGTCA
*
4114 GTGGCATCTTTCTCAAAGCCCACAAGTCA
1 GTGGCATCCTTCTCAAAGCCCACAAGTCA
* *
4143 GTGGCATCTTTCTCAAAGCCCACAAGTTA
1 GTGGCATCCTTCTCAAAGCCCACAAGTCA
* *
4172 GTGGCATCATTCTCAAAGCCCACACAAATCA
1 GTGGCATCCTTCTCAAAG-CC-CACAAGTCA
* *
4203 GTGGCATCCTT-TCAAAGCCCATAAGTTA
1 GTGGCATCCTTCTCAAAGCCCACAAGTCA
* *
4231 GTGGCATCCTT-TCAAAGCCCAGAAGTTA
1 GTGGCATCCTTCTCAAAGCCCACAAGTCA
4259 GTGGCATCCTT-TCAAAGCCCACAAGTCA
1 GTGGCATCCTTCTCAAAGCCCACAAGTCA
*
4287 ATGGCATCCTTCTCAAAGCCCACAAGTCA
1 GTGGCATCCTTCTCAAAGCCCACAAGTCA
*
4316 GTGGCATCCTTCTCAAAGCCCACACAAGTCG
1 GTGGCATCCTTCTCAAAG-CC-CACAAGTCA
* *
4347 GTGGTAACCCGTT-TCAAAGCCCACAAGTCA
1 GTGG-CATCC-TTCTCAAAGCCCACAAGTCA
*
4377 GTGGCATTCTTCTCAAAGCCCACAAGTCA
1 GTGGCATCCTTCTCAAAGCCCACAAGTCA
*
4406 GTGGCATCCTTCTCAAAGCCCACACAAATCA
1 GTGGCATCCTTCTCAAAG-CC-CACAAGTCA
* *
4437 GTGGCATCCTT-TCAAAGTCCATAAGTCA
1 GTGGCATCCTTCTCAAAGCCCACAAGTCA
* * *
4465 ATGGCATCCTT-TCAAAGCCCCCAAATCA
1 GTGGCATCCTTCTCAAAGCCCACAAGTCA
4493 GTGGCATCCTT-TCAAAGCCCACAAGTCA
1 GTGGCATCCTTCTCAAAGCCCACAAGTCA
* ** *
4521 ATGGCATTTTTCTCAAAGCCCACAAGTTA
1 GTGGCATCCTTCTCAAAGCCCACAAGTCA
4550 GTGGCATCCTT-TCAAAGCCCACAAGTCA
1 GTGGCATCCTTCTCAAAGCCCACAAGTCA
* *
4578 GTGGCATCTTTCTCAAAGCCCACAAGTTA
1 GTGGCATCCTTCTCAAAGCCCACAAGTCA
* *
4607 GTGGCATCTTTCTCAAAGCCCACAAGTTA
1 GTGGCATCCTTCTCAAAGCCCACAAGTCA
* *
4636 GTGGCATCATTCTCAAAGCCCACACAAATCA
1 GTGGCATCCTTCTCAAAG-CC-CACAAGTCA
* *
4667 GTGGCATCCTT-TCAAAGCCCATAAGTTA
1 GTGGCATCCTTCTCAAAGCCCACAAGTCA
* *
4695 GTGGCATCCTT-TCAAAGCCCAGAAGTTA
1 GTGGCATCCTTCTCAAAGCCCACAAGTCA
4723 GTGGCATCCTT-TCAAAGCCCACAAGTCA
1 GTGGCATCCTTCTCAAAGCCCACAAGTCA
* *
4751 ATGGCATCCTTCTCAAAGCCCACAAGTTA
1 GTGGCATCCTTCTCAAAGCCCACAAGTCA
*
4780 GTGGCATCCTTCTCAAAGCCCACACAAATCA
1 GTGGCATCCTTCTCAAAG-CC-CACAAGTCA
* *
4811 GTGTCAT-CTTTTCAAAGCCCACAAGTCA
1 GTGGCATCCTTCTCAAAGCCCACAAGTCA
* *
4839 GTGGTAT-CTTTTCAAAGCCCACAAGTCA
1 GTGGCATCCTTCTCAAAGCCCACAAGTCA
* *
4867 GTGGCAT-CTTTTCAAAGCCTACAAGTCA
1 GTGGCATCCTTCTCAAAGCCCACAAGTCA
*
4895 GTGGCATTCTT-TCAAAGCCCACA
1 GTGGCATCCTTCTCAAAGCCCACA
4918 TAAGTTAATG
Statistics
Matches: 1063, Mismatches: 113, Indels: 73
0.85 0.09 0.06
Matches are distributed among these distances:
27 2 0.00
28 431 0.41
29 386 0.36
30 99 0.09
31 118 0.11
32 21 0.02
33 6 0.01
ACGTcount: A:0.30, C:0.30, G:0.16, T:0.24
Consensus pattern (29 bp):
GTGGCATCCTTCTCAAAGCCCACAAGTCA
Found at i:3813 original size:28 final size:29
Alignment explanation
Indices: 3356--4917 Score: 1397
Period size: 28 Copynumber: 54.4 Consensus size: 29
3346 CTGTGACCTC
* * *
3356 TTCAAAGTCCACAATTCAGTGGCATTTCTT
1 TTCAAAGCCCACAAGTCAGTGGCA-TCCTT
* * *
3386 TTCAAAGTCTACAACTCCA-TGGCAT-CTT
1 TTCAAAGCCCACAAGT-CAGTGGCATCCTT
* * * *
3414 TT-TAAGTCCACAACTC-CTGGCATCCTT
1 TTCAAAGCCCACAAGTCAGTGGCATCCTT
* * * *
3441 TT-AAAGTCCACAACTCCGTGGTATCCTT
1 TTCAAAGCCCACAAGTCAGTGGCATCCTT
* * * * *
3469 TT--AAGTCCATAACTCCGTGGCACCCTT
1 TTCAAAGCCCACAAGTCAGTGGCATCCTT
* * *
3496 TT-AAAGTCCACAACTCCGTGGCATCCTT
1 TTCAAAGCCCACAAGTCAGTGGCATCCTT
* * *
3524 TT--AAGTCCACAACTCTA-TGGCACCCTT
1 TTCAAAGCCCACAAGTC-AGTGGCATCCTT
* * *
3551 TT--AAGTCCACAACTCCGTGGCAT-CTAT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT-T
* * * * *
3578 TTC-AAGTCCACAACTCCGTGGCGTTCTT
1 TTCAAAGCCCACAAGTCAGTGGCATCCTT
* * * *
3606 TT-AAAGTCCACAACTCCGTGGCACCCTT
1 TTCAAAGCCCACAAGTCAGTGGCATCCTT
* *
3634 TT--AAGTCCACAACTTC-GTGGCA-CTCTT
1 TTCAAAGCCCACAA-GTCAGTGGCATC-CTT
** * * *
3661 TT--AATTCCATAATTTC-GTGGCATCATT
1 TTCAAAGCCCACAA-GTCAGTGGCATCCTT
* * * *
3688 CTCAAAGCTCACAAGTGAGTGACATCCTT
1 TTCAAAGCCCACAAGTCAGTGGCATCCTT
* * * * *
3717 CTCAAAACCCACACAAGTCGGTGGCAACCCAT
1 TTC-AAAGCC-CACAAGTCAGTGGC-ATCCTT
*
3749 TTCAAAGCCCACAAGTCAGTAGCATCCTT
1 TTCAAAGCCCACAAGTCAGTGGCATCCTT
*
3778 TTCAAAGCCCACAAGTCAATGGC-TCCTT
1 TTCAAAGCCCACAAGTCAGTGGCATCCTT
*
3806 TTTAAAGCCCACAAGTCAGTGGCAT-CTT
1 TTCAAAGCCCACAAGTCAGTGGCATCCTT
* * * * *
3834 CTCAAAGCCCACACAAGTCGGTGGTAACCCAT
1 TTCAAAG-CC-CACAAGTCAGTGG-CATCCTT
*
3866 TTCAAAGCCCACAAGTCAGTGGCATTCTT
1 TTCAAAGCCCACAAGTCAGTGGCATCCTT
* *
3895 CTCAAAGCCCACAAGTCAGTGGCATTCTT
1 TTCAAAGCCCACAAGTCAGTGGCATCCTT
*
3924 CTCAAAGCCCACAAGTCAGTGGCATCCTT
1 TTCAAAGCCCACAAGTCAGTGGCATCCTT
* *
3953 CTCAAAGCCCACACAAATCAGTGGCATCC-T
1 TTCAAAG-CC-CACAAGTCAGTGGCATCCTT
* * *
3983 TTCAAAGTCCATAAGTCAATGGCATCC-T
1 TTCAAAGCCCACAAGTCAGTGGCATCCTT
* *
4011 TTCAAAGCCCCCAAATCAGTGGCATCC-T
1 TTCAAAGCCCACAAGTCAGTGGCATCCTT
*
4039 TTCAAAGCCCACAAGTCAATGGCAT--TT
1 TTCAAAGCCCACAAGTCAGTGGCATCCTT
*
4066 TCCTCAAAGCCCACAAGTTAGTGGCATCC-T
1 T--TCAAAGCCCACAAGTCAGTGGCATCCTT
*
4096 TTCAAATCCCACAAGTCAGTGGCAT-CTT
1 TTCAAAGCCCACAAGTCAGTGGCATCCTT
4124 TCTCAAAGCCCACAAGTCAGTGGCAT-CTT
1 T-TCAAAGCCCACAAGTCAGTGGCATCCTT
* *
4153 TCTCAAAGCCCACAAGTTAGTGGCATCATT
1 T-TCAAAGCCCACAAGTCAGTGGCATCCTT
* *
4183 CTCAAAGCCCACACAAATCAGTGGCATCC-T
1 TTCAAAG-CC-CACAAGTCAGTGGCATCCTT
* *
4213 TTCAAAGCCCATAAGTTAGTGGCATCC-T
1 TTCAAAGCCCACAAGTCAGTGGCATCCTT
* *
4241 TTCAAAGCCCAGAAGTTAGTGGCATCC-T
1 TTCAAAGCCCACAAGTCAGTGGCATCCTT
*
4269 TTCAAAGCCCACAAGTCAATGGCATCCTT
1 TTCAAAGCCCACAAGTCAGTGGCATCCTT
*
4298 CTCAAAGCCCACAAGTCAGTGGCATCCTT
1 TTCAAAGCCCACAAGTCAGTGGCATCCTT
* * * * *
4327 CTCAAAGCCCACACAAGTCGGTGGTAACCCGT
1 TTCAAAG-CC-CACAAGTCAGTGG-CATCCTT
*
4359 TTCAAAGCCCACAAGTCAGTGGCATTCTT
1 TTCAAAGCCCACAAGTCAGTGGCATCCTT
*
4388 CTCAAAGCCCACAAGTCAGTGGCATCCTT
1 TTCAAAGCCCACAAGTCAGTGGCATCCTT
* *
4417 CTCAAAGCCCACACAAATCAGTGGCATCC-T
1 TTCAAAG-CC-CACAAGTCAGTGGCATCCTT
* * *
4447 TTCAAAGTCCATAAGTCAATGGCATCC-T
1 TTCAAAGCCCACAAGTCAGTGGCATCCTT
* *
4475 TTCAAAGCCCCCAAATCAGTGGCATCC-T
1 TTCAAAGCCCACAAGTCAGTGGCATCCTT
* *
4503 TTCAAAGCCCACAAGTCAATGGCAT-TTT
1 TTCAAAGCCCACAAGTCAGTGGCATCCTT
*
4531 TCTCAAAGCCCACAAGTTAGTGGCATCC-T
1 T-TCAAAGCCCACAAGTCAGTGGCATCCTT
4560 TTCAAAGCCCACAAGTCAGTGGCAT-CTT
1 TTCAAAGCCCACAAGTCAGTGGCATCCTT
*
4588 TCTCAAAGCCCACAAGTTAGTGGCAT-CTT
1 T-TCAAAGCCCACAAGTCAGTGGCATCCTT
* *
4617 TCTCAAAGCCCACAAGTTAGTGGCATCATT
1 T-TCAAAGCCCACAAGTCAGTGGCATCCTT
* *
4647 CTCAAAGCCCACACAAATCAGTGGCATCC-T
1 TTCAAAG-CC-CACAAGTCAGTGGCATCCTT
* *
4677 TTCAAAGCCCATAAGTTAGTGGCATCC-T
1 TTCAAAGCCCACAAGTCAGTGGCATCCTT
* *
4705 TTCAAAGCCCAGAAGTTAGTGGCATCC-T
1 TTCAAAGCCCACAAGTCAGTGGCATCCTT
*
4733 TTCAAAGCCCACAAGTCAATGGCATCCTT
1 TTCAAAGCCCACAAGTCAGTGGCATCCTT
* *
4762 CTCAAAGCCCACAAGTTAGTGGCATCCTT
1 TTCAAAGCCCACAAGTCAGTGGCATCCTT
* * *
4791 CTCAAAGCCCACACAAATCAGTGTCAT-CTT
1 TTCAAAG-CC-CACAAGTCAGTGGCATCCTT
*
4821 TTCAAAGCCCACAAGTCAGTGGTAT-CTT
1 TTCAAAGCCCACAAGTCAGTGGCATCCTT
4849 TTCAAAGCCCACAAGTCAGTGGCAT-CTT
1 TTCAAAGCCCACAAGTCAGTGGCATCCTT
* *
4877 TTCAAAGCCTACAAGTCAGTGGCATTC-T
1 TTCAAAGCCCACAAGTCAGTGGCATCCTT
4905 TTCAAAGCCCACA
1 TTCAAAGCCCACA
4918 TAAGTTAATG
Statistics
Matches: 1319, Mismatches: 158, Indels: 112
0.83 0.10 0.07
Matches are distributed among these distances:
26 10 0.01
27 143 0.11
28 513 0.39
29 391 0.30
30 126 0.10
31 112 0.08
32 24 0.02
ACGTcount: A:0.29, C:0.30, G:0.16, T:0.25
Consensus pattern (29 bp):
TTCAAAGCCCACAAGTCAGTGGCATCCTT
Found at i:4143 original size:230 final size:229
Alignment explanation
Indices: 3677--4930 Score: 1718
Period size: 230 Copynumber: 5.4 Consensus size: 229
3667 CCATAATTTC
* * * * * * *
3677 GTGGCATCATTCTCAAAGCTCACAAGTGAGTGACATCCTTCTCAAAACCCACACAAGTCGGTGGC
1 GTGGCATCTTTCTCAAAGCCCACAAGTCAGTGGCATCCTTCTCAAAGCCCACACAAATCAGTGGC
* * * * *
3742 AACCCATTTCAAAGCCCACAAGTCAGTAGCATCCTTTTCAAAGCCCACAAGTCAATGGC-TCCTT
66 -ATCC-TTTCAAAGCCCATAAGTCAATGGCATCC-TTTCAAAGCCCACAAGTCAGTGGCATCC-T
* * ** * *
3806 TTTAAAGCCCACAAGTCAGTGGCATCTTCTCAAAGCCCACACAAGTCGGTGGTAACCCATTTCAA
127 TTCAAAGCCCACAAGTCAATGGCATCTTCTCAAAG-CC-CACAAGTTAGTGG-CATCC-TTTCAA
*
3871 AGCCCACAAGTCAGTGGCAT-TCTTCTCAAAGCCCACAAGTCA
188 ACCCCACAAGTCAGTGGCATCT-TTCTCAAAGCCCACAAGTCA
3913 GTGGCAT-TCTTCTCAAAGCCCACAAGTCAGTGGCATCCTTCTCAAAGCCCACACAAATCAGTGG
1 GTGGCATCT-TTCTCAAAGCCCACAAGTCAGTGGCATCCTTCTCAAAGCCCACACAAATCAGTGG
* * *
3977 CATCCTTTCAAAGTCCATAAGTCAATGGCATCCTTTCAAAGCCCCCAAATCAGTGGCATCCTTTC
65 CATCCTTTCAAAGCCCATAAGTCAATGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTC
* *
4042 AAAGCCCACAAGTCAATGGCATTTTCCTCAAAGCCCACAAGTTAGTGGCATCCTTTCAAATCCCA
130 AAAGCCCACAAGTCAATGGCATCTT-CTCAAAGCCCACAAGTTAGTGGCATCCTTTCAAACCCCA
4107 CAAGTCAGTGGCATCTTTCTCAAAGCCCACAAGTCA
194 CAAGTCAGTGGCATCTTTCTCAAAGCCCACAAGTCA
* *
4143 GTGGCATCTTTCTCAAAGCCCACAAGTTAGTGGCATCATTCTCAAAGCCCACACAAATCAGTGGC
1 GTGGCATCTTTCTCAAAGCCCACAAGTCAGTGGCATCCTTCTCAAAGCCCACACAAATCAGTGGC
* * * *
4208 ATCCTTTCAAAGCCCATAAGTTAGTGGCATCCTTTCAAAGCCCAGAAGTTAGTGGCATCCTTTCA
66 ATCCTTTCAAAGCCCATAAGTCAATGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCA
*
4273 AAGCCCACAAGTCAATGGCATCCTTCTCAAAGCCCACAAGTCAGTGGCATCCTTCTCAAAGCCCA
131 AAGCCCACAAGTCAATGGCAT-CTTCTCAAAGCCCACAAGTTAGTGGCATCCTT-TCAAA-CCC-
* * * *
4338 CACAAGTCGGTGGTAACCCGTT-TCAAAGCCCACAAGTCA
192 CACAAGTCAGTGG-CA-TCTTTCTCAAAGCCCACAAGTCA
4377 GTGGCAT-TCTTCTCAAAGCCCACAAGTCAGTGGCATCCTTCTCAAAGCCCACACAAATCAGTGG
1 GTGGCATCT-TTCTCAAAGCCCACAAGTCAGTGGCATCCTTCTCAAAGCCCACACAAATCAGTGG
* * *
4441 CATCCTTTCAAAGTCCATAAGTCAATGGCATCCTTTCAAAGCCCCCAAATCAGTGGCATCCTTTC
65 CATCCTTTCAAAGCCCATAAGTCAATGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTC
* *
4506 AAAGCCCACAAGTCAATGGCATTTTTCTCAAAGCCCACAAGTTAGTGGCATCCTTTCAAAGCCCA
130 AAAGCCCACAAGTCAATGGCA-TCTTCTCAAAGCCCACAAGTTAGTGGCATCCTTTCAAACCCCA
*
4571 CAAGTCAGTGGCATCTTTCTCAAAGCCCACAAGTTA
194 CAAGTCAGTGGCATCTTTCTCAAAGCCCACAAGTCA
* *
4607 GTGGCATCTTTCTCAAAGCCCACAAGTTAGTGGCATCATTCTCAAAGCCCACACAAATCAGTGGC
1 GTGGCATCTTTCTCAAAGCCCACAAGTCAGTGGCATCCTTCTCAAAGCCCACACAAATCAGTGGC
* * * *
4672 ATCCTTTCAAAGCCCATAAGTTAGTGGCATCCTTTCAAAGCCCAGAAGTTAGTGGCATCCTTTCA
66 ATCCTTTCAAAGCCCATAAGTCAATGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCA
4737 AAGCCCACAAGTCAATGGCATCCTTCTCAAAGCCCACAAGTTAGTGGCATCCTTCTCAAAGCCCA
131 AAGCCCACAAGTCAATGGCAT-CTTCTCAAAGCCCACAAGTTAGTGGCATCCTT-TCAAA-CCC-
* *
4802 CACAAATCAGTGTCATCTTT-TCAAAGCCCACAAGTCA
192 CACAAGTCAGTGGCATCTTTCTCAAAGCCCACAAGTCA
* * * *
4839 GTGGTATCTTT-TCAAAGCCCACAAGTCAGTGGCAT-CTTTTCAAAG-CC-TACAAGTCAGTGGC
1 GTGGCATCTTTCTCAAAGCCCACAAGTCAGTGGCATCCTTCTCAAAGCCCACACAAATCAGTGGC
* *
4900 ATTCTTTCAAAGCCCACATAAGTTAATGGCA
66 ATCCTTTCAAAG-CC-CATAAGTCAATGGCA
4931 CTTTTTTTTA
Statistics
Matches: 919, Mismatches: 78, Indels: 48
0.88 0.07 0.05
Matches are distributed among these distances:
228 23 0.03
229 8 0.01
230 422 0.46
231 53 0.06
232 43 0.05
233 85 0.09
234 221 0.24
235 7 0.01
236 57 0.06
ACGTcount: A:0.30, C:0.30, G:0.16, T:0.24
Consensus pattern (229 bp):
GTGGCATCTTTCTCAAAGCCCACAAGTCAGTGGCATCCTTCTCAAAGCCCACACAAATCAGTGGC
ATCCTTTCAAAGCCCATAAGTCAATGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCA
AAGCCCACAAGTCAATGGCATCTTCTCAAAGCCCACAAGTTAGTGGCATCCTTTCAAACCCCACA
AGTCAGTGGCATCTTTCTCAAAGCCCACAAGTCA
Found at i:4616 original size:464 final size:464
Alignment explanation
Indices: 3748--4930 Score: 1815
Period size: 464 Copynumber: 2.5 Consensus size: 464
3738 TGGCAACCCA
* * * * *
3748 TTTCAAAGCCCACAAGTCAGTAGCATCCTTTTCAAAGCCCACAAGTCAATGGC-TCCTTTTTAAA
1 TTTCAAAGCCCAGAAGTTAGTGGCATCC-TTTCAAAGCCCACAAGTCAATGGCATCCTTCTCAAA
3812 GCCCACAAGTCAGTGGCAT-CTTCTCAAAGCCCACACAAGTCGGTGGTAACCCATTTCAAAGCCC
65 GCCCACAAGTCAGTGGCATCCTTCTCAAAGCCCACACAAGTCGGTGGTAACCCATTTCAAAGCCC
3876 ACAAGTCAGTGGCATTCTTCTCAAAGCCCACAAGTCAGTGGCATTCTTCTCAAAGCCCACAAGTC
130 ACAAGTCAGTGGCATTCTTCTCAAAGCCCACAAGTCAGTGGCA-TC--CT-------------TC
3941 AGTGGCATCCTTCTCAAAGCCCACACAAATCAGTGGCATCCTTTCAAAGTCCATAAGTCAATGGC
179 --T--CA--------AA-GCCCACACAAATCAGTGGCATCCTTTCAAAGTCCATAAGTCAATGGC
4006 ATCCTTTCAAAGCCCCCAAATCAGTGGCATCCTTTCAAAGCCCACAAGTCAATGGCATTTTCCTC
231 ATCCTTTCAAAGCCCCCAAATCAGTGGCATCCTTTCAAAGCCCACAAGTCAATGGCATTTTCCTC
*
4071 AAAGCCCACAAGTTAGTGGCATCCTTTCAAATCCCACAAGTCAGTGGCATCTTTCTCAAAGCCCA
296 AAAGCCCACAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCTTTCTCAAAGCCCA
4136 CAAGTCAGTGGCATCTTTCTCAAAGCCCACAAGTTAGTGGCATCATTCTCAAAGCCCACACAAAT
361 CAAGTCAGTGGCATCTTTCTCAAAGCCCACAAGTTAGTGGCATCATTCTCAAAGCCCACACAAAT
4201 CAGTGGCATCCTTTCAAAGCCCATAAGTTAGTGGCATCC
426 CAGTGGCATCCTTTCAAAGCCCATAAGTTAGTGGCATCC
4240 TTTCAAAGCCCAGAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTCAATGGCATCCTTCTCAAAG
1 TTTCAAAGCCCAGAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTCAATGGCATCCTTCTCAAAG
*
4305 CCCACAAGTCAGTGGCATCCTTCTCAAAGCCCACACAAGTCGGTGGTAACCCGTTTCAAAGCCCA
66 CCCACAAGTCAGTGGCATCCTTCTCAAAGCCCACACAAGTCGGTGGTAACCCATTTCAAAGCCCA
4370 CAAGTCAGTGGCATTCTTCTCAAAGCCCACAAGTCAGTGGCATCCTTCTCAAAGCCCACACAAAT
131 CAAGTCAGTGGCATTCTTCTCAAAGCCCACAAGTCAGTGGCATCCTTCTCAAAGCCCACACAAAT
4435 CAGTGGCATCCTTTCAAAGTCCATAAGTCAATGGCATCCTTTCAAAGCCCCCAAATCAGTGGCAT
196 CAGTGGCATCCTTTCAAAGTCCATAAGTCAATGGCATCCTTTCAAAGCCCCCAAATCAGTGGCAT
*
4500 CCTTTCAAAGCCCACAAGTCAATGGCATTTTTCTCAAAGCCCACAAGTTAGTGGCATCCTTTCAA
261 CCTTTCAAAGCCCACAAGTCAATGGCATTTTCCTCAAAGCCCACAAGTTAGTGGCATCCTTTCAA
*
4565 AGCCCACAAGTCAGTGGCATCTTTCTCAAAGCCCACAAGTTAGTGGCATCTTTCTCAAAGCCCAC
326 AGCCCACAAGTCAGTGGCATCTTTCTCAAAGCCCACAAGTCAGTGGCATCTTTCTCAAAGCCCAC
4630 AAGTTAGTGGCATCATTCTCAAAGCCCACACAAATCAGTGGCATCCTTTCAAAGCCCATAAGTTA
391 AAGTTAGTGGCATCATTCTCAAAGCCCACACAAATCAGTGGCATCCTTTCAAAGCCCATAAGTTA
4695 GTGGCATCC
456 GTGGCATCC
4704 TTTCAAAGCCCAGAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTCAATGGCATCCTTCTCAAAG
1 TTTCAAAGCCCAGAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTCAATGGCATCCTTCTCAAAG
* * * * * *
4769 CCCACAAGTTAGTGGCATCCTTCTCAAAGCCCACACAAATCAGT-GTCA-TCTTTTCAAAGCCCA
66 CCCACAAGTCAGTGGCATCCTTCTCAAAGCCCACACAAGTCGGTGGTAACCCATTTCAAAGCCCA
* * * * *
4832 CAAGTCAGTGGTA-TCTTTTCAAAGCCCACAAGTCAGTGGCAT-CTTTTCAAAG-CC-TACAAGT
131 CAAGTCAGTGGCATTCTTCTCAAAGCCCACAAGTCAGTGGCATCCTTCTCAAAGCCCACACAAAT
* * *
4893 CAGTGGCATTCTTTCAAAGCCCACATAAGTTAATGGCA
196 CAGTGGCATCCTTTCAAAG-TC-CATAAGTCAATGGCA
4931 CTTTTTTTTA
Statistics
Matches: 664, Mismatches: 23, Indels: 40
0.91 0.03 0.06
Matches are distributed among these distances:
458 23 0.03
459 3 0.00
460 23 0.03
461 28 0.04
462 25 0.04
463 3 0.00
464 384 0.58
465 2 0.00
473 2 0.00
475 1 0.00
477 2 0.00
490 2 0.00
491 24 0.04
492 55 0.08
493 87 0.13
ACGTcount: A:0.30, C:0.30, G:0.16, T:0.24
Consensus pattern (464 bp):
TTTCAAAGCCCAGAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTCAATGGCATCCTTCTCAAAG
CCCACAAGTCAGTGGCATCCTTCTCAAAGCCCACACAAGTCGGTGGTAACCCATTTCAAAGCCCA
CAAGTCAGTGGCATTCTTCTCAAAGCCCACAAGTCAGTGGCATCCTTCTCAAAGCCCACACAAAT
CAGTGGCATCCTTTCAAAGTCCATAAGTCAATGGCATCCTTTCAAAGCCCCCAAATCAGTGGCAT
CCTTTCAAAGCCCACAAGTCAATGGCATTTTCCTCAAAGCCCACAAGTTAGTGGCATCCTTTCAA
AGCCCACAAGTCAGTGGCATCTTTCTCAAAGCCCACAAGTCAGTGGCATCTTTCTCAAAGCCCAC
AAGTTAGTGGCATCATTCTCAAAGCCCACACAAATCAGTGGCATCCTTTCAAAGCCCATAAGTTA
GTGGCATCC
Found at i:5092 original size:46 final size:46
Alignment explanation
Indices: 5005--5125 Score: 172
Period size: 46 Copynumber: 2.7 Consensus size: 46
4995 AAGTCCGATA
* * *
5005 TCGCTGGCATTGGATCAGCATATTG-GCACCTTTGCTAGCTCAATG
1 TCGCTGGCCTTGAATCAGCATATTGTCCACCTTTGCTAGCTCAATG
* *
5050 TCGCTGGCCTTGAATCAACATATTGTCCACCTTTGTTAGCTCAATG
1 TCGCTGGCCTTGAATCAGCATATTGTCCACCTTTGCTAGCTCAATG
* *
5096 TCACTGGCCTTGAATCAGCACATTGTCCAC
1 TCGCTGGCCTTGAATCAGCATATTGTCCAC
5126 TTTTCTCTTA
Statistics
Matches: 67, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
45 22 0.33
46 45 0.67
ACGTcount: A:0.21, C:0.27, G:0.20, T:0.31
Consensus pattern (46 bp):
TCGCTGGCCTTGAATCAGCATATTGTCCACCTTTGCTAGCTCAATG
Found at i:17902 original size:19 final size:20
Alignment explanation
Indices: 17857--17909 Score: 81
Period size: 20 Copynumber: 2.7 Consensus size: 20
17847 TTACAAGCCA
*
17857 ATGTATCGATACATTTTGGG
1 ATGTATCGATACAATTTGGG
*
17877 ATGTATCGATACAATTTGTG
1 ATGTATCGATACAATTTGGG
17897 -TGTATCGATACAA
1 ATGTATCGATACAA
17910 ACAGTTAAGG
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 13 0.42
20 18 0.58
ACGTcount: A:0.30, C:0.11, G:0.21, T:0.38
Consensus pattern (20 bp):
ATGTATCGATACAATTTGGG
Found at i:18008 original size:13 final size:13
Alignment explanation
Indices: 17990--18014 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
17980 ACATTTGGTC
17990 ATGTATCGATACA
1 ATGTATCGATACA
18003 ATGTATCGATAC
1 ATGTATCGATAC
18015 TGTGCAATTT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:24780 original size:21 final size:20
Alignment explanation
Indices: 24755--24807 Score: 81
Period size: 19 Copynumber: 2.6 Consensus size: 20
24745 TACAAGCCAA
*
24755 TGTATCGATACAATTTTTTTG
1 TGTATCGATACAA-TATTTTG
24776 TGTATCGATAC-ATATTTTG
1 TGTATCGATACAATATTTTG
24795 TGTATCGATACAA
1 TGTATCGATACAA
24808 GTTTGGCTAC
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
19 17 0.57
20 2 0.07
21 11 0.37
ACGTcount: A:0.28, C:0.11, G:0.15, T:0.45
Consensus pattern (20 bp):
TGTATCGATACAATATTTTG
Found at i:24911 original size:20 final size:20
Alignment explanation
Indices: 24858--24913 Score: 78
Period size: 20 Copynumber: 2.8 Consensus size: 20
24848 ACATCTTTTT
*
24858 CATGTATCGATACATTGCAA
1 CATGTATCGATACTTTGCAA
24878 CATGTATCGATACTTTG-AA
1 CATGTATCGATACTTTGCAA
*
24897 CTGTGTATCGATACTTT
1 C-ATGTATCGATACTTT
24914 TAAGGGTTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
19 3 0.09
20 30 0.91
ACGTcount: A:0.29, C:0.18, G:0.16, T:0.38
Consensus pattern (20 bp):
CATGTATCGATACTTTGCAA
Found at i:27075 original size:20 final size:20
Alignment explanation
Indices: 27050--27121 Score: 110
Period size: 20 Copynumber: 3.6 Consensus size: 20
27040 TTACAAGCCA
27050 ATGTATCGATACATTTTGGG
1 ATGTATCGATACATTTTGGG
27070 ATGTATCGATACATTTTGGG
1 ATGTATCGATACATTTTGGG
** *
27090 ATGTATCGATACAACTTGTG
1 ATGTATCGATACATTTTGGG
27110 -TGTATCGATACA
1 ATGTATCGATACA
27122 AACAGTTAAG
Statistics
Matches: 49, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
19 12 0.24
20 37 0.76
ACGTcount: A:0.28, C:0.12, G:0.22, T:0.38
Consensus pattern (20 bp):
ATGTATCGATACATTTTGGG
Found at i:29951 original size:10 final size:10
Alignment explanation
Indices: 29936--29960 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
29926 GAATCGATAA
29936 ATAATTTTAC
1 ATAATTTTAC
29946 ATAATTTTAC
1 ATAATTTTAC
29956 ATAAT
1 ATAAT
29961 CCATAAAAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.48
Consensus pattern (10 bp):
ATAATTTTAC
Found at i:31873 original size:22 final size:23
Alignment explanation
Indices: 31843--31886 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
31833 TGAATTTCAG
*
31843 ATATGATTTTGGTG-TTAATTATA
1 ATATGA-TTTGATGTTTAATTATA
31866 ATAT-ATTTGATGTTTAATTAT
1 ATATGATTTGATGTTTAATTAT
31887 GTGTTCTAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 6 0.32
22 9 0.47
23 4 0.21
ACGTcount: A:0.32, C:0.00, G:0.14, T:0.55
Consensus pattern (23 bp):
ATATGATTTGATGTTTAATTATA
Found at i:32437 original size:156 final size:161
Alignment explanation
Indices: 32182--32544 Score: 413
Period size: 164 Copynumber: 2.3 Consensus size: 161
32172 ATCTTTCGAG
* * * * ***
32182 TACTTTTACGTTGAAGGTATACC-CAAAGGTATTTTCGTAA-TATTTTAGAATTGAGTCTTAGGT
1 TACTTTTACGTCGAAGGTATACCTTAAAGGTATTTTTGTAATTTTTTTAGAAGCAAGTCTTAGGT
** * * * *
32245 TGTCATTGGGACGCTTTTATGCTGAAGGTGTGCATTTAGG-A-TAGG-T-TT-ATCCCATTTATG
66 TGTCACCGAGACGCTTTTATGCTAAAGGTATACATTTAGGCATTAGGATGTTCATCCCATTTATG
*
32305 ATC-TTTTT-AGTATCCATTAGGGTTATCGGGA
131 ATCATTTTTAAG--TCCATTAGGGTTACCGGGA
* *
32336 TACTTTTATGTCGAAGGTATACCTTAAAGGTATTTTTGTAATTTTTTTAGAAGCAAGTTTTAGGT
1 TACTTTTACGTCGAAGGTATACCTTAAAGGTATTTTTGTAATTTTTTTAGAAGCAAGTCTTAGGT
*
32401 TGTCACCGAGATGCTTTTATGCTAAAGGTATACATTTAGGCATTTAGGATAGGTTCATCCCATTT
66 TGTCACCGAGACGCTTTTATGCTAAAGGTATACATTTAGGCA-TTAGGAT--GTTCATCCCATTT
*
32466 ATGATCATTTTTAAGTCCTTTAGGGTTACCGGGA
128 ATGATCATTTTTAAGTCCATTAGGGTTACCGGGA
* * *
32500 TACTTTTACATCGAAGGTATATCTTAGAGGTA-TTTTGATAATTTT
1 TACTTTTACGTCGAAGGTATACCTTAAAGGTATTTTTG-TAATTTT
32545 GCATTAGAAC
Statistics
Matches: 174, Mismatches: 22, Indels: 16
0.82 0.10 0.08
Matches are distributed among these distances:
154 21 0.12
155 15 0.09
156 51 0.29
157 1 0.01
159 4 0.02
160 1 0.01
163 7 0.04
164 67 0.39
165 5 0.03
166 2 0.01
ACGTcount: A:0.26, C:0.12, G:0.21, T:0.42
Consensus pattern (161 bp):
TACTTTTACGTCGAAGGTATACCTTAAAGGTATTTTTGTAATTTTTTTAGAAGCAAGTCTTAGGT
TGTCACCGAGACGCTTTTATGCTAAAGGTATACATTTAGGCATTAGGATGTTCATCCCATTTATG
ATCATTTTTAAGTCCATTAGGGTTACCGGGA
Found at i:35172 original size:12 final size:12
Alignment explanation
Indices: 35155--35189 Score: 70
Period size: 12 Copynumber: 2.9 Consensus size: 12
35145 CACTTATTTG
35155 CATACATGCATA
1 CATACATGCATA
35167 CATACATGCATA
1 CATACATGCATA
35179 CATACATGCAT
1 CATACATGCAT
35190 TTGTTCATGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.40, C:0.26, G:0.09, T:0.26
Consensus pattern (12 bp):
CATACATGCATA
Found at i:36526 original size:18 final size:18
Alignment explanation
Indices: 36505--36542 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
36495 AATCAAAAAA
36505 AAAAAGAAAAGAAA-AATG
1 AAAAA-AAAAGAAAGAATG
*
36523 AAAAAAATAGAAAGAATG
1 AAAAAAAAAGAAAGAATG
36541 AA
1 AA
36543 GCTCTAGGGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 7 0.39
18 11 0.61
ACGTcount: A:0.76, C:0.00, G:0.16, T:0.08
Consensus pattern (18 bp):
AAAAAAAAAGAAAGAATG
Found at i:38451 original size:60 final size:59
Alignment explanation
Indices: 38248--38462 Score: 209
Period size: 60 Copynumber: 3.6 Consensus size: 59
38238 TTAACTATTA
* * ** * * * *
38248 TGGTTTCACCTAAGTCGTTCTTTAGGCCTGTGGTTTTATCCAAGCTATTTAGTTAAGTCT
1 TGGTTTCACCTAAGTCATTGTTTAGGTTTCTAG-TTTATCCTAGCCATTTAGTTAAGTCT
* * *
38308 TGGTTTCACCTAAGTTATTGTTTAGGTTTCTGGTTTTATCCTAGTCATTTAGTTAAGTC-
1 TGGTTTCACCTAAGTCATTGTTTAGGTTTCTAG-TTTATCCTAGCCATTTAGTTAAGTCT
* * * * *
38367 GGGTTTCACATAAGTCATTATTTAGGTTTCTAGTTTAT-CTAGGCCATTTTTGTTGAGTCT
1 TGGTTTCACCTAAGTCATTGTTTAGGTTTCTAGTTTATCCTA-GCCA-TTTAGTTAAGTCT
* * *
38427 TAGTTTTACCTAAGTCATTGTTTAGGTTTCAAGTTT
1 TGGTTTCACCTAAGTCATTGTTTAGGTTTCTAGTTT
38463 GTCCGGGTAA
Statistics
Matches: 129, Mismatches: 23, Indels: 6
0.82 0.15 0.04
Matches are distributed among these distances:
57 3 0.02
58 8 0.06
59 38 0.29
60 80 0.62
ACGTcount: A:0.20, C:0.14, G:0.19, T:0.47
Consensus pattern (59 bp):
TGGTTTCACCTAAGTCATTGTTTAGGTTTCTAGTTTATCCTAGCCATTTAGTTAAGTCT
Found at i:39615 original size:40 final size:39
Alignment explanation
Indices: 39571--39679 Score: 103
Period size: 40 Copynumber: 2.7 Consensus size: 39
39561 GATATTATAT
**
39571 AACCTTTTAATTGGTTGACTTTATCGGTTCTACCCTGGTC
1 AACCTTTTAATTGGTTGACTTTATCGGTTCTA-CCTGCCC
* * * * * *
39611 AACCTTTCAACCT-ATTGGCTTTATCGGTTTTTACTTGCCC
1 AACCTTTTAA-TTGGTTGACTTTATCGG-TTCTACCTGCCC
*
39651 AACCTTCTAATTGGTTGACTTTATCGGTT
1 AACCTTTTAATTGGTTGACTTTATCGGTT
39680 TCACTTTGAT
Statistics
Matches: 53, Mismatches: 13, Indels: 7
0.73 0.18 0.10
Matches are distributed among these distances:
39 3 0.06
40 45 0.85
41 5 0.09
ACGTcount: A:0.18, C:0.23, G:0.16, T:0.43
Consensus pattern (39 bp):
AACCTTTTAATTGGTTGACTTTATCGGTTCTACCTGCCC
Found at i:39680 original size:40 final size:39
Alignment explanation
Indices: 39629--39761 Score: 126
Period size: 40 Copynumber: 3.3 Consensus size: 39
39619 AACCTATTGG
* *
39629 CTTTATCGGTTTTTACTTGCCCAACCTTCTAATTGGTTGA
1 CTTTATCGGTTTTCACTTGACCAACCTTCTAATT-GTTGA
* * *
39669 CTTTATCGG-TTTCACTTTGATCAACCCTTCTAAACTGTTGG
1 CTTTATCGGTTTTCAC-TTGACCAA-CCTTCT-AATTGTTGA
* * *
39710 CTTTATCAGTTTTGC-CTTGGCCAACCTTCTAATTAGTCGA
1 CTTTATCGGTTTT-CACTTGACCAACCTTCTAATT-GTTGA
39750 CTTTATCGGTTT
1 CTTTATCGGTTT
39762 CACCGTGGTT
Statistics
Matches: 75, Mismatches: 12, Indels: 12
0.76 0.12 0.12
Matches are distributed among these distances:
39 8 0.11
40 35 0.47
41 24 0.32
42 7 0.09
43 1 0.01
ACGTcount: A:0.18, C:0.23, G:0.15, T:0.44
Consensus pattern (39 bp):
CTTTATCGGTTTTCACTTGACCAACCTTCTAATTGTTGA
Found at i:39741 original size:81 final size:81
Alignment explanation
Indices: 39571--40346 Score: 569
Period size: 81 Copynumber: 9.6 Consensus size: 81
39561 GATATTATAT
* * * * *
39571 AACCTTTTAATTGGTTGACTTTATC-GGTTCTACCCTGGTCAACCTTTC-AACCTATTGGCTTTA
1 AACCTTTTAATTGGTTGACTTTATCAGTTTC-ACCCTGATCAACCCTTCTAAACTGTTGGCTTTA
**
39634 TCGGTTTTTACTT-GCCC
65 TCGGTTTTGCCTTAG-CC
* * **
39651 AACCTTCTAATTGGTTGACTTTATCGGTTTCACTTTGATCAACCCTTCTAAACTGTTGGCTTTAT
1 AACCTTTTAATTGGTTGACTTTATCAGTTTCACCCTGATCAACCCTTCTAAACTGTTGGCTTTAT
* *
39716 CAGTTTTGCCTTGGCC
66 CGGTTTTGCCTTAGCC
* * * * * * ** * *
39732 AACCTTCTAATTAGTCGACTTTATCGGTTTCACCGTGGTTGACCCTTCT-AACTTATTGGTTTTA
1 AACCTTTTAATTGGTTGACTTTATCAGTTTCACCCTGATCAACCCTTCTAAAC-TGTTGGCTTTA
* * *
39796 TCGGTCTCGCCTTTGCC
65 TCGGTTTTGCCTTAGCC
* * * *
39813 AACCTTTTAATTGCTTGACTTTATC-GATTTCACTCT-AGTCAACCCTTCTAACCTATTGGCTTT
1 AACCTTTTAATTGGTTGACTTTATCAG-TTTCACCCTGA-TCAACCCTTCTAAACTGTTGGCTTT
*
39876 ATTGGTTTTGTCC-TAGCC
64 ATCGGTTTTG-CCTTAGCC
* ** *
39894 AACCTTTTAATTAGTTGACTTTATCAGTTTTGCCCTGATCAACCTTTC-AAACCTGTTGGCTTTA
1 AACCTTTTAATTGGTTGACTTTATCAGTTTCACCCTGATCAACCCTTCTAAA-CTGTTGGCTTTA
*
39958 TC-GATTT-CACTCTAGCC
65 TCGGTTTTGC-CT-TAGCC
* * * * **
39975 AACCTTTTAATTGGTTGAC-ATATCAGTTTCGCCCT-ACTCAATCCTTATAATTTG-TGTGCTTT
1 AACCTTTTAATTGGTTGACTTTATCAGTTTCACCCTGA-TCAACCCTTCTAAACTGTTG-GCTTT
* * *
40037 ATTGGTTTCGCCCTAGCC
64 ATCGGTTTTGCCTTAGCC
* * * * * * *
40055 AACCTTCTAATTGGTTGACTTTATCAATTTCGCCCT-AGTCAA-TCTTCCAAACCTGTTGGATGT
1 AACCTTTTAATTGGTTGACTTTATCAGTTTCACCCTGA-TCAACCCTTCTAAA-CTGTTGGCTTT
*
40118 ATCGGTTTTGCCCTAGCC
64 ATCGGTTTTGCCTTAGCC
* * * * * * * * * *
40136 AACCTTCTAATTGGTAGACTTTTTTAGTTTCGCCCT-AGTCAAACATTCTAACCTGTAGGTTTTA
1 AACCTTTTAATTGGTTGACTTTATCAGTTTCACCCTGA-TCAACCCTTCTAAACTGTTGGCTTTA
* * *
40200 TTGGTTTCGCCTTGGCC
65 TCGGTTTTGCCTTAGCC
* ** * * *
40217 AGCCTTTTAATTGGTTGACTTTATCAGTTTTGCCTTGGTCAACCCTT-TTAACTTGTTGGCTTTA
1 AACCTTTTAATTGGTTGACTTTATCAGTTTCACCCTGATCAACCCTTCTAAAC-TGTTGGCTTTA
** * *
40281 TCAATTTTGCCCTGGCC
65 TCGGTTTTGCCTTAGCC
* * * * *
40298 AATCTTTTAATTAGTTGACTTTATTAGTTTCACCCTGGTTAACCCTTCT
1 AACCTTTTAATTGGTTGACTTTATCAGTTTCACCCTGATCAACCCTTCT
40347 TAGTTGACTT
Statistics
Matches: 554, Mismatches: 116, Indels: 50
0.77 0.16 0.07
Matches are distributed among these distances:
78 1 0.00
79 4 0.01
80 108 0.19
81 425 0.77
82 16 0.03
ACGTcount: A:0.19, C:0.24, G:0.15, T:0.42
Consensus pattern (81 bp):
AACCTTTTAATTGGTTGACTTTATCAGTTTCACCCTGATCAACCCTTCTAAACTGTTGGCTTTAT
CGGTTTTGCCTTAGCC
Found at i:39856 original size:40 final size:39
Alignment explanation
Indices: 39812--40540 Score: 280
Period size: 40 Copynumber: 18.1 Consensus size: 39
39802 TCGCCTTTGC
* *
39812 CAACCTTTTAATTGCTTGACTTTATCGATTTCACTCTAGT
1 CAACCTTTTAATTG-TTGACTTTATCGATTTCGCCCTAGT
* * * * * * * * *
39852 CAACCCTTCTAACCTATTGGCTTTATTGGTTTTGTCCTAGC
1 CAA-CCTTTTAA-TTGTTGACTTTATCGATTTCGCCCTAGT
*
39893 CAACCTTTTAATTAGTTGACTTTATC-AGTTTTGCCCT-GAT
1 CAACCTTTTAATT-GTTGACTTTATCGA-TTTCGCCCTAG-T
* * * * * *
39933 CAACCTTTCAAACCTGTTGGCTTTATCGATTTCACTCTAGC
1 CAACCTTT-TAA-TTGTTGACTTTATCGATTTCGCCCTAGT
* *
39974 CAACCTTTTAATTGGTTGAC-ATATC-AGTTTCGCCCTACT
1 CAACCTTTTAATT-GTTGACTTTATCGA-TTTCGCCCTAGT
* * * *
40013 CAATCCTTATAATTTGTGTG-CTTTATTGGTTTCGCCCTAGC
1 CAA-CCTTTTAA-TTGT-TGACTTTATCGATTTCGCCCTAGT
* *
40054 CAACCTTCTAATTGGTTGACTTTATCAATTTCGCCCTAGT
1 CAACCTTTTAATT-GTTGACTTTATCGATTTCGCCCTAGT
* ** * * * * *
40094 CAATCTTCCAAACCTGTTGGA-TGTATCGGTTTTGCCCTAGC
1 CAACCTT-TTAA-TTGTT-GACTTTATCGATTTCGCCCTAGT
* * **
40135 CAACCTTCTAATTGGTAGACTTT-TTTAGTTTCGCCCTAGT
1 CAACCTTTTAATT-GTTGACTTTATCGA-TTTCGCCCTAGT
* * * * ** * * * * *
40175 CAAACATTCTAACCTGTAGGTTTTATTGGTTTCGCCTTGGC
1 C-AACCTTTTAA-TTGTTGACTTTATCGATTTCGCCCTAGT
* * * *
40216 CAGCCTTTTAATTGGTTGACTTTATC-AGTTTTGCCTTGGT
1 CAACCTTTTAATT-GTTGACTTTATCGA-TTTCGCCCTAGT
* * * * *
40256 CAACCCTTTTAACTTGTTGGCTTTATCAATTTTGCCCTGGC
1 CAA-CCTTTTAA-TTGTTGACTTTATCGATTTCGCCCTAGT
* * * *
40297 CAATCTTTTAATTAGTTGACTTTAT-TAGTTTCACCCTGGT
1 CAACCTTTTAATT-GTTGACTTTATCGA-TTTCGCCCTAGT
* * *
40337 TAACCCTTCTT-A--GTTGACTTTATCGTTTTCGCCCTAAT
1 CAA-CCTT-TTAATTGTTGACTTTATCGATTTCGCCCTAGT
* * * * * *
40375 CAATCTTCTAACATGTTGGCTTTATCGATTTTGCCCT-GCC
1 CAACCTTTTAA-TTGTTGACTTTATCGATTTCGCCCTAG-T
* * *
40415 CAACCTTTTAATTAGTTAACTTTATTGACTTCGCCCTAGT
1 CAACCTTTTAATT-GTTGACTTTATCGATTTCGCCCTAGT
* *** * * *
40455 CAACCCTTCTAACCCATTCG-CTTTATCGGTTTCACCCTAGC
1 CAA-CCTTTTAA-TTGTT-GACTTTATCGATTTCGCCCTAGT
* * *
40496 CAACCTTTTAGTTGGTTGACTTTATCGATTTTGCCCTGGT
1 CAACCTTTTAATT-GTTGACTTTATCGATTTCGCCCTAGT
40536 CAACC
1 CAACC
40541 CTTCCAACCT
Statistics
Matches: 503, Mismatches: 137, Indels: 98
0.68 0.19 0.13
Matches are distributed among these distances:
36 1 0.00
37 4 0.01
38 23 0.05
39 32 0.06
40 236 0.47
41 192 0.38
42 15 0.03
ACGTcount: A:0.20, C:0.25, G:0.14, T:0.41
Consensus pattern (39 bp):
CAACCTTTTAATTGTTGACTTTATCGATTTCGCCCTAGT
Found at i:39978 original size:41 final size:41
Alignment explanation
Indices: 39810--39981 Score: 108
Period size: 41 Copynumber: 4.2 Consensus size: 41
39800 TCTCGCCTTT
* *
39810 GCCAACCTTT-TAA-TTGCTTGACTTTATCGATTTCACTCTA
1 GCCAACCTTTCTAACCTG-TTGGCTTTATCGATTTCACTCTA
* * * * * **
39850 GTCAACCCTTCTAACCTATTGGCTTTATTGGTTT-TGTCCTA
1 GCCAACCTTTCTAACCTGTTGGCTTTATCGATTTCACT-CTA
* * *
39891 GCCAACCTTT-TAA-TTAGTTGACTTTATCAGTTTTGC-C-CT-
1 GCCAACCTTTCTAACCT-GTTGGCTTTATC-GATTT-CACTCTA
* *
39930 GATCAACCTTTCAAACCTGTTGGCTTTATCGATTTCACTCTA
1 G-CCAACCTTTCTAACCTGTTGGCTTTATCGATTTCACTCTA
39972 GCCAACCTTT
1 GCCAACCTTT
39982 TAATTGGTTG
Statistics
Matches: 96, Mismatches: 23, Indels: 25
0.67 0.16 0.17
Matches are distributed among these distances:
39 3 0.03
40 36 0.38
41 54 0.56
42 3 0.03
ACGTcount: A:0.21, C:0.26, G:0.12, T:0.41
Consensus pattern (41 bp):
GCCAACCTTTCTAACCTGTTGGCTTTATCGATTTCACTCTA
Found at i:39978 original size:162 final size:163
Alignment explanation
Indices: 39571--40346 Score: 685
Period size: 162 Copynumber: 4.8 Consensus size: 163
39561 GATATTATAT
* * * *
39571 AACCTTTTAATTGGTTGACTTTATCGGTTCTACCCTGGTCAACCTTTC-AACCTATTGGCTTTAT
1 AACCTTTTAATTGGTTGACTTTATCAGTTTTGCCCTGGTCAACCTTTCAAACCTGTTGGCTTTAT
* ** * * * *
39635 CGGTTTT-TACTTGCCCAACCTTCTAATTGGTTGACTTTATCG-GTTTCA-CTTTGATCAACCCT
66 CGATTTTGCCCTAG-CCAACCTTTTAATTGGTTGACTTTATCGAGTTTCACCCTAG-TCAACCCT
* ** * *
39697 TCTAAACTGTTGGCTTTATCAGTTTTGCCTTGGCC
129 TCTAACCTGTTGGCTTTATTGGTTTCGCCTTAGCC
* * * * ** * ** * * * * *
39732 AACCTTCTAATTAGTCGACTTTATCGGTTTCACCGTGGTTGACCCTTCTAACTTATTGGTTTTAT
1 AACCTTTTAATTGGTTGACTTTATCAGTTTTGCCCTGGTCAACCTTTCAAACCTGTTGGCTTTAT
* * * * * * *
39797 CGGTCTCGCCTTTGCCAACCTTTTAATTGCTTGACTTTATCGA-TTTCACTCTAGTCAACCCTTC
66 CGATTTTGCCCTAGCCAACCTTTTAATTGGTTGACTTTATCGAGTTTCACCCTAGTCAACCCTTC
* *
39861 TAACCTATTGGCTTTATTGGTTTTGTCC-TAGCC
131 TAACCTGTTGGCTTTATTGGTTTCG-CCTTAGCC
* *
39894 AACCTTTTAATTAGTTGACTTTATCAGTTTTGCCCTGATCAACCTTTCAAACCTGTTGGCTTTAT
1 AACCTTTTAATTGGTTGACTTTATCAGTTTTGCCCTGGTCAACCTTTCAAACCTGTTGGCTTTAT
** * * * * * *
39959 CGATTTCACTCTAGCCAACCTTTTAATTGGTTGAC-ATATC-AGTTTCGCCCTACTCAATCCTTA
66 CGATTTTGCCCTAGCCAACCTTTTAATTGGTTGACTTTATCGAGTTTCACCCTAGTCAACCCTTC
** *
40022 TAATTTG-TGTGCTTTATTGGTTTCGCCCTAGCC
131 TAACCTGTTG-GCTTTATTGGTTTCGCCTTAGCC
* * * * * * * *
40055 AACCTTCTAATTGGTTGACTTTATCAATTTCGCCCTAGTCAATCTTCCAAACCTGTTGGATGTAT
1 AACCTTTTAATTGGTTGACTTTATCAGTTTTGCCCTGGTCAACCTTTCAAACCTGTTGGCTTTAT
* * * ** * * *
40120 CGGTTTTGCCCTAGCCAACCTTCTAATTGGTAGACTTT-TTTAGTTTCGCCCTAGTCAAACATTC
66 CGATTTTGCCCTAGCCAACCTTTTAATTGGTTGACTTTATCGAGTTTCACCCTAGTCAACCCTTC
* * *
40184 TAACCTGTAGGTTTTATTGGTTTCGCCTTGGCC
131 TAACCTGTTGGCTTTATTGGTTTCGCCTTAGCC
* * * *
40217 AGCCTTTTAATTGGTTGACTTTATCAGTTTTGCCTTGGTCAACCCTTT-TAACTTGTTGGCTTTA
1 AACCTTTTAATTGGTTGACTTTATCAGTTTTGCCCTGGTCAA-CCTTTCAAACCTGTTGGCTTTA
* * * * * * *
40281 TCAATTTTGCCCTGGCCAATCTTTTAATTAGTTGACTTTAT-TAGTTTCACCCTGGTTAACCCTT
65 TCGATTTTGCCCTAGCCAACCTTTTAATTGGTTGACTTTATCGAGTTTCACCCTAGTCAACCCTT
40345 CT
130 CT
40347 TAGTTGACTT
Statistics
Matches: 493, Mismatches: 109, Indels: 25
0.79 0.17 0.04
Matches are distributed among these distances:
160 5 0.01
161 167 0.34
162 309 0.63
163 12 0.02
ACGTcount: A:0.19, C:0.24, G:0.15, T:0.42
Consensus pattern (163 bp):
AACCTTTTAATTGGTTGACTTTATCAGTTTTGCCCTGGTCAACCTTTCAAACCTGTTGGCTTTAT
CGATTTTGCCCTAGCCAACCTTTTAATTGGTTGACTTTATCGAGTTTCACCCTAGTCAACCCTTC
TAACCTGTTGGCTTTATTGGTTTCGCCTTAGCC
Found at i:40191 original size:242 final size:243
Alignment explanation
Indices: 39571--40345 Score: 568
Period size: 242 Copynumber: 3.2 Consensus size: 243
39561 GATATTATAT
* * ** * * * *
39571 AACCTTTTAATTGGTTGACTTTATC-GGTTCTACCCTGGTCAACCTTTC-AACCTATTGGCTTTA
1 AACCTTCTAATTGCTTGACTTTATCAATTTC-ACCCTAGTCAACCCTTCAAACCTATTGGATGTA
** * * * * * ** * *
39634 TCGGTTTT-TACTTGCCCAACCTTCTAATTGGTTGACTTTATCGGTTTCACTTTGATCAACCCTT
65 TCGGTTTTGCCCTAG-CCAACCTTCTAATTAGTAGACTTTATCAGTTTCGCCCTGATCAAACATT
* ** * * * * * *
39698 CTAAA-CTGTTGGCTTTATC-AGTTTTGCCTTGGCCAACCTTCTAATTAGTCGACTTTATCGGTT
129 C-AAACCTGTAGGCTTTATCGA-TTTCACCTTAGCCAACCTTTTAATTGGTTGACTATATCAGTT
* * ** ** * * * * *
39761 TCACCGTGGTTGACCCTTCTAACTTAT-TG-GTTTTATCGGTCTCGCCTTTGCC
192 TCGCCCTACTCAATCCTTATAA-TT-TGTGTGCTTTATCGGTCTCGCCCTAGCC
* * * * * *
39813 AACCTTTTAATTGCTTGACTTTATCGATTTCACTCTAGTCAACCCTTCTAACCTATTGGCTTTAT
1 AACCTTCTAATTGCTTGACTTTATCAATTTCACCCTAGTCAACCCTTCAAACCTATTGGATGTAT
* * * * * * *
39878 TGGTTTTGTCCTAGCCAACCTTTTAATTAGTTGACTTTATCAGTTTTGCCCTGATCAACCTTTCA
66 CGGTTTTGCCCTAGCCAACCTTCTAATTAGTAGACTTTATCAGTTTCGCCCTGATCAAACATTCA
*
39943 AACCTGTTGGCTTTATCGATTTCA-CTCTAGCCAACCTTTTAATTGGTTGAC-ATATCAGTTTCG
131 AACCTGTAGGCTTTATCGATTTCACCT-TAGCCAACCTTTTAATTGGTTGACTATATCAGTTTCG
* *
40006 CCCTACTCAATCCTTATAATTTGTGTGCTTTATTGGTTTCGCCCTAGCC
195 CCCTACTCAATCCTTATAATTTGTGTGCTTTATCGGTCTCGCCCTAGCC
* * * *
40055 AACCTTCTAATTGGTTGACTTTATCAATTTCGCCCTAGTCAA-TCTTCCAAACCTGTTGGATGTA
1 AACCTTCTAATTGCTTGACTTTATCAATTTCACCCTAGTCAACCCTT-CAAACCTATTGGATGTA
* * *
40119 TCGGTTTTGCCCTAGCCAACCTTCTAATTGGTAGACTTTTTTAGTTTCGCCCT-AGTCAAACATT
65 TCGGTTTTGCCCTAGCCAACCTTCTAATTAGTAGACTTTATCAGTTTCGCCCTGA-TCAAACATT
* * * * * * * * *
40183 CTAACCTGTAGGTTTTATTGGTTTCGCCTTGGCCAGCCTTTTAATTGGTTGACTTTATCAGTTTT
129 CAAACCTGTAGGCTTTATCGATTTCACCTTAGCCAACCTTTTAATTGGTTGACTATATCAGTTTC
* ** * * * ** * * *
40248 GCCTTGGTCAACCCTTTTAACTTGT-TGGCTTTATCAATTTTGCCCTGGCC
194 GCCCTACTCAATCCTTATAATTTGTGT-GCTTTATCGGTCTCGCCCTAGCC
* * * * * *
40298 AATCTTTTAATTAG-TTGACTTTATTAGTTTCACCCTGGTTAACCCTTC
1 AACCTTCTAATT-GCTTGACTTTATCAATTTCACCCTAGTCAACCCTTC
40346 TTAGTTGACT
Statistics
Matches: 431, Mismatches: 87, Indels: 29
0.79 0.16 0.05
Matches are distributed among these distances:
240 1 0.00
241 8 0.02
242 227 0.53
243 186 0.43
244 9 0.02
ACGTcount: A:0.19, C:0.24, G:0.15, T:0.42
Consensus pattern (243 bp):
AACCTTCTAATTGCTTGACTTTATCAATTTCACCCTAGTCAACCCTTCAAACCTATTGGATGTAT
CGGTTTTGCCCTAGCCAACCTTCTAATTAGTAGACTTTATCAGTTTCGCCCTGATCAAACATTCA
AACCTGTAGGCTTTATCGATTTCACCTTAGCCAACCTTTTAATTGGTTGACTATATCAGTTTCGC
CCTACTCAATCCTTATAATTTGTGTGCTTTATCGGTCTCGCCCTAGCC
Found at i:40280 original size:41 final size:42
Alignment explanation
Indices: 40219--40694 Score: 207
Period size: 41 Copynumber: 11.8 Consensus size: 42
40209 CCTTGGCCAG
* *
40219 CCTTTTAA-TTGGTTGACTTTATCAGTTTTGCCTTGGTCAAC
1 CCTTTTAACTTAGTTGACTTTATCAGTTTTGCCCTGGTCAAC
* * *
40260 CCTTTTAACTT-GTTGGCTTTATCAATTTTGCCCTGGCCAA-
1 CCTTTTAACTTAGTTGACTTTATCAGTTTTGCCCTGGTCAAC
* * ** *
40300 TCTTTTAA-TTAGTTGACTTTATTAGTTTCACCCTGGTTAAC
1 CCTTTTAACTTAGTTGACTTTATCAGTTTTGCCCTGGTCAAC
**
40341 CC--TT--CTTAGTTGACTTTATC-GTTTTCGCCCTAATCAA-
1 CCTTTTAACTTAGTTGACTTTATCAGTTTT-GCCCTGGTCAAC
* * * * **
40378 TCTTCTAACAT-GTTGGCTTTATC-GATTTTGCCCTGCCCAA-
1 CCTTTTAACTTAGTTGACTTTATCAG-TTTTGCCCTGGTCAAC
* * * * *
40418 CCTTTTAA-TTAGTTAACTTTAT-TGACTTCGCCCTAGTCAAC
1 CCTTTTAACTTAGTTGACTTTATCAG-TTTTGCCCTGGTCAAC
* ** * ** * *
40459 CCTTCTAACCCA-TTCG-CTTTATCGGTTTCACCCTAGCCAA-
1 CCTTTTAACTTAGTT-GACTTTATCAGTTTTGCCCTGGTCAAC
* *
40499 CCTTTT-AGTTGGTTGACTTTATC-GATTTTGCCCTGGTCAAC
1 CCTTTTAACTTAGTTGACTTTATCAG-TTTTGCCCTGGTCAAC
** * * * * * *
40540 CCTTCCAACCTA-TTGGCTTGT-TGA-TTTTACTCTGGCCAA-
1 CCTTTTAACTTAGTTGACTT-TATCAGTTTTGCCCTGGTCAAC
* * * * *
40579 CCTTCTAA-TTGGTTGACTTTATTAGTTTTACCCTGTTCAAC
1 CCTTTTAACTTAGTTGACTTTATCAGTTTTGCCCTGGTCAAC
* * * *
40620 CCTTTTAACCTA-TTGGCTTTATC-GATTTTGCCTTGGTCATC
1 CCTTTTAACTTAGTTGACTTTATCAG-TTTTGCCCTGGTCAAC
* * * *
40661 CCTTATAACCTA-TTGGCTTTATCAGTTTCGCCCT
1 CCTTTTAACTTAGTTGACTTTATCAGTTTTGCCCT
40695 AGCTAACCTT
Statistics
Matches: 322, Mismatches: 83, Indels: 60
0.69 0.18 0.13
Matches are distributed among these distances:
37 5 0.02
38 23 0.07
39 24 0.07
40 126 0.39
41 135 0.42
42 9 0.03
ACGTcount: A:0.18, C:0.25, G:0.14, T:0.43
Consensus pattern (42 bp):
CCTTTTAACTTAGTTGACTTTATCAGTTTTGCCCTGGTCAAC
Found at i:40460 original size:118 final size:119
Alignment explanation
Indices: 40230--40464 Score: 305
Period size: 118 Copynumber: 2.0 Consensus size: 119
40220 CTTTTAATTG
* ** * *
40230 GTTGACTTTATCAGTTTTGCCTTGGTCAACCCTTTTAACTTGTTGGCTTTATCAATTTTGCCCTG
1 GTTGACTTTATCAGTTTTGCCCTAATCAACCCTTCTAACATGTTGGCTTTATCAATTTTGCCCTG
* * * * * *
40295 GCCAATCTTTTAATTAGTTGACTTTATTAGTTTCACCCTGGTTAACCCTTCTTA
66 CCCAACCTTTTAATTAGTTAACTTTATTAGCTTCACCCTAGTCAACCCTTCTTA
* *
40349 GTTGACTTTATC-GTTTTCGCCCTAATCAA-TCTTCTAACATGTTGGCTTTATCGATTTTGCCCT
1 GTTGACTTTATCAGTTTT-GCCCTAATCAACCCTTCTAACATGTTGGCTTTATCAATTTTGCCCT
*
40412 GCCCAACCTTTTAATTAGTTAACTTTATT-GACTTCGCCCTAGTCAACCCTTCT
65 GCCCAACCTTTTAATTAGTTAACTTTATTAG-CTTCACCCTAGTCAACCCTTCT
40465 AACCCATTCG
Statistics
Matches: 100, Mismatches: 14, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
117 1 0.01
118 79 0.79
119 20 0.20
ACGTcount: A:0.19, C:0.24, G:0.13, T:0.43
Consensus pattern (119 bp):
GTTGACTTTATCAGTTTTGCCCTAATCAACCCTTCTAACATGTTGGCTTTATCAATTTTGCCCTG
CCCAACCTTTTAATTAGTTAACTTTATTAGCTTCACCCTAGTCAACCCTTCTTA
Found at i:40600 original size:80 final size:81
Alignment explanation
Indices: 40349--40648 Score: 306
Period size: 81 Copynumber: 3.7 Consensus size: 81
40339 ACCCTTCTTA
* * * * *
40349 GTTGACTTTATCG-TTTTCGCCCTAATCAA-TCTTCTAACATGTTGGCTTTATCGATTTTGCCCT
1 GTTGACTTTATCGATTTT-GCCCTAGTCAACCCTTCTAACCTATTGGCTTTATCGATTTTACCCT
* *
40412 GCCCAACCTTTTAATTA
65 GGCCAACCTTTTAATTG
* * * * * * * * *
40429 GTTAACTTTATTGACTTCGCCCTAGTCAACCCTTCTAACCCATTCGCTTTATCGGTTTCACCCTA
1 GTTGACTTTATCGATTTTGCCCTAGTCAACCCTTCTAACCTATTGGCTTTATCGATTTTACCCTG
*
40494 GCCAACCTTTTAGTTG
66 GCCAACCTTTTAATTG
* * *
40510 GTTGACTTTATCGATTTTGCCCTGGTCAACCCTTCCAACCTATTGGCTTGT-T-GATTTTACTCT
1 GTTGACTTTATCGATTTTGCCCTAGTCAACCCTTCTAACCTATTGGCTT-TATCGATTTTACCCT
*
40573 GGCCAACCTTCTAATTG
65 GGCCAACCTTTTAATTG
* * *
40590 GTTGACTTTAT-TAGTTTTACCCT-GTTCAACCCTTTTAACCTATTGGCTTTATCGATTTT
1 GTTGACTTTATCGA-TTTTGCCCTAG-TCAACCCTTCTAACCTATTGGCTTTATCGATTTT
40649 GCCTTGGTCA
Statistics
Matches: 178, Mismatches: 35, Indels: 13
0.79 0.15 0.06
Matches are distributed among these distances:
79 3 0.02
80 85 0.48
81 89 0.50
82 1 0.01
ACGTcount: A:0.19, C:0.26, G:0.13, T:0.42
Consensus pattern (81 bp):
GTTGACTTTATCGATTTTGCCCTAGTCAACCCTTCTAACCTATTGGCTTTATCGATTTTACCCTG
GCCAACCTTTTAATTG
Found at i:40773 original size:70 final size:70
Alignment explanation
Indices: 40642--40774 Score: 160
Period size: 70 Copynumber: 1.9 Consensus size: 70
40632 TTGGCTTTAT
* * * *
40642 CGATTTTGCCTTGGTCATCCCTTATAACCTATTGGCTTTATCAGTTTCGCCCTAGCTAACCTTGA
1 CGATTTCGCCTTGGTCAACCCTTATAACCTATTGGCTTTATCAGTTTCACCCTAGCCAACCTTGA
40707 CTTAG
66 CTTAG
* * * * * *
40712 CGATTTCGCCCTT-GTCAACCCTTTTAACTTGTTGGCTTTATCGGTTTCACCGTGGCCAACCTT
1 CGATTTCG-CCTTGGTCAACCCTTATAACCTATTGGCTTTATCAGTTTCACCCTAGCCAACCTT
40775 CTAATTGATT
Statistics
Matches: 52, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
70 48 0.92
71 4 0.08
ACGTcount: A:0.17, C:0.29, G:0.17, T:0.38
Consensus pattern (70 bp):
CGATTTCGCCTTGGTCAACCCTTATAACCTATTGGCTTTATCAGTTTCACCCTAGCCAACCTTGA
CTTAG
Found at i:40791 original size:40 final size:41
Alignment explanation
Indices: 40727--40839 Score: 131
Period size: 40 Copynumber: 2.8 Consensus size: 41
40717 TCGCCCTTGT
* * * *
40727 CAACCCTTTTAACTTGTTGGCTTTATCGGTTTCACCGTGGC
1 CAACCCTTCTAACATGTTGACTTTATCGGTTTCACCCTGGC
* * *
40768 CAA-CCTTCTAA-TTGATTGACTTTATTGGTTTCACCCTGGT
1 CAACCCTTCTAACATG-TTGACTTTATCGGTTTCACCCTGGC
*
40808 CAACCCTTCTAACATGTTGGCTTTATCGGTTT
1 CAACCCTTCTAACATGTTGACTTTATCGGTTT
40840 TATCTTTGCC
Statistics
Matches: 61, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
39 3 0.05
40 31 0.51
41 25 0.41
42 2 0.03
ACGTcount: A:0.18, C:0.25, G:0.17, T:0.41
Consensus pattern (41 bp):
CAACCCTTCTAACATGTTGACTTTATCGGTTTCACCCTGGC
Found at i:40832 original size:41 final size:41
Alignment explanation
Indices: 40715--40839 Score: 155
Period size: 41 Copynumber: 3.1 Consensus size: 41
40705 GACTTAGCGA
* * *
40715 TTTCGCCCTTGTCAACCCTTTTAACTTGTTGGCTTTATCGG
1 TTTCACCCTGGTCAACCCTTCTAACTTGTTGGCTTTATCGG
* * * *
40756 TTTCACCGTGGCCAA-CCTTCTAA-TTGATTGACTTTATTGG
1 TTTCACCCTGGTCAACCCTTCTAACTTG-TTGGCTTTATCGG
*
40796 TTTCACCCTGGTCAACCCTTCTAACATGTTGGCTTTATCGG
1 TTTCACCCTGGTCAACCCTTCTAACTTGTTGGCTTTATCGG
40837 TTT
1 TTT
40840 TATCTTTGCC
Statistics
Matches: 69, Mismatches: 12, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
39 3 0.04
40 31 0.45
41 33 0.48
42 2 0.03
ACGTcount: A:0.16, C:0.26, G:0.17, T:0.42
Consensus pattern (41 bp):
TTTCACCCTGGTCAACCCTTCTAACTTGTTGGCTTTATCGG
Found at i:40925 original size:86 final size:86
Alignment explanation
Indices: 40835--41027 Score: 196
Period size: 86 Copynumber: 2.2 Consensus size: 86
40825 TGGCTTTATC
* * * *
40835 GGTTTTATCTTTGCCAGTACCTTTCTAAT-TCGTTGGTACGTGTA-G-TTTCATCCC-GACCAAC
1 GGTTTCATCTTGGCCAATACCCTTCT-ATCTCGTTGGTA--TGTATGATTTCATCCCAG-CCAAC
40896 ACCTTTCTAACTTGTTGGTACATAT
62 ACCTTTCTAACTTGTTGGTACATAT
* * *
40921 GGTTTCGTCTTGGCCAATACCCTTCTATCTCGTTGGTATGTATGATTTTATCTCAGCCAACACCT
1 GGTTTCATCTTGGCCAATACCCTTCTATCTCGTTGGTATGTATGATTTCATCCCAGCCAACACC-
* *
40986 TTCTAACTAACTTGTTAGTTCATAT
65 TT-T--CTAACTTGTTGGTACATAT
*
41011 GGTTTCGTCTTGGCCAA
1 GGTTTCATCTTGGCCAA
41028 CATCTCACCC
Statistics
Matches: 90, Mismatches: 9, Indels: 12
0.81 0.08 0.11
Matches are distributed among these distances:
84 4 0.04
85 3 0.03
86 45 0.50
87 3 0.03
88 1 0.01
90 34 0.38
ACGTcount: A:0.20, C:0.23, G:0.17, T:0.40
Consensus pattern (86 bp):
GGTTTCATCTTGGCCAATACCCTTCTATCTCGTTGGTATGTATGATTTCATCCCAGCCAACACCT
TTCTAACTTGTTGGTACATAT
Found at i:40926 original size:43 final size:43
Alignment explanation
Indices: 40853--40993 Score: 124
Period size: 43 Copynumber: 3.3 Consensus size: 43
40843 CTTTGCCAGT
* * *
40853 ACCTTTCTAA-TTCGTTGGTACGTGTAGTTTCATCCCGACCAAC
1 ACCTTTCTAACTT-GTTGGTACGTATGGTTTCATCTCGACCAAC
* * * * *
40896 ACCTTTCTAACTTGTTGGTACATATGGTTTCGTCTTGGCCAAT
1 ACCTTTCTAACTTGTTGGTACGTATGGTTTCATCTCGACCAAC
* * * * * *
40939 ACCCTTCTATCTCGTTGGTATGTATGATTTTATCTC-AGCCAAC
1 ACCTTTCTAACTTGTTGGTACGTATGGTTTCATCTCGA-CCAAC
40982 ACCTTTCTAACT
1 ACCTTTCTAACT
40994 AACTTGTTAG
Statistics
Matches: 75, Mismatches: 21, Indels: 4
0.75 0.21 0.04
Matches are distributed among these distances:
43 73 0.97
44 2 0.03
ACGTcount: A:0.21, C:0.26, G:0.15, T:0.39
Consensus pattern (43 bp):
ACCTTTCTAACTTGTTGGTACGTATGGTTTCATCTCGACCAAC
Found at i:41098 original size:41 final size:41
Alignment explanation
Indices: 41025--41106 Score: 119
Period size: 41 Copynumber: 2.0 Consensus size: 41
41015 TCGTCTTGGC
** * *
41025 CAACATCTCACCCTTTGTTGACATGATGGTTTTGCCTTAGT
1 CAACATCTCACCCTTTACTGACATGATAGTTTTGCCATAGT
*
41066 CAACATCTCACCCTTTACTGACGTGATAGTTTTGCCATAGT
1 CAACATCTCACCCTTTACTGACATGATAGTTTTGCCATAGT
41107 TTACTTCTTT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.22, C:0.26, G:0.16, T:0.37
Consensus pattern (41 bp):
CAACATCTCACCCTTTACTGACATGATAGTTTTGCCATAGT
Found at i:42562 original size:153 final size:154
Alignment explanation
Indices: 42209--42767 Score: 473
Period size: 153 Copynumber: 3.6 Consensus size: 154
42199 ACTTTGATAA
* *
42209 GATTTTT-TAAGTTTATAACTTTAAAAATTCTTAAAATATTATTGCTTAATTCATATTAAATCAG
1 GATTTTTCTAAGTTTATAA-TTTAAAAATTCTTCAAATATTATTGTTTAATTCATATTAAATCAG
* ** * * * * * *
42273 TTTAGAAAAAAATCAAATTATTTTATAAGTTTTAGAATTTTTTCTTATTACTTAAATACGAAGTT
65 TTTTG--AAAAATTTAATTATTTTATGAGTTTTAGAAATTTTTCCTATTACTAAAATACGAAATC
*
42338 TTCTACTCCGTAAAATTTTCCTTGTGG
128 TTCTACTCCGTAAAATTTTCCTCGTGG
* * *
42365 GATTTTTCTAAGTTTATAGTTTTAAAATTCTTCAAATATTATTGTTTAACTT-GTATTAAATCAG
1 GATTTTTCTAAGTTTATAATTTAAAAATTCTTCAAATATTATTGTTTAA-TTCATATTAAATCAG
* *
42429 TTTTGCAAAATTTAATTCATTTTATGAG-TTTAGAAATTTTTCCTATTACTAAAATGCGAAATCT
65 TTTTGAAAAATTTAATT-ATTTTATGAGTTTTAGAAATTTTTCCTATTACTAAAATACGAAATCT
*
42493 TCTACTTCGT-AAA-TTTCCTCG-GAAG
129 TCTACTCCGTAAAATTTTCCTCGTG--G
* * * * * *
42518 GATTTTTCTAAATTTATAATTTCAAAAAAT-TTCAAATATCATTGTCTAATTCATGTTAAATTAG
1 GATTTTTCTAAGTTTATAATTT-AAAAATTCTTCAAATATTATTGTTTAATTCATATTAAATCAG
* * * * *
42582 TTTT-AAAAATTTCAATTTATTTTATGAGTTTTAG-AATTTTTCGTGTTTCTAAGATATATG--G
65 TTTTGAAAAATTT-AA-TTATTTTATGAGTTTTAGAAATTTTTCCTATTACTAA-A-ATACGAAA
* * * *
42643 TTTTTTACTCCGT-AAA-TTTCTTCGGTTG
126 TCTTCTACTCCGTAAAATTTTCCTC-GTGG
* * * * * * ** *
42671 GATTTTTCTCAA-TTTAAAACTTTTATAATTCATCAAATATTTTTATCAAATTCATAGTAAATCA
1 GATTTTTCT-AAGTTTATAA-TTTAAAAATTCTTCAAATATTATTGTTTAATTCATATTAAATCA
*
42735 GTTTGTG-AAAATTCAATTTATTTTATGAGTTTT
64 GTTT-TGAAAAATTTAA-TTATTTTATGAGTTTT
42768 GCATTTTTTC
Statistics
Matches: 332, Mismatches: 52, Indels: 40
0.78 0.12 0.09
Matches are distributed among these distances:
151 1 0.00
152 16 0.05
153 120 0.36
154 115 0.35
155 19 0.06
156 49 0.15
157 12 0.04
ACGTcount: A:0.33, C:0.10, G:0.09, T:0.47
Consensus pattern (154 bp):
GATTTTTCTAAGTTTATAATTTAAAAATTCTTCAAATATTATTGTTTAATTCATATTAAATCAGT
TTTGAAAAATTTAATTATTTTATGAGTTTTAGAAATTTTTCCTATTACTAAAATACGAAATCTTC
TACTCCGTAAAATTTTCCTCGTGG
Found at i:46465 original size:52 final size:52
Alignment explanation
Indices: 46317--46445 Score: 240
Period size: 52 Copynumber: 2.5 Consensus size: 52
46307 CGAAATATGA
46317 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
*
46369 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
*
46421 AAATTTGCCTGCAAGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
46446 AAGATCAGTG
Statistics
Matches: 75, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 75 1.00
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.34
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
Found at i:46472 original size:13 final size:13
Alignment explanation
Indices: 46454--46478 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
46444 CAAAGATCAG
46454 TGTATCGATACAA
1 TGTATCGATACAA
46467 TGTATCGATACA
1 TGTATCGATACA
46479 TTTGAGTAAT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:46545 original size:19 final size:17
Alignment explanation
Indices: 46517--46618 Score: 85
Period size: 19 Copynumber: 6.1 Consensus size: 17
46507 GCAGTAGCTT
46517 ACTTTGTATCGATACAAA
1 ACTTTGTATCGATAC-AA
46535 ACTTATGTATCGATAC--
1 ACTT-TGTATCGATACAA
46551 A--TTGTATCGATACAA
1 ACTTTGTATCGATACAA
46566 CACTTATGTATCGATAC--
1 -ACTT-TGTATCGATACAA
46583 A--TTGTATCGATACAA
1 ACTTTGTATCGATACAA
46598 TACTTTATGTATCGATACAA
1 -AC-TT-TGTATCGATACAA
46618 A
1 A
46619 TCGTTGAAAT
Statistics
Matches: 70, Mismatches: 0, Indels: 27
0.72 0.00 0.28
Matches are distributed among these distances:
13 22 0.31
14 2 0.03
16 4 0.06
18 5 0.07
19 24 0.34
20 13 0.19
ACGTcount: A:0.36, C:0.17, G:0.12, T:0.35
Consensus pattern (17 bp):
ACTTTGTATCGATACAA
Found at i:46558 original size:13 final size:13
Alignment explanation
Indices: 46540--46596 Score: 60
Period size: 13 Copynumber: 3.9 Consensus size: 13
46530 ACAAAACTTA
46540 TGTATCGATACAT
1 TGTATCGATACAT
46553 TGTATCGATACAACACTT
1 TGTATCGAT---ACA--T
46571 ATGTATCGATACAT
1 -TGTATCGATACAT
46585 TGTATCGATACA
1 TGTATCGATACA
46597 ATACTTTATG
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 21 0.55
14 1 0.03
16 6 0.16
18 1 0.03
19 9 0.24
ACGTcount: A:0.33, C:0.18, G:0.14, T:0.35
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:46561 original size:32 final size:32
Alignment explanation
Indices: 46520--46616 Score: 167
Period size: 32 Copynumber: 3.0 Consensus size: 32
46510 GTAGCTTACT
46520 TTGTATCGATACAAAACTTATGTATCGATACA
1 TTGTATCGATACAAAACTTATGTATCGATACA
*
46552 TTGTATCGATACAACACTTATGTATCGATACA
1 TTGTATCGATACAAAACTTATGTATCGATACA
*
46584 TTGTATCGATACAATACTTTATGTATCGATACA
1 TTGTATCGATACAAAAC-TTATGTATCGATACA
46617 AATCGTTGAA
Statistics
Matches: 62, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
32 47 0.76
33 15 0.24
ACGTcount: A:0.35, C:0.16, G:0.12, T:0.36
Consensus pattern (32 bp):
TTGTATCGATACAAAACTTATGTATCGATACA
Found at i:52704 original size:2 final size:2
Alignment explanation
Indices: 52697--52726 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
52687 TATTTTATTT
52697 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
52727 AAATTTGAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:54679 original size:33 final size:31
Alignment explanation
Indices: 54624--54688 Score: 78
Period size: 33 Copynumber: 2.0 Consensus size: 31
54614 TCCTAAATAA
* *
54624 ATAATAAAATGTTATATTAATTATGATAATTTT
1 ATAATAAAATGTTAAATAAATTAT-AT-ATTTT
54657 ATAATAAAAT-TTAGAATAAATTATATATTTT
1 ATAATAAAATGTTA-AATAAATTATATATTTT
54688 A
1 A
54689 ATTATTATGG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
31 6 0.21
32 5 0.17
33 18 0.62
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.46
Consensus pattern (31 bp):
ATAATAAAATGTTAAATAAATTATATATTTT
Found at i:55460 original size:20 final size:20
Alignment explanation
Indices: 55435--55513 Score: 79
Period size: 20 Copynumber: 3.9 Consensus size: 20
55425 ATTGCCAAGG
55435 AAATGTATCGATACATTACT
1 AAATGTATCGATACATTACT
55455 AAATGTATCGATACATGCTTAC-
1 AAATGTATCGATACA---TTACT
* **
55477 AATTGTATCGATACATTTTT
1 AAATGTATCGATACATTACT
* *
55497 CATTGTATCGATACATT
1 AAATGTATCGATACATT
55514 CTGGGTTTTT
Statistics
Matches: 51, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
19 2 0.04
20 31 0.61
22 14 0.27
23 4 0.08
ACGTcount: A:0.34, C:0.15, G:0.11, T:0.39
Consensus pattern (20 bp):
AAATGTATCGATACATTACT
Found at i:57197 original size:13 final size:13
Alignment explanation
Indices: 57179--57204 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
57169 CAATTTTTGG
57179 TGTATCGATACAT
1 TGTATCGATACAT
57192 TGTATCGATACAT
1 TGTATCGATACAT
57205 ACTTGGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:57216 original size:32 final size:33
Alignment explanation
Indices: 57159--57222 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
57149 TACAAGCCAA
**
57159 TGTATCGATACAATTTTTGGTGTATCGATACAT
1 TGTATCGATACAATACTTGGTGTATCGATACAT
57192 TGTATCGATAC-ATACTTGGTGTATCGATACA
1 TGTATCGATACAATACTTGGTGTATCGATACA
57223 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 18 0.62
33 11 0.38
ACGTcount: A:0.28, C:0.14, G:0.19, T:0.39
Consensus pattern (33 bp):
TGTATCGATACAATACTTGGTGTATCGATACAT
Found at i:57229 original size:19 final size:18
Alignment explanation
Indices: 57159--57229 Score: 62
Period size: 19 Copynumber: 4.0 Consensus size: 18
57149 TACAAGCCAA
57159 TGTATCGATACAATTTTTGG
1 TGTATCGATACAA--TTTGG
57179 TGTATCGATAC-A--T--
1 TGTATCGATACAATTTGG
*
57192 TGTATCGATACATACTTGG
1 TGTATCGATACA-ATTTGG
57211 TGTATCGATACAAGTTTGG
1 TGTATCGATACAA-TTTGG
57230 CTACTGCCAA
Statistics
Matches: 43, Mismatches: 1, Indels: 15
0.73 0.02 0.25
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 1 0.02
18 1 0.02
19 17 0.40
20 11 0.26
ACGTcount: A:0.27, C:0.13, G:0.21, T:0.39
Consensus pattern (18 bp):
TGTATCGATACAATTTGG
Found at i:59222 original size:94 final size:95
Alignment explanation
Indices: 59046--59271 Score: 305
Period size: 94 Copynumber: 2.4 Consensus size: 95
59036 TTCTTTTATT
* * * * * * *
59046 AGGGAGACTCCAACCCTATTATTCTAAGGAGATACTCTAACTCCGTTTTTAAACTTGTCAAGATA
1 AGGGATACTCCAACCCCATTCTTCTGAGGGGATACTCCAACTCCATTTTTAAACTTGTCAAGATA
*
59111 ATTCTTAGTTTTACTTAAATTGTCATCATC
66 ATTCTTAATTTTACTTAAATTGTCATCATC
*
59141 A-GGATACTCCAACCCCATTCTTCTGAGGGGATACTCCAAC-CCTATTTTTAAACTTGTTAAGAT
1 AGGGATACTCCAACCCCATTCTTCTGAGGGGATACTCCAACTCC-ATTTTTAAACTTGTCAAGAT
*
59204 AATTCTTAATTTTGCTTAAATTGTCATCATC
65 AATTCTTAATTTTACTTAAATTGTCATCATC
* *
59235 AGGGATACTCCAACCCCAATACTTC-GAAGGGATACTC
1 AGGGATACTCCAACCCC-ATTCTTCTGAGGGGATACTC
59272 TAGCCCCATT
Statistics
Matches: 116, Mismatches: 12, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
93 2 0.02
94 81 0.70
95 27 0.23
96 6 0.05
ACGTcount: A:0.30, C:0.23, G:0.13, T:0.34
Consensus pattern (95 bp):
AGGGATACTCCAACCCCATTCTTCTGAGGGGATACTCCAACTCCATTTTTAAACTTGTCAAGATA
ATTCTTAATTTTACTTAAATTGTCATCATC
Found at i:60387 original size:24 final size:23
Alignment explanation
Indices: 60349--60400 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
60339 AATTATTACA
60349 ATTTATTATTGATTTTTAAATATT
1 ATTTATTATTGA-TTTTAAATATT
*
60373 ATTTATTACTT-ATTTTCAATATT
1 ATTTATTA-TTGATTTTAAATATT
60396 -TTTAT
1 ATTTAT
60401 AAAATTTTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
22 5 0.19
23 10 0.38
24 9 0.35
25 2 0.08
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.63
Consensus pattern (23 bp):
ATTTATTATTGATTTTAAATATT
Found at i:60458 original size:16 final size:15
Alignment explanation
Indices: 60431--60464 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
60421 CTTAATCAAA
60431 TAATTTATTTAAATT
1 TAATTTATTTAAATT
*
60446 TAATTTGATTTAATTT
1 TAATTT-ATTTAAATT
60462 TAA
1 TAA
60465 AATTAAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (15 bp):
TAATTTATTTAAATT
Found at i:60872 original size:21 final size:22
Alignment explanation
Indices: 60848--60894 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 22
60838 TTATAATTAT
*
60848 AATAAATATA-AATTTTTAAAA
1 AATAAATATATAATTATTAAAA
*
60869 AATAAATATATAATTATTACAA
1 AATAAATATATAATTATTAAAA
60891 AATA
1 AATA
60895 GTAAGGAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 10 0.43
22 13 0.57
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (22 bp):
AATAAATATATAATTATTAAAA
Found at i:61232 original size:16 final size:16
Alignment explanation
Indices: 61213--61325 Score: 71
Period size: 16 Copynumber: 7.4 Consensus size: 16
61203 CAAATTAAAC
61213 TAAATTTAAAATAATT
1 TAAATTTAAAATAATT
* *
61229 TAAAACTCATAAA-AATT
1 T-AAATTTA-AAATAATT
*
61246 TATATCTT-AAATAATT
1 TAAAT-TTAAAATAATT
*
61262 TAAATTTTAAATAATT
1 TAAATTTAAAATAATT
**
61278 TAAATTTTTAA-AA--
1 TAAATTTAAAATAATT
*
61291 -AAA--TAAAATTATT
1 TAAATTTAAAATAATT
*
61304 TAAATTTAAAATTATT
1 TAAATTTAAAATAATT
61320 TAAATT
1 TAAATT
61326 CATCCAAAAT
Statistics
Matches: 76, Mismatches: 10, Indels: 22
0.70 0.09 0.20
Matches are distributed among these distances:
10 3 0.04
11 1 0.01
12 3 0.04
14 3 0.04
15 7 0.09
16 45 0.59
17 11 0.14
18 3 0.04
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (16 bp):
TAAATTTAAAATAATT
Found at i:61288 original size:17 final size:17
Alignment explanation
Indices: 61252--61308 Score: 71
Period size: 17 Copynumber: 3.4 Consensus size: 17
61242 AATTTATATC
61252 TTAAATAATTTAAA-TT
1 TTAAATAATTTAAATTT
61268 TTAAATAATTTAAATTT
1 TTAAATAATTTAAATTT
* * *
61285 TTAAAAAAATAAAATTAT
1 TTAAATAATTTAAATT-T
61303 TTAAAT
1 TTAAAT
61309 TTAAAATTAT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
16 14 0.40
17 15 0.43
18 6 0.17
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
TTAAATAATTTAAATTT
Found at i:63562 original size:20 final size:20
Alignment explanation
Indices: 63534--63573 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
63524 TTTGCAATTC
*
63534 TGTACAATATTGTAGTTAAA
1 TGTAAAATATTGTAGTTAAA
63554 TGTAAAATATTGTAGTTAAA
1 TGTAAAATATTGTAGTTAAA
63574 ACAATTATTA
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:0.42, C:0.03, G:0.15, T:0.40
Consensus pattern (20 bp):
TGTAAAATATTGTAGTTAAA
Found at i:68852 original size:19 final size:20
Alignment explanation
Indices: 68812--68853 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
68802 AATATCATCT
* *
68812 TTATTTTAAATTTGATAGTA
1 TTATTTTAAATTTAATAATA
68832 TTATTTT-AATTTAATAATA
1 TTATTTTAAATTTAATAATA
68851 TTA
1 TTA
68854 AAAATGAATG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 13 0.65
20 7 0.35
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (20 bp):
TTATTTTAAATTTAATAATA
Found at i:68945 original size:21 final size:21
Alignment explanation
Indices: 68921--68963 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
68911 AAAGTTTTTT
*
68921 TTATCTTAAAATTTTTAGAAA
1 TTATCTTAAAATTTTTAAAAA
* * *
68942 TTATTTTTAATTTTTTAAAAA
1 TTATCTTAAAATTTTTAAAAA
68963 T
1 T
68964 AATTATTGAT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (21 bp):
TTATCTTAAAATTTTTAAAAA
Found at i:69809 original size:23 final size:23
Alignment explanation
Indices: 69765--69807 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
69755 ATAAGTTTAT
* *
69765 ATTTTTTTATTTGTACTTAAATA
1 ATTTTTTTATTTGTAATAAAATA
69788 ATTTTTTTATTT-TAATAAAA
1 ATTTTTTTATTTGTAATAAAA
69808 ATTGATTTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 6 0.33
23 12 0.67
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.60
Consensus pattern (23 bp):
ATTTTTTTATTTGTAATAAAATA
Found at i:69855 original size:25 final size:25
Alignment explanation
Indices: 69827--69874 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
69817 TGTTAAGAAT
**
69827 TTATCTAAGTGTAAATTAAAAAAAA
1 TTATCTAAGTACAAATTAAAAAAAA
*
69852 TTATTTAAGTACAAATTAAAAAA
1 TTATCTAAGTACAAATTAAAAAA
69875 TAAAAGTTTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.56, C:0.04, G:0.06, T:0.33
Consensus pattern (25 bp):
TTATCTAAGTACAAATTAAAAAAAA
Found at i:70010 original size:2 final size:2
Alignment explanation
Indices: 70003--70033 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
69993 AATTATTGTG
70003 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
70034 GTATGTGTGT
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:70662 original size:3 final size:3
Alignment explanation
Indices: 70656--70680 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
70646 AAAGAAGAAT
70656 ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
70681 CATGATCCGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:71257 original size:24 final size:25
Alignment explanation
Indices: 71212--71261 Score: 75
Period size: 24 Copynumber: 2.0 Consensus size: 25
71202 TTAATTATTT
*
71212 TTAAATATTTAAAATAATTTTAATA
1 TTAAATATTTAAAATAAATTTAATA
*
71237 TTAAATA-TTAAATTAAATTTAATA
1 TTAAATATTTAAAATAAATTTAATA
71261 T
1 T
71262 AATATGTATT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 16 0.70
25 7 0.30
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (25 bp):
TTAAATATTTAAAATAAATTTAATA
Found at i:72330 original size:21 final size:21
Alignment explanation
Indices: 72287--72330 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
72277 GATGCAATGG
* **
72287 TTGGATGAAAGAATACATTTT
1 TTGGATGAAAAAATACAACTT
*
72308 TTGGATGAAAAAATATAACTT
1 TTGGATGAAAAAATACAACTT
72329 TT
1 TT
72331 AATAACTAAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.41, C:0.05, G:0.16, T:0.39
Consensus pattern (21 bp):
TTGGATGAAAAAATACAACTT
Found at i:75796 original size:75 final size:75
Alignment explanation
Indices: 75706--75855 Score: 300
Period size: 75 Copynumber: 2.0 Consensus size: 75
75696 CTCCTTAGGT
75706 CAATGCATCAATAAGAATAATAATTAATTAGATTGCTACAGCAATGTAAAGGACTCTAAATCTAT
1 CAATGCATCAATAAGAATAATAATTAATTAGATTGCTACAGCAATGTAAAGGACTCTAAATCTAT
75771 TTATAAATGC
66 TTATAAATGC
75781 CAATGCATCAATAAGAATAATAATTAATTAGATTGCTACAGCAATGTAAAGGACTCTAAATCTAT
1 CAATGCATCAATAAGAATAATAATTAATTAGATTGCTACAGCAATGTAAAGGACTCTAAATCTAT
75846 TTATAAATGC
66 TTATAAATGC
75856 TGAGATTACA
Statistics
Matches: 75, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
75 75 1.00
ACGTcount: A:0.44, C:0.13, G:0.12, T:0.31
Consensus pattern (75 bp):
CAATGCATCAATAAGAATAATAATTAATTAGATTGCTACAGCAATGTAAAGGACTCTAAATCTAT
TTATAAATGC
Found at i:77795 original size:75 final size:75
Alignment explanation
Indices: 77670--78121 Score: 715
Period size: 75 Copynumber: 6.0 Consensus size: 75
77660 GATGAAATGA
* * * * * * *
77670 TAATCTGAGATAATCTGCATGATAATTATAATCAACAAATATTTCAGCATATTTCACAATACTAC
1 TAATCCGAGATAATCTGCACGATAACTACAATCAACAAATGTTTCTGCATATTTCACATTACTAC
77735 TATCAACAAC
66 TATCAACAAC
* *
77745 TAATCCGAGATAATCTGCATGATAACTACAATCAACAAATATTTCTGCATATTTCACATTACTAC
1 TAATCCGAGATAATCTGCACGATAACTACAATCAACAAATGTTTCTGCATATTTCACATTACTAC
*
77810 CATCAACAAC
66 TATCAACAAC
77820 TAATCCGAGATAATCTGCACGATAACTACAATCAACAAATGTTTCTGCATATTTCACATTACTAC
1 TAATCCGAGATAATCTGCACGATAACTACAATCAACAAATGTTTCTGCATATTTCACATTACTAC
77885 TATCAACAAC
66 TATCAACAAC
* * * *
77895 TAATCCGAGATAATCTACATGATAACTATAATCAAGAAATGTTTCTGCATATTTCACATTACTAC
1 TAATCCGAGATAATCTGCACGATAACTACAATCAACAAATGTTTCTGCATATTTCACATTACTAC
77960 TATCAACAAC
66 TATCAACAAC
* *
77970 TAATCCGAGATAATATGCACGATAACTACAATCAACAAATGTTTCAGCATATTTCACATTACTAC
1 TAATCCGAGATAATCTGCACGATAACTACAATCAACAAATGTTTCTGCATATTTCACATTACTAC
78035 TATCAACAAC
66 TATCAACAAC
* * * * *
78045 TAATCTGAGTTAATCTGCACGATAACTGCAATCAACAAATGTTTCTGTATATTTCACATTTCTAC
1 TAATCCGAGATAATCTGCACGATAACTACAATCAACAAATGTTTCTGCATATTTCACATTACTAC
78110 TATCAACAAC
66 TATCAACAAC
78120 TA
1 TA
78122 TAATCAACAA
Statistics
Matches: 351, Mismatches: 26, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
75 351 1.00
ACGTcount: A:0.40, C:0.22, G:0.08, T:0.31
Consensus pattern (75 bp):
TAATCCGAGATAATCTGCACGATAACTACAATCAACAAATGTTTCTGCATATTTCACATTACTAC
TATCAACAAC
Found at i:78435 original size:27 final size:27
Alignment explanation
Indices: 78396--78448 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
78386 GTCATGGCAG
* * * *
78396 GATATGTTGGGTATTGAGGTTGAGTAA
1 GATATGATAGGTATGGAGATTGAGTAA
78423 GATATGATAGGTATGGAGATTGAGTA
1 GATATGATAGGTATGGAGATTGAGTA
78449 GGGAAACATG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.30, C:0.00, G:0.36, T:0.34
Consensus pattern (27 bp):
GATATGATAGGTATGGAGATTGAGTAA
Found at i:83040 original size:6 final size:6
Alignment explanation
Indices: 83029--83054 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
83019 TTTCACATAT
83029 ATTTCC ATTTCC ATTTCC ATTTCC AT
1 ATTTCC ATTTCC ATTTCC ATTTCC AT
83055 ATACTAACAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.19, C:0.31, G:0.00, T:0.50
Consensus pattern (6 bp):
ATTTCC
Found at i:83172 original size:15 final size:14
Alignment explanation
Indices: 83152--83191 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 14
83142 TTATAGGCTT
83152 TAAACTAATTACCCC
1 TAAACTAATTA-CCC
*
83167 TAAACTAATTACGC
1 TAAACTAATTACCC
83181 TAAACCTAATT
1 TAAA-CTAATT
83192 TCACATAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 6 0.26
15 17 0.74
ACGTcount: A:0.42, C:0.25, G:0.03, T:0.30
Consensus pattern (14 bp):
TAAACTAATTACCC
Found at i:83387 original size:22 final size:22
Alignment explanation
Indices: 83344--83389 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
83334 TTTAACACCC
* *
83344 AAAAATAATAATAATACAATTA
1 AAAAATAATAAAAATAAAATTA
83366 AAAAATAA-AAAAATAAATATTA
1 AAAAATAATAAAAATAAA-ATTA
83388 AA
1 AA
83390 TTACCTTACA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 7 0.33
22 14 0.67
ACGTcount: A:0.74, C:0.02, G:0.00, T:0.24
Consensus pattern (22 bp):
AAAAATAATAAAAATAAAATTA
Found at i:83476 original size:21 final size:21
Alignment explanation
Indices: 83436--83478 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
83426 AAATTTATAA
*
83436 AATTTTAGAGAGAAGTGAGAG
1 AATTTTAGAGAGAAGAGAGAG
* *
83457 AATTTTAGAGTGTAGAGAGAG
1 AATTTTAGAGAGAAGAGAGAG
83478 A
1 A
83479 GTGAAAATAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.42, C:0.00, G:0.33, T:0.26
Consensus pattern (21 bp):
AATTTTAGAGAGAAGAGAGAG
Found at i:90495 original size:13 final size:13
Alignment explanation
Indices: 90477--90504 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
90467 ATACAAAGAT
90477 CAATGTATCGATA
1 CAATGTATCGATA
90490 CAATGTATCGATA
1 CAATGTATCGATA
90503 CA
1 CA
90505 TTGACTAATG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:90497 original size:33 final size:33
Alignment explanation
Indices: 90459--90524 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
90449 AAATTCCCAG
90459 ATGTATCGATACAAAGA-TCAATGTATCGATACA
1 ATGTATCGATACAAAGACT-AATGTATCGATACA
**
90492 ATGTATCGATACATTGACTAATGTATCGATACA
1 ATGTATCGATACAAAGACTAATGTATCGATACA
90525 TTTCCTTGGC
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 29 0.97
34 1 0.03
ACGTcount: A:0.39, C:0.15, G:0.15, T:0.30
Consensus pattern (33 bp):
ATGTATCGATACAAAGACTAATGTATCGATACA
Found at i:91487 original size:52 final size:49
Alignment explanation
Indices: 91375--91703 Score: 224
Period size: 49 Copynumber: 6.7 Consensus size: 49
91365 AATGACATTG
* * * * *
91375 TGCTGATTCATGGCCAGCGACATTTAGACTTGAAGA-AGA-ATGCCAATA
1 TGCTGATTCAAGGCCAGTGACA-TTGGACTTAAAGATAAAGATGCCAATA
** * * *
91423 TGCTGAGACAAGGCGAGTGACATTGGGCTTAGGAATGTTAAAGATGCCAATA
1 TGCTGATTCAAGGCCAGTGACATTGGACTTA--AA-GATAAAGATGCCAATA
* * * * * *
91475 TGCTGATTCAAGGCCAATGATATCGGACTTAAAGATGATGATGTCAATA
1 TGCTGATTCAAGGCCAGTGACATTGGACTTAAAGATAAAGATGCCAATA
* ** **
91524 TGCTGATTCAAGGCCAGCGACATTGGTTTTAAAGATGACGAAGGCGCCAATA
1 TGCTGATTCAAGGCCAGTGACATTGGACTTAAAGAT-A--AAGATGCCAATA
** * * * *
91576 TGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATGAAGGTGCCAATG
1 TGCTGATTCAAGGCCAGTGACATTGGACTTAAAGATAAAGATGCCAATA
* ***
91625 TGATGATTCAAGGCCAACAACATTGGACTTAAAG-----G-TGCCAATA
1 TGCTGATTCAAGGCCAGTGACATTGGACTTAAAGATAAAGATGCCAATA
** *
91668 TGCTGATTCAAGGCCAACGATATTGGACTTAGAAGA
1 TGCTGATTCAAGGCCAGTGACATTGGACTTA-AAGA
91704 AGATGCCACC
Statistics
Matches: 225, Mismatches: 46, Indels: 23
0.77 0.16 0.08
Matches are distributed among these distances:
43 35 0.16
44 4 0.02
47 6 0.03
48 17 0.08
49 85 0.38
50 3 0.01
51 2 0.01
52 73 0.32
ACGTcount: A:0.33, C:0.17, G:0.25, T:0.25
Consensus pattern (49 bp):
TGCTGATTCAAGGCCAGTGACATTGGACTTAAAGATAAAGATGCCAATA
Found at i:91532 original size:49 final size:49
Alignment explanation
Indices: 91465--91708 Score: 248
Period size: 49 Copynumber: 5.0 Consensus size: 49
91455 GAATGTTAAA
* *
91465 GATGCCAATATGCTGATTCAAGGCCAATGATATCGGACTTAAAGATGAT
1 GATGCCAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGATGAT
* * * ** *
91514 GATGTCAATATGCTGATTCAAGGCCAGCGACATTGGTTTTAAAGATGAC
1 GATGCCAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGATGAT
* * * *
91563 GAAGGCGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATGAA
1 G-A--TGCCAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGATGAT
* * * * *
91615 GGTGCCAATGTGATGATTCAAGGCCAACAACATTGGACTT-AA-A-G--
1 GATGCCAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGATGAT
*
91659 G-TGCCAATATGCTGATTCAAGGCCAACGATATTGGACTTAGAAGAAGAT
1 GATGCCAATATGCTGATTCAAGGCCAACGATATTGGACTTA-AAGATGAT
91708 G
1 G
91709 CCACCAATTT
Statistics
Matches: 161, Mismatches: 25, Indels: 18
0.79 0.12 0.09
Matches are distributed among these distances:
43 34 0.21
44 1 0.01
45 2 0.01
46 2 0.01
47 2 0.01
48 2 0.01
49 76 0.47
50 1 0.01
52 41 0.25
ACGTcount: A:0.34, C:0.17, G:0.25, T:0.25
Consensus pattern (49 bp):
GATGCCAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGATGAT
Found at i:91547 original size:101 final size:95
Alignment explanation
Indices: 91375--91708 Score: 273
Period size: 101 Copynumber: 3.4 Consensus size: 95
91365 AATGACATTG
* * * * * * ** *
91375 TGCTGATTCATGGCCAGCGACATTTAGACTTGAAGAAGA--ATGCCAATATGCTGAGACAAGGCG
1 TGCTGATTCAAGGCCAACGATA-TTGGACTTAAAGATGATGATGCCAATATGCTGATTCAAGGCC
* *
91438 AGTGACATTGGGCTTAGGAATGTTAAAGATGCCAATA
65 AGCGACATTGGACTTA--AATG---AAG-TGCCAATA
* * *
91475 TGCTGATTCAAGGCCAATGATATCGGACTTAAAGATGATGATGTCAATATGCTGATTCAAGGCCA
1 TGCTGATTCAAGGCCAACGATATTGGACTTAAAGATGATGATGCCAATATGCTGATTCAAGGCCA
** *
91540 GCGACATTGGTTTTAAAGATGACGAAGGCGCCAATA
66 GCGACATTGGACTT-AA-AT---GAA-GTGCCAATA
* * * * * *
91576 TGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATGAAGGTGCCAATGTGATGATTCAAGGCCA
1 TGCTGATTCAAGGCCAACGATATTGGACTTAAAGATGATGATGCCAATATGCTGATTCAAGGCCA
* *
91641 ACAACATTGGACTTAAA-G--GTGCCAATA
66 GCGACATTGGACTTAAATGAAGTGCCAATA
*
91668 TGCTGATTCAAGGCCAACGATATTGGACTTAGAAGAAGATG
1 TGCTGATTCAAGGCCAACGATATTGGACTTA-AAGATGATG
91709 CCACCAATTT
Statistics
Matches: 191, Mismatches: 34, Indels: 25
0.76 0.14 0.10
Matches are distributed among these distances:
92 37 0.19
93 7 0.04
95 1 0.01
99 13 0.07
100 21 0.11
101 109 0.57
102 2 0.01
104 1 0.01
ACGTcount: A:0.34, C:0.16, G:0.25, T:0.25
Consensus pattern (95 bp):
TGCTGATTCAAGGCCAACGATATTGGACTTAAAGATGATGATGCCAATATGCTGATTCAAGGCCA
GCGACATTGGACTTAAATGAAGTGCCAATA
Found at i:91675 original size:43 final size:44
Alignment explanation
Indices: 91563--91702 Score: 174
Period size: 43 Copynumber: 3.1 Consensus size: 44
91553 TAAAGATGAC
* *
91563 GAAGGCGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGA
1 GAAGGTGCCAATATGCTGATTCAAGGCCAACAATATTGGACTT----A
* * *
91611 TGAAGGTGCCAATGTGATGATTCAAGGCCAACAACATTGGACTTA
1 -GAAGGTGCCAATATGCTGATTCAAGGCCAACAATATTGGACTTA
*
91656 -AAGGTGCCAATATGCTGATTCAAGGCCAACGATATTGGACTTA
1 GAAGGTGCCAATATGCTGATTCAAGGCCAACAATATTGGACTTA
91699 GAAG
1 GAAG
91703 AAGATGCCAC
Statistics
Matches: 81, Mismatches: 9, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
43 39 0.48
44 3 0.04
45 1 0.01
49 38 0.47
ACGTcount: A:0.34, C:0.18, G:0.25, T:0.23
Consensus pattern (44 bp):
GAAGGTGCCAATATGCTGATTCAAGGCCAACAATATTGGACTTA
Found at i:91861 original size:29 final size:28
Alignment explanation
Indices: 91720--91879 Score: 184
Period size: 28 Copynumber: 5.7 Consensus size: 28
91710 CACCAATTTG
**
91720 TGTGGGCTTTTGAAAGGGTTG-CACCAACT
1 TGTGGGC-TTTGAAAGGG-TGCCACTGACT
* *
91749 TGTGTGCTTTTG-AAGGTTGCCACT-ATCT
1 TGTGGGC-TTTGAAAGGGTGCCACTGA-CT
*
91777 TGTGGGCTTTG-AAGGTTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
*
91804 TGTGGGCTTTGAAAAGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
91832 TGTGGGCTTTGAAAAGGGTGCCACTGACT
1 TGTGGGCTTTG-AAAGGGTGCCACTGACT
*
91861 TGTGGGCTTTGAAAAGGTG
1 TGTGGGCTTTGAAAGGGTG
91880 AGGAATGTCT
Statistics
Matches: 118, Mismatches: 8, Indels: 11
0.86 0.06 0.08
Matches are distributed among these distances:
27 32 0.27
28 48 0.41
29 38 0.32
ACGTcount: A:0.19, C:0.16, G:0.33, T:0.33
Consensus pattern (28 bp):
TGTGGGCTTTGAAAGGGTGCCACTGACT
Found at i:91871 original size:57 final size:56
Alignment explanation
Indices: 91720--91879 Score: 195
Period size: 57 Copynumber: 2.8 Consensus size: 56
91710 CACCAATTTG
** *
91720 TGTGGGCTTTTGAAAGGGTTG-CACCAACTTGTGTGCTTTTG--AAGGTTGCCACTATCT
1 TGTGGGC-TTTGAAAGGG-TGCCACTGACTTGTGGGC-TTTGAAAAGG-TGCCACTATCT
*
91777 TGTGGGCTTTG-AAGGTTGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTGA-CT
1 TGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACT-ATCT
91832 TGTGGGCTTTGAAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGGTG
1 TGTGGGCTTTG-AAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGGTG
91880 AGGAATGTCT
Statistics
Matches: 92, Mismatches: 5, Indels: 12
0.84 0.05 0.11
Matches are distributed among these distances:
54 6 0.07
55 36 0.39
56 9 0.10
57 41 0.45
ACGTcount: A:0.19, C:0.16, G:0.33, T:0.33
Consensus pattern (56 bp):
TGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTATCT
Found at i:93305 original size:16 final size:15
Alignment explanation
Indices: 93286--93344 Score: 63
Period size: 14 Copynumber: 4.1 Consensus size: 15
93276 CATCCGGACC
93286 TTTTTTGTTGTTGTTT
1 TTTTTTGTT-TTGTTT
93302 TTTTTTGTTTTG-TT
1 TTTTTTGTTTTGTTT
* *
93316 TTGTTT-TTTT-CTT
1 TTTTTTGTTTTGTTT
93329 TTTTTTGTTTT-TTT
1 TTTTTTGTTTTGTTT
93343 TT
1 TT
93345 GCGGAGGATG
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
13 11 0.29
14 15 0.39
15 3 0.08
16 9 0.24
ACGTcount: A:0.00, C:0.02, G:0.12, T:0.86
Consensus pattern (15 bp):
TTTTTTGTTTTGTTT
Found at i:93311 original size:10 final size:10
Alignment explanation
Indices: 93296--93345 Score: 61
Period size: 10 Copynumber: 5.3 Consensus size: 10
93286 TTTTTTGTTG
93296 TTGTTTTTTT
1 TTGTTTTTTT
*
93306 TTGTTTTGTT
1 TTGTTTTTTT
93316 TTG--TTTTT
1 TTGTTTTTTT
*
93324 TT-CTTTTTT
1 TTGTTTTTTT
93333 TTGTTTTTTT
1 TTGTTTTTTT
93343 TTG
1 TTG
93346 CGGAGGATGC
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
8 6 0.18
9 7 0.21
10 21 0.62
ACGTcount: A:0.00, C:0.02, G:0.12, T:0.86
Consensus pattern (10 bp):
TTGTTTTTTT
Found at i:93317 original size:27 final size:27
Alignment explanation
Indices: 93286--93345 Score: 86
Period size: 27 Copynumber: 2.3 Consensus size: 27
93276 CATCCGGACC
93286 TTTTTTGTTGTTGT-TTTTTTTTGTTT
1 TTTTTTGTTGTTGTCTTTTTTTTGTTT
* * *
93312 TGTTTTGTTTTTTTCTTTTTTTTGTTT
1 TTTTTTGTTGTTGTCTTTTTTTTGTTT
93339 TTTTTTG
1 TTTTTTG
93346 CGGAGGATGC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 11 0.38
27 18 0.62
ACGTcount: A:0.00, C:0.02, G:0.13, T:0.85
Consensus pattern (27 bp):
TTTTTTGTTGTTGTCTTTTTTTTGTTT
Found at i:93322 original size:17 final size:17
Alignment explanation
Indices: 93286--93341 Score: 64
Period size: 17 Copynumber: 3.4 Consensus size: 17
93276 CATCCGGACC
93286 TTTTTTGTTGTTG-TTT-
1 TTTTTTGTT-TTGTTTTG
93302 TTTTTTGTTTTGTTTTG
1 TTTTTTGTTTTGTTTTG
*
93319 TTTTTT-TCTTTTTTTTG
1 TTTTTTGT-TTTGTTTTG
93336 TTTTTT
1 TTTTTT
93342 TTTGCGGAGG
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
15 3 0.08
16 13 0.36
17 20 0.56
ACGTcount: A:0.00, C:0.02, G:0.12, T:0.86
Consensus pattern (17 bp):
TTTTTTGTTTTGTTTTG
Found at i:93342 original size:17 final size:18
Alignment explanation
Indices: 93301--93342 Score: 68
Period size: 17 Copynumber: 2.4 Consensus size: 18
93291 TGTTGTTGTT
*
93301 TTTTTTTGTTTTGTTTTG
1 TTTTTTTCTTTTGTTTTG
93319 TTTTTTTCTTTT-TTTTG
1 TTTTTTTCTTTTGTTTTG
93336 TTTTTTT
1 TTTTTTT
93343 TTGCGGAGGA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 12 0.52
18 11 0.48
ACGTcount: A:0.00, C:0.02, G:0.10, T:0.88
Consensus pattern (18 bp):
TTTTTTTCTTTTGTTTTG
Found at i:98755 original size:152 final size:152
Alignment explanation
Indices: 98479--98779 Score: 566
Period size: 152 Copynumber: 2.0 Consensus size: 152
98469 TTGTTCTCCT
*
98479 ATCACTACTACCTGATTCTCATACTTCCAAGGGACAACTTTGTTGCTTTTGTACGAGAATGGTTT
1 ATCACTACTACCTGATTCTCATACTTCCAAGGGACAACTTTGTTACTTTTGTACGAGAATGGTTT
98544 AGGTACCTCCACCACTAACTTTGGTGTAGGTGTCAAAGAACAATCTTTAGGACTTGATTTACCAT
66 AGGTACCTCCACCACTAACTTTGGTGTAGGTGTCAAAGAACAATCTTTAGGACTTGATTTACCAT
98609 AAAGAATAAGGGGTCGATTCCA
131 AAAGAATAAGGGGTCGATTCCA
* * *
98631 ATCACTACTACCTGATTCTCGTACTTCCAAGGGATAGCTTTGTTACTTTTGTACGAGAATGGTTT
1 ATCACTACTACCTGATTCTCATACTTCCAAGGGACAACTTTGTTACTTTTGTACGAGAATGGTTT
98696 AGGTACCTCCACCACTAACTTTGGTGTAGGTGTCAAAGAACAATCTTTAGGACTTGATTTACCAT
66 AGGTACCTCCACCACTAACTTTGGTGTAGGTGTCAAAGAACAATCTTTAGGACTTGATTTACCAT
98761 AAAGAATAAGGGGTCGATT
131 AAAGAATAAGGGGTCGATT
98780 TCTCCCATAA
Statistics
Matches: 145, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
152 145 1.00
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.32
Consensus pattern (152 bp):
ATCACTACTACCTGATTCTCATACTTCCAAGGGACAACTTTGTTACTTTTGTACGAGAATGGTTT
AGGTACCTCCACCACTAACTTTGGTGTAGGTGTCAAAGAACAATCTTTAGGACTTGATTTACCAT
AAAGAATAAGGGGTCGATTCCA
Done.