Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13
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: 46006518
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2011935 characters in sequence are not A, C, G, or T
File 139 of 141
Found at i:45282852 original size:18 final size:18
Alignment explanation
Indices: 45282826--45282860 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
45282816 TTATGCACGC
*
45282826 TCACATATCATTTTCATT
1 TCACATATCACTTTCATT
*
45282844 TCACTTATCACTTTCAT
1 TCACATATCACTTTCAT
45282861 ATAATTCACT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.26, C:0.26, G:0.00, T:0.49
Consensus pattern (18 bp):
TCACATATCACTTTCATT
Found at i:45285522 original size:18 final size:18
Alignment explanation
Indices: 45285499--45285534 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
45285489 TAATTAAAAT
45285499 AGTTACATATAGGAACAA
1 AGTTACATATAGGAACAA
*
45285517 AGTTACATATAGTAACAA
1 AGTTACATATAGGAACAA
45285535 CTTAATCGCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.50, C:0.11, G:0.14, T:0.25
Consensus pattern (18 bp):
AGTTACATATAGGAACAA
Found at i:45287075 original size:21 final size:21
Alignment explanation
Indices: 45287049--45287095 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
45287039 ATGTTCGTAC
45287049 ACCATATACCATATACCATAT
1 ACCATATACCATATACCATAT
* * *
45287070 ACCATATACCTTATACCTTGT
1 ACCATATACCATATACCATAT
45287091 ACCAT
1 ACCAT
45287096 GCCGCCATGG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.36, C:0.30, G:0.02, T:0.32
Consensus pattern (21 bp):
ACCATATACCATATACCATAT
Found at i:45287088 original size:7 final size:7
Alignment explanation
Indices: 45287049--45287086 Score: 67
Period size: 7 Copynumber: 5.4 Consensus size: 7
45287039 ATGTTCGTAC
45287049 ACCATAT
1 ACCATAT
45287056 ACCATAT
1 ACCATAT
45287063 ACCATAT
1 ACCATAT
45287070 ACCATAT
1 ACCATAT
*
45287077 ACCTTAT
1 ACCATAT
45287084 ACC
1 ACC
45287087 TTGTACCATG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
7 30 1.00
ACGTcount: A:0.39, C:0.32, G:0.00, T:0.29
Consensus pattern (7 bp):
ACCATAT
Found at i:45288028 original size:16 final size:18
Alignment explanation
Indices: 45287995--45288029 Score: 56
Period size: 16 Copynumber: 2.1 Consensus size: 18
45287985 ATTCTTGTCA
45287995 AAAATATATAATAATTAT
1 AAAATATATAATAATTAT
45288013 AAAATA-ATAA-AATTAT
1 AAAATATATAATAATTAT
45288029 A
1 A
45288030 CTTAAATGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.41
17 4 0.24
18 6 0.35
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (18 bp):
AAAATATATAATAATTAT
Found at i:45297749 original size:10 final size:10
Alignment explanation
Indices: 45297700--45297747 Score: 53
Period size: 10 Copynumber: 4.9 Consensus size: 10
45297690 TAAACTCCCA
45297700 AAAGATAAAT
1 AAAGATAAAT
** *
45297710 AAATTTAATT
1 AAAGATAAAT
*
45297720 CAAGATAAAT
1 AAAGATAAAT
45297730 AAAGATAAAT
1 AAAGATAAAT
45297740 AAA-ATAAA
1 AAAGATAAA
45297748 ATCCTAAATT
Statistics
Matches: 30, Mismatches: 8, Indels: 1
0.77 0.21 0.03
Matches are distributed among these distances:
9 5 0.17
10 25 0.83
ACGTcount: A:0.67, C:0.02, G:0.06, T:0.25
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:45297791 original size:15 final size:14
Alignment explanation
Indices: 45297770--45297805 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
45297760 ATAATCCTTA
*
45297770 ATAATTATCTTAAT
1 ATAATTATCCTAAT
45297784 ATTAATTATCCTAAT
1 A-TAATTATCCTAAT
45297799 ATAATTA
1 ATAATTA
45297806 AAATAGAGTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.47
Consensus pattern (14 bp):
ATAATTATCCTAAT
Found at i:45298406 original size:16 final size:18
Alignment explanation
Indices: 45298369--45298416 Score: 59
Period size: 16 Copynumber: 2.9 Consensus size: 18
45298359 ATATTTTTTC
*
45298369 TTTTCTATTTATTT-TTA
1 TTTTATATTTATTTATTA
45298386 TTTTA-ATTTATTTATTA
1 TTTTATATTTATTTATTA
45298403 -TTTATATTT-TTTAT
1 TTTTATATTTATTTAT
45298417 GCTTTAGGAA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
16 17 0.61
17 11 0.39
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.75
Consensus pattern (18 bp):
TTTTATATTTATTTATTA
Found at i:45299164 original size:3 final size:3
Alignment explanation
Indices: 45299156--45299186 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
45299146 ATAATCACAG
45299156 CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA C
1 CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA C
45299187 CAAAATCATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.65, C:0.35, G:0.00, T:0.00
Consensus pattern (3 bp):
CAA
Found at i:45299566 original size:22 final size:21
Alignment explanation
Indices: 45299541--45299600 Score: 66
Period size: 22 Copynumber: 2.8 Consensus size: 21
45299531 GCTGAGGCGT
* *
45299541 GGTGCTTGGGTGCAGGGATAAG
1 GGTGCTTGGCTGCAGGAAT-AG
*
45299563 GGTGGTTGGCTGCAGGAATAG
1 GGTGCTTGGCTGCAGGAATAG
*
45299584 GGTAGTTTGGCTGCAGG
1 GGT-GCTTGGCTGCAGG
45299601 CATTCTGGGT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
21 5 0.15
22 28 0.85
ACGTcount: A:0.17, C:0.10, G:0.48, T:0.25
Consensus pattern (21 bp):
GGTGCTTGGCTGCAGGAATAG
Found at i:45303282 original size:15 final size:14
Alignment explanation
Indices: 45303261--45303296 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
45303251 ATAATCCTTA
*
45303261 ATAATTATCTTAAT
1 ATAATTATCCTAAT
45303275 ATTAATTATCCTAAT
1 A-TAATTATCCTAAT
45303290 ATAATTA
1 ATAATTA
45303297 AAATAGGGTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.47
Consensus pattern (14 bp):
ATAATTATCCTAAT
Found at i:45305569 original size:9 final size:9
Alignment explanation
Indices: 45305551--45305635 Score: 107
Period size: 9 Copynumber: 9.4 Consensus size: 9
45305541 GTAGTGATTC
45305551 AATTCGGTT
1 AATTCGGTT
*
45305560 AATTCAGTT
1 AATTCGGTT
45305569 AATTCGGTT
1 AATTCGGTT
*
45305578 AATTCGGGT
1 AATTCGGTT
*
45305587 AATCCGGTT
1 AATTCGGTT
*
45305596 AATTTGGTT
1 AATTCGGTT
*
45305605 AATTCGGGT
1 AATTCGGTT
**
45305614 AATTTAGTT
1 AATTCGGTT
45305623 AATTCGGTT
1 AATTCGGTT
45305632 AATT
1 AATT
45305636 TTTAACCAAA
Statistics
Matches: 62, Mismatches: 14, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
9 62 1.00
ACGTcount: A:0.26, C:0.09, G:0.21, T:0.44
Consensus pattern (9 bp):
AATTCGGTT
Found at i:45305583 original size:27 final size:27
Alignment explanation
Indices: 45305551--45305635 Score: 125
Period size: 27 Copynumber: 3.1 Consensus size: 27
45305541 GTAGTGATTC
*
45305551 AATTCGGTTAATTCAGTTAATTCGGTT
1 AATTCGGGTAATTCAGTTAATTCGGTT
* * *
45305578 AATTCGGGTAATCCGGTTAATTTGGTT
1 AATTCGGGTAATTCAGTTAATTCGGTT
*
45305605 AATTCGGGTAATTTAGTTAATTCGGTT
1 AATTCGGGTAATTCAGTTAATTCGGTT
45305632 AATT
1 AATT
45305636 TTTAACCAAA
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 50 1.00
ACGTcount: A:0.26, C:0.09, G:0.21, T:0.44
Consensus pattern (27 bp):
AATTCGGGTAATTCAGTTAATTCGGTT
Found at i:45312254 original size:184 final size:184
Alignment explanation
Indices: 45311945--45314035 Score: 4173
Period size: 184 Copynumber: 11.4 Consensus size: 184
45311935 GTACCCTTAA
45311945 ACCCACAAAGAAAATGCTTTTCATTCCAGAAGAATTTCAGACCAAAGAAAAGAGAATAAGAAAAA
1 ACCCACAAAGAAAATGCTTTTCATTCCAGAAGAATTTCAGACCAAAGAAAAGAGAATAAGAAAAA
45312010 CAGAAACTTATACAAGAGAGTCATTTCCAATAACACAAATTTTGAAACACTCACTTACAGTCAAA
66 CAGAAACTTATACAAGAGAGTCATTTCCAATAACACAAATTTTGAAACACTCACTTACAGTCAAA
45312075 ATAAAAGAAAACTTATCCAATCCAGACCTTCAAAAATACATACAGTATATATAC
131 ATAAAAGAAAACTTATCCAATCCAGACCTTCAAAAATACATACAGTATATATAC
45312129 ACCCACAAAGAAAATGCTTTTCATTCCAGAAGAATTTCAGACCAAAGAAAAGAGAATAAGAAAAA
1 ACCCACAAAGAAAATGCTTTTCATTCCAGAAGAATTTCAGACCAAAGAAAAGAGAATAAGAAAAA
45312194 CAGAAACTTATACAAGAGAGTCATTTCCAATAACACAAATTTTGAAACACTCACTTACAGTCAAA
66 CAGAAACTTATACAAGAGAGTCATTTCCAATAACACAAATTTTGAAACACTCACTTACAGTCAAA
45312259 ATAAAAGAAAACTTATCCAATCCAGACCTTCAAAAATACATACAGTATATATAC
131 ATAAAAGAAAACTTATCCAATCCAGACCTTCAAAAATACATACAGTATATATAC
45312313 ACCCACAAAGAAAATGCTTTTCATTCCAGAAGAATTTCAGACCAAAGAAAAGAGAATAAGAAAAA
1 ACCCACAAAGAAAATGCTTTTCATTCCAGAAGAATTTCAGACCAAAGAAAAGAGAATAAGAAAAA
45312378 CAGAAACTTATACAAGAGAGTCATTTCCAATAACACAAATTTTGAAACACTCACTTACAGTCAAA
66 CAGAAACTTATACAAGAGAGTCATTTCCAATAACACAAATTTTGAAACACTCACTTACAGTCAAA
45312443 ATAAAAGAAAACTTATCCAATCCAGACCTTCAAAAATACATACAGTATATATAC
131 ATAAAAGAAAACTTATCCAATCCAGACCTTCAAAAATACATACAGTATATATAC
45312497 ACCCACAAAGAAAATGCTTTTCATTCCAGAAGAATTTCAGACCAAAGAAAAGAGAATAAGAAAAA
1 ACCCACAAAGAAAATGCTTTTCATTCCAGAAGAATTTCAGACCAAAGAAAAGAGAATAAGAAAAA
45312562 CAGAAACTTATACAAGAGAGTCATTTCCAATAACACAAATTTTGAAACACTCACTTACAGTCAAA
66 CAGAAACTTATACAAGAGAGTCATTTCCAATAACACAAATTTTGAAACACTCACTTACAGTCAAA
45312627 ATAAAAGAAAACTTATCCAATCCAGACCTTCAAAAATACATACAGTATATATAC
131 ATAAAAGAAAACTTATCCAATCCAGACCTTCAAAAATACATACAGTATATATAC
45312681 ACCCACAAAGAAAATGCTTTTCATTCCAGAAGAATTTCAGACCAAAGAAAAGAGAATAAGAAAAA
1 ACCCACAAAGAAAATGCTTTTCATTCCAGAAGAATTTCAGACCAAAGAAAAGAGAATAAGAAAAA
45312746 CAGAAACTTATACAAGAGAGTCATTTCCAATAACACAAATTTTGAAACACTCACTTACAGTCAAA
66 CAGAAACTTATACAAGAGAGTCATTTCCAATAACACAAATTTTGAAACACTCACTTACAGTCAAA
45312811 ATAAAAGAAAACTTATCCAATCCAGACCTTCAAAAATACATACAGTATATATAC
131 ATAAAAGAAAACTTATCCAATCCAGACCTTCAAAAATACATACAGTATATATAC
45312865 ACCCACAAAGAAAATGCTTTTCATTCCAGAAGAATTTCAGACCAAAGAAAAGAGAATAAGAAAAA
1 ACCCACAAAGAAAATGCTTTTCATTCCAGAAGAATTTCAGACCAAAGAAAAGAGAATAAGAAAAA
45312930 CAGAAACTTATACAAGAGAGTCATTTCCAATAACACAAATTTTGAAACACTCACTTACAGTCAAA
66 CAGAAACTTATACAAGAGAGTCATTTCCAATAACACAAATTTTGAAACACTCACTTACAGTCAAA
45312995 ATAAAAGAAAACTTATCCAATCCAGACCTTCAAAAATACATACAGTATATATAC
131 ATAAAAGAAAACTTATCCAATCCAGACCTTCAAAAATACATACAGTATATATAC
45313049 ACCCACAAAGAAAATGCTTTTCATTCCAGAAGAATTTCAGACCAAAGAAAAGAGAATAAGAAAAA
1 ACCCACAAAGAAAATGCTTTTCATTCCAGAAGAATTTCAGACCAAAGAAAAGAGAATAAGAAAAA
45313114 CAGAAACTTATACAAGAGAGTCATTTCCAATAACACAAATTTTGAAACACTCACTTACAGTCAAA
66 CAGAAACTTATACAAGAGAGTCATTTCCAATAACACAAATTTTGAAACACTCACTTACAGTCAAA
45313179 ATAAAAGAAAACTTATCCAATCCAGACCTTCAAAAATACATACAGTATATATAC
131 ATAAAAGAAAACTTATCCAATCCAGACCTTCAAAAATACATACAGTATATATAC
45313233 ACCCACAAAGAAAATGCTTTTCATTCCAGAAGAATTTCAGACCAAAGAAAAGAGAATAAGAAAAA
1 ACCCACAAAGAAAATGCTTTTCATTCCAGAAGAATTTCAGACCAAAGAAAAGAGAATAAGAAAAA
45313298 CAGAAACTTATACAAGAGAGTCATTTCCAATAACACAAATTTTGAAACACTCACTTACAGTCAAA
66 CAGAAACTTATACAAGAGAGTCATTTCCAATAACACAAATTTTGAAACACTCACTTACAGTCAAA
45313363 ATAAAAGAAAACTTATCCAATCCAGACCTTCAAAAATACATACAGTATATATAC
131 ATAAAAGAAAACTTATCCAATCCAGACCTTCAAAAATACATACAGTATATATAC
45313417 ACCCACAAAGAAAATGCTTTTCATTCCAGAAGAATTTCAGACCAAAGAAAAGAGAATAAGAAAAA
1 ACCCACAAAGAAAATGCTTTTCATTCCAGAAGAATTTCAGACCAAAGAAAAGAGAATAAGAAAAA
45313482 CAGAAACTTATACAAGAGAGTCATTTCCAATAACACAAATTTTGAAACACTCACTTACAGTCAAA
66 CAGAAACTTATACAAGAGAGTCATTTCCAATAACACAAATTTTGAAACACTCACTTACAGTCAAA
45313547 ATAAAAGAAAACTTATCCAATCCAGACCTTCAAAAATACATACAGTATATATAC
131 ATAAAAGAAAACTTATCCAATCCAGACCTTCAAAAATACATACAGTATATATAC
45313601 ACCCACAAAGAAAATGCTTTTCATTCCAGAAGAATTTCAGACCAAAGAAAAGAGAATAAGAAAAA
1 ACCCACAAAGAAAATGCTTTTCATTCCAGAAGAATTTCAGACCAAAGAAAAGAGAATAAGAAAAA
45313666 CAGAAACTTATACAAGAGAGTCATTTCCAATAACACAAATTTTGAAACACTCACTTACAGTCAAA
66 CAGAAACTTATACAAGAGAGTCATTTCCAATAACACAAATTTTGAAACACTCACTTACAGTCAAA
45313731 ATAAAAGAAAACTTATCCAATCCAGACCTTCAAAAATACATACAGTATATATAC
131 ATAAAAGAAAACTTATCCAATCCAGACCTTCAAAAATACATACAGTATATATAC
45313785 ACCCACAAAGAAAATGCTTTTCATTCCAGAAGAATTTCAGACCAAAGAAAAGAGAATAAGAAAAA
1 ACCCACAAAGAAAATGCTTTTCATTCCAGAAGAATTTCAGACCAAAGAAAAGAGAATAAGAAAAA
45313850 CAGAAACTTATACAAGAGAGTCATTTCCAATAACACAAATTTTGAAACACTCACTTACAGTCAAA
66 CAGAAACTTATACAAGAGAGTCATTTCCAATAACACAAATTTTGAAACACTCACTTACAGTCAAA
45313915 ATAAAAGAAAACTTATCCAATCCAGACCTTCAAAAATACATACAGTATATATAC
131 ATAAAAGAAAACTTATCCAATCCAGACCTTCAAAAATACATACAGTATATATAC
*
45313969 ACCCACAAAGAAAATGCTTTTCATTCCAGAAGAATTTCAGACCAAAGAAAAGAGAATAAGAGAAA
1 ACCCACAAAGAAAATGCTTTTCATTCCAGAAGAATTTCAGACCAAAGAAAAGAGAATAAGAAAAA
45314034 CA
66 CA
45314036 AACATATAGG
Statistics
Matches: 1906, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
184 1906 1.00
ACGTcount: A:0.49, C:0.20, G:0.10, T:0.22
Consensus pattern (184 bp):
ACCCACAAAGAAAATGCTTTTCATTCCAGAAGAATTTCAGACCAAAGAAAAGAGAATAAGAAAAA
CAGAAACTTATACAAGAGAGTCATTTCCAATAACACAAATTTTGAAACACTCACTTACAGTCAAA
ATAAAAGAAAACTTATCCAATCCAGACCTTCAAAAATACATACAGTATATATAC
Found at i:45314253 original size:16 final size:16
Alignment explanation
Indices: 45314232--45314264 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
45314222 CAAAACAATG
45314232 AATATTTGAGATGATA
1 AATATTTGAGATGATA
*
45314248 AATATTTTAGATGATA
1 AATATTTGAGATGATA
45314264 A
1 A
45314265 GCTAGACCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.45, C:0.00, G:0.15, T:0.39
Consensus pattern (16 bp):
AATATTTGAGATGATA
Found at i:45314980 original size:20 final size:20
Alignment explanation
Indices: 45314955--45315015 Score: 69
Period size: 20 Copynumber: 3.3 Consensus size: 20
45314945 GCAGCAGATG
45314955 GGGAAATAAGAAGGAAAAAA
1 GGGAAATAAGAAGGAAAAAA
* *
45314975 GGGAAATAA-TATG----AA
1 GGGAAATAAGAAGGAAAAAA
45314990 GGGAAATAAGAAGGAAAAAA
1 GGGAAATAAGAAGGAAAAAA
45315010 GGGAAA
1 GGGAAA
45315016 CGCAGAGATG
Statistics
Matches: 32, Mismatches: 4, Indels: 10
0.70 0.09 0.22
Matches are distributed among these distances:
15 11 0.34
16 2 0.06
19 2 0.06
20 17 0.53
ACGTcount: A:0.61, C:0.00, G:0.31, T:0.08
Consensus pattern (20 bp):
GGGAAATAAGAAGGAAAAAA
Found at i:45328045 original size:63 final size:63
Alignment explanation
Indices: 45327889--45328047 Score: 164
Period size: 63 Copynumber: 2.5 Consensus size: 63
45327879 TTGTCTGTCT
* * *
45327889 GTGTGGTCT-TAAATCCCAAACAGTGAGTCACACGACCTGAACACACGCCCGTGTCTTTGGCCC
1 GTGTAGTCTATAAATCAC-AACAGTGAGTCACACGACCTGAACACACGCCCGTGTCCTTGGCCC
* * * * *
45327952 GTGTAGTCTCTAAATCACAATATTGGGTCACACGGCCTAGATA-A-ACGCCCGTGTCCTTGGCCC
1 GTGTAGTCTATAAATCACAACAGTGAGTCACACGACCT-GA-ACACACGCCCGTGTCCTTGGCCC
* *
45328015 TTGT-GATTTATAAATCACAACAGTGAGTCACAC
1 GTGTAG-TCTATAAATCACAACAGTGAGTCACAC
45328048 AGCTTAGACA
Statistics
Matches: 79, Mismatches: 13, Indels: 8
0.79 0.13 0.08
Matches are distributed among these distances:
62 1 0.01
63 67 0.85
64 10 0.13
65 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (63 bp):
GTGTAGTCTATAAATCACAACAGTGAGTCACACGACCTGAACACACGCCCGTGTCCTTGGCCC
Found at i:45331394 original size:19 final size:20
Alignment explanation
Indices: 45331372--45331409 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
45331362 GATTTATTTT
45331372 TATTAA-TAA-ATAAAGTAAA
1 TATTAAGTAATAT-AAGTAAA
45331391 TATTAAGTAATATAAGTAA
1 TATTAAGTAATATAAGTAA
45331410 TAAACAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 6 0.35
20 9 0.53
21 2 0.12
ACGTcount: A:0.58, C:0.00, G:0.08, T:0.34
Consensus pattern (20 bp):
TATTAAGTAATATAAGTAAA
Found at i:45331411 original size:19 final size:19
Alignment explanation
Indices: 45331372--45331409 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 19
45331362 GATTTATTTT
45331372 TATTAATAAATAAAGTAAA
1 TATTAATAAATAAAGTAAA
45331391 TATTAAGT-AATATAAGTAA
1 TATTAA-TAAATA-AAGTAA
45331410 TAAACAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.58, C:0.00, G:0.08, T:0.34
Consensus pattern (19 bp):
TATTAATAAATAAAGTAAA
Found at i:45332650 original size:20 final size:20
Alignment explanation
Indices: 45332623--45332745 Score: 103
Period size: 20 Copynumber: 6.2 Consensus size: 20
45332613 TGTACGGGAC
45332623 TACACTTCGGTGCCTCTGTT
1 TACACTTCGGTGCCTCTGTT
*
45332643 TGCACTTCGGTGCCTCTG-T
1 TACACTTCGGTGCCTCTGTT
* *
45332662 TACACTTCGGTG-TTCCTATT
1 TACACTTCGGTGCCT-CTGTT
* *
45332682 CACACTTCGATGCCTCTGATT
1 TACACTTCGGTGCCTCTG-TT
* * * *
45332703 GCACAATT--GTGTCTCTGTC
1 -TACACTTCGGTGCCTCTGTT
45332722 TACACTTCGGTGCCTCTG-T
1 TACACTTCGGTGCCTCTGTT
45332741 TACAC
1 TACAC
45332746 ATCTACGATG
Statistics
Matches: 80, Mismatches: 16, Indels: 15
0.72 0.14 0.14
Matches are distributed among these distances:
18 6 0.08
19 20 0.25
20 45 0.56
21 3 0.04
22 6 0.08
ACGTcount: A:0.14, C:0.30, G:0.19, T:0.37
Consensus pattern (20 bp):
TACACTTCGGTGCCTCTGTT
Found at i:45342122 original size:19 final size:18
Alignment explanation
Indices: 45342098--45342133 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
45342088 CTTCAAATGT
*
45342098 TCACATGGTCTGAGCCATG
1 TCACATGGACTG-GCCATG
45342117 TCACATGGACTGGCCAT
1 TCACATGGACTGGCCAT
45342134 ATGGTCGCGT
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:0.22, C:0.28, G:0.25, T:0.25
Consensus pattern (18 bp):
TCACATGGACTGGCCATG
Found at i:45344867 original size:26 final size:27
Alignment explanation
Indices: 45344812--45344882 Score: 83
Period size: 26 Copynumber: 2.7 Consensus size: 27
45344802 AATTTTCTTG
* **
45344812 AAATTTTATCGAGGGT-AAAATAGTTT
1 AAATTTTATCAAGGGTAAAAATAGTCA
45344838 AAATTTTATCAAGGGTAAAAAT-GTCA
1 AAATTTTATCAAGGGTAAAAATAGTCA
* *
45344864 AAATTTTATTAGGGGTAAA
1 AAATTTTATCAAGGGTAAA
45344883 TTTGGGGTAA
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
26 34 0.87
27 5 0.13
ACGTcount: A:0.42, C:0.04, G:0.18, T:0.35
Consensus pattern (27 bp):
AAATTTTATCAAGGGTAAAAATAGTCA
Found at i:45349219 original size:95 final size:93
Alignment explanation
Indices: 45349110--45349309 Score: 228
Period size: 95 Copynumber: 2.1 Consensus size: 93
45349100 AACATAACCT
* *
45349110 CATGTTT-ATCGTCTT-ATCGGACTACCCCGTGTTTATTGTCCCGGTGGACTCTC-TATGTTGCC
1 CATGTTTAAT-GTCTTGAT-GGACTACCCCGTGTTTATTATCCCAGTGGACTC-CATATGTTGCC
* *
45349172 ATAGTCAAGCTATGGTCTTACACAAT-ATAACTC
63 ATAGCCAAGCTATCGTCTTACAC-ATCAT-AC-C
* * * *
45349205 CATGTTTAATGTCTTGGTGGATTACCCCGTGTTTATTATCCTAGTGGACTCCATATGTTGTCATA
1 CATGTTTAATGTCTTGATGGACTACCCCGTGTTTATTATCCCAGTGGACTCCATATGTTGCCATA
* *
45349270 GCCGAGCTATCGTCTTACACGTCATACC
66 GCCAAGCTATCGTCTTACACATCATACC
45349298 CATGTTTAATGT
1 CATGTTTAATGT
45349310 ACTAGCGAAC
Statistics
Matches: 91, Mismatches: 10, Indels: 10
0.82 0.09 0.09
Matches are distributed among these distances:
93 13 0.14
94 4 0.04
95 71 0.78
96 3 0.03
ACGTcount: A:0.21, C:0.23, G:0.18, T:0.37
Consensus pattern (93 bp):
CATGTTTAATGTCTTGATGGACTACCCCGTGTTTATTATCCCAGTGGACTCCATATGTTGCCATA
GCCAAGCTATCGTCTTACACATCATACC
Found at i:45351682 original size:16 final size:16
Alignment explanation
Indices: 45351661--45351708 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
45351651 TGGATTGTTT
45351661 TTAAGTATATTATATG
1 TTAAGTATATTATATG
45351677 TTAAGTTATATT-TAT-
1 TTAAG-TATATTATATG
45351692 TTAA-TA-A-TATATG
1 TTAAGTATATTATATG
45351705 TTAA
1 TTAA
45351709 AATAATAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 9
0.76 0.00 0.24
Matches are distributed among these distances:
11 1 0.03
12 4 0.14
13 6 0.21
15 4 0.14
16 8 0.28
17 6 0.21
ACGTcount: A:0.40, C:0.00, G:0.08, T:0.52
Consensus pattern (16 bp):
TTAAGTATATTATATG
Found at i:45356767 original size:17 final size:16
Alignment explanation
Indices: 45356747--45356784 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
45356737 ATTTAATCAA
45356747 TTAATTAAATTAATTTC
1 TTAATTAAA-TAATTTC
*
45356764 TTAATTAAATAATTTT
1 TTAATTAAATAATTTC
45356780 TTAAT
1 TTAAT
45356785 CTAATTATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 11 0.55
17 9 0.45
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (16 bp):
TTAATTAAATAATTTC
Found at i:45358194 original size:343 final size:344
Alignment explanation
Indices: 45357568--45358256 Score: 1362
Period size: 343 Copynumber: 2.0 Consensus size: 344
45357558 ATACTACAGA
45357568 AGTCGTATACCCAACATACCCACTATTTTGGTTCTGTAATTACCTTAGTATTAGTTAAACCTTAG
1 AGTCGTATACCCAACATACCCACTATTTTGGTTCTGTAATTACCTTAGTATTAGTTAAACCTTAG
45357633 GTAATTAGTGAACCAAAATTTGCTTAGTTTATTTTGCATTTCGTGCAAAAATCAGTGAAAATAAA
66 GTAATTAGTGAACCAAAATTTGCTTAGTTTATTTTGCATTTCGTGCAAAAATCAGTGAAAATAAA
45357698 TATACAAAAGATAATAATTTAACTATGAAATTTTATTAATATATTTTTAAAAAAAATACAAGTAT
131 TATACAAAAGATAATAATTTAACTATGAAATTTTATTAATATATTTTTAAAAAAAATACAAGTAT
45357763 TTATGACAAAATAATTTCGCTAAGGGCAAAAAAACCCCAACAATCTAATGGTATCTATATTATAT
196 TTATGACAAAATAATTTCGCTAAGGGCAAAAAAACCCCAACAATCTAATGGTATCTATATTATAT
45357828 AAATTTATTTATTTATTGTTAATTTATATGTTAGAATTTAAAAGAAAATAAATATATTTTATAAT
261 AAATTTATTTATTTATTGTTAATTTATATGTTAGAATTTAAAAGAAAATAAATATATTTTATAAT
45357893 AAATTC-TATATTATAATT
326 AAATTCATATATTATAATT
45357911 AGTCGTATACCCAACATACCCACTATTTTGGTTCTGTAATTACCTTAGTATTAGTTAAACCTTAG
1 AGTCGTATACCCAACATACCCACTATTTTGGTTCTGTAATTACCTTAGTATTAGTTAAACCTTAG
45357976 GTAATTAGTGAACCAAAATTTGCTTAGTTTATTTTGCATTTCGTGCAAAAATCAGTGAAAATAAA
66 GTAATTAGTGAACCAAAATTTGCTTAGTTTATTTTGCATTTCGTGCAAAAATCAGTGAAAATAAA
45358041 TATACAAAAGATAATAATTTAACTATGAAATTTTATTAATATATTTTTAAAAAAAATACAAGTAT
131 TATACAAAAGATAATAATTTAACTATGAAATTTTATTAATATATTTTTAAAAAAAATACAAGTAT
45358106 TTATGACAAAATAATTTCGCTAAGGGCAAAAAAACCCCAACAATCTAATGGTATCTATATTATAT
196 TTATGACAAAATAATTTCGCTAAGGGCAAAAAAACCCCAACAATCTAATGGTATCTATATTATAT
45358171 AAATTTATTTATTTATTGTTAATTTATATGTTAGAATTTAAAAGAAAATAAATATATTTTATAAT
261 AAATTTATTTATTTATTGTTAATTTATATGTTAGAATTTAAAAGAAAATAAATATATTTTATAAT
45358236 AAATTCTATATATTATAATT
326 AAATTC-ATATATTATAATT
45358256 A
1 A
45358257 AAATATAAAA
Statistics
Matches: 344, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
343 331 0.96
345 13 0.04
ACGTcount: A:0.42, C:0.10, G:0.09, T:0.38
Consensus pattern (344 bp):
AGTCGTATACCCAACATACCCACTATTTTGGTTCTGTAATTACCTTAGTATTAGTTAAACCTTAG
GTAATTAGTGAACCAAAATTTGCTTAGTTTATTTTGCATTTCGTGCAAAAATCAGTGAAAATAAA
TATACAAAAGATAATAATTTAACTATGAAATTTTATTAATATATTTTTAAAAAAAATACAAGTAT
TTATGACAAAATAATTTCGCTAAGGGCAAAAAAACCCCAACAATCTAATGGTATCTATATTATAT
AAATTTATTTATTTATTGTTAATTTATATGTTAGAATTTAAAAGAAAATAAATATATTTTATAAT
AAATTCATATATTATAATT
Found at i:45359168 original size:23 final size:22
Alignment explanation
Indices: 45359112--45359169 Score: 62
Period size: 23 Copynumber: 2.5 Consensus size: 22
45359102 ATTCTCATTT
*
45359112 AGTTAAAAAATATATTTTTTGAA
1 AGTT-AAAAATATATTATTTGAA
* *
45359135 ATTGTACAAATATATTATTTGATA
1 AGT-TAAAAATATATTATTTGA-A
45359159 AGTTAAAAATA
1 AGTTAAAAATA
45359170 AACAAGTAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
23 24 0.86
24 4 0.14
ACGTcount: A:0.48, C:0.02, G:0.09, T:0.41
Consensus pattern (22 bp):
AGTTAAAAATATATTATTTGAA
Found at i:45363046 original size:17 final size:17
Alignment explanation
Indices: 45363024--45363062 Score: 78
Period size: 17 Copynumber: 2.3 Consensus size: 17
45363014 ACTGCAGGGG
45363024 TCACACGGCCATGTGAC
1 TCACACGGCCATGTGAC
45363041 TCACACGGCCATGTGAC
1 TCACACGGCCATGTGAC
45363058 TCACA
1 TCACA
45363063 TGGCTGAGAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.26, C:0.36, G:0.21, T:0.18
Consensus pattern (17 bp):
TCACACGGCCATGTGAC
Found at i:45366038 original size:13 final size:14
Alignment explanation
Indices: 45366020--45366048 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
45366010 GTAGGATACT
45366020 AACTAAAAT-ATGA
1 AACTAAAATCATGA
45366033 AACTAAAATCATGA
1 AACTAAAATCATGA
45366047 AA
1 AA
45366049 GGTAGGGTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.62, C:0.10, G:0.07, T:0.21
Consensus pattern (14 bp):
AACTAAAATCATGA
Found at i:45366566 original size:28 final size:28
Alignment explanation
Indices: 45366507--45366681 Score: 282
Period size: 28 Copynumber: 6.3 Consensus size: 28
45366497 GTAAACACGC
**
45366507 CATGAAAGAAAAA-CCTTCT-TGACGAAT
1 CATGAAAGAAAAAGCCTT-TGTGGTGAAT
* *
45366534 TATGAAAGAAAAAGCATTTGTGGTGAAT
1 CATGAAAGAAAAAGCCTTTGTGGTGAAT
45366562 CATGAAAGAAAAAGCCTTTGTGGTGAAT
1 CATGAAAGAAAAAGCCTTTGTGGTGAAT
45366590 CATGAAAGAAAAAGCCTTTGTGGTGAAT
1 CATGAAAGAAAAAGCCTTTGTGGTGAAT
45366618 CATGAAAGAAAAAGCCTTTGTGGTGAAT
1 CATGAAAGAAAAAGCCTTTGTGGTGAAT
45366646 CATGAAAGAAAAAGCCTTTGTGGTGAAT
1 CATGAAAGAAAAAGCCTTTGTGGTGAAT
*
45366674 CATCAAAG
1 CATGAAAG
45366682 GATCGCTTTA
Statistics
Matches: 139, Mismatches: 7, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
27 13 0.09
28 126 0.91
ACGTcount: A:0.41, C:0.11, G:0.23, T:0.25
Consensus pattern (28 bp):
CATGAAAGAAAAAGCCTTTGTGGTGAAT
Found at i:45377104 original size:26 final size:26
Alignment explanation
Indices: 45377068--45377239 Score: 166
Period size: 26 Copynumber: 6.5 Consensus size: 26
45377058 TTAAGTTTTC
45377068 GCCACAAAGCCTTTCTTTCATATTAT
1 GCCACAAAGCCTTTCTTTCATATTAT
45377094 GCCACAAAGCCTTTCTTTCATATTAT
1 GCCACAAAGCCTTTCTTTCATATTAT
**
45377120 GCCACAAAGATTTTCTTTCATATTAT
1 GCCACAAAGCCTTTCTTTCATATTAT
* * * *
45377146 GCTATAAAGGCC-TCCTTTCATATTAC
1 GCCACAAA-GCCTTTCTTTCATATTAT
* * * * *
45377172 ACCAGAAAGACTTTTTTTTTCATATTAC
1 GCCACAAAG-C-CTTTCTTTCATATTAT
* * *
45377200 GTCATAAAGGCTTTCTTTCATATTAT
1 GCCACAAAGCCTTTCTTTCATATTAT
* *
45377226 GCCATAAAGGCTTT
1 GCCACAAAGCCTTT
45377240 TTTTTCCTAA
Statistics
Matches: 120, Mismatches: 22, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
25 1 0.01
26 100 0.83
27 1 0.01
28 18 0.15
ACGTcount: A:0.28, C:0.22, G:0.10, T:0.40
Consensus pattern (26 bp):
GCCACAAAGCCTTTCTTTCATATTAT
Found at i:45377208 original size:54 final size:54
Alignment explanation
Indices: 45377108--45377244 Score: 163
Period size: 54 Copynumber: 2.6 Consensus size: 54
45377098 CAAAGCCTTT
* *
45377108 CTTTCATATTATGCCACAAAGA--TTTTCTTTCATATTATGCTATAAAGGCCTC
1 CTTTCATATTATGCCACAAAGACTTTTTTTTTCATATTACGCTATAAAGGCCTC
** * * *
45377160 CTTTCATATTACACCAGAAAGACTTTTTTTTTCATATTACG-TCATAAAGGCTTT
1 CTTTCATATTATGCCACAAAGACTTTTTTTTTCATATTACGCT-ATAAAGGCCTC
* *
45377214 CTTTCATATTATGCCATAAAGGCTTTTTTTT
1 CTTTCATATTATGCCACAAAGACTTTTTTTT
45377245 CCTAACGTGT
Statistics
Matches: 71, Mismatches: 11, Indels: 4
0.83 0.13 0.05
Matches are distributed among these distances:
52 19 0.27
53 1 0.01
54 51 0.72
ACGTcount: A:0.28, C:0.19, G:0.09, T:0.44
Consensus pattern (54 bp):
CTTTCATATTATGCCACAAAGACTTTTTTTTTCATATTACGCTATAAAGGCCTC
Found at i:45380004 original size:33 final size:35
Alignment explanation
Indices: 45379966--45380035 Score: 85
Period size: 33 Copynumber: 2.1 Consensus size: 35
45379956 ATATTTCTAT
45379966 AATTTTTGA-AAATTTA-ATACTTTGTATTATA-AA
1 AATTTTT-ATAAATTTATATACTTTGTATTATATAA
* *
45379999 AA-TTTTATATATTTATATATTTTGTATTATATAA
1 AATTTTTATAAATTTATATACTTTGTATTATATAA
45380033 AAT
1 AAT
45380036 ATATCATATT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
31 1 0.03
32 10 0.32
33 16 0.52
34 4 0.13
ACGTcount: A:0.41, C:0.01, G:0.04, T:0.53
Consensus pattern (35 bp):
AATTTTTATAAATTTATATACTTTGTATTATATAA
Found at i:45382550 original size:17 final size:16
Alignment explanation
Indices: 45382517--45382559 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
45382507 GAAAATTGTC
45382517 ATTTTTGGGAAACTTTT
1 ATTTTT-GGAAACTTTT
* *
45382534 CTTCTTTGGAAAGTTTT
1 ATT-TTTGGAAACTTTT
45382551 ATTTTTGGA
1 ATTTTTGGA
45382560 CTTTTTAGAT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
16 6 0.27
17 13 0.59
18 3 0.14
ACGTcount: A:0.21, C:0.07, G:0.19, T:0.53
Consensus pattern (16 bp):
ATTTTTGGAAACTTTT
Found at i:45384619 original size:15 final size:15
Alignment explanation
Indices: 45384599--45384628 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
45384589 CTTCAGCAAT
45384599 ATAATGTGAAGTCAC
1 ATAATGTGAAGTCAC
45384614 ATAATGTGAAGTCAC
1 ATAATGTGAAGTCAC
45384629 GCATTTGAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.13, G:0.20, T:0.27
Consensus pattern (15 bp):
ATAATGTGAAGTCAC
Found at i:45384930 original size:13 final size:14
Alignment explanation
Indices: 45384912--45384940 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
45384902 TATGCTTAAT
45384912 TACATAATTT-TTG
1 TACATAATTTATTG
45384925 TACATAATTTATTG
1 TACATAATTTATTG
45384939 TA
1 TA
45384941 ACACCCCTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.34, C:0.07, G:0.07, T:0.52
Consensus pattern (14 bp):
TACATAATTTATTG
Found at i:45426492 original size:45 final size:45
Alignment explanation
Indices: 45426428--45426526 Score: 198
Period size: 45 Copynumber: 2.2 Consensus size: 45
45426418 GACCTCGTTA
45426428 TTGGGCCTTGTGGTAATTCGAGCCCATCATGTTCTTGAGCTTGAG
1 TTGGGCCTTGTGGTAATTCGAGCCCATCATGTTCTTGAGCTTGAG
45426473 TTGGGCCTTGTGGTAATTCGAGCCCATCATGTTCTTGAGCTTGAG
1 TTGGGCCTTGTGGTAATTCGAGCCCATCATGTTCTTGAGCTTGAG
45426518 TTGGGCCTT
1 TTGGGCCTT
45426527 TGTGACTCGT
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 54 1.00
ACGTcount: A:0.14, C:0.20, G:0.29, T:0.36
Consensus pattern (45 bp):
TTGGGCCTTGTGGTAATTCGAGCCCATCATGTTCTTGAGCTTGAG
Found at i:45428941 original size:5 final size:5
Alignment explanation
Indices: 45428931--45428957 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
45428921 GATTGTGATG
45428931 ATTAA ATTAA ATTAA ATTAA ATTAA AT
1 ATTAA ATTAA ATTAA ATTAA ATTAA AT
45428958 GCAAATAATG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
ATTAA
Found at i:45430560 original size:15 final size:14
Alignment explanation
Indices: 45430525--45430557 Score: 66
Period size: 14 Copynumber: 2.4 Consensus size: 14
45430515 TAATTAAGTA
45430525 AAATTCACTCATAT
1 AAATTCACTCATAT
45430539 AAATTCACTCATAT
1 AAATTCACTCATAT
45430553 AAATT
1 AAATT
45430558 TCACATACTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.45, C:0.18, G:0.00, T:0.36
Consensus pattern (14 bp):
AAATTCACTCATAT
Found at i:45438226 original size:25 final size:25
Alignment explanation
Indices: 45438158--45438333 Score: 111
Period size: 25 Copynumber: 7.4 Consensus size: 25
45438148 CAAAGATACA
* * *
45438158 CCACAAAGGCATCATATGGGATACG
1 CCACAAAGGCATTATATGGAATATG
* **
45438183 CCATAAAGGC--TA-ACAGAATATG
1 CCACAAAGGCATTATATGGAATATG
* *
45438205 CCACAAAAGCATTATATGGAATACG
1 CCACAAAGGCATTATATGGAATATG
* * *
45438230 CCATAAAGGC--TA-ACGAAATATG
1 CCACAAAGGCATTATATGGAATATG
*
45438252 CCACAAAGGCATCT-TATAGAATATG
1 CCACAAAGGCAT-TATATGGAATATG
* *
45438277 CCATAAAGGC--TA-ATAGAATATG
1 CCACAAAGGCATTATATGGAATATG
* * **
45438299 CCAAAAAGGCATCATATGGAATACA
1 CCACAAAGGCATTATATGGAATATG
45438324 CCACAAAGGC
1 CCACAAAGGC
45438334 TAACAGAATA
Statistics
Matches: 113, Mismatches: 27, Indels: 22
0.70 0.17 0.14
Matches are distributed among these distances:
22 50 0.44
23 3 0.03
24 3 0.03
25 57 0.50
ACGTcount: A:0.43, C:0.20, G:0.18, T:0.18
Consensus pattern (25 bp):
CCACAAAGGCATTATATGGAATATG
Found at i:45438229 original size:47 final size:47
Alignment explanation
Indices: 45438158--45438343 Score: 250
Period size: 47 Copynumber: 4.0 Consensus size: 47
45438148 CAAAGATACA
* *
45438158 CCACAAAGGCATCATATGGGATACGCCATAAAGGCTAACAGAATATG
1 CCACAAAAGCATCATATGGAATACGCCATAAAGGCTAACAGAATATG
*
45438205 CCACAAAAGCATTATATGGAATACGCCATAAAGGCTAAC-GAAATATG
1 CCACAAAAGCATCATATGGAATACGCCATAAAGGCTAACAG-AATATG
* * * * *
45438252 CCACAAAGGCATCTTATAGAATATGCCATAAAGGCTAATAGAATATG
1 CCACAAAAGCATCATATGGAATACGCCATAAAGGCTAACAGAATATG
* *
45438299 CCA-AAAAGGCATCATATGGAATACACCACAAAGGCTAACAGAATA
1 CCACAAAA-GCATCATATGGAATACGCCATAAAGGCTAACAGAATA
45438344 CACAACAAAG
Statistics
Matches: 120, Mismatches: 16, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
46 4 0.03
47 115 0.96
48 1 0.01
ACGTcount: A:0.44, C:0.20, G:0.18, T:0.18
Consensus pattern (47 bp):
CCACAAAAGCATCATATGGAATACGCCATAAAGGCTAACAGAATATG
Found at i:45438254 original size:22 final size:21
Alignment explanation
Indices: 45438182--45438308 Score: 67
Period size: 22 Copynumber: 5.5 Consensus size: 21
45438172 TATGGGATAC
*
45438182 GCCATAAAGGCTAACAGAATAT
1 GCCATAAAGGCTAAGA-AATAT
* * * *
45438204 GCCACAAAAGCATTATATGGAATAC
1 GCCATAAAGGC--TA-A-GAAATAT
45438229 GCCATAAAGGCTAACGAAATAT
1 GCCATAAAGGCTAA-GAAATAT
*
45438251 GCCACAAAGGCATCTTATAG-AATAT
1 GCCATAAAGG---C-TA-AGAAATAT
*
45438276 GCCATAAAGGCTAATAGAATAT
1 GCCATAAAGGCTAAGA-AATAT
*
45438298 GCCAAAAAGGC
1 GCCATAAAGGC
45438309 ATCATATGGA
Statistics
Matches: 80, Mismatches: 14, Indels: 22
0.69 0.12 0.19
Matches are distributed among these distances:
20 1 0.01
21 2 0.03
22 40 0.50
23 2 0.03
24 2 0.03
25 29 0.36
26 3 0.04
27 1 0.01
ACGTcount: A:0.44, C:0.19, G:0.18, T:0.19
Consensus pattern (21 bp):
GCCATAAAGGCTAAGAAATAT
Found at i:45438345 original size:22 final size:23
Alignment explanation
Indices: 45438317--45438364 Score: 71
Period size: 22 Copynumber: 2.1 Consensus size: 23
45438307 GCATCATATG
*
45438317 GAATACACCACAAAGGCT-AACA
1 GAATACACAACAAAGGCTAAACA
*
45438339 GAATACACAACAAAGGTTAAACA
1 GAATACACAACAAAGGCTAAACA
45438362 GAA
1 GAA
45438365 AACCATCCAG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 16 0.70
23 7 0.30
ACGTcount: A:0.54, C:0.21, G:0.15, T:0.10
Consensus pattern (23 bp):
GAATACACAACAAAGGCTAAACA
Found at i:45438352 original size:94 final size:94
Alignment explanation
Indices: 45438127--45438354 Score: 280
Period size: 94 Copynumber: 2.4 Consensus size: 94
45438117 AGATTTGTCA
* * * * *
45438127 GAATACACCACAAGGGTTAGACAAAGATACACCACAAAGGCATCATATGGGATACGCCATAAAGG
1 GAATACACCACAAAGGCTA-ACAGA-ATACACCACAAAGGCATCATATAGAATACGCCATAAAGG
*
45438192 CTAACAGAATATGCCACAAAAGCATTATATG
64 CTAACAGAATATGCCACAAAAGCATCATATG
* * ** * *
45438223 GAATACGCCATAAAGGCTAAC-GAAATATGCCACAAAGGCATCTTATAGAATATGCCATAAAGGC
1 GAATACACCACAAAGGCTAACAG-AATACACCACAAAGGCATCATATAGAATACGCCATAAAGGC
*
45438287 TAATAGAATATGCCA-AAAAGGCATCATATG
65 TAACAGAATATGCCACAAAA-GCATCATATG
*
45438317 GAATACACCACAAAGGCTAACAGAATACACAACAAAGG
1 GAATACACCACAAAGGCTAACAGAATACACCACAAAGG
45438355 TTAAACAGAA
Statistics
Matches: 111, Mismatches: 18, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
93 4 0.04
94 88 0.79
95 4 0.04
96 15 0.14
ACGTcount: A:0.45, C:0.20, G:0.18, T:0.17
Consensus pattern (94 bp):
GAATACACCACAAAGGCTAACAGAATACACCACAAAGGCATCATATAGAATACGCCATAAAGGCT
AACAGAATATGCCACAAAAGCATCATATG
Found at i:45443341 original size:29 final size:29
Alignment explanation
Indices: 45443284--45443345 Score: 92
Period size: 29 Copynumber: 2.2 Consensus size: 29
45443274 GGATGGGAGG
*
45443284 GAAGTAAAAGTTTTGGGAAAAAGTGAAAA
1 GAAGTAAAAGTTTAGGGAAAAAGTGAAAA
45443313 GAAGTAAAAGTATTAGGGAAAAAGT-AAAA
1 GAAGTAAAAGT-TTAGGGAAAAAGTGAAAA
45443342 -AAGT
1 GAAGT
45443346 TTAGGGATTT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
28 4 0.13
29 15 0.48
30 12 0.39
ACGTcount: A:0.55, C:0.00, G:0.26, T:0.19
Consensus pattern (29 bp):
GAAGTAAAAGTTTAGGGAAAAAGTGAAAA
Found at i:45445134 original size:27 final size:26
Alignment explanation
Indices: 45445090--45445144 Score: 74
Period size: 27 Copynumber: 2.1 Consensus size: 26
45445080 ATCAAAACTT
* *
45445090 TATTTATTATATATTTTTTAATAAATA
1 TATTTATTACATAATTTTT-ATAAATA
*
45445117 TATTTATTACATAATTTTTATATATA
1 TATTTATTACATAATTTTTATAAATA
45445143 TA
1 TA
45445145 ATAATATAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
26 8 0.32
27 17 0.68
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (26 bp):
TATTTATTACATAATTTTTATAAATA
Found at i:45446133 original size:13 final size:14
Alignment explanation
Indices: 45446104--45446141 Score: 60
Period size: 13 Copynumber: 2.7 Consensus size: 14
45446094 TATTCGAAGC
45446104 AAACATAAAAACAAA
1 AAACA-AAAAACAAA
45446119 AAACAAAAAAC-AA
1 AAACAAAAAACAAA
45446132 AAACAAAAAA
1 AAACAAAAAA
45446142 AGAAAAGGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 12 0.52
14 6 0.26
15 5 0.22
ACGTcount: A:0.84, C:0.13, G:0.00, T:0.03
Consensus pattern (14 bp):
AAACAAAAAACAAA
Found at i:45446142 original size:14 final size:14
Alignment explanation
Indices: 45446104--45446147 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
45446094 TATTCGAAGC
*
45446104 AAACATAAAAACAA
1 AAACAAAAAAACAA
45446118 AAA-ACAAAAAACAA
1 AAACA-AAAAAACAA
*
45446132 AAACAAAAAAAGAA
1 AAACAAAAAAACAA
45446146 AA
1 AA
45446148 GGTTTTTACC
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
13 1 0.04
14 24 0.92
15 1 0.04
ACGTcount: A:0.84, C:0.11, G:0.02, T:0.02
Consensus pattern (14 bp):
AAACAAAAAAACAA
Found at i:45446147 original size:7 final size:7
Alignment explanation
Indices: 45446104--45446141 Score: 60
Period size: 7 Copynumber: 5.4 Consensus size: 7
45446094 TATTCGAAGC
45446104 AAACATAA
1 AAACA-AA
45446112 AAACAAA
1 AAACAAA
45446119 AAACAAA
1 AAACAAA
45446126 AAAC-AA
1 AAACAAA
45446132 AAACAAA
1 AAACAAA
45446139 AAA
1 AAA
45446142 AGAAAAGGTT
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
6 6 0.21
7 18 0.62
8 5 0.17
ACGTcount: A:0.84, C:0.13, G:0.00, T:0.03
Consensus pattern (7 bp):
AAACAAA
Found at i:45447894 original size:17 final size:17
Alignment explanation
Indices: 45447872--45447910 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
45447862 TTGTAGACCG
* *
45447872 AAAATTATCGTTTTAGT
1 AAAATTAACCTTTTAGT
*
45447889 AAAATTAACCTTTTATT
1 AAAATTAACCTTTTAGT
45447906 AAAAT
1 AAAAT
45447911 GATTAAATCT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.44, C:0.08, G:0.05, T:0.44
Consensus pattern (17 bp):
AAAATTAACCTTTTAGT
Found at i:45458728 original size:94 final size:94
Alignment explanation
Indices: 45458567--45458937 Score: 381
Period size: 94 Copynumber: 3.9 Consensus size: 94
45458557 ATGAAACCAT
* * * * * *
45458567 AAATCCTATACCCCTAAAGTTGCAGTGGGTCGGATTAAAGCTACAATAGCGAATATTATCTCCCT
1 AAATCTTATACCCATGAAGTTGTAGTGGGTCGGATTGAAGCTACAATAGCGAATCTTATCTCCCT
* * *
45458632 GAAGCTGCAGTGGAGCAAGATAAAGCTAC
66 GAAGTTGTAGTGGAGCAAGATGAAGCTAC
* * *
45458661 AAATCTTATACCACAT-AAGTTGTAGTAGGTCAGATTGAAGTTACAATAGCGAATCTTATCTCCC
1 AAATCTTATACC-CATGAAGTTGTAGTGGGTCGGATTGAAGCTACAATAGCGAATCTTATCTCCC
*
45458725 TGAAGTTATAGTGGAGCAAGATGAAGCTAC
65 TGAAGTTGTAGTGGAGCAAGATGAAGCTAC
* * * *
45458755 AAATTTCTATACCCCTGAA-TTGTAGTGGGTCGGATTGAAACTACGATAGCGAATCTTATCTCCC
1 AAATCT-TATACCCATGAAGTTGTAGTGGGTCGGATTGAAGCTACAATAGCGAATCTTATCTCCC
* * *
45458819 TGAAGTTGTAGCGGAACAAGATGAGGCTAC
65 TGAAGTTGTAGTGGAGCAAGATGAAGCTAC
* * * * * * * * * *
45458849 AAATCCTATATCCC-TAAAATTGCAATGGAAT-GGATTGAAACTACAATGGCAAATCTTATCTTC
1 AAATCTTATA-CCCATGAAGTTGTAGTGG-GTCGGATTGAAGCTACAATAGCGAATCTTATCTCC
* * *
45458912 TTGAAGTTGCAATGGAGCAAGATGAA
64 CTGAAGTTGTAGTGGAGCAAGATGAA
45458938 ACTGTAACAC
Statistics
Matches: 232, Mismatches: 39, Indels: 12
0.82 0.14 0.04
Matches are distributed among these distances:
93 7 0.03
94 214 0.92
95 11 0.05
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.27
Consensus pattern (94 bp):
AAATCTTATACCCATGAAGTTGTAGTGGGTCGGATTGAAGCTACAATAGCGAATCTTATCTCCCT
GAAGTTGTAGTGGAGCAAGATGAAGCTAC
Found at i:45458907 original size:188 final size:189
Alignment explanation
Indices: 45458572--45458937 Score: 429
Period size: 188 Copynumber: 1.9 Consensus size: 189
45458562 ACCATAAATC
45458572 CTATACCCCTAAAGTTGCAGTGGGTCGGATTAAAGCTACAATAGCGAATATTATCTCCCTGAAGC
1 CTATACCCCTAAAGTTGCAGTGGGTCGGATTAAAGCTACAATAGCGAATATTATCTCCCTGAAGC
* * * * * * **
45458637 TGCAGTGGAGCAAGATAAAGCTACAAATCTTATACCACATAAGTTGTAGTAGGTCAGATTGAAGT
66 TGCAGCGGAACAAGATAAAGCTACAAATCCTATACCACATAAATTGCAATAGGTCAGATTGAAAC
* * *
45458702 TACAATAGCGAATCTTATCTCCCTGAAGTTATAGTGGAGCAAGATGAAGCTACAAATTT
131 TACAATAGCAAATCTTATCTCCCTGAAGTTACAATGGAGCAAGATGAAGCTACAAATTT
* * * *
45458761 CTATACCCCTGAA-TTGTAGTGGGTCGGATTGAAA-CTACGATAGCGAATCTTATCTCCCTGAAG
1 CTATACCCCTAAAGTTGCAGTGGGTCGGATT-AAAGCTACAATAGCGAATATTATCTCCCTGAAG
* * * * *
45458824 TTGTAGCGGAACAAGATGAGGCTACAAATCCTATATCC-C-TAAAATTGCAAT-GGAAT-GGATT
65 CTGCAGCGGAACAAGATAAAGCTACAAATCCTATA-CCACAT-AAATTGCAATAGG--TCAGATT
* * * *
45458885 GAAACTACAATGGCAAATCTTATCTTCTTGAAGTTGCAATGGAGCAAGATGAA
126 GAAACTACAATAGCAAATCTTATCTCCCTGAAGTTACAATGGAGCAAGATGAA
45458938 ACTGTAACAC
Statistics
Matches: 148, Mismatches: 24, Indels: 11
0.81 0.13 0.06
Matches are distributed among these distances:
187 3 0.02
188 127 0.86
189 18 0.12
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.27
Consensus pattern (189 bp):
CTATACCCCTAAAGTTGCAGTGGGTCGGATTAAAGCTACAATAGCGAATATTATCTCCCTGAAGC
TGCAGCGGAACAAGATAAAGCTACAAATCCTATACCACATAAATTGCAATAGGTCAGATTGAAAC
TACAATAGCAAATCTTATCTCCCTGAAGTTACAATGGAGCAAGATGAAGCTACAAATTT
Found at i:45465469 original size:274 final size:275
Alignment explanation
Indices: 45464966--45465472 Score: 724
Period size: 274 Copynumber: 1.8 Consensus size: 275
45464956 ATGTTGCATC
* * *
45464966 TAGAGCTTGTATTTTGGTAGTGCTGCAAACAAATTGGTGACATTTTAGTAGGGACAGTTCAGGGT
1 TAGAGCATGAATTTTGGTAGTGCTGCAAACAAATCGGTGACATTTTAGTAGGGACA-TTCAGGGT
**
45465031 ACAAAGTTGTATGACCTTTCGATTTAGCTGCTGGATCATCTTTTTAATCTGCCTTTAAGAATTTT
65 ACAAAGTTGTATGACCTTTCGATTTAGCTGCTGGATCATCTTTTTAATCCACCTTTAAGAATTTT
* * *
45465096 GAGCATGGGTTTGCAGGAATTAGTTTGTGCATTAAAGAGATGAGATGGCTAATATTTAGTATTTA
130 GAGCACGGGTTTGCAGGAAGTAGTTTGTACATTAAAGAGATGAGATGGCTAATATTTAGTATTTA
* * * * *
45465161 GCGTCAAATGGTACTATCAAAGGTTATTATTGATGAAAACATTCACTTCCAGACATCTGAGATAA
195 GCATCAAAGGGTACAAACAAAGGTTATCATTGATGAAAACATTCACTTCCAGACATCTGAGATAA
45465226 CATATCATGTAGTATT
260 CATATCATGTAGTATT
*
45465242 TAGAGCATGAATTTTGGTAGTGCTGCAAACAAATCGGTGAC-TTTTATTAGGGAC-TTCA-GGTA
1 TAGAGCATGAATTTTGGTAGTGCTGCAAACAAATCGGTGACATTTTAGTAGGGACATTCAGGGTA
45465304 CAAAAGTTGTATGACCTTT-GATTTAGCTGCT-GACTCATC-TTTTAATTCCACCTTTAAGAA-T
66 C-AAAGTTGTATGACCTTTCGATTTAGCTGCTGGA-TCATCTTTTTAA-TCCACCTTTAAGAATT
* * * *
45465365 TT-AGCACGGCTAGTTTTGCAGGCAGTATTTTGTACCTTAAAGAGATGAGATGGCTAATATTTTG
128 TTGAGCACGG---G-TTTGCAGGAAGTAGTTTGTACATTAAAGAGATGAGATGGCTAATATTTAG
45465429 TATTTAGCATCAAAGGGTACAAACAAAGGTTATCATTGATGAAA
189 TATTTAGCATCAAAGGGTACAAACAAAGGTTATCATTGATGAAA
45465473 CCTTACATCT
Statistics
Matches: 206, Mismatches: 18, Indels: 16
0.86 0.08 0.07
Matches are distributed among these distances:
270 6 0.03
271 11 0.05
272 34 0.17
273 22 0.11
274 83 0.40
275 12 0.06
276 38 0.18
ACGTcount: A:0.30, C:0.13, G:0.21, T:0.35
Consensus pattern (275 bp):
TAGAGCATGAATTTTGGTAGTGCTGCAAACAAATCGGTGACATTTTAGTAGGGACATTCAGGGTA
CAAAGTTGTATGACCTTTCGATTTAGCTGCTGGATCATCTTTTTAATCCACCTTTAAGAATTTTG
AGCACGGGTTTGCAGGAAGTAGTTTGTACATTAAAGAGATGAGATGGCTAATATTTAGTATTTAG
CATCAAAGGGTACAAACAAAGGTTATCATTGATGAAAACATTCACTTCCAGACATCTGAGATAAC
ATATCATGTAGTATT
Found at i:45468010 original size:284 final size:284
Alignment explanation
Indices: 45467500--45468063 Score: 1094
Period size: 284 Copynumber: 2.0 Consensus size: 284
45467490 TACCCGTTGC
45467500 AACTTGATAGTCTGAGTTTCTTTCATGTCAGGAGAAACATAGTTTTCTTACTCATGAAGGATTGC
1 AACTTGATAGTCTGAGTTTCTTTCATGTCAGGAGAAACATAGTTTTCTTACTCATGAAGGATTGC
*
45467565 AAAAGCTTACTGTTACTGCCAACTCTTTATAGTTTAATCTAGTTTTGTAGTTATATTGTTAAAAA
66 AAAAGCTTACTGTTACTGCCAACTCTCTATAGTTTAATCTAGTTTTGTAGTTATATTGTTAAAAA
45467630 AAGAGGTATGAATGTTGTCTAAATTAGCTGAAGCTATTTGCAGTTGGTCACCCCATGCATTTTCA
131 AAGAGGTATGAATGTTGTCTAAATTAGCTGAAGCTATTTGCAGTTGGTCACCCCATGCATTTTCA
45467695 TTTCTATTGCCATGACTTATGCACGTAAACTTCAGGACATGACTTTATCCATCACAAATTCTTGC
196 TTTCTATTGCCATGACTTATGCACGTAAACTTCAGGACATGACTTTATCCATCACAAATTCTTGC
45467760 AGGATGTTTGCTTGTCATCTACAA
261 AGGATGTTTGCTTGTCATCTACAA
45467784 AACTTGATAGTCTGAGTTTCTTTCATGTCAGGAGAAACATAGTTTTCTTACTCATGAAGGATTGC
1 AACTTGATAGTCTGAGTTTCTTTCATGTCAGGAGAAACATAGTTTTCTTACTCATGAAGGATTGC
45467849 AAAAGCTTACTGTTACTTG-CAACTCTCTATAGTTTAATCTAGTTTTGTAGTTATATTGTTAAAA
66 AAAAGCTTACTGTTAC-TGCCAACTCTCTATAGTTTAATCTAGTTTTGTAGTTATATTGTTAAAA
45467913 AAAGAGGTATGAATGTTGTCTAAATTAGCTGAAGCTATTTGCAGTTGGTCACCCCATGCATTTTC
130 AAAGAGGTATGAATGTTGTCTAAATTAGCTGAAGCTATTTGCAGTTGGTCACCCCATGCATTTTC
*
45467978 ATTTCTATTGCCATGACTTATGCATGTAAACTTCAGGACATGACTTTATCCATCACAAATTCTTG
195 ATTTCTATTGCCATGACTTATGCACGTAAACTTCAGGACATGACTTTATCCATCACAAATTCTTG
45468043 CAGGATGTTTGCTTGTCATCT
260 CAGGATGTTTGCTTGTCATCT
45468064 GCAATTGTTG
Statistics
Matches: 277, Mismatches: 2, Indels: 2
0.99 0.01 0.01
Matches are distributed among these distances:
284 275 0.99
285 2 0.01
ACGTcount: A:0.28, C:0.17, G:0.17, T:0.38
Consensus pattern (284 bp):
AACTTGATAGTCTGAGTTTCTTTCATGTCAGGAGAAACATAGTTTTCTTACTCATGAAGGATTGC
AAAAGCTTACTGTTACTGCCAACTCTCTATAGTTTAATCTAGTTTTGTAGTTATATTGTTAAAAA
AAGAGGTATGAATGTTGTCTAAATTAGCTGAAGCTATTTGCAGTTGGTCACCCCATGCATTTTCA
TTTCTATTGCCATGACTTATGCACGTAAACTTCAGGACATGACTTTATCCATCACAAATTCTTGC
AGGATGTTTGCTTGTCATCTACAA
Found at i:45473745 original size:71 final size:71
Alignment explanation
Indices: 45473665--45473797 Score: 162
Period size: 71 Copynumber: 1.9 Consensus size: 71
45473655 TTATGAGTTG
* * * *
45473665 CAAGTAATTCTTTC-ATGTACTACGAGCTACTTAATTTTTTAGAAGCC-TTTCATATTTTAAGTT
1 CAAGTAATTCCTTCTAT-TACTACAAACTACTTAATTTCTTAGAA-CCTTTTCATATTTTAAGTT
45473728 TTGTATTT
64 TTGTATTT
* * * *
45473736 CAAGTAATTCCTTCTATTGCTACAAATTAGTTAATTTCTTAGAACCTTTTCATGTTTTAAGT
1 CAAGTAATTCCTTCTATTACTACAAACTACTTAATTTCTTAGAACCTTTTCATATTTTAAGT
45473798 AATTCTTTTA
Statistics
Matches: 52, Mismatches: 8, Indels: 4
0.81 0.12 0.06
Matches are distributed among these distances:
70 2 0.04
71 48 0.92
72 2 0.04
ACGTcount: A:0.28, C:0.15, G:0.11, T:0.47
Consensus pattern (71 bp):
CAAGTAATTCCTTCTATTACTACAAACTACTTAATTTCTTAGAACCTTTTCATATTTTAAGTTTT
GTATTT
Found at i:45474088 original size:57 final size:55
Alignment explanation
Indices: 45474019--45474146 Score: 159
Period size: 56 Copynumber: 2.3 Consensus size: 55
45474009 TTCAAGTTTT
* *
45474019 AAGTAATTCTTTCATGTATTACT-AATTACTTACTTTCTTAACACTCTTTCATATTTG
1 AAGTAA-TCTTTCATGTATTA-TGAATTA-TTAATTTCTTAAAACTCTTTCATATTTG
* * *
45474076 AAGTAACTCTTTCATGTATTATGGATTATTAATTTCTTAAAACTCTTTCATGTTTT
1 AAGTAA-TCTTTCATGTATTATGAATTATTAATTTCTTAAAACTCTTTCATATTTG
45474132 AAGTAATACTTTCAT
1 AAGTAAT-CTTTCAT
45474147 ATTTTACGAA
Statistics
Matches: 63, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
55 1 0.02
56 38 0.60
57 24 0.38
ACGTcount: A:0.30, C:0.15, G:0.07, T:0.48
Consensus pattern (55 bp):
AAGTAATCTTTCATGTATTATGAATTATTAATTTCTTAAAACTCTTTCATATTTG
Found at i:45474136 original size:56 final size:56
Alignment explanation
Indices: 45474007--45474190 Score: 194
Period size: 57 Copynumber: 3.2 Consensus size: 56
45473997 TTAAGTAACA
* * *
45474007 CTTTCAAGTTTTAAGTAATTCTTTCATGTATTACT-AATTACTTACTTTCTTAACACT
1 CTTTCATGTTTTAAGTAA-TCTTTCATGTATTA-TGAATTACTTAATTTCTTAAAACT
* * *
45474064 CTTTCATATTTGAAGTAACTCTTTCATGTATTATGGATTA-TTAATTTCTTAAAACT
1 CTTTCATGTTTTAAGTAA-TCTTTCATGTATTATGAATTACTTAATTTCTTAAAACT
* * * * * *
45474120 CTTTCATGTTTTAAGTAATACTTTCATATTTTACGAATAACTTAATTTATTAGAA-T
1 CTTTCATGTTTTAAGTAAT-CTTTCATGTATTATGAATTACTTAATTTCTTAAAACT
45474176 CATTTCATGTTTTAA
1 C-TTTCATGTTTTAA
45474191 TTGTCTTTTT
Statistics
Matches: 107, Mismatches: 16, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
55 1 0.01
56 48 0.45
57 58 0.54
ACGTcount: A:0.30, C:0.14, G:0.07, T:0.49
Consensus pattern (56 bp):
CTTTCATGTTTTAAGTAATCTTTCATGTATTATGAATTACTTAATTTCTTAAAACT
Found at i:45479920 original size:19 final size:20
Alignment explanation
Indices: 45479898--45479940 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 20
45479888 TGAGGGAGGA
45479898 ACAC-GACCGTGTGTAGGTG
1 ACACAGACCGTGTGTAGGTG
*
45479917 ACACATGCCCGTGTGTAGGTG
1 ACACA-GACCGTGTGTAGGTG
45479938 ACA
1 ACA
45479941 TAAGTCCGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 4 0.19
21 17 0.81
ACGTcount: A:0.23, C:0.23, G:0.33, T:0.21
Consensus pattern (20 bp):
ACACAGACCGTGTGTAGGTG
Found at i:45479949 original size:21 final size:21
Alignment explanation
Indices: 45479904--45479953 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
45479894 AGGAACACGA
*
45479904 CCGTGTGTAGGTGACACATGC
1 CCGTGTGTAGGTGACACAAGC
* *
45479925 CCGTGTGTAGGTGACATAAGT
1 CCGTGTGTAGGTGACACAAGC
45479946 CCGTGTGT
1 CCGTGTGT
45479954 CCAGGGAACA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.18, C:0.20, G:0.34, T:0.28
Consensus pattern (21 bp):
CCGTGTGTAGGTGACACAAGC
Found at i:45480796 original size:5 final size:5
Alignment explanation
Indices: 45480786--45480819 Score: 68
Period size: 5 Copynumber: 6.8 Consensus size: 5
45480776 ATTACCAAGA
45480786 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
45480820 ATGAACTAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 29 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:45483455 original size:16 final size:17
Alignment explanation
Indices: 45483415--45483455 Score: 50
Period size: 15 Copynumber: 2.5 Consensus size: 17
45483405 CATGATTCGA
45483415 TTATTAAACTAATTTAT
1 TTATTAAACTAATTTAT
*
45483432 TTGTTAAA-TAA-TTAT
1 TTATTAAACTAATTTAT
45483447 TTATATAAA
1 TTAT-TAAA
45483456 ATTGAGTATT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
15 7 0.33
16 7 0.33
17 7 0.33
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.51
Consensus pattern (17 bp):
TTATTAAACTAATTTAT
Found at i:45501713 original size:18 final size:19
Alignment explanation
Indices: 45501692--45501728 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
45501682 TTCAATTCTA
45501692 ATTTGACCC-AAAATATTT
1 ATTTGACCCAAAAATATTT
*
45501710 ATTTTACCCAAAAATATTT
1 ATTTGACCCAAAAATATTT
45501729 TAAAACTATC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.41, C:0.16, G:0.03, T:0.41
Consensus pattern (19 bp):
ATTTGACCCAAAAATATTT
Found at i:45506415 original size:21 final size:21
Alignment explanation
Indices: 45506389--45506435 Score: 85
Period size: 21 Copynumber: 2.2 Consensus size: 21
45506379 GTTAATTATT
*
45506389 CCCTGAATTGCACATACGTGC
1 CCCTGAATTACACATACGTGC
45506410 CCCTGAATTACACATACGTGC
1 CCCTGAATTACACATACGTGC
45506431 CCCTG
1 CCCTG
45506436 TTTATACTTC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.23, C:0.36, G:0.17, T:0.23
Consensus pattern (21 bp):
CCCTGAATTACACATACGTGC
Found at i:45517428 original size:21 final size:20
Alignment explanation
Indices: 45517395--45517437 Score: 59
Period size: 21 Copynumber: 2.1 Consensus size: 20
45517385 GTTCTAATTC
45517395 TAAAAATTATAAAATATATT
1 TAAAAATTATAAAATATATT
* *
45517415 TAAAAATATTTAAAATATTTT
1 TAAAAAT-TATAAAATATATT
45517436 TA
1 TA
45517438 TATTTACTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (20 bp):
TAAAAATTATAAAATATATT
Found at i:45517437 original size:11 final size:11
Alignment explanation
Indices: 45517404--45517437 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
45517394 CTAAAAATTA
45517404 TAAAATATATT
1 TAAAATATATT
45517415 TAAAA-ATATT
1 TAAAATATATT
*
45517425 TAAAATATTTT
1 TAAAATATATT
45517436 TA
1 TA
45517438 TATTTACTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 10 0.48
11 11 0.52
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (11 bp):
TAAAATATATT
Found at i:45517899 original size:8 final size:9
Alignment explanation
Indices: 45517848--45517906 Score: 57
Period size: 9 Copynumber: 6.4 Consensus size: 9
45517838 TTTAAAAATA
45517848 AATTTTTAT
1 AATTTTTAT
*
45517857 AATTTATATT
1 AATTTTTA-T
* * *
45517867 TACTTTTAA
1 AATTTTTAT
45517876 AATTTTTA-
1 AATTTTTAT
45517884 AGATTTTTAT
1 A-ATTTTTAT
45517894 AATTTTTAT
1 AATTTTTAT
45517903 AATT
1 AATT
45517907 AGGACTAAAA
Statistics
Matches: 40, Mismatches: 7, Indels: 6
0.75 0.13 0.11
Matches are distributed among these distances:
8 1 0.03
9 32 0.80
10 7 0.17
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.61
Consensus pattern (9 bp):
AATTTTTAT
Found at i:45520881 original size:15 final size:16
Alignment explanation
Indices: 45520857--45520895 Score: 62
Period size: 15 Copynumber: 2.5 Consensus size: 16
45520847 ATATTCTTCA
*
45520857 TTTCCCTTACTTTCCC
1 TTTCCTTTACTTTCCC
45520873 -TTCCTTTACTTTCCC
1 TTTCCTTTACTTTCCC
45520888 TTTCCTTT
1 TTTCCTTT
45520896 CCCTCTCCTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 14 0.67
16 7 0.33
ACGTcount: A:0.05, C:0.38, G:0.00, T:0.56
Consensus pattern (16 bp):
TTTCCTTTACTTTCCC
Found at i:45521238 original size:15 final size:16
Alignment explanation
Indices: 45521201--45521243 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 16
45521191 AGTAATATCC
45521201 TATCCAAATCTGAAAT
1 TATCCAAATCTGAAAT
* * *
45521217 TACCCAATTCT-AGAT
1 TATCCAAATCTGAAAT
45521232 TATCCAAATCTG
1 TATCCAAATCTG
45521244 GAAAAAAAAC
Statistics
Matches: 21, Mismatches: 5, Indels: 2
0.75 0.18 0.07
Matches are distributed among these distances:
15 12 0.57
16 9 0.43
ACGTcount: A:0.37, C:0.23, G:0.07, T:0.33
Consensus pattern (16 bp):
TATCCAAATCTGAAAT
Found at i:45523933 original size:197 final size:198
Alignment explanation
Indices: 45523593--45523997 Score: 785
Period size: 197 Copynumber: 2.0 Consensus size: 198
45523583 TTTCTCTACG
45523593 TTTTCATTTATAAGAGGCACGTAGATTTCTATCGCCGGGCCGGGTCAATCCGAACCGTCGATTCC
1 TTTT-ATTTATAAGAGGCACGTAGATTTCTATCGCCGGGCCGGGTCAATCCGAACCGTCGATTCC
45523658 TCTCCAAATGTGAATTTGAAATTTGGTTAAAGAATAAATGGTAAAATTAAGCTTATTTTAATCTC
65 TCTCCAAATGTGAATTTGAAATTTGGTTAAAGAATAAATGGTAAAATTAAGCTTATTTTAATCTC
45523723 GTTTACATTATTTTTTAATTTTTTTTATAAAAATTCATAATATTTCAATTTAATATTTAAT-ATT
130 GTTTACATTATTTTTTAATTTTTTTTATAAAAATTCATAATATTTCAATTTAATATTTAATAATT
45523787 TTTA
195 TTTA
45523791 TTTTATTTATAAGAGGCACGTAGATTTCTATCGCCGGGCCGGGTCAATCCGAACCGTCGATTCCT
1 TTTTATTTATAAGAGGCACGTAGATTTCTATCGCCGGGCCGGGTCAATCCGAACCGTCGATTCCT
45523856 CTCCAAATGTGAATTTGAAATTTGGTTAAAGAATAAATGGTAAAATTAAGCTTATTTTAATCTCG
66 CTCCAAATGTGAATTTGAAATTTGGTTAAAGAATAAATGGTAAAATTAAGCTTATTTTAATCTCG
45523921 TTTACATTATTTTTTAATTTTTTTTATAAAAATTCATAATATTTCAATTTAATATTTAATAATTT
131 TTTACATTATTTTTTAATTTTTTTTATAAAAATTCATAATATTTCAATTTAATATTTAATAATTT
45523986 TTA
196 TTA
*
45523989 TTTTTTTTA
1 TTTTATTTA
45523998 AAATTATATA
Statistics
Matches: 205, Mismatches: 1, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
197 186 0.91
198 19 0.09
ACGTcount: A:0.32, C:0.13, G:0.12, T:0.43
Consensus pattern (198 bp):
TTTTATTTATAAGAGGCACGTAGATTTCTATCGCCGGGCCGGGTCAATCCGAACCGTCGATTCCT
CTCCAAATGTGAATTTGAAATTTGGTTAAAGAATAAATGGTAAAATTAAGCTTATTTTAATCTCG
TTTACATTATTTTTTAATTTTTTTTATAAAAATTCATAATATTTCAATTTAATATTTAATAATTT
TTA
Found at i:45535182 original size:15 final size:14
Alignment explanation
Indices: 45535142--45535181 Score: 62
Period size: 14 Copynumber: 2.8 Consensus size: 14
45535132 TTGAGACCAC
*
45535142 AAATTTGATGTTGAA
1 AAATTT-ATTTTGAA
45535157 AAATTTATTTTGAA
1 AAATTTATTTTGAA
45535171 AAATTTATTTT
1 AAATTTATTTT
45535182 TATTATTATT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
14 18 0.75
15 6 0.25
ACGTcount: A:0.40, C:0.00, G:0.10, T:0.50
Consensus pattern (14 bp):
AAATTTATTTTGAA
Found at i:45552283 original size:27 final size:27
Alignment explanation
Indices: 45552253--45552340 Score: 83
Period size: 28 Copynumber: 3.2 Consensus size: 27
45552243 TATAACCATG
*
45552253 AAGGCTTCCT-TTATGGAGATTGCCACA
1 AAGGCTTCCTATT-TAGAGATTGCCACA
*
45552280 AAGGCTTTCCTATTTAGAGTTTGCCACA
1 AAGGC-TTCCTATTTAGAGATTGCCACA
*
45552308 AAGGCTGT-C-ATTTCAAAGATTTGCCACA
1 AAGGCT-TCCTATTT-AGAGA-TTGCCACA
45552336 AAGGC
1 AAGGC
45552341 CTTTTTTAAT
Statistics
Matches: 52, Mismatches: 4, Indels: 9
0.80 0.06 0.14
Matches are distributed among these distances:
26 4 0.08
27 10 0.19
28 36 0.69
29 2 0.04
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (27 bp):
AAGGCTTCCTATTTAGAGATTGCCACA
Found at i:45552303 original size:28 final size:28
Alignment explanation
Indices: 45552272--45552340 Score: 88
Period size: 28 Copynumber: 2.5 Consensus size: 28
45552262 TTTATGGAGA
* *
45552272 TTGCCACAAAGGCTTTCCTATTT-AGAG-T
1 TTGCCACAAAGGCTGT-C-ATTTCAAAGAT
45552300 TTGCCACAAAGGCTGTCATTTCAAAGAT
1 TTGCCACAAAGGCTGTCATTTCAAAGAT
45552328 TTGCCACAAAGGC
1 TTGCCACAAAGGC
45552341 CTTTTTTAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
26 4 0.11
27 4 0.11
28 29 0.78
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.29
Consensus pattern (28 bp):
TTGCCACAAAGGCTGTCATTTCAAAGAT
Found at i:45552463 original size:57 final size:57
Alignment explanation
Indices: 45552302--45552474 Score: 192
Period size: 57 Copynumber: 3.1 Consensus size: 57
45552292 TTTAGAGTTT
* * * *
45552302 GCCACAAAGGCTGTCA-TTT-CAAAGATTTGCCACAAAGGCCT-T-TTTTAATAGGTTC
1 GCCACAAAGGCT-TAACTTTCCAAAGTTTTTCCACAAAGG-CTATCATTTAATAGGTTC
* * * * * *
45552357 GCCTCAAAGGCTTAACTTTCCAGAGTTTTTCCACAAAGGTTGTCGTTTAATAGATTC
1 GCCACAAAGGCTTAACTTTCCAAAGTTTTTCCACAAAGGCTATCATTTAATAGGTTC
* *
45552414 GCCACAAAGGCTTAACTTTCCAAAGTTTTTCCATAAAGGCTATCATTTAACAGGTTC
1 GCCACAAAGGCTTAACTTTCCAAAGTTTTTCCACAAAGGCTATCATTTAATAGGTTC
45552471 GCCA
1 GCCA
45552475 TAGTGACTTT
Statistics
Matches: 98, Mismatches: 16, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
54 2 0.02
55 15 0.15
56 17 0.17
57 64 0.65
ACGTcount: A:0.29, C:0.23, G:0.17, T:0.32
Consensus pattern (57 bp):
GCCACAAAGGCTTAACTTTCCAAAGTTTTTCCACAAAGGCTATCATTTAATAGGTTC
Found at i:45552762 original size:53 final size:53
Alignment explanation
Indices: 45552605--45552763 Score: 185
Period size: 53 Copynumber: 3.0 Consensus size: 53
45552595 TTAATTTTCC
* * * *
45552605 CCATATGATGCCATAACCCACCAGTTATAATCTTACACGATATGGTCTTATTT
1 CCATATGATGACATAAACCACCAGTTATGATCTTACACGATATGGTCTTCTTT
* * * *
45552658 CCATATGATGACATAAACCACTAGTTATGGTCTTACACGATTTGGTTTTCTTT
1 CCATATGATGACATAAACCACCAGTTATGATCTTACACGATATGGTCTTCTTT
* * * * *
45552711 CCATATGGT-ATCATAATCCACCAGTTACGATCTTACATGATATGATCTTCTTT
1 CCATATGATGA-CATAAACCACCAGTTATGATCTTACACGATATGGTCTTCTTT
45552764 AGTGCTATGG
Statistics
Matches: 88, Mismatches: 17, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
52 1 0.01
53 87 0.99
ACGTcount: A:0.28, C:0.22, G:0.13, T:0.37
Consensus pattern (53 bp):
CCATATGATGACATAAACCACCAGTTATGATCTTACACGATATGGTCTTCTTT
Found at i:45555676 original size:4 final size:4
Alignment explanation
Indices: 45555667--45555697 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
45555657 TAGCTTGATG
45555667 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTT
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTT
45555698 TAATTTGGAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTC
Found at i:45557600 original size:11 final size:11
Alignment explanation
Indices: 45557584--45557625 Score: 57
Period size: 11 Copynumber: 3.6 Consensus size: 11
45557574 TGGGTGAAAT
45557584 TATTTTAATAA
1 TATTTTAATAA
*
45557595 TATTTTATTAAGA
1 TATTTTAAT-A-A
45557608 TATTTTAATAA
1 TATTTTAATAA
45557619 TATTTTA
1 TATTTTA
45557626 TTTATTTTAG
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
11 16 0.59
12 2 0.07
13 9 0.33
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.57
Consensus pattern (11 bp):
TATTTTAATAA
Found at i:45559832 original size:17 final size:18
Alignment explanation
Indices: 45559795--45559834 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
45559785 GAGTTAAATG
45559795 GTTCACATAAAATAGATA
1 GTTCACATAAAATAGATA
*
45559813 GTTCGCATAAAATA-ATA
1 GTTCACATAAAATAGATA
45559830 GTTCA
1 GTTCA
45559835 TGCATAATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.45, C:0.12, G:0.12, T:0.30
Consensus pattern (18 bp):
GTTCACATAAAATAGATA
Found at i:45559968 original size:23 final size:23
Alignment explanation
Indices: 45559942--45560001 Score: 102
Period size: 23 Copynumber: 2.6 Consensus size: 23
45559932 AACATATAGG
*
45559942 GGACTCTATCGCCACCTATAAGT
1 GGACTCTATCACCACCTATAAGT
45559965 GGACTCTATCACCACCTATAAGT
1 GGACTCTATCACCACCTATAAGT
*
45559988 GGAATCTATCACCA
1 GGACTCTATCACCA
45560002 TACATTGAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.30, C:0.30, G:0.15, T:0.25
Consensus pattern (23 bp):
GGACTCTATCACCACCTATAAGT
Found at i:45563631 original size:13 final size:13
Alignment explanation
Indices: 45563613--45563649 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
45563603 TTTATAATTG
45563613 TTTTATTTATTTA
1 TTTTATTTATTTA
*
45563626 TTTTATTTTTTTA
1 TTTTATTTATTTA
45563639 TTTT-TTTATTT
1 TTTTATTTATTT
45563650 TTACTACACT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
12 6 0.27
13 16 0.73
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (13 bp):
TTTTATTTATTTA
Found at i:45563650 original size:8 final size:8
Alignment explanation
Indices: 45563613--45563651 Score: 60
Period size: 8 Copynumber: 4.6 Consensus size: 8
45563603 TTTATAATTG
45563613 TTTTATTTA
1 TTTT-TTTA
45563622 TTTATTTTA
1 TTT-TTTTA
45563631 TTTTTTTA
1 TTTTTTTA
45563639 TTTTTTTA
1 TTTTTTTA
45563647 TTTTT
1 TTTTT
45563652 ACTACACTCT
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
8 18 0.62
9 10 0.34
10 1 0.03
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (8 bp):
TTTTTTTA
Found at i:45563802 original size:16 final size:16
Alignment explanation
Indices: 45563781--45563843 Score: 83
Period size: 16 Copynumber: 3.9 Consensus size: 16
45563771 GCAACAACTC
*
45563781 TTGTTTAGAATAGTTG
1 TTGTTTAGAATAATTG
45563797 TTGTTTAGAATAATTG
1 TTGTTTAGAATAATTG
*
45563813 TTGTTTGAGAATAACT-
1 TTGTTT-AGAATAATTG
*
45563829 ATGTTTAGAATAATT
1 TTGTTTAGAATAATT
45563844 ATGTTCAAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
15 8 0.19
16 26 0.62
17 8 0.19
ACGTcount: A:0.32, C:0.02, G:0.19, T:0.48
Consensus pattern (16 bp):
TTGTTTAGAATAATTG
Found at i:45563918 original size:16 final size:16
Alignment explanation
Indices: 45563897--45563951 Score: 74
Period size: 16 Copynumber: 3.4 Consensus size: 16
45563887 TAGTTGTTAT
45563897 TTGAGAACAACTCTTG
1 TTGAGAACAACTCTTG
**
45563913 TTGAGAACAACTAATG
1 TTGAGAACAACTCTTG
*
45563929 TTTAGAACAACTCTTG
1 TTGAGAACAACTCTTG
*
45563945 TTTAGAA
1 TTGAGAA
45563952 TAATGTCATT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.36, C:0.15, G:0.16, T:0.33
Consensus pattern (16 bp):
TTGAGAACAACTCTTG
Found at i:45566227 original size:25 final size:25
Alignment explanation
Indices: 45566172--45566227 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 25
45566162 AAAAAAATGT
*
45566172 TTTTTTAATTATTATAAAATATAAT
1 TTTTTTAATTATTATAAAATATAAA
*
45566197 TATTTTTAATTTTTA-AAAATATAACA
1 T-TTTTTAATTATTATAAAATATAA-A
45566223 TTTTT
1 TTTTT
45566228 CGTAATTCTT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
25 14 0.52
26 13 0.48
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (25 bp):
TTTTTTAATTATTATAAAATATAAA
Found at i:45566467 original size:24 final size:25
Alignment explanation
Indices: 45566422--45566472 Score: 61
Period size: 24 Copynumber: 2.1 Consensus size: 25
45566412 GCAATTGAAC
*
45566422 AAAAAAAAAAGAAAGGCGAAAT-TT
1 AAAAAAAAAAGAAAGACGAAATGTT
*
45566446 AAAAAAAAAA-AAAGATGTAAATGTT
1 AAAAAAAAAAGAAAGACG-AAATGTT
45566471 AA
1 AA
45566473 GAGTGAAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
23 5 0.22
24 14 0.61
25 4 0.17
ACGTcount: A:0.69, C:0.02, G:0.14, T:0.16
Consensus pattern (25 bp):
AAAAAAAAAAGAAAGACGAAATGTT
Found at i:45569611 original size:13 final size:13
Alignment explanation
Indices: 45569593--45569617 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
45569583 AGTTCTTTAT
45569593 TGCTTTTGAGAAG
1 TGCTTTTGAGAAG
45569606 TGCTTTTGAGAA
1 TGCTTTTGAGAA
45569618 ATTTGAGTCT
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:0.24, C:0.08, G:0.28, T:0.40
Consensus pattern (13 bp):
TGCTTTTGAGAAG
Found at i:45570349 original size:64 final size:64
Alignment explanation
Indices: 45570271--45570401 Score: 226
Period size: 64 Copynumber: 2.0 Consensus size: 64
45570261 GCAATATGCC
* **
45570271 AAATTAGTGGACAGTCCACATCATTAACACTGCATACTGTTTTAAGATGAACAAGAATGGAACT
1 AAATTAGTGGACAGTCCACATCATTAACACTGCATACTATTTTAAGATGAACAAGAAAAGAACT
*
45570335 AAATTAGTGGACAGTCCACATCATTAACATTGCATACTATTTTAAGATGAACAAGAAAAGAACT
1 AAATTAGTGGACAGTCCACATCATTAACACTGCATACTATTTTAAGATGAACAAGAAAAGAACT
45570399 AAA
1 AAA
45570402 GTGTCTACCG
Statistics
Matches: 63, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
64 63 1.00
ACGTcount: A:0.43, C:0.16, G:0.15, T:0.26
Consensus pattern (64 bp):
AAATTAGTGGACAGTCCACATCATTAACACTGCATACTATTTTAAGATGAACAAGAAAAGAACT
Found at i:45574267 original size:17 final size:18
Alignment explanation
Indices: 45574220--45574269 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
45574210 GAACTCATTG
45574220 AAAGCTGCGAGCTCACCC
1 AAAGCTGCGAGCTCACCC
* * *
45574238 AAAGAC-ACAAGCTCA-TC
1 AAAG-CTGCGAGCTCACCC
45574255 AAAGCTGCGAGCTCA
1 AAAGCTGCGAGCTCA
45574270 ACTCAAGTTA
Statistics
Matches: 25, Mismatches: 5, Indels: 5
0.71 0.14 0.14
Matches are distributed among these distances:
16 1 0.04
17 12 0.48
18 11 0.44
19 1 0.04
ACGTcount: A:0.36, C:0.32, G:0.20, T:0.12
Consensus pattern (18 bp):
AAAGCTGCGAGCTCACCC
Found at i:45583546 original size:20 final size:20
Alignment explanation
Indices: 45583521--45583560 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
45583511 TTGGGTACAC
45583521 TTTATGATTATTT-GTAATCT
1 TTTATGATT-TTTAGTAATCT
*
45583541 TTTATGGTTTTTAGTAATCT
1 TTTATGATTTTTAGTAATCT
45583561 CTCATAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 3 0.17
20 15 0.83
ACGTcount: A:0.23, C:0.05, G:0.12, T:0.60
Consensus pattern (20 bp):
TTTATGATTTTTAGTAATCT
Found at i:45583824 original size:20 final size:20
Alignment explanation
Indices: 45583748--45583876 Score: 82
Period size: 20 Copynumber: 6.3 Consensus size: 20
45583738 GCAAATCAAT
* * *
45583748 ATTTTTGGCACTCCCTCACA
1 ATTTTTGGTACTCTCTCATA
* * *
45583768 TTGTTTTGGTACTCACCTTATA
1 AT-TTTTGGTACTC-TCTCATA
** * *
45583790 ATTTTTTATATTCTCTTATA
1 ATTTTTGGTACTCTCTCATA
*
45583810 ATTTTTGGTACTCTCTCATGT
1 ATTTTTGGTACTCTCTCAT-A
* *
45583831 TTTTTTAGTACT-TCATCATA
1 ATTTTTGGTACTCTC-TCATA
45583851 ATTTTTGGTA-TCCTCTCATA
1 ATTTTTGGTACT-CTCTCATA
45583871 ATTTTT
1 ATTTTT
45583877 TGCACTATTT
Statistics
Matches: 84, Mismatches: 19, Indels: 12
0.73 0.17 0.10
Matches are distributed among these distances:
19 1 0.01
20 43 0.51
21 34 0.40
22 6 0.07
ACGTcount: A:0.20, C:0.19, G:0.09, T:0.53
Consensus pattern (20 bp):
ATTTTTGGTACTCTCTCATA
Found at i:45583876 original size:41 final size:39
Alignment explanation
Indices: 45583771--45583877 Score: 110
Period size: 41 Copynumber: 2.6 Consensus size: 39
45583761 CCTCACATTG
* *
45583771 TTTTGGTACTCACCTTATAATTTTTTATATTCTCTTATAAT
1 TTTTGGTACTC-TCTCATAATTTTTTATATTCTC-TATAAT
**
45583812 TTTTGGTACTCTCTCATGTTTTTTTAGTACTTCATC-ATAAT
1 TTTTGGTACTCTCTCATAATTTTTTA-TA-TTC-TCTATAAT
45583853 TTTTGGTA-TCCTCTCATAATTTTTT
1 TTTTGGTACT-CTCTCATAATTTTTT
45583878 GCACTATTTC
Statistics
Matches: 56, Mismatches: 6, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
40 12 0.21
41 39 0.70
42 3 0.05
43 2 0.04
ACGTcount: A:0.21, C:0.16, G:0.07, T:0.56
Consensus pattern (39 bp):
TTTTGGTACTCTCTCATAATTTTTTATATTCTCTATAAT
Found at i:45584140 original size:20 final size:20
Alignment explanation
Indices: 45584115--45584153 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
45584105 ATTGGAGGTC
45584115 CCTCAT-ATTTTTTGATAATT
1 CCTCATAATTTTTT-ATAATT
45584135 CCTCATAATTTTTTATAAT
1 CCTCATAATTTTTTATAAT
45584154 ATCGTATATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.28, C:0.15, G:0.03, T:0.54
Consensus pattern (20 bp):
CCTCATAATTTTTTATAATT
Found at i:45584203 original size:18 final size:17
Alignment explanation
Indices: 45584176--45584209 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
45584166 TTGGTTGGTC
45584176 TTATTAAATTTATTTTAT
1 TTATTAAATTT-TTTTAT
*
45584194 TTATTTAATTTTTTTA
1 TTATTAAATTTTTTTA
45584210 AAAATAATCG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (17 bp):
TTATTAAATTTTTTTAT
Found at i:45584332 original size:21 final size:20
Alignment explanation
Indices: 45584307--45584357 Score: 57
Period size: 21 Copynumber: 2.5 Consensus size: 20
45584297 TCTTTAATGA
*
45584307 AATATTTTATTATTCAAAAAT
1 AATATTTT-TTACTCAAAAAT
*
45584328 AATATATTTTTACTCCAAAAT
1 AATAT-TTTTTACTCAAAAAT
*
45584349 TATATTTTT
1 AATATTTTT
45584358 AGTTTCAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
20 4 0.15
21 19 0.73
22 3 0.12
ACGTcount: A:0.41, C:0.08, G:0.00, T:0.51
Consensus pattern (20 bp):
AATATTTTTTACTCAAAAAT
Found at i:45584761 original size:20 final size:20
Alignment explanation
Indices: 45584732--45584921 Score: 87
Period size: 20 Copynumber: 9.5 Consensus size: 20
45584722 AAGGTATACT
45584732 AAAATATATGAGGAAGTACAA
1 AAAAT-TATGAGGAAGTACAA
45584753 AAAATTATGAGGGAA-TA-AA
1 AAAATTATGA-GGAAGTACAA
45584772 AAAA--ATGAGGAAGTACTAA
1 AAAATTATGAGGAAGTAC-AA
* * *
45584791 ATATTCTATGA--AAATAACAA
1 AAAAT-TATGAGGAAGT-ACAA
** *
45584811 AAAATTACAAGGGAA-TACCA
1 AAAATTATGA-GGAAGTACAA
*
45584831 AAAATTATGAGGAAATACCAA
1 AAAATTATGAGGAAGTA-CAA
* * * *
45584852 AAAACCT-CGAAGAAGTACCA
1 AAAA-TTATGAGGAAGTACAA
*
45584872 AAAATTTTGAGAGAA-TACTAA
1 AAAATTATGAG-GAAGTAC-AA
45584893 AAAA-TAT-ACGGAAGTACAA
1 AAAATTATGA-GGAAGTACAA
*
45584912 AAAACTATGA
1 AAAATTATGA
45584922 AATGATTACA
Statistics
Matches: 127, Mismatches: 21, Indels: 42
0.67 0.11 0.22
Matches are distributed among these distances:
16 4 0.03
17 6 0.05
19 28 0.22
20 48 0.38
21 34 0.27
22 7 0.06
ACGTcount: A:0.56, C:0.09, G:0.15, T:0.19
Consensus pattern (20 bp):
AAAATTATGAGGAAGTACAA
Found at i:45585263 original size:20 final size:20
Alignment explanation
Indices: 45585240--45585296 Score: 78
Period size: 20 Copynumber: 2.9 Consensus size: 20
45585230 GAAAGTATAA
45585240 AAAAAATATGAGGAAATACC
1 AAAAAATATGAGGAAATACC
* * *
45585260 AAAAATTATAAGAAAATACC
1 AAAAAATATGAGGAAATACC
*
45585280 AAAAAATCTGAGGAAAT
1 AAAAAATATGAGGAAAT
45585297 GCAGAGAGAG
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.61, C:0.09, G:0.12, T:0.18
Consensus pattern (20 bp):
AAAAAATATGAGGAAATACC
Found at i:45585284 original size:41 final size:40
Alignment explanation
Indices: 45585205--45585296 Score: 107
Period size: 40 Copynumber: 2.3 Consensus size: 40
45585195 TACCAAGAAT
*
45585205 TATGAGGAAGTACCGAAAAATACAAGAAAGTATA-AAAAAAA
1 TATGAGGAAATACCGAAAAATACAAGAAA--ATACAAAAAAA
* *
45585246 TATGAGGAAATACC-AAAAATTATAAGAAAATACCAAAAAA
1 TATGAGGAAATACCGAAAAA-TACAAGAAAATACAAAAAAA
*
45585286 TCTGAGGAAAT
1 TATGAGGAAAT
45585297 GCAGAGAGAG
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
39 3 0.07
40 21 0.47
41 21 0.47
ACGTcount: A:0.59, C:0.09, G:0.15, T:0.17
Consensus pattern (40 bp):
TATGAGGAAATACCGAAAAATACAAGAAAATACAAAAAAA
Found at i:45585382 original size:21 final size:21
Alignment explanation
Indices: 45585337--45585423 Score: 76
Period size: 20 Copynumber: 4.3 Consensus size: 21
45585327 TGAAAGTACC
*
45585337 CAAAAAAA-ATGAGGATGT-T
1 CAAAAAAATATGAGGAAGTAT
* *
45585356 CTAAAAAATATGAGGAAGTGT
1 CAAAAAAATATGAGGAAGTAT
* *
45585377 C-AAAAATTATGAGGGAA-TAC
1 CAAAAAAATATGA-GGAAGTAT
*
45585397 CAAAAAAATATGATGAAGTAT
1 CAAAAAAATATGAGGAAGTAT
45585418 -AAAAAA
1 CAAAAAA
45585424 TTTATGAAAA
Statistics
Matches: 55, Mismatches: 8, Indels: 9
0.76 0.11 0.12
Matches are distributed among these distances:
19 7 0.13
20 30 0.55
21 18 0.33
ACGTcount: A:0.55, C:0.06, G:0.18, T:0.21
Consensus pattern (21 bp):
CAAAAAAATATGAGGAAGTAT
Found at i:45587578 original size:21 final size:20
Alignment explanation
Indices: 45587544--45587600 Score: 62
Period size: 21 Copynumber: 2.8 Consensus size: 20
45587534 AAATTATTTA
45587544 TTTAT-TTATTTATTTTAAAC
1 TTTATATTA-TTATTTTAAAC
*
45587564 TTTATATTACTTATTTTAAAT
1 TTTATATTA-TTATTTTAAAC
*
45587585 TGTTCTATTATTATTT
1 T-TTATATTATTATTT
45587601 ATTTTAAGTT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.16
21 20 0.62
22 7 0.22
ACGTcount: A:0.28, C:0.05, G:0.02, T:0.65
Consensus pattern (20 bp):
TTTATATTATTATTTTAAAC
Found at i:45587621 original size:25 final size:24
Alignment explanation
Indices: 45587549--45587633 Score: 86
Period size: 25 Copynumber: 3.6 Consensus size: 24
45587539 ATTTATTTAT
45587549 TTATTTATTTTAAA--CTT-TATA
1 TTATTTATTTTAAATTCTTCTATA
* *
45587570 TTACTTATTTTAAATTGTTCTATTA
1 TTATTTATTTTAAATTCTTCTA-TA
*
45587595 TTATTTATTTTAAGTTCTTCATATA
1 TTATTTATTTTAAATTCTTC-TATA
**
45587620 TTATGCATTTTAAA
1 TTATTTATTTTAAA
45587634 CAATATTAAA
Statistics
Matches: 51, Mismatches: 8, Indels: 6
0.78 0.12 0.09
Matches are distributed among these distances:
21 13 0.25
23 2 0.04
24 2 0.04
25 32 0.63
26 2 0.04
ACGTcount: A:0.31, C:0.07, G:0.04, T:0.59
Consensus pattern (24 bp):
TTATTTATTTTAAATTCTTCTATA
Found at i:45587755 original size:39 final size:39
Alignment explanation
Indices: 45587712--45587840 Score: 129
Period size: 39 Copynumber: 3.2 Consensus size: 39
45587702 ATTTATTTGG
45587712 AATTGTTTTTATACACGTCACTTATTACCTTTTTTTAAA
1 AATTGTTTTTATACACGTCACTTATTACCTTTTTTTAAA
* ** ***
45587751 AATTGTTTATATTATA-AC-T-ACATATATATATTATTTATTTGG
1 AATTG-TT-T-TTATACACGTCACTTAT-TACCTT-TTT-TTAAA
45587793 AATTGTTTTTATACACGTCACTTATTACCTTTTTTTAAA
1 AATTGTTTTTATACACGTCACTTATTACCTTTTTTTAAA
45587832 AATTGTTTT
1 AATTGTTTT
45587841 ATATTATTTT
Statistics
Matches: 69, Mismatches: 12, Indels: 18
0.70 0.12 0.18
Matches are distributed among these distances:
39 26 0.38
40 13 0.19
41 13 0.19
42 17 0.25
ACGTcount: A:0.30, C:0.11, G:0.06, T:0.53
Consensus pattern (39 bp):
AATTGTTTTTATACACGTCACTTATTACCTTTTTTTAAA
Found at i:45587779 original size:81 final size:82
Alignment explanation
Indices: 45587676--45587847 Score: 321
Period size: 81 Copynumber: 2.1 Consensus size: 82
45587666 ATATATATTA
*
45587676 TTTATTTTA-AACTACATATATATATTATTTATTTGGAATTGTTTTTATACACGTCACTTATTAC
1 TTTATATTATAACTACATATATATATTATTTATTTGGAATTGTTTTTATACACGTCACTTATTAC
45587740 CTTTTTTTAAAAATTG-
66 CTTTTTTTAAAAATTGT
45587756 TTTATATTATAACTACATATATATATTATTTATTTGGAATTGTTTTTATACACGTCACTTATTAC
1 TTTATATTATAACTACATATATATATTATTTATTTGGAATTGTTTTTATACACGTCACTTATTAC
45587821 CTTTTTTTAAAAATTGT
66 CTTTTTTTAAAAATTGT
45587838 TTTATATTAT
1 TTTATATTAT
45587848 TTTAGATATT
Statistics
Matches: 89, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
80 8 0.09
81 71 0.80
82 10 0.11
ACGTcount: A:0.31, C:0.09, G:0.06, T:0.53
Consensus pattern (82 bp):
TTTATATTATAACTACATATATATATTATTTATTTGGAATTGTTTTTATACACGTCACTTATTAC
CTTTTTTTAAAAATTGT
Found at i:45587797 original size:42 final size:41
Alignment explanation
Indices: 45587676--45587800 Score: 109
Period size: 42 Copynumber: 3.1 Consensus size: 41
45587666 ATATATATTA
45587676 TTTATTT-TAAACTACATATATATATTATTTATTTGGAATTG
1 TTTATTTAT-AACTACATATATATATTATTTATTTGGAATTG
* ** ***
45587717 -TT-TTTATACACGTCACTTAT-TACCTT-TTT-TTAAAAATTG
1 TTTATTTATA-AC-T-ACATATATATATTATTTATTTGGAATTG
45587756 TTTATATTATAACTACATATATATATTATTTATTTGGAATTG
1 TTTAT-TTATAACTACATATATATATTATTTATTTGGAATTG
45587798 TTT
1 TTT
45587801 TTATACACGT
Statistics
Matches: 62, Mismatches: 12, Indels: 19
0.67 0.13 0.20
Matches are distributed among these distances:
39 16 0.26
40 15 0.24
41 11 0.18
42 20 0.32
ACGTcount: A:0.32, C:0.08, G:0.06, T:0.54
Consensus pattern (41 bp):
TTTATTTATAACTACATATATATATTATTTATTTGGAATTG
Found at i:45588023 original size:24 final size:24
Alignment explanation
Indices: 45587978--45588024 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
45587968 CGTTTTATGT
* ** *
45587978 ATTGTTTATTTTAAGTTGTTTTAA
1 ATTGTTTATTTCAAACTATTTTAA
45588002 ATTGTTTATTTCAAACTATTTTA
1 ATTGTTTATTTCAAACTATTTTA
45588025 CATAATATTT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.28, C:0.04, G:0.09, T:0.60
Consensus pattern (24 bp):
ATTGTTTATTTCAAACTATTTTAA
Found at i:45589785 original size:38 final size:38
Alignment explanation
Indices: 45589743--45589865 Score: 210
Period size: 38 Copynumber: 3.2 Consensus size: 38
45589733 TGTAATAGAA
* *
45589743 CAATTCAACACTAGCAGTCAACATGCTTAACATGTATT
1 CAATTCAACACTAGCTGTTAACATGCTTAACATGTATT
*
45589781 CAATTCAATACTAGCTGTTAACATGCTTAACATGTATT
1 CAATTCAACACTAGCTGTTAACATGCTTAACATGTATT
*
45589819 CAATTCAATACTAGCTGTTAACATGCTTAACATGTATT
1 CAATTCAACACTAGCTGTTAACATGCTTAACATGTATT
45589857 CAATTCAAC
1 CAATTCAAC
45589866 GCTATGCCTA
Statistics
Matches: 81, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 81 1.00
ACGTcount: A:0.36, C:0.21, G:0.10, T:0.33
Consensus pattern (38 bp):
CAATTCAACACTAGCTGTTAACATGCTTAACATGTATT
Found at i:45591501 original size:15 final size:16
Alignment explanation
Indices: 45591458--45591509 Score: 72
Period size: 15 Copynumber: 3.3 Consensus size: 16
45591448 TCCTATAATG
45591458 TCACAA-TCTATAGTTT
1 TCACAAGTCTATAG-TT
*
45591474 TCACAATTCTATAGTT
1 TCACAAGTCTATAGTT
45591490 TCA-AAGTCTATAGTT
1 TCACAAGTCTATAGTT
45591505 TCACA
1 TCACA
45591510 TATAAACAAC
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
15 14 0.42
16 12 0.36
17 7 0.21
ACGTcount: A:0.33, C:0.19, G:0.08, T:0.40
Consensus pattern (16 bp):
TCACAAGTCTATAGTT
Found at i:45593921 original size:36 final size:36
Alignment explanation
Indices: 45593874--45593952 Score: 140
Period size: 36 Copynumber: 2.2 Consensus size: 36
45593864 AACTAATAAA
*
45593874 GTGCAAAAATTAAATAAAAATAATGGGAATATAAGG
1 GTGCAAAAATTAAATAAAAATAATGGGAACATAAGG
45593910 GTGCAAAAATTAAATAAAAATAATGGGAACATAAGG
1 GTGCAAAAATTAAATAAAAATAATGGGAACATAAGG
*
45593946 GTTCAAA
1 GTGCAAA
45593953 CTAAGGACTT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 41 1.00
ACGTcount: A:0.54, C:0.05, G:0.19, T:0.22
Consensus pattern (36 bp):
GTGCAAAAATTAAATAAAAATAATGGGAACATAAGG
Found at i:45595296 original size:5 final size:5
Alignment explanation
Indices: 45595288--45595332 Score: 54
Period size: 5 Copynumber: 8.8 Consensus size: 5
45595278 AGAATATAAT
* * *
45595288 AGAAA AGAAA AGAAA AGAAA AGAAG GGATA AGAAA AGAGAA AGAA
1 AGAAA AGAAA AGAAA AGAAA AGAAA AGAAA AGAAA AGA-AA AGAA
45595333 TAATAAAAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
5 28 0.85
6 5 0.15
ACGTcount: A:0.71, C:0.00, G:0.27, T:0.02
Consensus pattern (5 bp):
AGAAA
Found at i:45595338 original size:20 final size:21
Alignment explanation
Indices: 45595297--45595348 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 21
45595287 TAGAAAAGAA
*
45595297 AAGAAAAGA-AAAGAAGGGAT
1 AAGAAAAGAGAAAGAAGGAAT
*
45595317 AAGAAAAGAGAAAGAA-TAAT
1 AAGAAAAGAGAAAGAAGGAAT
*
45595337 AAAAAAAG-GAAA
1 AAGAAAAGAGAAA
45595349 TTGGGAAAGA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
19 4 0.14
20 18 0.64
21 6 0.21
ACGTcount: A:0.71, C:0.00, G:0.23, T:0.06
Consensus pattern (21 bp):
AAGAAAAGAGAAAGAAGGAAT
Found at i:45595368 original size:8 final size:8
Alignment explanation
Indices: 45595357--45595395 Score: 51
Period size: 8 Copynumber: 4.6 Consensus size: 8
45595347 AATTGGGAAA
45595357 GAAAAAAG
1 GAAAAAAG
45595365 GAAAAAAG
1 GAAAAAAG
*
45595373 GAAAAAGGG
1 GAAAAA-AG
45595382 GAAAAAAAG
1 G-AAAAAAG
45595391 GAAAA
1 GAAAA
45595396 CGAAAGACGA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
8 18 0.67
9 4 0.15
10 5 0.19
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (8 bp):
GAAAAAAG
Found at i:45595375 original size:20 final size:20
Alignment explanation
Indices: 45595338--45595376 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
45595328 AAGAATAATA
***
45595338 AAAAAAGGAAATTGGGAAAG
1 AAAAAAGGAAAAAAGGAAAG
45595358 AAAAAAGGAAAAAAGGAAA
1 AAAAAAGGAAAAAAGGAAA
45595377 AAGGGGAAAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.69, C:0.00, G:0.26, T:0.05
Consensus pattern (20 bp):
AAAAAAGGAAAAAAGGAAAG
Found at i:45595378 original size:9 final size:9
Alignment explanation
Indices: 45595358--45595395 Score: 51
Period size: 9 Copynumber: 4.3 Consensus size: 9
45595348 ATTGGGAAAG
45595358 AAAAAAGG-
1 AAAAAAGGA
45595366 AAAAAAGGA
1 AAAAAAGGA
**
45595375 AAAAGGGGA
1 AAAAAAGGA
45595384 AAAAAAGGA
1 AAAAAAGGA
45595393 AAA
1 AAA
45595396 CGAAAGACGA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
8 8 0.32
9 17 0.68
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (9 bp):
AAAAAAGGA
Found at i:45595429 original size:3 final size:3
Alignment explanation
Indices: 45595423--45595450 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
45595413 GACGACGACG
45595423 ACA ACA ACA ACA ACA ACA ACA ACA ACA A
1 ACA ACA ACA ACA ACA ACA ACA ACA ACA A
45595451 TAATATGGGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.32, G:0.00, T:0.00
Consensus pattern (3 bp):
ACA
Found at i:45600298 original size:54 final size:54
Alignment explanation
Indices: 45600234--45600341 Score: 216
Period size: 54 Copynumber: 2.0 Consensus size: 54
45600224 CAAAGTCTTG
45600234 AGCAAACAAGAGAGTAAGTAAAAAAGCTTCTTTCTTCTCACTAAAGGGCAGAGT
1 AGCAAACAAGAGAGTAAGTAAAAAAGCTTCTTTCTTCTCACTAAAGGGCAGAGT
45600288 AGCAAACAAGAGAGTAAGTAAAAAAGCTTCTTTCTTCTCACTAAAGGGCAGAGT
1 AGCAAACAAGAGAGTAAGTAAAAAAGCTTCTTTCTTCTCACTAAAGGGCAGAGT
45600342 GCATAATGGG
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 54 1.00
ACGTcount: A:0.41, C:0.17, G:0.20, T:0.22
Consensus pattern (54 bp):
AGCAAACAAGAGAGTAAGTAAAAAAGCTTCTTTCTTCTCACTAAAGGGCAGAGT
Found at i:45617880 original size:31 final size:31
Alignment explanation
Indices: 45617845--45618020 Score: 246
Period size: 31 Copynumber: 5.7 Consensus size: 31
45617835 GCATATGTTT
*
45617845 TATACATTGTCAAATTTGATTTGTATATAGA
1 TATACATTGTCGAATTTGATTTGTATATAGA
* *
45617876 TATACATTGTCGAATTTGATTTGTATATGGT
1 TATACATTGTCGAATTTGATTTGTATATAGA
* * *
45617907 TATATATTGTTGAATTTGATTTGTATATGGA
1 TATACATTGTCGAATTTGATTTGTATATAGA
*
45617938 TATTCATTGTCGAATTTGATTTGTATATAGA
1 TATACATTGTCGAATTTGATTTGTATATAGA
*
45617969 TATACATTTTCGAATTTGATTTGTATATAGA
1 TATACATTGTCGAATTTGATTTGTATATAGA
* **
45618000 TATATATTACCGAA-TTGATTT
1 TATACATTGTCGAATTTGATTT
45618021 AAGCATTGGA
Statistics
Matches: 130, Mismatches: 15, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
30 7 0.05
31 123 0.95
ACGTcount: A:0.31, C:0.06, G:0.15, T:0.48
Consensus pattern (31 bp):
TATACATTGTCGAATTTGATTTGTATATAGA
Found at i:45618015 original size:93 final size:92
Alignment explanation
Indices: 45617849--45618020 Score: 272
Period size: 93 Copynumber: 1.9 Consensus size: 92
45617839 ATGTTTTATA
* *
45617849 CATTGTCAAATTTGATTTGTATATAGATATACATTGTCGAATTTGATTTGTATATGGTTATATAT
1 CATTGTCAAATTTGATTTGTATATAGATATACATTGTCGAATTTGATTTGTATATAGATATATAT
***
45617914 TGTTGAATTTGATTTGTATATGGATATT
66 TACCGAA-TTGATTTGTATATGGATATT
* *
45617942 CATTGTCGAATTTGATTTGTATATAGATATACATTTTCGAATTTGATTTGTATATAGATATATAT
1 CATTGTCAAATTTGATTTGTATATAGATATACATTGTCGAATTTGATTTGTATATAGATATATAT
45618007 TACCGAATTGATTT
66 TACCGAATTGATTT
45618021 AAGCATTGGA
Statistics
Matches: 72, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
92 7 0.10
93 65 0.90
ACGTcount: A:0.30, C:0.06, G:0.16, T:0.48
Consensus pattern (92 bp):
CATTGTCAAATTTGATTTGTATATAGATATACATTGTCGAATTTGATTTGTATATAGATATATAT
TACCGAATTGATTTGTATATGGATATT
Found at i:45618256 original size:41 final size:42
Alignment explanation
Indices: 45618142--45618260 Score: 143
Period size: 43 Copynumber: 2.8 Consensus size: 42
45618132 GATGTGTGAT
45618142 TTCGTGTAAGACCATGTCTGGGACATTGGCATCGAAGTGAGA
1 TTCGTGTAAGACCATGTCTGGGACATTGGCATCGAAGTGAGA
* * *
45618184 TAACGTGTAAGACCATGTCTAGGACATTGGCATCGTA-T-ATGA
1 T-TCGTGTAAGACCATGTCTGGGACATTGGCATCGAAGTGA-GA
* * * *
45618226 TTCGTATAAGACCCTGTCTGGGATAGTGGCATCGA
1 TTCGTGTAAGACCATGTCTGGGACATTGGCATCGA
45618261 TACGCGTTAA
Statistics
Matches: 65, Mismatches: 10, Indels: 5
0.81 0.12 0.06
Matches are distributed among these distances:
41 28 0.43
42 5 0.08
43 32 0.49
ACGTcount: A:0.27, C:0.18, G:0.28, T:0.28
Consensus pattern (42 bp):
TTCGTGTAAGACCATGTCTGGGACATTGGCATCGAAGTGAGA
Found at i:45621457 original size:19 final size:18
Alignment explanation
Indices: 45621424--45621471 Score: 51
Period size: 19 Copynumber: 2.6 Consensus size: 18
45621414 TGTTACACGT
*
45621424 AAAGTGCATACTGGCGCAC
1 AAAGTGCAT-CTGGCACAC
*
45621443 AAAGTGCATCTTGGCACAT
1 AAAGTGCATC-TGGCACAC
*
45621462 GAAGTGCATC
1 AAAGTGCATC
45621472 CTAGCACATA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 1 0.04
19 24 0.96
ACGTcount: A:0.31, C:0.23, G:0.25, T:0.21
Consensus pattern (18 bp):
AAAGTGCATCTGGCACAC
Found at i:45621478 original size:19 final size:19
Alignment explanation
Indices: 45621444--45621480 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
45621434 CTGGCGCACA
* *
45621444 AAGTGCATCTTGGCACATG
1 AAGTGCATCCTAGCACATG
45621463 AAGTGCATCCTAGCACAT
1 AAGTGCATCCTAGCACAT
45621481 AAGGGCATAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.30, C:0.24, G:0.22, T:0.24
Consensus pattern (19 bp):
AAGTGCATCCTAGCACATG
Found at i:45621977 original size:11 final size:11
Alignment explanation
Indices: 45621961--45621994 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
45621951 ATTTAATGGA
45621961 AAAATTAATTT
1 AAAATTAATTT
45621972 AAAATTAATTT
1 AAAATTAATTT
*
45621983 AATAAATAATTT
1 AA-AATTAATTT
45621995 TCATTTTGGG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
11 13 0.62
12 8 0.38
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (11 bp):
AAAATTAATTT
Found at i:45630672 original size:42 final size:42
Alignment explanation
Indices: 45630613--45630698 Score: 154
Period size: 42 Copynumber: 2.0 Consensus size: 42
45630603 TATCTGCATC
45630613 CGCTCTAAATTTGTAATTGATAATAATTTCAAAATCCAAATT
1 CGCTCTAAATTTGTAATTGATAATAATTTCAAAATCCAAATT
* *
45630655 CGCTCTAAATTTGTAATTGATAGTAATTTCGAAATCCAAATT
1 CGCTCTAAATTTGTAATTGATAATAATTTCAAAATCCAAATT
45630697 CG
1 CG
45630699 AATATTACTC
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.37, C:0.15, G:0.10, T:0.37
Consensus pattern (42 bp):
CGCTCTAAATTTGTAATTGATAATAATTTCAAAATCCAAATT
Done.