Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A05
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: 100714657
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3970000 characters in sequence are not A, C, G, or T
File 309 of 318
Found at i:97744104 original size:39 final size:40
Alignment explanation
Indices: 97744061--97744144 Score: 125
Period size: 39 Copynumber: 2.1 Consensus size: 40
97744051 CATTTGAATG
* *
97744061 AAAAACGCCACTAAGGAGCGAGCATTTGCGGCGCTTTT-T
1 AAAAACGCCACTAAAGAGCGAGCATTAGCGGCGCTTTTGT
* *
97744100 AAAAACGCCACTAAAGATCGAGTATTAGCGGCGCTTTTGT
1 AAAAACGCCACTAAAGAGCGAGCATTAGCGGCGCTTTTGT
97744140 AAAAA
1 AAAAA
97744145 TGCCGCAATA
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
39 34 0.85
40 6 0.15
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.23
Consensus pattern (40 bp):
AAAAACGCCACTAAAGAGCGAGCATTAGCGGCGCTTTTGT
Found at i:97744549 original size:19 final size:17
Alignment explanation
Indices: 97744506--97744540 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
97744496 AAAGAGATAG
97744506 TATTAATTTTAAAATAT
1 TATTAATTTTAAAATAT
97744523 TATTAATTTTAAAATAT
1 TATTAATTTTAAAATAT
97744540 T
1 T
97744541 GAATTAATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
TATTAATTTTAAAATAT
Found at i:97745420 original size:27 final size:27
Alignment explanation
Indices: 97745390--97745441 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
97745380 CTTAATTTTT
*
97745390 TAGTTATAA-AAACTAATTTATAAAAAA
1 TAGTAATAATAAA-TAATTTATAAAAAA
*
97745417 TAGTAATAATAAATATTTTATAAAA
1 TAGTAATAATAAATAATTTATAAAA
97745442 TTATTTAACT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 19 0.86
28 3 0.14
ACGTcount: A:0.58, C:0.02, G:0.04, T:0.37
Consensus pattern (27 bp):
TAGTAATAATAAATAATTTATAAAAAA
Found at i:97745849 original size:52 final size:52
Alignment explanation
Indices: 97745771--97745879 Score: 191
Period size: 52 Copynumber: 2.1 Consensus size: 52
97745761 TCCAGTTAGA
* *
97745771 CTCTGAGATAGAAGAGATGGCAGTGAACCAGACGGCGGTGTTGAAGGTGGGG
1 CTCTGAGATAGAAGAGATGGCAGTGAACCAGACGCCGGCGTTGAAGGTGGGG
97745823 CTCTGAGATAGAAGAGATGGCAGTGAACCAGACGCCGGCGTTGAAGGTGGGG
1 CTCTGAGATAGAAGAGATGGCAGTGAACCAGACGCCGGCGTTGAAGGTGGGG
*
97745875 TTCTG
1 CTCTG
97745880 TCTATTGGCA
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 54 1.00
ACGTcount: A:0.26, C:0.16, G:0.40, T:0.18
Consensus pattern (52 bp):
CTCTGAGATAGAAGAGATGGCAGTGAACCAGACGCCGGCGTTGAAGGTGGGG
Found at i:97747363 original size:12 final size:12
Alignment explanation
Indices: 97747346--97747372 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
97747336 ATCAGACGTC
97747346 AGGGGATTTTCA
1 AGGGGATTTTCA
97747358 AGGGGATTTTCA
1 AGGGGATTTTCA
97747370 AGG
1 AGG
97747373 AAACAACAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.26, C:0.07, G:0.37, T:0.30
Consensus pattern (12 bp):
AGGGGATTTTCA
Found at i:97750045 original size:20 final size:21
Alignment explanation
Indices: 97749993--97750053 Score: 61
Period size: 21 Copynumber: 2.8 Consensus size: 21
97749983 AAATTTCAAG
97749993 AATTAAACATAATATAATATTTA
1 AATTAAA-ATAA-ATAATATTTA
* *
97750016 AAATAGAAATAAATATTATTT-
1 AATTA-AAATAAATAATATTTA
97750037 AATTAAAATAAAATAAT
1 AATTAAAAT-AAATAAT
97750054 TTTTTGAAAG
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
20 4 0.12
21 10 0.31
22 8 0.25
23 8 0.25
24 2 0.06
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.36
Consensus pattern (21 bp):
AATTAAAATAAATAATATTTA
Found at i:97755341 original size:11 final size:10
Alignment explanation
Indices: 97755325--97755354 Score: 51
Period size: 11 Copynumber: 2.9 Consensus size: 10
97755315 AAAAATTTCA
97755325 AAAAAAATTG
1 AAAAAAATTG
97755335 AATAAAAATTG
1 AA-AAAAATTG
97755346 AAAAAAATT
1 AAAAAAATT
97755355 AAATTTTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 9 0.47
11 10 0.53
ACGTcount: A:0.70, C:0.00, G:0.07, T:0.23
Consensus pattern (10 bp):
AAAAAAATTG
Found at i:97755847 original size:3 final size:3
Alignment explanation
Indices: 97755830--97755901 Score: 53
Period size: 3 Copynumber: 24.7 Consensus size: 3
97755820 ACCTTTCTGT
* *
97755830 TTA TT- TTA TTTA TTA TTA -TA TTA GTT- TTA TTA -TA TTG TCA TTA
1 TTA TTA TTA -TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA
* * *
97755873 TTA GTA TTA TTA GTA TTA TTA TTT TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
97755902 CGACTAAGTT
Statistics
Matches: 53, Mismatches: 10, Indels: 12
0.71 0.13 0.16
Matches are distributed among these distances:
2 8 0.15
3 40 0.75
4 5 0.09
ACGTcount: A:0.28, C:0.01, G:0.06, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:97755873 original size:14 final size:14
Alignment explanation
Indices: 97755840--97755891 Score: 52
Period size: 14 Copynumber: 3.6 Consensus size: 14
97755830 TTATTTTATT
97755840 TATTATTATATTAG
1 TATTATTATATTAG
*
97755854 TTTTATTATATT-G
1 TATTATTATATTAG
*
97755867 TCATTATTAGTATTAT
1 T-ATTATTA-TATTAG
*
97755883 TAGTATTAT
1 TATTATTAT
97755892 TATTTTTATT
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
13 2 0.06
14 18 0.58
15 10 0.32
16 1 0.03
ACGTcount: A:0.31, C:0.02, G:0.08, T:0.60
Consensus pattern (14 bp):
TATTATTATATTAG
Found at i:97755950 original size:5 final size:5
Alignment explanation
Indices: 97755940--97756037 Score: 51
Period size: 5 Copynumber: 18.4 Consensus size: 5
97755930 AGATTTTGTG
* *
97755940 TTATT TTATT TTGA-A TTATT TAGATT TTA-T TTAGTT TTATGT TT-TAT
1 TTATT TTATT TT-ATT TTATT T-TATT TTATT TTA-TT TTAT-T TTAT-T
*
97755987 TTATT TTATTT TTATT TT-TT TCTATT ATTCATT TTGTTT TTATT TTATT
1 TTATT TTA-TT TTATT TTATT T-TATT -TT-ATT TT-ATT TTATT TTATT
97756036 TT
1 TT
97756038 TTCAGACTTA
Statistics
Matches: 73, Mismatches: 8, Indels: 24
0.70 0.08 0.23
Matches are distributed among these distances:
4 8 0.11
5 34 0.47
6 27 0.37
7 4 0.05
ACGTcount: A:0.19, C:0.02, G:0.05, T:0.73
Consensus pattern (5 bp):
TTATT
Found at i:97755994 original size:22 final size:21
Alignment explanation
Indices: 97755965--97756006 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
97755955 TTATTTAGAT
97755965 TTTATTTAGTTTTATGTTTTA
1 TTTATTTAGTTTTATGTTTTA
* *
97755986 TTTATTTTATTTTTATTTTTT
1 TTTA-TTTAGTTTTATGTTTT
97756007 TCTATTATTC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.17, C:0.00, G:0.05, T:0.79
Consensus pattern (21 bp):
TTTATTTAGTTTTATGTTTTA
Found at i:97756000 original size:28 final size:27
Alignment explanation
Indices: 97755969--97756039 Score: 70
Period size: 28 Copynumber: 2.6 Consensus size: 27
97755959 TTAGATTTTA
* *
97755969 TTTAGTTTTATGTTTTATTTATTTTATT
1 TTTA-TTTTATCTTTTATTCATTTTATT
* * *
97755997 TTTATTTTTTTCTATTATTCATTTTGTT
1 TTTA-TTTTATCTTTTATTCATTTTATT
*
97756025 TTTATTTTATTTTTT
1 TTTATTTTATCTTTT
97756040 CAGACTTATA
Statistics
Matches: 34, Mismatches: 9, Indels: 1
0.77 0.20 0.02
Matches are distributed among these distances:
27 8 0.24
28 26 0.76
ACGTcount: A:0.15, C:0.03, G:0.04, T:0.77
Consensus pattern (27 bp):
TTTATTTTATCTTTTATTCATTTTATT
Found at i:97758522 original size:129 final size:128
Alignment explanation
Indices: 97758284--97758544 Score: 416
Period size: 129 Copynumber: 2.0 Consensus size: 128
97758274 AAGATATACA
* * * * *
97758284 AACAGTACTGCCATCATGTTCTTAGAAAGAGTTTGAGTTGTTTAGGACATATACTGAGTCACCAG
1 AACAGTAATGCCATCATGTTCTTAGAAAGAGTTTAAGTTGCTTAGGACACATACTCAGTCACCAG
* *
97758349 TCAAGGCACTATTTATAGATTTAGCGTTTAGCCTTCCTCTTCTTCTCCACAAGTCACAATCAG
66 TCAAGGCACTATATATAGATTTAGCGTTTAGCCTTCCTCTTCTTCTCCACAAGTCACAACCAG
97758412 AACAGTTAATGCCATCATGTTCTTAGAAAGAGTTTAAGTTGCTTAGGACACATACTCAGTCACCA
1 AACAG-TAATGCCATCATGTTCTTAGAAAGAGTTTAAGTTGCTTAGGACACATACTCAGTCACCA
**
97758477 GT-GGGGACACTATATATAGATTTAGCGTTTAGCCTTCCTCTTCTTCTCCACAAGTCACAACCAG
65 GTCAAGG-CACTATATATAGATTTAGCGTTTAGCCTTCCTCTTCTTCTCCACAAGTCACAACCAG
97758541 AACA
1 AACA
97758545 ACTTATATTG
Statistics
Matches: 122, Mismatches: 9, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
128 7 0.06
129 115 0.94
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.31
Consensus pattern (128 bp):
AACAGTAATGCCATCATGTTCTTAGAAAGAGTTTAAGTTGCTTAGGACACATACTCAGTCACCAG
TCAAGGCACTATATATAGATTTAGCGTTTAGCCTTCCTCTTCTTCTCCACAAGTCACAACCAG
Found at i:97759430 original size:23 final size:24
Alignment explanation
Indices: 97759396--97759444 Score: 82
Period size: 23 Copynumber: 2.1 Consensus size: 24
97759386 AACAATAATT
97759396 AAATAAATAATTAAAAATTCATTA
1 AAATAAATAATTAAAAATTCATTA
*
97759420 AAATAAA-AATTAAAAATTTATTA
1 AAATAAATAATTAAAAATTCATTA
97759443 AA
1 AA
97759445 CTTGTTCAAC
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 17 0.71
24 7 0.29
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (24 bp):
AAATAAATAATTAAAAATTCATTA
Found at i:97760139 original size:24 final size:24
Alignment explanation
Indices: 97760112--97760163 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
97760102 AATCAAAGTC
* *
97760112 AAATATATTATGCTAATAAATGCT
1 AAATATATTATACTAATAAATACT
*
97760136 AAATATATTATACTCATAAATACT
1 AAATATATTATACTAATAAATACT
97760160 AAAT
1 AAAT
97760164 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.50, C:0.10, G:0.04, T:0.37
Consensus pattern (24 bp):
AAATATATTATACTAATAAATACT
Found at i:97779079 original size:23 final size:23
Alignment explanation
Indices: 97779048--97779095 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
97779038 TCTAGAAGAT
* *
97779048 TTAGTATTTATGAGTATAATATA
1 TTAGCATTTATGAGCATAATATA
*
97779071 TTAGCATTTATTAGCATAATATA
1 TTAGCATTTATGAGCATAATATA
97779094 TT
1 TT
97779096 TGACTTTGAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.38, C:0.04, G:0.10, T:0.48
Consensus pattern (23 bp):
TTAGCATTTATGAGCATAATATA
Found at i:97779789 original size:22 final size:22
Alignment explanation
Indices: 97779764--97779813 Score: 82
Period size: 22 Copynumber: 2.3 Consensus size: 22
97779754 GTTGAACAAG
*
97779764 TTTAATAAATTTTTAATTTTTA
1 TTTAATAAATTTTTAATTATTA
*
97779786 TTTAATGAATTTTTAATTATTA
1 TTTAATAAATTTTTAATTATTA
97779808 TTTAAT
1 TTTAAT
97779814 TATTGTTGGA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (22 bp):
TTTAATAAATTTTTAATTATTA
Found at i:97779814 original size:11 final size:11
Alignment explanation
Indices: 97779775--97779817 Score: 52
Period size: 11 Copynumber: 3.9 Consensus size: 11
97779765 TTAATAAATT
*
97779775 TTTAATTTTTA
1 TTTAATTATTA
*
97779786 TTTAATGAATT-
1 TTTAAT-TATTA
97779797 TTTAATTATTA
1 TTTAATTATTA
97779808 TTTAATTATT
1 TTTAATTATT
97779818 GTTGGACTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
10 3 0.11
11 22 0.81
12 2 0.07
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (11 bp):
TTTAATTATTA
Found at i:97780829 original size:128 final size:127
Alignment explanation
Indices: 97780662--97780921 Score: 414
Period size: 128 Copynumber: 2.0 Consensus size: 127
97780652 CAATATAAGT
* *
97780662 TGTTCTGGTTGTGACTTGTGGAGAAGAAGAGGAAGGCTAAACGCTAAATCTATATATAGTGTCC-
1 TGTTCTGATTGTGACTTGTGGAGAAGAAGAGGAAGGCTAAACGCTAAATCTATAAATAGTG-CCT
* * * * *
97780726 CACTGGTGACTGAGTATGTGTCCTAAGCAACTTAAACTCTTTCTAAGAACATGATGGCATTAAC
65 CACTGGTGACTCAGTATATGTCCTAAACAACTCAAACTCTTTCTAAGAACATGATGGCAGT-AC
97780790 TGTTCTGATTGTGACTTGTGGAGAAGAAGAGGAAGGCTAAACGCTAAATCTATAAATAGTGCCTT
1 TGTTCTGATTGTGACTTGTGGAGAAGAAGAGGAAGGCTAAACGCTAAATCTATAAATAGTGCC-T
*
97780855 GACTGGTGACTCAGTATATGTCCTAAACAACTCAAACTCTTTCTAAGAACATGATGGCAGTAC
65 CACTGGTGACTCAGTATATGTCCTAAACAACTCAAACTCTTTCTAAGAACATGATGGCAGTAC
97780918 TGTT
1 TGTT
97780922 GTATATCTTG
Statistics
Matches: 122, Mismatches: 8, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
127 2 0.02
128 65 0.53
129 55 0.45
ACGTcount: A:0.31, C:0.17, G:0.23, T:0.30
Consensus pattern (127 bp):
TGTTCTGATTGTGACTTGTGGAGAAGAAGAGGAAGGCTAAACGCTAAATCTATAAATAGTGCCTC
ACTGGTGACTCAGTATATGTCCTAAACAACTCAAACTCTTTCTAAGAACATGATGGCAGTAC
Found at i:97783169 original size:23 final size:23
Alignment explanation
Indices: 97783142--97783212 Score: 60
Period size: 21 Copynumber: 3.1 Consensus size: 23
97783132 AAGTCTGAAA
*
97783142 AAATAAAATAAAA-ACAAAATGAAT
1 AAATAAAA-AAAATA-AAAATAAAT
97783166 -AATAGAAAAAAATAAAAATAAAT
1 AAATA-AAAAAAATAAAAATAAAT
* *
97783189 AAAT--AAAACATAAAACTAAAT
1 AAATAAAAAAAATAAAAATAAAT
97783210 AAA
1 AAA
97783213 ATCTAAATAA
Statistics
Matches: 41, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
21 18 0.44
23 16 0.39
24 7 0.17
ACGTcount: A:0.76, C:0.04, G:0.03, T:0.17
Consensus pattern (23 bp):
AAATAAAAAAAATAAAAATAAAT
Found at i:97783196 original size:21 final size:21
Alignment explanation
Indices: 97783172--97783212 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
97783162 GAATAATAGA
97783172 AAAAAATAAAAATAAATAAAT
1 AAAAAATAAAAATAAATAAAT
* *
97783193 AAAACATAAAACTAAATAAA
1 AAAAAATAAAAATAAATAAA
97783213 ATCTAAATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.78, C:0.05, G:0.00, T:0.17
Consensus pattern (21 bp):
AAAAAATAAAAATAAATAAAT
Found at i:97783203 original size:28 final size:28
Alignment explanation
Indices: 97783146--97783208 Score: 65
Period size: 27 Copynumber: 2.3 Consensus size: 28
97783136 CTGAAAAAAT
* * *
97783146 AAAATAAAAACAAAATGAATAATAGAAA
1 AAAATAAAAACAAAATAAATAAAACAAA
* *
97783174 AAAATAAAAA-TAAATAAATAAAACATA
1 AAAATAAAAACAAAATAAATAAAACAAA
*
97783201 AAACTAAA
1 AAAATAAA
97783209 TAAAATCTAA
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
27 19 0.66
28 10 0.34
ACGTcount: A:0.76, C:0.05, G:0.03, T:0.16
Consensus pattern (28 bp):
AAAATAAAAACAAAATAAATAAAACAAA
Found at i:97783290 original size:3 final size:3
Alignment explanation
Indices: 97783276--97783347 Score: 53
Period size: 3 Copynumber: 24.7 Consensus size: 3
97783266 AACTTAGTCG
* * * * *
97783276 AAT AAA AAT AAT AAT ACT AAT AAT ACT AAT AAT GAC AAT -AT AAT AA-
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
97783322 AACT AAT -AT AAT AAT AAAT AA- AAT AA
1 AA-T AAT AAT AAT AAT -AAT AAT AAT AA
97783348 ACAGAAAGGT
Statistics
Matches: 53, Mismatches: 10, Indels: 12
0.71 0.13 0.16
Matches are distributed among these distances:
2 8 0.15
3 40 0.75
4 5 0.09
ACGTcount: A:0.65, C:0.06, G:0.01, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:97783321 original size:14 final size:15
Alignment explanation
Indices: 97783286--97783338 Score: 58
Period size: 14 Copynumber: 3.7 Consensus size: 15
97783276 AATAAAAATA
*
97783286 ATAATACTAA-TAAT
1 ATAATAATAACTAAT
*
97783300 ACTAATAATGAC-AAT
1 A-TAATAATAACTAAT
97783315 ATAATAA-AACTAAT
1 ATAATAATAACTAAT
97783329 ATAATAATAA
1 ATAATAATAA
97783339 ATAAAATAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
13 2 0.06
14 17 0.53
15 13 0.41
ACGTcount: A:0.60, C:0.08, G:0.02, T:0.30
Consensus pattern (15 bp):
ATAATAATAACTAAT
Found at i:97783843 original size:11 final size:10
Alignment explanation
Indices: 97783822--97783851 Score: 51
Period size: 11 Copynumber: 2.9 Consensus size: 10
97783812 TTTAAAATTT
97783822 AATTTTTTTC
1 AATTTTTTTC
97783832 AATTTTTATTC
1 AATTTTT-TTC
97783843 AATTTTTTT
1 AATTTTTTT
97783852 TGAAATTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 9 0.47
11 10 0.53
ACGTcount: A:0.23, C:0.07, G:0.00, T:0.70
Consensus pattern (10 bp):
AATTTTTTTC
Found at i:97789132 original size:20 final size:20
Alignment explanation
Indices: 97789107--97789162 Score: 58
Period size: 22 Copynumber: 2.6 Consensus size: 20
97789097 AAAAAATTAT
97789107 TTTATTTTAATTAAATAATA
1 TTTATTTTAATTAAATAATA
* *
97789127 TTTATTTCTATTTTAAATATTA
1 TTTATTT-TA-ATTAAATAATA
97789149 TATTATGTTTAATT
1 T-TTAT-TTTAATT
97789163 CTTGAAATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
20 7 0.24
21 2 0.07
22 12 0.41
23 6 0.21
24 2 0.07
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.61
Consensus pattern (20 bp):
TTTATTTTAATTAAATAATA
Found at i:97791798 original size:12 final size:12
Alignment explanation
Indices: 97791781--97791807 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
97791771 TCTGTTGTTT
97791781 CCTTGAAAATCC
1 CCTTGAAAATCC
97791793 CCTTGAAAATCC
1 CCTTGAAAATCC
97791805 CCT
1 CCT
97791808 GACGTCTGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.30, C:0.37, G:0.07, T:0.26
Consensus pattern (12 bp):
CCTTGAAAATCC
Found at i:97793357 original size:52 final size:52
Alignment explanation
Indices: 97793274--97793382 Score: 191
Period size: 52 Copynumber: 2.1 Consensus size: 52
97793264 TGCCAATAGA
* * *
97793274 CAGAACCCCACCTTCAACGCCGGCGTCTGGTTCACTGCCATCTCTTCTATCT
1 CAGAGCCCCACCTTCAACACCGCCGTCTGGTTCACTGCCATCTCTTCTATCT
97793326 CAGAGCCCCACCTTCAACACCGCCGTCTGGTTCACTGCCATCTCTTCTATCT
1 CAGAGCCCCACCTTCAACACCGCCGTCTGGTTCACTGCCATCTCTTCTATCT
97793378 CAGAG
1 CAGAG
97793383 TCTAACTGGA
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 54 1.00
ACGTcount: A:0.18, C:0.40, G:0.16, T:0.26
Consensus pattern (52 bp):
CAGAGCCCCACCTTCAACACCGCCGTCTGGTTCACTGCCATCTCTTCTATCT
Found at i:97793756 original size:26 final size:27
Alignment explanation
Indices: 97793711--97793761 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
97793701 AGTTAAATAA
* *
97793711 TTTTATAAAATATTTATTATTACTATT
1 TTTTATAAAATAGTTATTATAACTATT
*
97793738 TTTTATAAATTAGTT-TTATAACTA
1 TTTTATAAAATAGTTATTATAACTA
97793762 AAAAATTAAG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 8 0.38
27 13 0.62
ACGTcount: A:0.37, C:0.04, G:0.02, T:0.57
Consensus pattern (27 bp):
TTTTATAAAATAGTTATTATAACTATT
Found at i:97794462 original size:13 final size:13
Alignment explanation
Indices: 97794444--97794473 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
97794434 ATAAAACATA
*
97794444 AACCTTAACCCCC
1 AACCTTAAACCCC
97794457 AACCTTAAACCCC
1 AACCTTAAACCCC
97794470 AACC
1 AACC
97794474 CCTTGAAACT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.37, C:0.50, G:0.00, T:0.13
Consensus pattern (13 bp):
AACCTTAAACCCC
Found at i:97794621 original size:19 final size:18
Alignment explanation
Indices: 97794597--97794639 Score: 70
Period size: 17 Copynumber: 2.4 Consensus size: 18
97794587 CTATAATGAT
97794597 AATTAATTCAATATTTTAA
1 AATTAATT-AATATTTTAA
97794616 AATTAA-TAATATTTTAA
1 AATTAATTAATATTTTAA
97794633 AATTAAT
1 AATTAAT
97794640 ACTATCTCTT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 16 0.70
18 1 0.04
19 6 0.26
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (18 bp):
AATTAATTAATATTTTAA
Found at i:97794821 original size:39 final size:38
Alignment explanation
Indices: 97794762--97794907 Score: 125
Period size: 39 Copynumber: 3.7 Consensus size: 38
97794752 TCATATTTGT
* * *
97794762 GGCGTTTTTCAAAAAACGCCGCTAAAGATCAGCATTAGC
1 GGCGTTTTTTAAAAAGCGCCGCTAAAGATCA-CTTTAGC
* *
97794801 GGCGTTTTTTAAAAAGCGCCGCTAAAGGTGTACTTATAGC
1 GGCGTTTTTTAAAAAGCGCCGCTAAAGAT-CACTT-TAGC
* * * *
97794841 AGCGTTTCTTAAAAAAGCGCCGCTAATA-CTCGATCTTTTGC
1 GGCGTTT-TTTAAAAAGCGCCGCTAA-AGATC-A-CTTTAGC
*
97794882 GGCG-TTTTTAAAAAGCGCCGCGAAAG
1 GGCGTTTTTTAAAAAGCGCCGCTAAAG
97794908 CCACTAAAAT
Statistics
Matches: 87, Mismatches: 13, Indels: 14
0.76 0.11 0.12
Matches are distributed among these distances:
38 1 0.01
39 44 0.51
40 13 0.15
41 25 0.29
42 4 0.05
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (38 bp):
GGCGTTTTTTAAAAAGCGCCGCTAAAGATCACTTTAGC
Found at i:97795075 original size:39 final size:40
Alignment explanation
Indices: 97795001--97795084 Score: 125
Period size: 39 Copynumber: 2.1 Consensus size: 40
97794991 TATTGCGGCA
* *
97795001 TTTTTACAAAAGCGCCGCTAATACTCGATCTTTAGTGGCG
1 TTTTTACAAAAGCGCCGCAAATACTCGATCCTTAGTGGCG
* *
97795041 TTTTTA-AAAAGCGCCGCAAATGCTCGCTCCTTAGTGGCG
1 TTTTTACAAAAGCGCCGCAAATACTCGATCCTTAGTGGCG
97795080 TTTTT
1 TTTTT
97795085 CATTCAAATG
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
39 34 0.85
40 6 0.15
ACGTcount: A:0.23, C:0.23, G:0.20, T:0.35
Consensus pattern (40 bp):
TTTTTACAAAAGCGCCGCAAATACTCGATCCTTAGTGGCG
Found at i:97802307 original size:43 final size:43
Alignment explanation
Indices: 97802245--97802328 Score: 141
Period size: 43 Copynumber: 2.0 Consensus size: 43
97802235 CGAACCATAA
* *
97802245 AAATTAATAGAACATAGATCATACCTGCATAAATCACATACGT
1 AAATTAATAGAACACAGATCATACCTACATAAATCACATACGT
*
97802288 AAATTAATAGAACACAGATCATACCTACATAAATTACATAC
1 AAATTAATAGAACACAGATCATACCTACATAAATCACATAC
97802329 CTTAAACACG
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.49, C:0.19, G:0.07, T:0.25
Consensus pattern (43 bp):
AAATTAATAGAACACAGATCATACCTACATAAATCACATACGT
Found at i:97805167 original size:39 final size:39
Alignment explanation
Indices: 97805121--97805249 Score: 231
Period size: 39 Copynumber: 3.3 Consensus size: 39
97805111 GCTCTGATGA
* *
97805121 GCTTCAGTTAGCCTTCGGGCTTCCGATTAGCACTTATGT
1 GCTTCAGTTAGCCTCCGGGCTTCCGTTTAGCACTTATGT
97805160 GCTTCAGTTAGCCTCCGGGCTTCCGTTTAGCACTTATGT
1 GCTTCAGTTAGCCTCCGGGCTTCCGTTTAGCACTTATGT
*
97805199 GCTTCAATTAGCCTCCGGGCTTCCGTTTAGCACTTATGT
1 GCTTCAGTTAGCCTCCGGGCTTCCGTTTAGCACTTATGT
97805238 GCTTCAGTTAGC
1 GCTTCAGTTAGC
97805250 ACAAATTCCG
Statistics
Matches: 86, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 86 1.00
ACGTcount: A:0.15, C:0.27, G:0.22, T:0.36
Consensus pattern (39 bp):
GCTTCAGTTAGCCTCCGGGCTTCCGTTTAGCACTTATGT
Found at i:97806631 original size:31 final size:30
Alignment explanation
Indices: 97806577--97806757 Score: 128
Period size: 31 Copynumber: 5.6 Consensus size: 30
97806567 ACAAATGACA
* ** *
97806577 AGTGAAAAGTAGTAGCTTTGGCTACTTGAT
1 AGTGAAAAGTGGTAGCTCCGGCTACCTGAT
*
97806607 CAGTGAAAAGTGGTAGCTCCGGCTACCTAAT
1 -AGTGAAAAGTGGTAGCTCCGGCTACCTGAT
* * *
97806638 AGATAAAAAAAATAGTAGCTCCGGCTACCTGACCAGTGAAT
1 AG-T--GAAAAGTGGTAGCTCCGG----CT-ACC--TG-AT
97806679 AGTGAAAAGTGGTAGCTCCGGCTACCTGAT
1 AGTGAAAAGTGGTAGCTCCGGCTACCTGAT
* *
97806709 AGATAAAAAATGGTAGCTCCGGCTACCTGAT
1 AG-TGAAAAGTGGTAGCTCCGGCTACCTGAT
* *
97806740 CAATGAATAGTGGTAGCT
1 -AGTGAAAAGTGGTAGCT
97806758 TCGGTTACAA
Statistics
Matches: 119, Mismatches: 18, Indels: 26
0.73 0.11 0.16
Matches are distributed among these distances:
30 6 0.05
31 66 0.55
32 1 0.01
33 18 0.15
34 2 0.02
37 2 0.02
38 18 0.15
40 2 0.02
41 4 0.03
ACGTcount: A:0.33, C:0.18, G:0.25, T:0.24
Consensus pattern (30 bp):
AGTGAAAAGTGGTAGCTCCGGCTACCTGAT
Found at i:97810159 original size:39 final size:39
Alignment explanation
Indices: 97810113--97810241 Score: 231
Period size: 39 Copynumber: 3.3 Consensus size: 39
97810103 GCTCTGATGA
* *
97810113 GCTTCAGTTAGCCTTCGGGCTTCCGATTAGCACTTATGT
1 GCTTCAGTTAGCCTCCGGGCTTCCGTTTAGCACTTATGT
97810152 GCTTCAGTTAGCCTCCGGGCTTCCGTTTAGCACTTATGT
1 GCTTCAGTTAGCCTCCGGGCTTCCGTTTAGCACTTATGT
*
97810191 GCTTCAATTAGCCTCCGGGCTTCCGTTTAGCACTTATGT
1 GCTTCAGTTAGCCTCCGGGCTTCCGTTTAGCACTTATGT
97810230 GCTTCAGTTAGC
1 GCTTCAGTTAGC
97810242 ACAAATTTCG
Statistics
Matches: 86, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 86 1.00
ACGTcount: A:0.15, C:0.27, G:0.22, T:0.36
Consensus pattern (39 bp):
GCTTCAGTTAGCCTCCGGGCTTCCGTTTAGCACTTATGT
Found at i:97812697 original size:20 final size:20
Alignment explanation
Indices: 97812672--97812722 Score: 59
Period size: 19 Copynumber: 2.5 Consensus size: 20
97812662 TTTAGGGATT
*
97812672 ATTTTGAAACAAATCAGAAA
1 ATTTTGAAACAAATCAAAAA
* *
97812692 ATTTTGGAA-AAATTAAAAA
1 ATTTTGAAACAAATCAAAAA
97812711 ATTTTAGAAACA
1 ATTTT-GAAACA
97812723 GGGTTCACAC
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
19 13 0.52
20 11 0.44
21 1 0.04
ACGTcount: A:0.55, C:0.06, G:0.10, T:0.29
Consensus pattern (20 bp):
ATTTTGAAACAAATCAAAAA
Found at i:97817660 original size:129 final size:128
Alignment explanation
Indices: 97817422--97817814 Score: 537
Period size: 129 Copynumber: 3.0 Consensus size: 128
97817412 AAGATATACA
*
97817422 AACAG-TACTGCCATCATGTTCTTAGAAAGAGTTTAAGTTGCTTAGGACATATACTTAGTCACCA
1 AACAGTTACTGCCAT-ATGTTCTTAGAAAGAGTTTAAGTTCCTTAGGACATATACTTAGTCACCA
*
97817486 GT-GAGGGCACTATATATAGATTTAGCGTTTAGCCTTCCTCTTCTTCTCCACAAGTCACAATCAG
65 GTCG-GGACACTATATATAGATTTAGCGTTTAGCCTTCCTCTTCTTCTCCACAAGTCACAATCAG
*
97817550 AACAGTTACTGCCATTATGTTCTTAGAAAGAGTTTAAGTTCCTTAGGACATATACTCAGTCACCA
1 AACAGTTACTGCCA-TATGTTCTTAGAAAGAGTTTAAGTTCCTTAGGACATATACTTAGTCACCA
* * * * * *
97817615 GTCGGGACACTATACATAGATATAGCGTTTAGCCTTACTCCTCTTCTCCACAATTCATAATCAG
65 GTCGGGACACTATATATAGATTTAGCGTTTAGCCTTCCTCTTCTTCTCCACAAGTCACAATCAG
* *
97817679 AACAGTCACTG-C---TGTTCTTAGAAAGAGTTTAAGTTGCGTAGGAGTTAGGACATATACTTAG
1 AACAGTTACTGCCATATGTTCTTAGAAAGAGTTTAAGTT-C------CTTAGGACATATACTTAG
* *
97817740 TCACCAGTCGGGACACTATATGTAGATTTAGCATTTAGCCTTCCTCTTCTTCTCCACAAGTCACA
59 TCACCAGTCGGGACACTATATATAGATTTAGCGTTTAGCCTTCCTCTTCTTCTCCACAAGTCACA
97817805 ATCAG
124 ATCAG
97817810 AACAG
1 AACAG
97817815 CTGATATTGT
Statistics
Matches: 235, Mismatches: 20, Indels: 17
0.86 0.07 0.06
Matches are distributed among these distances:
124 23 0.10
125 1 0.00
128 6 0.03
129 120 0.51
130 2 0.01
131 83 0.35
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.31
Consensus pattern (128 bp):
AACAGTTACTGCCATATGTTCTTAGAAAGAGTTTAAGTTCCTTAGGACATATACTTAGTCACCAG
TCGGGACACTATATATAGATTTAGCGTTTAGCCTTCCTCTTCTTCTCCACAAGTCACAATCAG
Found at i:97818396 original size:21 final size:20
Alignment explanation
Indices: 97818366--97818411 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 20
97818356 GACCAACAAT
* *
97818366 AATTAAATAAATAATTAAAA
1 AATTAAATAAAAAATAAAAA
97818386 AATTATAATAAAAAATAAAAA
1 AATTA-AATAAAAAATAAAAA
97818407 AATTA
1 AATTA
97818412 GCCGTTCATG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 5 0.22
21 18 0.78
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (20 bp):
AATTAAATAAAAAATAAAAA
Found at i:97818404 original size:20 final size:20
Alignment explanation
Indices: 97818366--97818407 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
97818356 GACCAACAAT
*
97818366 AATTAAATAAATAATTAAAA
1 AATTAAATAAATAAATAAAA
97818386 AATTATAATAAA-AAATAAAA
1 AATTA-AATAAATAAATAAAA
97818406 AA
1 AA
97818408 ATTAGCCGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 14 0.70
21 6 0.30
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (20 bp):
AATTAAATAAATAAATAAAA
Found at i:97820417 original size:41 final size:40
Alignment explanation
Indices: 97820337--97820423 Score: 113
Period size: 41 Copynumber: 2.1 Consensus size: 40
97820327 AGACCTTTAA
*
97820337 CGGCGCTTATAAGGAAACGCCGCTATATGTTGAGAATTAG
1 CGGCGCTTATAAGGAAACGCCGCTATATGTTGACAATTAG
* * *
97820377 TGGCGCTTATATGAGAAACGCCGCTATA-GCTTGACCATTAG
1 CGGCGCTTATAAG-GAAACGCCGCTATATG-TTGACAATTAG
97820418 CGGCGC
1 CGGCGC
97820424 CTTGGAGAAA
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
40 12 0.30
41 28 0.70
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (40 bp):
CGGCGCTTATAAGGAAACGCCGCTATATGTTGACAATTAG
Found at i:97822045 original size:158 final size:155
Alignment explanation
Indices: 97821805--97822157 Score: 433
Period size: 158 Copynumber: 2.2 Consensus size: 155
97821795 AAAATTAAGA
* * *
97821805 GATTAGTGGCGTTTTTTAAAAAAACACCGTAAAAAACAGTATAGTTGAAAGAAAACGGCGTCGTT
1 GATTAGTGGCGTTTTTT-AAAAAACGCCGCAAAAAACAGTATAGTTGAAAGAAAACGGCGCCGTT
* *
97821870 TTAGTTGGATAGAGTATTAGTGGCG-TTTTGAAAAATGCCGCAACAGAAGTAAAGTGTACTGGA-
65 TTAGTT-GATAGAGTATTAGTGGCGCTTTTG-AAAACGCCGCAAAAGAAGTAAAGTGTACTGGAC
* *
97821933 AGCGTTGTCGTTTTAGTTGAATATATAGGG
128 A-CGTCGTCATTTTAGTTGAATATATA-GG
* * * * * *
97821963 GATTAGTGGCGTTTTTATAGAAAACGCCACAAAAGATAGTTTAGTTTAAAGAAAACGGCGCCGTT
1 GATTAGTGGCGTTTTT-TAAAAAACGCCGCAAAAAACAGTATAGTTGAAAGAAAACGGCGCCGTT
* * * * *
97822028 TTAGTAT-ATGAGGGTATTAGTGGCGCTTTTGAAAACGCCGCAAAATAATTAAAGTTTACTGTAC
65 TTAGT-TGAT-AGAGTATTAGTGGCGCTTTTGAAAACGCCGCAAAAGAAGTAAAGTGTACTGGAC
97822092 ACGTCGTCATTTTAGTTGAATATATAGG
128 ACGTCGTCATTTTAGTTGAATATATAGG
*
97822120 GATTAGCGGCGTTTTTTAAATAAACGCCGCAAAAAACA
1 GATTAGTGGCGTTTTTTAAA-AAACGCCGCAAAAAACA
97822158 TTTGTGCTTA
Statistics
Matches: 166, Mismatches: 23, Indels: 13
0.82 0.11 0.06
Matches are distributed among these distances:
156 3 0.02
157 33 0.20
158 122 0.73
159 8 0.05
ACGTcount: A:0.34, C:0.12, G:0.24, T:0.30
Consensus pattern (155 bp):
GATTAGTGGCGTTTTTTAAAAAACGCCGCAAAAAACAGTATAGTTGAAAGAAAACGGCGCCGTTT
TAGTTGATAGAGTATTAGTGGCGCTTTTGAAAACGCCGCAAAAGAAGTAAAGTGTACTGGACACG
TCGTCATTTTAGTTGAATATATAGG
Found at i:97823910 original size:8 final size:8
Alignment explanation
Indices: 97823897--97823946 Score: 50
Period size: 8 Copynumber: 6.4 Consensus size: 8
97823887 TGATTATGAT
97823897 AATAGTGG
1 AATAGTGG
*
97823905 AATAGTGT
1 AATAGTGG
*
97823913 AAT--TGC
1 AATAGTGG
*
97823919 ATATAGTGT
1 A-ATAGTGG
97823928 AATAGTGG
1 AATAGTGG
97823936 AATAGTGG
1 AATAGTGG
97823944 AAT
1 AAT
97823947 TTTTTGATTG
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
6 3 0.09
7 2 0.06
8 27 0.77
9 3 0.09
ACGTcount: A:0.38, C:0.02, G:0.28, T:0.32
Consensus pattern (8 bp):
AATAGTGG
Found at i:97824520 original size:23 final size:24
Alignment explanation
Indices: 97824479--97824524 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
97824469 AACATTATTG
*
97824479 AAATATTCTCATCCGTTTTATCAC
1 AAATATTATCATCCGTTTTATCAC
*
97824503 AAATATTATCATTC-TTTTATCA
1 AAATATTATCATCCGTTTTATCA
97824525 TTTAAGTTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 8 0.40
24 12 0.60
ACGTcount: A:0.33, C:0.20, G:0.02, T:0.46
Consensus pattern (24 bp):
AAATATTATCATCCGTTTTATCAC
Found at i:97824729 original size:99 final size:99
Alignment explanation
Indices: 97824605--97824845 Score: 439
Period size: 99 Copynumber: 2.4 Consensus size: 99
97824595 ATGTTTACTT
97824605 AAATTAATAAATGCAAATTAAAAGAAAGACTTAACAAGTTTAATGTCATTAATTTAAATATTTTA
1 AAATTAATAAATGCAAATTAAAAGAAAGACTTAACAAGTTTAATGTCATTAATTTAAATATTTTA
*
97824670 TTTTATTTTTATATTACCTAATTTTTAAATTAAC
66 TTTTATTTTTAAATTACCTAATTTTTAAATTAAC
97824704 AAATTAATAAATGCAAATTAAAAGAAAGACTTAACAAGTTTAATGTCATTAATTTAAATATTTTA
1 AAATTAATAAATGCAAATTAAAAGAAAGACTTAACAAGTTTAATGTCATTAATTTAAATATTTTA
97824769 TTTTATTTTTAAATTACCTAATTTTTAAATTAAC
66 TTTTATTTTTAAATTACCTAATTTTTAAATTAAC
* *
97824803 -AATTAATAAATACAAATTAAAAGAAAAACTTAACAATGTTTAA
1 AAATTAATAAATGCAAATTAAAAGAAAGACTTAACAA-GTTTAA
97824846 AATATTTTGT
Statistics
Matches: 138, Mismatches: 3, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
98 34 0.25
99 104 0.75
ACGTcount: A:0.48, C:0.07, G:0.05, T:0.40
Consensus pattern (99 bp):
AAATTAATAAATGCAAATTAAAAGAAAGACTTAACAAGTTTAATGTCATTAATTTAAATATTTTA
TTTTATTTTTAAATTACCTAATTTTTAAATTAAC
Found at i:97824806 original size:15 final size:16
Alignment explanation
Indices: 97824773--97824806 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
97824763 ATTTTATTTT
*
97824773 ATTTTTAAATTACCTA
1 ATTTTTAAATTAACTA
97824789 ATTTTTAAATTAAC-A
1 ATTTTTAAATTAACTA
97824804 ATT
1 ATT
97824807 AATAAATACA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 4 0.24
16 13 0.76
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (16 bp):
ATTTTTAAATTAACTA
Found at i:97824897 original size:98 final size:97
Alignment explanation
Indices: 97824605--97824884 Score: 415
Period size: 99 Copynumber: 2.9 Consensus size: 97
97824595 ATGTTTACTT
97824605 AAATTAATAAATGCAAATTAAAAGAAAGACTTAACAAGTTTAATGTCATTAATTTAAATATTTTA
1 AAATTAATAAATGCAAATTAAAAGAAAGACTTAACAAGTTTAATGTCATT-ATTT-AATATTTTA
*
97824670 TTTTATTTTTATATTACCTAATTTTTAAATTAAC
64 TTTTATTTTTAAATTACCTAATTTTTAAATTAAC
97824704 AAATTAATAAATGCAAATTAAAAGAAAGACTTAACAAGTTTAATGTCATTAATTTAAATATTTTA
1 AAATTAATAAATGCAAATTAAAAGAAAGACTTAACAAGTTTAATGTCATT-ATTT-AATATTTTA
97824769 TTTTATTTTTAAATTACCTAATTTTTAAATTAAC
64 TTTTATTTTTAAATTACCTAATTTTTAAATTAAC
* * ** *
97824803 -AATTAATAAATACAAATTAAAAGAAAAACTTAACAATGTTTAAAAT-ATT-TTGT-CTACTTTT
1 AAATTAATAAATGCAAATTAAAAGAAAGACTTAACAA-GTTTAATGTCATTATT-TAATA-TTTT
97824864 ATTTTATTTTTAAATTACCTA
63 ATTTTATTTTTAAATTACCTA
97824885 CTTAAATTAA
Statistics
Matches: 172, Mismatches: 6, Indels: 9
0.92 0.03 0.05
Matches are distributed among these distances:
95 2 0.01
96 27 0.16
97 1 0.01
98 37 0.22
99 105 0.61
ACGTcount: A:0.45, C:0.07, G:0.05, T:0.43
Consensus pattern (97 bp):
AAATTAATAAATGCAAATTAAAAGAAAGACTTAACAAGTTTAATGTCATTATTTAATATTTTATT
TTATTTTTAAATTACCTAATTTTTAAATTAAC
Found at i:97824916 original size:5 final size:5
Alignment explanation
Indices: 97824908--97824932 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
97824898 GTATTTAAAG
97824908 TTTTA TTTTA TTTTA TTTTA TTTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA
97824933 ATCACGAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTTA
Found at i:97824950 original size:96 final size:95
Alignment explanation
Indices: 97824850--97825304 Score: 639
Period size: 91 Copynumber: 4.9 Consensus size: 95
97824840 GTTTAAAATA
*
97824850 TTTTGTCTACTTTTATTTTATTTTTAAATTACCTACTTAAATTAAATTGTATTTAAAGTTTTATT
1 TTTTGTCTACTTTTATTTTATTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATT
**
97824915 TTATTTTATTTTATTTTAATCACGAAAATTT
66 TTATTTTATTTTATTTTAATCACGAAAA-AC
* * * *
97824946 TTTTGTCAAATTTTATTTTATTTTTAAATTACCTAATTAAATTAAATTTTATTTAAATTTTTATT
1 TTTTGTCTACTTTTATTTTATTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATT
* * *
97825011 TTATTTTATTTTATTCTAATTAGGAAAAAAC
66 TTATTTTATTTTATTTTAATCACG-AAAAAC
97825042 --TTGTCTACTTTTATTTTATTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAG-----TT
1 TTTTGTCTACTTTTATTTTATTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATT
97825100 TTATTTTATTTTATTTTAATCACGAAAAAACC
66 TTATTTTATTTTATTTTAATCACG-AAAAA-C
*
97825132 TTTT-TCTACTTTTATTTTATTTTTAAATTACCTAATTAAAGTAAATTGTATTTAAAG-----TT
1 TTTTGTCTACTTTTATTTTATTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATT
*
97825191 TTATTTTATTTTATTTTAATCAGGAAAAAAC
66 TTATTTTATTTTATTTTAATCACG-AAAAAC
* *
97825222 TTTTGTCTACTTTTATTTTATTTTTAAATTACCTAAATAAATTAAATTTTATTTAAAGTTTTATT
1 TTTTGTCTACTTTTATTTTATTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATT
*
97825287 TTATTTTATATTATTTTA
66 TTATTTTATTTTATTTTA
97825305 TTTTAATCAC
Statistics
Matches: 326, Mismatches: 23, Indels: 20
0.88 0.06 0.05
Matches are distributed among these distances:
89 29 0.09
90 6 0.02
91 133 0.41
92 2 0.01
94 52 0.16
96 100 0.31
97 4 0.01
ACGTcount: A:0.33, C:0.07, G:0.04, T:0.56
Consensus pattern (95 bp):
TTTTGTCTACTTTTATTTTATTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATT
TTATTTTATTTTATTTTAATCACGAAAAAC
Found at i:97825145 original size:43 final size:42
Alignment explanation
Indices: 97825098--97825245 Score: 125
Period size: 43 Copynumber: 3.3 Consensus size: 42
97825088 GTATTTAAAG
97825098 TTTTATTTTATTTTATTTTAATCACGAAAAAACCTTTTTCTAC
1 TTTTATTTTATTTTATTTTAATCACGAAAAAA-CTTTTTCTAC
** * * ** * ** *
97825141 TTTTATTTTATTTTTAAATTACCTAATTAAAGTAAATTGTATTTAAAG
1 TTTTATTTTA-TTTTATTTTA-ATCACGAAA--AAACT-T-TTTCTAC
*
97825189 TTTTATTTTATTTTATTTTAATCAGGAAAAAACTTTTGTCTAC
1 TTTTATTTTATTTTATTTTAATCACGAAAAAACTTTT-TCTAC
97825232 TTTTATTTTATTTT
1 TTTTATTTTATTTT
97825246 TAAATTACCT
Statistics
Matches: 78, Mismatches: 20, Indels: 14
0.70 0.18 0.12
Matches are distributed among these distances:
42 2 0.03
43 27 0.35
44 12 0.15
45 5 0.06
46 6 0.08
47 12 0.15
48 14 0.18
ACGTcount: A:0.31, C:0.08, G:0.05, T:0.56
Consensus pattern (42 bp):
TTTTATTTTATTTTATTTTAATCACGAAAAAACTTTTTCTAC
Found at i:97825288 original size:5 final size:5
Alignment explanation
Indices: 97825280--97825309 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
97825270 TTATTTAAAG
*
97825280 TTTTA TTTTA TTTTA TATTA TTTTA TTTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA
97825310 ATCACGAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (5 bp):
TTTTA
Found at i:97825494 original size:9 final size:9
Alignment explanation
Indices: 97825482--97825597 Score: 92
Period size: 9 Copynumber: 12.7 Consensus size: 9
97825472 AAATATATAT
*
97825482 CATATTTTA
1 CATAATTTA
97825491 CATAATTTA
1 CATAATTTA
*
97825500 CATAACTTA
1 CATAATTTA
97825509 CATAA--TA
1 CATAATTTA
97825516 CATAAATATATA
1 CAT-AAT-T-TA
*
97825528 TCATATTTTA
1 -CATAATTTA
97825538 CATAATTTA
1 CATAATTTA
**
97825547 CATAATTCG
1 CATAATTTA
* *
97825556 GATAACTTA
1 CATAATTTA
* *
97825565 CTTAATTAA
1 CATAATTTA
97825574 CATAATTTA
1 CATAATTTA
*
97825583 CATAACTTA
1 CATAATTTA
97825592 CATAAT
1 CATAAT
97825598 ACACAAATAT
Statistics
Matches: 83, Mismatches: 18, Indels: 12
0.73 0.16 0.11
Matches are distributed among these distances:
7 5 0.06
8 2 0.02
9 66 0.80
10 2 0.02
11 1 0.01
12 4 0.05
13 3 0.04
ACGTcount: A:0.44, C:0.14, G:0.02, T:0.41
Consensus pattern (9 bp):
CATAATTTA
Found at i:97825512 original size:27 final size:27
Alignment explanation
Indices: 97825482--97825597 Score: 110
Period size: 27 Copynumber: 4.2 Consensus size: 27
97825472 AAATATATAT
*
97825482 CATATTTTACATAATTTACATAACTTA
1 CATAATTTACATAATTTACATAACTTA
**
97825509 CATAA--TACATAAATATATATCATATTTTA
1 CATAATTTACAT-AAT-T-TA-CATAACTTA
***
97825538 CATAATTTACATAATTCGGATAACTTA
1 CATAATTTACATAATTTACATAACTTA
* *
97825565 CTTAATTAACATAATTTACATAACTTA
1 CATAATTTACATAATTTACATAACTTA
97825592 CATAAT
1 CATAAT
97825598 ACACAAATAT
Statistics
Matches: 69, Mismatches: 14, Indels: 12
0.73 0.15 0.13
Matches are distributed among these distances:
25 5 0.07
26 3 0.04
27 38 0.55
28 2 0.03
29 13 0.19
30 3 0.04
31 5 0.07
ACGTcount: A:0.44, C:0.14, G:0.02, T:0.41
Consensus pattern (27 bp):
CATAATTTACATAATTTACATAACTTA
Found at i:97830759 original size:24 final size:24
Alignment explanation
Indices: 97830732--97830779 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
97830722 TTGCATTCCT
*
97830732 TTTTATTATATATTTTGTTTCTAA
1 TTTTATTATATATTTCGTTTCTAA
97830756 TTTTATTATATATTTCGTTTCTAA
1 TTTTATTATATATTTCGTTTCTAA
97830780 CTCTTTAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.25, C:0.06, G:0.04, T:0.65
Consensus pattern (24 bp):
TTTTATTATATATTTCGTTTCTAA
Found at i:97831596 original size:58 final size:58
Alignment explanation
Indices: 97831526--97831637 Score: 197
Period size: 58 Copynumber: 1.9 Consensus size: 58
97831516 AATCTTCCAA
*
97831526 AATTAGCGGCGTTTGTGAAAAAAATGCCGCTAAAAGCCATGACTTTTAGAGGCGATTG
1 AATTAGCGGCGTTTGTGAAAAAAATGCCACTAAAAGCCATGACTTTTAGAGGCGATTG
* *
97831584 AATTAGCGGCGTTTGTGAAAAAAATGCCACTAAAAGTCATGACTTTTAGTGGCG
1 AATTAGCGGCGTTTGTGAAAAAAATGCCACTAAAAGCCATGACTTTTAGAGGCG
97831638 CTTTTCCCAC
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
58 51 1.00
ACGTcount: A:0.33, C:0.15, G:0.25, T:0.27
Consensus pattern (58 bp):
AATTAGCGGCGTTTGTGAAAAAAATGCCACTAAAAGCCATGACTTTTAGAGGCGATTG
Found at i:97831696 original size:26 final size:26
Alignment explanation
Indices: 97831667--97831718 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
97831657 TAAAAGCCAT
* *
97831667 GGCTTTTAGCGGCTCTGTTCCCACAA
1 GGCTTTTAGAGGCGCTGTTCCCACAA
*
97831693 GGCTTTTAGAGGCGCTTTTCCCACAA
1 GGCTTTTAGAGGCGCTGTTCCCACAA
97831719 ACGCTGCTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.17, C:0.29, G:0.23, T:0.31
Consensus pattern (26 bp):
GGCTTTTAGAGGCGCTGTTCCCACAA
Found at i:97831742 original size:69 final size:69
Alignment explanation
Indices: 97831626--97831761 Score: 193
Period size: 69 Copynumber: 2.0 Consensus size: 69
97831616 AAAGTCATGA
* * *** *
97831626 CTTTTAGTGGCGCTTTTCCCACAAACGACTCTAAAAGCCATGGCTTTTAGCGGCTCTGTTCCCAC
1 CTTTTAGAGGCGCTTTTCCCACAAACGACTCTAAAAACCACAACTTTTAGCGGCGCTGTTCCCAC
97831691 AAGG
66 AAGG
*
97831695 CTTTTAGAGGCGCTTTTCCCACAAACG-CTGCTAAAAACCACAACTTTTAGCGGCGCTTTTCCCA
1 CTTTTAGAGGCGCTTTTCCCACAAACGACT-CTAAAAACCACAACTTTTAGCGGCGCTGTTCCCA
97831759 CAA
65 CAA
97831762 ACGCCGTTAA
Statistics
Matches: 59, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
68 2 0.03
69 57 0.97
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.28
Consensus pattern (69 bp):
CTTTTAGAGGCGCTTTTCCCACAAACGACTCTAAAAACCACAACTTTTAGCGGCGCTGTTCCCAC
AAGG
Found at i:97833114 original size:19 final size:19
Alignment explanation
Indices: 97833092--97833131 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
97833082 TTAATATTTA
*
97833092 TAAATACATTTTCATA-AAT
1 TAAATA-ATTATCATATAAT
97833111 TAAATAATTATCATATAAT
1 TAAATAATTATCATATAAT
97833130 TA
1 TA
97833132 TATTTATTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 8 0.42
19 11 0.58
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.42
Consensus pattern (19 bp):
TAAATAATTATCATATAAT
Found at i:97842304 original size:17 final size:17
Alignment explanation
Indices: 97842282--97842324 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
97842272 CTTAGAGCGA
* *
97842282 AAAAAATTTGGAAATTT
1 AAAAAATTTGAAAAGTT
97842299 AAAAAA-TTGAAAAGTT
1 AAAAAATTTGAAAAGTT
97842315 AGAAAAATTT
1 A-AAAAATTT
97842325 CATTTGTGTG
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
16 9 0.41
17 11 0.50
18 2 0.09
ACGTcount: A:0.58, C:0.00, G:0.12, T:0.30
Consensus pattern (17 bp):
AAAAAATTTGAAAAGTT
Found at i:97847823 original size:17 final size:18
Alignment explanation
Indices: 97847783--97847823 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
97847773 TACATCTAAA
*
97847783 TAAAAATGTTGATTTATG
1 TAAAAATATTGATTTATG
*
97847801 T-TAAATATTGATTTA-G
1 TAAAAATATTGATTTATG
97847817 TAAAAAT
1 TAAAAAT
97847824 TAAGAGTTAA
Statistics
Matches: 19, Mismatches: 3, Indels: 3
0.76 0.12 0.12
Matches are distributed among these distances:
16 2 0.11
17 16 0.84
18 1 0.05
ACGTcount: A:0.44, C:0.00, G:0.12, T:0.44
Consensus pattern (18 bp):
TAAAAATATTGATTTATG
Found at i:97849137 original size:25 final size:25
Alignment explanation
Indices: 97849109--97849157 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
97849099 GGTTTGAGTT
97849109 AAGAGTGAAACTAGGAGTAGCCAAC
1 AAGAGTGAAACTAGGAGTAGCCAAC
97849134 AAGAGTGAAACTAGGAGTAGCCAA
1 AAGAGTGAAACTAGGAGTAGCCAA
97849158 AGGGCAATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.45, C:0.14, G:0.29, T:0.12
Consensus pattern (25 bp):
AAGAGTGAAACTAGGAGTAGCCAAC
Found at i:97859987 original size:213 final size:213
Alignment explanation
Indices: 97859620--97860049 Score: 729
Period size: 213 Copynumber: 2.0 Consensus size: 213
97859610 GAAAGTTCAG
* * *
97859620 TGTGAGTTAACATAACGTACAATTATACAGATAATCAAAATGGATAACAGTTATCAATGTTATTA
1 TGTGAGTCAACATAACGTACAATTATAAAGATAATCAAAACGGATAACAGTTATCAATGTTATTA
*
97859685 CAGAGCAGTACATGGAAGAATTAATCAGTGTATGATTTTGTCATGTGTATGATGCAATGCAAAGA
66 CAGAGCAGTACATGGAAGAATCAATCAGTGTATGATTTTGTCATGTGTATGATGCAATGCAAAGA
* *
97859750 GGTTCCTACCCACCATCTGCTGCATATCA-TGAGTTCCCCAAAACCCGTCTACCAAACTCCAAAC
131 GGTTCCTACCCACCATCTGCTGCATACCACT-AGTTCCCCAAAACCCGTATACCAAACTCCAAAC
*
97859814 AGTGCAATCCCAAGCTCGA
195 AGTGCAAGCCCAAGCTCGA
*
97859833 TGTGAGTCAACATAACGTACAATTATAAAGATAATCAAAACGGATAACAGTTATCAGTGTTATTA
1 TGTGAGTCAACATAACGTACAATTATAAAGATAATCAAAACGGATAACAGTTATCAATGTTATTA
*
97859898 CAGAGCAGTACATGGAAGAATCAATCAGTTTATGAGTTTT-TCATGTGTATGATGCAATGCAAAG
66 CAGAGCAGTACATGGAAGAATCAATCAGTGTATGA-TTTTGTCATGTGTATGATGCAATGCAAAG
* *
97859962 AGGTTCCTACCCACCATCTGCTGCATACCACTAGTTCCCCAAAACTCGTATACCAAACTCTAAAC
130 AGGTTCCTACCCACCATCTGCTGCATACCACTAGTTCCCCAAAACCCGTATACCAAACTCCAAAC
97860027 AGTGCAAGCCCAAGCTCGA
195 AGTGCAAGCCCAAGCTCGA
97860046 TGTG
1 TGTG
97860050 GATAATCCAC
Statistics
Matches: 204, Mismatches: 11, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
213 199 0.98
214 5 0.02
ACGTcount: A:0.35, C:0.21, G:0.17, T:0.27
Consensus pattern (213 bp):
TGTGAGTCAACATAACGTACAATTATAAAGATAATCAAAACGGATAACAGTTATCAATGTTATTA
CAGAGCAGTACATGGAAGAATCAATCAGTGTATGATTTTGTCATGTGTATGATGCAATGCAAAGA
GGTTCCTACCCACCATCTGCTGCATACCACTAGTTCCCCAAAACCCGTATACCAAACTCCAAACA
GTGCAAGCCCAAGCTCGA
Found at i:97864623 original size:38 final size:38
Alignment explanation
Indices: 97864581--97864685 Score: 149
Period size: 38 Copynumber: 2.8 Consensus size: 38
97864571 TTAAAGACCT
* *
97864581 GCAGGCTTCATGCTGGTAATATATCCGGGTTAAATCCC
1 GCAGGCTTCATGCTGGTATTATATCCGGGATAAATCCC
*
97864619 GCAGGCTTCGTGCTGGTATTATATCCGGGATAAATCCC
1 GCAGGCTTCATGCTGGTATTATATCCGGGATAAATCCC
* *
97864657 GCAGGCCT-AGTGCTGGTATTATATTCGGG
1 GCAGGCTTCA-TGCTGGTATTATATCCGGG
97864686 CCTTCGTGCC
Statistics
Matches: 60, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
38 60 1.00
ACGTcount: A:0.21, C:0.22, G:0.28, T:0.30
Consensus pattern (38 bp):
GCAGGCTTCATGCTGGTATTATATCCGGGATAAATCCC
Found at i:97864739 original size:43 final size:43
Alignment explanation
Indices: 97864678--97864781 Score: 199
Period size: 43 Copynumber: 2.4 Consensus size: 43
97864668 GCTGGTATTA
97864678 TATTCGGGCCTTCGTGCCTAGCAAGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAAGCTTCGTGCCGGTGATGTG
*
97864721 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAAGCTTCGTGCCGGTGATGTG
97864764 TATTCGGGCCTTCGTGCC
1 TATTCGGGCCTTCGTGCC
97864782 GGTGATGTGT
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 60 1.00
ACGTcount: A:0.10, C:0.27, G:0.33, T:0.31
Consensus pattern (43 bp):
TATTCGGGCCTTCGTGCCTAGCAAGCTTCGTGCCGGTGATGTG
Found at i:97864784 original size:27 final size:27
Alignment explanation
Indices: 97864746--97864808 Score: 117
Period size: 27 Copynumber: 2.3 Consensus size: 27
97864736 GCCTAGCAGG
97864746 CTTCGTGCCGGTGATGTGTATTCGGGC
1 CTTCGTGCCGGTGATGTGTATTCGGGC
*
97864773 CTTCGTGCCGGTGATGTGTATTTGGGC
1 CTTCGTGCCGGTGATGTGTATTCGGGC
97864800 CTTCGTGCC
1 CTTCGTGCC
97864809 TAGCAGGCTT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.06, C:0.24, G:0.35, T:0.35
Consensus pattern (27 bp):
CTTCGTGCCGGTGATGTGTATTCGGGC
Found at i:97864790 original size:70 final size:70
Alignment explanation
Indices: 97864703--97864851 Score: 271
Period size: 70 Copynumber: 2.1 Consensus size: 70
97864693 GCCTAGCAAG
* *
97864703 CTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTGTATT
1 CTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCATGCCGATGATGTGTATT
97864768 CGGGC
66 CGGGC
*
97864773 CTTCGTGCCGGTGATGTGTATTTGGGCCTTCGTGCCTAGCAGGCTTCATGCCGATGATGTGTATT
1 CTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCATGCCGATGATGTGTATT
97864838 CGGGC
66 CGGGC
97864843 CTTCGTGCC
1 CTTCGTGCC
97864852 TAGCAGGCTT
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
70 76 1.00
ACGTcount: A:0.09, C:0.25, G:0.34, T:0.32
Consensus pattern (70 bp):
CTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCATGCCGATGATGTGTATT
CGGGC
Found at i:97864843 original size:43 final size:43
Alignment explanation
Indices: 97864773--97864901 Score: 222
Period size: 43 Copynumber: 3.0 Consensus size: 43
97864763 GTATTCGGGC
*
97864773 CTTCGTGCCGGTGATGTGTATTTGGGCCTTCGTGCCTAGCAGG
1 CTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGG
* *
97864816 CTTCATGCCGATGATGTGTATTCGGGCCTTCGTGCCTAGCAGG
1 CTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGG
*
97864859 CTTCGTGCCGGTGATGTGTATTCAGGCCTTCGTGCCTAGCAGG
1 CTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGG
97864902 TGTAATGCCG
Statistics
Matches: 80, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 80 1.00
ACGTcount: A:0.12, C:0.25, G:0.33, T:0.31
Consensus pattern (43 bp):
CTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGG
Found at i:97864881 original size:113 final size:113
Alignment explanation
Indices: 97864678--97864894 Score: 389
Period size: 113 Copynumber: 1.9 Consensus size: 113
97864668 GCTGGTATTA
* *
97864678 TATTCGGGCCTTCGTGCCTAGCAAGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAGC
1 TATTCGGGCCTTCGTGCCTAGCAAGCTTCATGCCGATGATGTGTATTCGGGCCTTCGTGCCTAGC
*
97864743 AGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCGGTGATGTG
66 AGGCTTCGTGCCGGTGATGTGTATTCAGGCCTTCGTGCCGGTGATGTG
* *
97864791 TATTTGGGCCTTCGTGCCTAGCAGGCTTCATGCCGATGATGTGTATTCGGGCCTTCGTGCCTAGC
1 TATTCGGGCCTTCGTGCCTAGCAAGCTTCATGCCGATGATGTGTATTCGGGCCTTCGTGCCTAGC
97864856 AGGCTTCGTGCCGGTGATGTGTATTCAGGCCTTCGTGCC
66 AGGCTTCGTGCCGGTGATGTGTATTCAGGCCTTCGTGCC
97864895 TAGCAGGTGT
Statistics
Matches: 99, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
113 99 1.00
ACGTcount: A:0.11, C:0.25, G:0.33, T:0.31
Consensus pattern (113 bp):
TATTCGGGCCTTCGTGCCTAGCAAGCTTCATGCCGATGATGTGTATTCGGGCCTTCGTGCCTAGC
AGGCTTCGTGCCGGTGATGTGTATTCAGGCCTTCGTGCCGGTGATGTG
Found at i:97865317 original size:45 final size:44
Alignment explanation
Indices: 97865241--97865358 Score: 118
Period size: 45 Copynumber: 2.7 Consensus size: 44
97865231 TTATTTGAGC
* * ** *
97865241 CTTT-GAGCTTAGCAGACTATAATGCTAGTGAAAT-ACTATTCGGG
1 CTTTCGAGCCTAGCAGGCTATAATGCCGGTGAAATGA-TA-TCAGG
97865285 CTTTCGAGCCTAGCAGGCTATAATGCCGGTGAAATGATATCAGG
1 CTTTCGAGCCTAGCAGGCTATAATGCCGGTGAAATGATATCAGG
* * *
97865329 C-CTCGAGCCTAGCAAGCGA-AATGCCGGTGA
1 CTTTCGAGCCTAGCAGGCTATAATGCCGGTGA
97865359 TTTGAGAAAA
Statistics
Matches: 64, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
42 11 0.17
43 15 0.23
44 9 0.14
45 28 0.44
46 1 0.02
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.25
Consensus pattern (44 bp):
CTTTCGAGCCTAGCAGGCTATAATGCCGGTGAAATGATATCAGG
Found at i:97871972 original size:12 final size:12
Alignment explanation
Indices: 97871955--97871980 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
97871945 ATTGAATTTC
97871955 AATTAATTTTAT
1 AATTAATTTTAT
97871967 AATTAATTTTAT
1 AATTAATTTTAT
97871979 AA
1 AA
97871981 ATTTTTATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (12 bp):
AATTAATTTTAT
Found at i:97876934 original size:18 final size:17
Alignment explanation
Indices: 97876901--97876939 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
97876891 TTGTATAAAT
97876901 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
97876919 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
97876936 TGTG
1 TGTG
97876940 GAAGGAAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:97877192 original size:23 final size:23
Alignment explanation
Indices: 97877165--97877262 Score: 153
Period size: 23 Copynumber: 4.3 Consensus size: 23
97877155 AGTGTTATTG
97877165 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
97877188 TTCAGTGGTAGCTTTGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
97877211 -CCAGTGGTAGCTTTGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
97877233 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
97877256 ATCAGTG
1 ATCAGTG
97877263 TGGCACTTAT
Statistics
Matches: 69, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
22 21 0.30
23 48 0.70
ACGTcount: A:0.20, C:0.20, G:0.27, T:0.33
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:97877231 original size:45 final size:45
Alignment explanation
Indices: 97877167--97877255 Score: 151
Period size: 45 Copynumber: 2.0 Consensus size: 45
97877157 TGTTATTGAT
* *
97877167 CAGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTTTGGCTACATC
1 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACATC
*
97877212 CAGTGGTAGCTTTGGCTACATATCAGTGGTAGCTTCGGCTACAT
1 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
97877256 ATCAGTGTGG
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.19, C:0.21, G:0.27, T:0.33
Consensus pattern (45 bp):
CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACATC
Found at i:97880170 original size:21 final size:21
Alignment explanation
Indices: 97880146--97880187 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
97880136 GAATTTAGCA
97880146 TCAATTTAATACAATTCATAT
1 TCAATTTAATACAATTCATAT
*
97880167 TCAATTTAATCCAATTCATAT
1 TCAATTTAATACAATTCATAT
97880188 CTTAGGAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.40, C:0.17, G:0.00, T:0.43
Consensus pattern (21 bp):
TCAATTTAATACAATTCATAT
Found at i:97882245 original size:27 final size:27
Alignment explanation
Indices: 97882197--97882355 Score: 184
Period size: 27 Copynumber: 5.9 Consensus size: 27
97882187 GCGAGGCTGC
* *
97882197 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
97882224 CAGATATTGTGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
97882250 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* * *
97882277 CAGATAATCGTGGCATAACCACCAGA-A
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
97882304 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
*
97882331 CAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
97882356 GACGCTTCCT
Statistics
Matches: 115, Mismatches: 9, Indels: 16
0.82 0.06 0.11
Matches are distributed among these distances:
26 10 0.09
27 100 0.87
28 5 0.04
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.18
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:97882290 original size:54 final size:54
Alignment explanation
Indices: 97882215--97882355 Score: 239
Period size: 54 Copynumber: 2.6 Consensus size: 54
97882205 GTGACGAAGT
*
97882215 CACCAGATACAGAT-ATTGTGGCAGAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGAT-CAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
* *
97882269 CACCAGATCAGATAATCGTGGCATAACCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
97882323 CACCAGATCAGATAATTGTGGCATAGCCACCAG
1 CACCAGATCAGATAATTGTGGCATAGCCACCAG
97882356 GACGCTTCCT
Statistics
Matches: 81, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
53 5 0.06
54 76 0.94
ACGTcount: A:0.35, C:0.24, G:0.23, T:0.17
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
Found at i:97882523 original size:28 final size:26
Alignment explanation
Indices: 97882461--97882534 Score: 85
Period size: 28 Copynumber: 2.8 Consensus size: 26
97882451 AAATTAACCC
** * *
97882461 TAGGGGTATAACGGTAATTTTGCACC
1 TAGGGGTATAATAGTAATTTTCCACA
97882487 TAGGGGTATAATAGTAATTTTCCATACA
1 TAGGGGTATAATAGTAATTTTCC--ACA
*
97882515 TAGGGGTATTATAGTAATTT
1 TAGGGGTATAATAGTAATTT
97882535 AGCTGCTTTT
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
26 20 0.49
28 21 0.51
ACGTcount: A:0.31, C:0.09, G:0.23, T:0.36
Consensus pattern (26 bp):
TAGGGGTATAATAGTAATTTTCCACA
Found at i:97884011 original size:26 final size:26
Alignment explanation
Indices: 97883975--97884083 Score: 182
Period size: 26 Copynumber: 4.2 Consensus size: 26
97883965 ATGAAATTCC
*
97883975 TATCATGGAACATTTACCTAAACCAT
1 TATCATGGAACATTTACCTAACCCAT
97884001 TATCATGGAACATTTACCTAACCCAT
1 TATCATGGAACATTTACCTAACCCAT
* * *
97884027 TCTCATGGAATATTTACCTAATCCAT
1 TATCATGGAACATTTACCTAACCCAT
97884053 TATCATGGAACATTTACCTAACCCAT
1 TATCATGGAACATTTACCTAACCCAT
97884079 TATCA
1 TATCA
97884084 ATTTGTATCA
Statistics
Matches: 76, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 76 1.00
ACGTcount: A:0.35, C:0.25, G:0.07, T:0.33
Consensus pattern (26 bp):
TATCATGGAACATTTACCTAACCCAT
Found at i:97889938 original size:55 final size:55
Alignment explanation
Indices: 97889825--97889940 Score: 135
Period size: 55 Copynumber: 2.1 Consensus size: 55
97889815 CGGGTGCTAG
* ** * *
97889825 ACACGGGCGTGTCACACACCCGTGCTGTTTTAACAGGTTCATGCACGATTTTTCC
1 ACACGGGCGTGTCACACACCCGTGCTGTTTTAACAGGCTCAACCACGATATGTCC
* * * *
97889880 ACACGGGCGTGTCGCACGCCCGTGTTGTTTTGACAGGCTCAACCACGACTATGT-C
1 ACACGGGCGTGTCACACACCCGTGCTGTTTTAACAGGCTCAACCACGA-TATGTCC
97889935 ACACGG
1 ACACGG
97889941 CCATGGCGTT
Statistics
Matches: 51, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
55 48 0.94
56 3 0.06
ACGTcount: A:0.20, C:0.30, G:0.25, T:0.25
Consensus pattern (55 bp):
ACACGGGCGTGTCACACACCCGTGCTGTTTTAACAGGCTCAACCACGATATGTCC
Found at i:97899442 original size:72 final size:73
Alignment explanation
Indices: 97899366--97899510 Score: 247
Period size: 73 Copynumber: 2.0 Consensus size: 73
97899356 AGTTATTAAA
* *
97899366 AATAAAATAATCCCGAAAAGAAAT-AAAGAAAAGTTAAAATGGCCTTATTACAACCCAAAAATAA
1 AATAAAATAATCCCGAAAAGAAATAAAAGAAAAGTTAAAATGACATTATTACAACCCAAAAATAA
97899430 ATAATAAT
66 ATAATAAT
* *
97899438 AATAAAATAATCTCTAAAAGAAATAAAAGAAAAGTTAAAATGACATTATTACAACCCAAAAATAA
1 AATAAAATAATCCCGAAAAGAAATAAAAGAAAAGTTAAAATGACATTATTACAACCCAAAAATAA
97899503 ATAATAAT
66 ATAATAAT
97899511 TAAAGGAAAT
Statistics
Matches: 68, Mismatches: 4, Indels: 1
0.93 0.05 0.01
Matches are distributed among these distances:
72 22 0.32
73 46 0.68
ACGTcount: A:0.60, C:0.11, G:0.07, T:0.22
Consensus pattern (73 bp):
AATAAAATAATCCCGAAAAGAAATAAAAGAAAAGTTAAAATGACATTATTACAACCCAAAAATAA
ATAATAAT
Found at i:97900034 original size:24 final size:24
Alignment explanation
Indices: 97899997--97900145 Score: 226
Period size: 24 Copynumber: 6.1 Consensus size: 24
97899987 GCCTAGCCTC
* *
97899997 TTTATATAACTGGGGCAAAAGCCTT
1 TTTA-ATAACTGGGGCATAAGCCCT
*
97900022 TTTAATAACTGGGGCATAAACCCT
1 TTTAATAACTGGGGCATAAGCCCT
* *
97900046 TTTGATAACTGGGGCGTAAGCCCCT
1 TTTAATAACTGGGGCATAAG-CCCT
*
97900071 TTTAATAACTGGGGCATAAGCCGT
1 TTTAATAACTGGGGCATAAGCCCT
97900095 TTTAATAACTGGGGCATAAGCCCT
1 TTTAATAACTGGGGCATAAGCCCT
97900119 TTTAATAACTGGGGCATAAGCCCT
1 TTTAATAACTGGGGCATAAGCCCT
97900143 TTT
1 TTT
97900146 GCACTTCCTC
Statistics
Matches: 113, Mismatches: 10, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
24 87 0.77
25 26 0.23
ACGTcount: A:0.28, C:0.19, G:0.21, T:0.31
Consensus pattern (24 bp):
TTTAATAACTGGGGCATAAGCCCT
Found at i:97900098 original size:73 final size:73
Alignment explanation
Indices: 97899997--97900145 Score: 237
Period size: 73 Copynumber: 2.0 Consensus size: 73
97899987 GCCTAGCCTC
* * *
97899997 TTTATATAACTGGGGCAAAAGCCTTTTTAATAACTGGGGCATAAACCCTTTTGATAACTGGGGCG
1 TTTATATAACTGGGGCAAAAGCCGTTTTAATAACTGGGGCATAAACCCTTTTAATAACTGGGGCA
97900062 TAAGCCCCT
66 TAAG-CCCT
* *
97900071 TTTA-ATAACTGGGGCATAAGCCGTTTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCA
1 TTTATATAACTGGGGCAAAAGCCGTTTTAATAACTGGGGCATAAACCCTTTTAATAACTGGGGCA
97900135 TAAGCCCT
66 TAAGCCCT
97900143 TTT
1 TTT
97900146 GCACTTCCTC
Statistics
Matches: 70, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
72 7 0.10
73 59 0.84
74 4 0.06
ACGTcount: A:0.28, C:0.19, G:0.21, T:0.31
Consensus pattern (73 bp):
TTTATATAACTGGGGCAAAAGCCGTTTTAATAACTGGGGCATAAACCCTTTTAATAACTGGGGCA
TAAGCCCT
Found at i:97900220 original size:20 final size:20
Alignment explanation
Indices: 97900195--97900261 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
97900185 TTATTAATAC
97900195 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
97900215 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
* *
97900235 GTCATGTGCGTATCATACAT
1 ATCATGTGCATATCATACAT
*
97900255 ACCATGT
1 ATCATGT
97900262 CTATCAAAAT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.31, C:0.21, G:0.13, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:97903802 original size:40 final size:40
Alignment explanation
Indices: 97903735--97903911 Score: 234
Period size: 40 Copynumber: 4.5 Consensus size: 40
97903725 ACCCAAGTAT
*
97903735 CTTCGGGAT-TTAG-CCGGATATAACAACTCGCACAAATGC
1 CTTCGGG-TCTTAGCCCGGATATAGCAACTCGCACAAATGC
97903774 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
* * *
97903814 CTTCGGGTCTTAGCCCGGATATAATC-ACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATAT-AGCAACTCGCACAAATGC
* * *
97903854 CTTCGGGACATAGCCCGGATATAGCAACTCGCACGAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
* *
97903894 CTTCGGATCTTAGTCCGG
1 CTTCGGGTCTTAGCCCGG
97903912 TTATCATCCG
Statistics
Matches: 120, Mismatches: 14, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
38 1 0.01
39 13 0.11
40 104 0.87
41 2 0.02
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
Found at i:97911319 original size:24 final size:24
Alignment explanation
Indices: 97911287--97911459 Score: 247
Period size: 24 Copynumber: 7.2 Consensus size: 24
97911277 GCCTAGCCTT
*
97911287 TTTTAATAACTGGGGCAAAAGCCC
1 TTTTAATAACTGGGGCATAAGCCC
*
97911311 TTTTAATAACTGAGGCATAAGCCC
1 TTTTAATAACTGGGGCATAAGCCC
* * *
97911335 TTTTGATAACTGGGGCGTAAACCC
1 TTTTAATAACTGGGGCATAAGCCC
* *
97911359 TTTTTAATAACTGAGGCGTAAGCCC
1 -TTTTAATAACTGGGGCATAAGCCC
* *
97911384 TTTTAATAACTGGGGCGTAAGCTC
1 TTTTAATAACTGGGGCATAAGCCC
*
97911408 TTTTAATAATTGGGGCATAAGCCC
1 TTTTAATAACTGGGGCATAAGCCC
97911432 TTTTAATAACTGGGGCATAAGCCC
1 TTTTAATAACTGGGGCATAAGCCC
97911456 TTTT
1 TTTT
97911460 GCACTTCCTC
Statistics
Matches: 133, Mismatches: 15, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
24 112 0.84
25 21 0.16
ACGTcount: A:0.28, C:0.19, G:0.21, T:0.32
Consensus pattern (24 bp):
TTTTAATAACTGGGGCATAAGCCC
Found at i:97911534 original size:20 final size:20
Alignment explanation
Indices: 97911509--97911575 Score: 98
Period size: 20 Copynumber: 3.4 Consensus size: 20
97911499 TTATGAATAC
97911509 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
97911529 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
* * *
97911549 GTTATGTGCGTATCATACAT
1 ATCATGTGCATATCATACAT
*
97911569 ACCATGT
1 ATCATGT
97911576 CTATCAAAAT
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.31, C:0.19, G:0.13, T:0.36
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:97911640 original size:25 final size:25
Alignment explanation
Indices: 97911612--97911661 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
97911602 ATATATAAAC
* *
97911612 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAATGGTCATTTTTA
97911637 CCTAGGGGCAAAATGGTCATTTTTA
1 CCTAGGGGCAAAATGGTCATTTTTA
97911662 TATTATAAGG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.26, C:0.14, G:0.24, T:0.36
Consensus pattern (25 bp):
CCTAGGGGCAAAATGGTCATTTTTA
Found at i:97915912 original size:24 final size:24
Alignment explanation
Indices: 97915853--97915917 Score: 71
Period size: 24 Copynumber: 2.8 Consensus size: 24
97915843 TCGAATTCTC
* *
97915853 TTATTTTCCC-CTCT-TTTTCTTT
1 TTATTTTCCCACTTTCTTTTATTT
* *
97915875 TGATTTTTCTCACTTTCTTTTATTT
1 TTA-TTTTCCCACTTTCTTTTATTT
97915900 TTATTTTCCCACTTTCTT
1 TTATTTTCCCACTTTCTT
97915918 CCTTCAAACG
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
22 2 0.06
23 6 0.18
24 17 0.50
25 9 0.26
ACGTcount: A:0.09, C:0.23, G:0.02, T:0.66
Consensus pattern (24 bp):
TTATTTTCCCACTTTCTTTTATTT
Found at i:97924308 original size:38 final size:39
Alignment explanation
Indices: 97924255--97924328 Score: 114
Period size: 38 Copynumber: 1.9 Consensus size: 39
97924245 TTGGTTTTAG
*
97924255 CTTCATCTAATCATAAACAACAAACTAATT-AGAGATGA
1 CTTCATCTAAACATAAACAACAAACTAATTAAGAGATGA
* *
97924293 CTTCATCTAAACATAATCAATAAACTAATTAAGAGA
1 CTTCATCTAAACATAAACAACAAACTAATTAAGAGA
97924329 GAATTTTATT
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
38 27 0.84
39 5 0.16
ACGTcount: A:0.49, C:0.18, G:0.07, T:0.27
Consensus pattern (39 bp):
CTTCATCTAAACATAAACAACAAACTAATTAAGAGATGA
Found at i:97926985 original size:13 final size:13
Alignment explanation
Indices: 97926932--97926986 Score: 74
Period size: 13 Copynumber: 4.2 Consensus size: 13
97926922 TTTAAACTAA
97926932 ATTTTTCAAAAGC
1 ATTTTTCAAAAGC
* * *
97926945 ACTTCTGAAAAGC
1 ATTTTTCAAAAGC
*
97926958 ACTTTTCAAAAGC
1 ATTTTTCAAAAGC
97926971 ATTTTTCAAAAGC
1 ATTTTTCAAAAGC
97926984 ATT
1 ATT
97926987 GCTAAACTAG
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 36 1.00
ACGTcount: A:0.38, C:0.18, G:0.09, T:0.35
Consensus pattern (13 bp):
ATTTTTCAAAAGC
Found at i:97928123 original size:42 final size:42
Alignment explanation
Indices: 97928064--97928190 Score: 254
Period size: 42 Copynumber: 3.0 Consensus size: 42
97928054 CTAGGTGAAG
97928064 GGACCAAGAGCGAGTTTTAGGAGGATAGAGAATGGAAGAATA
1 GGACCAAGAGCGAGTTTTAGGAGGATAGAGAATGGAAGAATA
97928106 GGACCAAGAGCGAGTTTTAGGAGGATAGAGAATGGAAGAATA
1 GGACCAAGAGCGAGTTTTAGGAGGATAGAGAATGGAAGAATA
97928148 GGACCAAGAGCGAGTTTTAGGAGGATAGAGAATGGAAGAATA
1 GGACCAAGAGCGAGTTTTAGGAGGATAGAGAATGGAAGAATA
97928190 G
1 G
97928191 AAAAAAAGGG
Statistics
Matches: 85, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 85 1.00
ACGTcount: A:0.40, C:0.07, G:0.36, T:0.17
Consensus pattern (42 bp):
GGACCAAGAGCGAGTTTTAGGAGGATAGAGAATGGAAGAATA
Found at i:97929274 original size:14 final size:14
Alignment explanation
Indices: 97929255--97929308 Score: 58
Period size: 14 Copynumber: 3.8 Consensus size: 14
97929245 GTCATTTATG
97929255 AAATATCTA-AAAAT
1 AAATAT-TATAAAAT
97929269 AAATATTATAAAAT
1 AAATATTATAAAAT
*
97929283 AAA-ATTGATATAAT
1 AAATATT-ATAAAAT
97929297 AAAATATTATAA
1 -AAATATTATAA
97929309 TAAAAATAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
13 5 0.15
14 20 0.59
15 6 0.18
16 3 0.09
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (14 bp):
AAATATTATAAAAT
Found at i:97929746 original size:46 final size:46
Alignment explanation
Indices: 97929679--97929766 Score: 140
Period size: 46 Copynumber: 1.9 Consensus size: 46
97929669 AATGATTTTT
* *
97929679 GCATTAATTTTATCAAAGAGCTTAGAAGTGTCATCGCAACCTATGA
1 GCATTAATCTTATCAAAGAGCTTAGAAGTGTCATCCCAACCTATGA
* *
97929725 GCATTAATCTTCTCAAGGAGCTTAGAAGTGTCATCCCAACCT
1 GCATTAATCTTATCAAAGAGCTTAGAAGTGTCATCCCAACCT
97929767 TTCAGGAAAC
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 38 1.00
ACGTcount: A:0.32, C:0.22, G:0.17, T:0.30
Consensus pattern (46 bp):
GCATTAATCTTATCAAAGAGCTTAGAAGTGTCATCCCAACCTATGA
Found at i:97931148 original size:14 final size:15
Alignment explanation
Indices: 97931131--97931163 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
97931121 ACCTTAGCTT
97931131 TAAATACT-TAAAAA
1 TAAATACTATAAAAA
*
97931145 TAAATATTATAAAAA
1 TAAATACTATAAAAA
97931160 TAAA
1 TAAA
97931164 ATTGACATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 7 0.41
15 10 0.59
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (15 bp):
TAAATACTATAAAAA
Found at i:97943226 original size:53 final size:55
Alignment explanation
Indices: 97943135--97943250 Score: 166
Period size: 53 Copynumber: 2.1 Consensus size: 55
97943125 TTGACGGAAA
* *
97943135 ATATGCGATAATGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTAT-
1 ATATGTGATAATGTGACTCCGTATAAGACCATAGCTGGGATATGGCATCGGTATG
* *
97943189 A-ATGTGATAATGTGATTCCGTATAAGACCAT-GTCTGGGATATGGCTTCGGTATG
1 ATATGTGATAATGTGACTCCGTATAAGACCATAG-CTGGGATATGGCATCGGTATG
97943243 ATATGTGA
1 ATATGTGA
97943251 ACCGTGTAAG
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
52 1 0.02
53 46 0.84
54 2 0.04
55 6 0.11
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.31
Consensus pattern (55 bp):
ATATGTGATAATGTGACTCCGTATAAGACCATAGCTGGGATATGGCATCGGTATG
Found at i:97950038 original size:53 final size:55
Alignment explanation
Indices: 97949947--97950062 Score: 166
Period size: 53 Copynumber: 2.1 Consensus size: 55
97949937 TTGACGGAAA
* *
97949947 ATATGCGATAATGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTAT-
1 ATATGTGATAATGTGACTCCGTATAAGACCATAGCTGGGATATGGCATCGGTATG
* *
97950001 A-ATGTGATAATGTGATTCCGTATAAGACCAT-GTCTGGGATATGGCTTCGGTATG
1 ATATGTGATAATGTGACTCCGTATAAGACCATAG-CTGGGATATGGCATCGGTATG
97950055 ATATGTGA
1 ATATGTGA
97950063 ACCGTGTAAG
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
52 1 0.02
53 46 0.84
54 2 0.04
55 6 0.11
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.31
Consensus pattern (55 bp):
ATATGTGATAATGTGACTCCGTATAAGACCATAGCTGGGATATGGCATCGGTATG
Found at i:97951992 original size:25 final size:24
Alignment explanation
Indices: 97951929--97952041 Score: 108
Period size: 22 Copynumber: 4.8 Consensus size: 24
97951919 GTTCCTGGCA
** *
97951929 TGCTAAATATCAGAGAGCACAAATG
1 TGCT-AATATCAGAGAGCACTGACG
*
97951954 TGCT-A-ATCAGAGAGCACTGGCG
1 TGCTAATATCAGAGAGCACTGACG
** *
97951976 TGCTAAATATCAGAGAGCACAAATG
1 TGCT-AATATCAGAGAGCACTGACG
97952001 TGCT-A-ATCAGAGAGCACTGACG
1 TGCTAATATCAGAGAGCACTGACG
97952023 TGCTAATATTCAGAGAGCA
1 TGCTAATA-TCAGAGAGCA
97952042 TGTTGAAGTC
Statistics
Matches: 71, Mismatches: 11, Indels: 12
0.76 0.12 0.13
Matches are distributed among these distances:
22 35 0.49
23 3 0.04
24 2 0.03
25 31 0.44
ACGTcount: A:0.37, C:0.19, G:0.24, T:0.20
Consensus pattern (24 bp):
TGCTAATATCAGAGAGCACTGACG
Found at i:97951992 original size:47 final size:47
Alignment explanation
Indices: 97951923--97952041 Score: 204
Period size: 47 Copynumber: 2.5 Consensus size: 47
97951913 AGGTTTGTTC
*
97951923 CTGGCATGCTAAATATCAGAGAGCACAAATGTGCTAATCAGAGAGCA
1 CTGGCGTGCTAAATATCAGAGAGCACAAATGTGCTAATCAGAGAGCA
97951970 CTGGCGTGCTAAATATCAGAGAGCACAAATGTGCTAATCAGAGAGCA
1 CTGGCGTGCTAAATATCAGAGAGCACAAATGTGCTAATCAGAGAGCA
*
97952017 CTGACGTGCT-AATATTCAGAGAGCA
1 CTGGCGTGCTAAATA-TCAGAGAGCA
97952042 TGTTGAAGTC
Statistics
Matches: 69, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
46 4 0.06
47 65 0.94
ACGTcount: A:0.36, C:0.19, G:0.24, T:0.20
Consensus pattern (47 bp):
CTGGCGTGCTAAATATCAGAGAGCACAAATGTGCTAATCAGAGAGCA
Found at i:97960383 original size:27 final size:26
Alignment explanation
Indices: 97960325--97960383 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 26
97960315 AGTGTCTTGG
97960325 CAGACTACCCTTGTTTATAGTCCCAA
1 CAGACTACCCTTGTTTATAGTCCCAA
* *
97960351 CGGACTACCCCGTT-TTTATTGTCCCAA
1 CAGACTA-CCC-TTGTTTATAGTCCCAA
*
97960378 TAGACT
1 CAGACT
97960384 TTCTATGTTG
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
26 6 0.22
27 19 0.70
28 2 0.07
ACGTcount: A:0.24, C:0.31, G:0.14, T:0.32
Consensus pattern (26 bp):
CAGACTACCCTTGTTTATAGTCCCAA
Found at i:97960473 original size:67 final size:67
Alignment explanation
Indices: 97960402--97960829 Score: 427
Period size: 67 Copynumber: 6.4 Consensus size: 67
97960392 TGTTGTATTT
* * * *
97960402 GAGCTAGGGTTTTACACATTATACCCCATGTTTAATGTCCCGGTGGACTCTCTATGTTGCCATAG
1 GAGCTATGGTCTTACACATCATACCCCATGTTTAATGTCCTGGTGGACTCTCTATGTTGCCATAG
97960467 TC
66 TC
* * * * *
97960469 GAGCTATGGTCTTACACATCAAACCCTATGTTTAATGTCCTGGCAGGA-TCTCTATTTTGTCATA
1 GAGCTATGGTCTTACACATCATACCCCATGTTTAATGTCCTGG-TGGACTCTCTATGTTGCCATA
*
97960533 GCC
65 GTC
* * * * *** * * *
97960536 GAGCTA-GGCTCTTACACACCATACCCTATGTTTAATAAT-CTAGCATACTTTCTTTGTTACCAT
1 GAGCTATGG-TCTTACACATCATACCCCATGTTTAAT-GTCCTGGTGGACTCTCTATGTTGCCAT
97960599 AGTC
64 AGTC
* * * *
97960603 GAGCTATGGTCTTACACATCATACCCCATTTTTAATGTACTGGTAGACTCACTATGTTGCCATA-
1 GAGCTATGGTCTTACACATCATACCCCATGTTTAATGTCCTGGTGGACTCTCTATGTTGCCATAG
*
97960667 AC
66 TC
* * * *
97960669 GAAGCTAGGGTCTTACACATTATACCCCATGTTTAATGTCATGGTGGACTCT-TAATGTTGTCAT
1 G-AGCTATGGTCTTACACATCATACCCCATGTTTAATGTCCTGGTGGACTCTCT-ATGTTGCCAT
97960733 AGTC
64 AGTC
* * * * * *
97960737 GAGTTATGGTCTTACACACCATACCTCATGTTTAATGTCCT-ATGGACTCTCTATGTTGTCATAA
1 GAGCTATGGTCTTACACATCATACCCCATGTTTAATGTCCTGGTGGACTCTCTATGTTGCCATAG
97960801 TC
66 TC
* * *
97960803 GAGCTATGGACTTATACATTATACCCC
1 GAGCTATGGTCTTACACATCATACCCC
97960830 TTTATAGCCC
Statistics
Matches: 293, Mismatches: 58, Indels: 21
0.79 0.16 0.06
Matches are distributed among these distances:
66 49 0.17
67 236 0.81
68 8 0.03
ACGTcount: A:0.25, C:0.23, G:0.17, T:0.35
Consensus pattern (67 bp):
GAGCTATGGTCTTACACATCATACCCCATGTTTAATGTCCTGGTGGACTCTCTATGTTGCCATAG
TC
Found at i:97960732 original size:201 final size:201
Alignment explanation
Indices: 97960402--97960772 Score: 500
Period size: 201 Copynumber: 1.8 Consensus size: 201
97960392 TGTTGTATTT
* * * * *
97960402 GAGCTAGGGTTTTACACATTATACCCCATGTTTAATGTCCCGGTGGACTCTCTATGTTGCCATAG
1 GAGCTAGGGTCTTACACATCATACCCCATGTTTAATGTACCGGTAGACTCACTATGTTGCCATAG
* * * * *
97960467 TCGAGCTATGGTCTTACACATCAAACCCTATGTTTAATGTCCTGGCAGGATCTCTATTTTGTCAT
66 ACGAGCTAGGGTCTTACACATCAAACCCCATGTTTAATGTCATGGCAGGATCTCTATGTTGTCAT
97960532 AGCCGAGCTA-GGCTCTTACACACCATACC-CTATGTTTAATAATCTAGCATACTTTCTTTGTTA
131 AGCCGAGCTATGG-TCTTACACACCATACCTC-ATGTTTAATAATCTAGCATACTTTCTTTGTTA
97960595 CCATAGTC
194 CCATAGTC
* * *
97960603 GAGCTATGGTCTTACACATCATACCCCATTTTTAATGTACTGGTAGACTCACTATGTTGCCATA-
1 GAGCTAGGGTCTTACACATCATACCCCATGTTTAATGTACCGGTAGACTCACTATGTTGCCATAG
* * *
97960667 ACGAAGCTAGGGTCTTACACATTATACCCCATGTTTAATGTCATGG-TGGA-CTCTTAATGTTGT
66 ACG-AGCTAGGGTCTTACACATCAAACCCCATGTTTAATGTCATGGCAGGATCTC-T-ATGTTGT
* *
97960730 CATAGTCGAGTTATGGTCTTACACACCATACCTCATGTTTAAT
128 CATAGCCGAGCTATGGTCTTACACACCATACCTCATGTTTAAT
97960773 GTCCTATGGA
Statistics
Matches: 147, Mismatches: 18, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
199 3 0.02
200 6 0.04
201 135 0.92
202 3 0.02
ACGTcount: A:0.25, C:0.23, G:0.17, T:0.35
Consensus pattern (201 bp):
GAGCTAGGGTCTTACACATCATACCCCATGTTTAATGTACCGGTAGACTCACTATGTTGCCATAG
ACGAGCTAGGGTCTTACACATCAAACCCCATGTTTAATGTCATGGCAGGATCTCTATGTTGTCAT
AGCCGAGCTATGGTCTTACACACCATACCTCATGTTTAATAATCTAGCATACTTTCTTTGTTACC
ATAGTC
Found at i:97965781 original size:104 final size:104
Alignment explanation
Indices: 97965601--97965808 Score: 382
Period size: 104 Copynumber: 2.0 Consensus size: 104
97965591 TGAAAAGTGG
*
97965601 CACCTTCATGGTCTTCAGGGTGTGCTTGGTTGAATAGAAAAATGGAAAGAAAATGTTAAATTCTA
1 CACCTACATGGTCTTCAGGGTGTGCTTGGTTGAATAGAAAAATGGAAAGAAAATGTTAAATTCTA
97965666 CCATTAGTCCCATTACTTATGAAAA-TTGTGATTTAGTCA
66 CCATTAGTCCCATTACTTAT-AAAAGTTGTGATTTAGTCA
*
97965705 CACCTACATGGTCTTCAGGGTGTGCTTGGTTGAATAGAAAAGTGGAAAGAAAATGTTAAATTCTA
1 CACCTACATGGTCTTCAGGGTGTGCTTGGTTGAATAGAAAAATGGAAAGAAAATGTTAAATTCTA
97965770 CCATTAGTCCCATTACTTATAAAAGTTGTGATTTAGTCA
66 CCATTAGTCCCATTACTTATAAAAGTTGTGATTTAGTCA
97965809 TTGTACTTTA
Statistics
Matches: 101, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
103 4 0.04
104 97 0.96
ACGTcount: A:0.33, C:0.14, G:0.20, T:0.33
Consensus pattern (104 bp):
CACCTACATGGTCTTCAGGGTGTGCTTGGTTGAATAGAAAAATGGAAAGAAAATGTTAAATTCTA
CCATTAGTCCCATTACTTATAAAAGTTGTGATTTAGTCA
Found at i:97973288 original size:18 final size:16
Alignment explanation
Indices: 97973265--97973309 Score: 56
Period size: 15 Copynumber: 2.8 Consensus size: 16
97973255 TCTTTCATTG
97973265 AATCCCTAACAATCTTCA
1 AATCCCT-A-AATCTTCA
97973283 AATCCCTAAATCTTC-
1 AATCCCTAAATCTTCA
*
97973298 AATACCTAAATC
1 AATCCCTAAATC
97973310 ATTAGCATTC
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
15 11 0.42
16 7 0.27
17 1 0.04
18 7 0.27
ACGTcount: A:0.40, C:0.31, G:0.00, T:0.29
Consensus pattern (16 bp):
AATCCCTAAATCTTCA
Found at i:97973703 original size:117 final size:117
Alignment explanation
Indices: 97973495--97973705 Score: 323
Period size: 117 Copynumber: 1.8 Consensus size: 117
97973485 TTTGATTTGT
* * * * * *
97973495 TGGTTATTTGTGATTTAGTATTGCAATTTGAGTGCGACAATGTAGGGTTTGTTTTGTCAATTTTT
1 TGGTTAATTGTGATTTAGTATTGCAATTTCAATGCCAAAATGTAGGGTTTGTTTTGTCAATTTGT
* *
97973560 GATGCGATAATGGTCTCGATGTTGTTGATAAAACTGTTGTAAAATTTGTAGA
66 GATGCGATAATGGTCCCGATGATGTTGATAAAACTGTTGTAAAATTTGTAGA
* *
97973612 TGGTTAATTGTGATTTATTATTGCAATTTCAATGCCAAAATGTAGGGTTTGTTTTGTCGATTTGT
1 TGGTTAATTGTGATTTAGTATTGCAATTTCAATGCCAAAATGTAGGGTTTGTTTTGTCAATTTGT
*
97973677 GATGCGATAGTGGTCCCGATGATGTTGAT
66 GATGCGATAATGGTCCCGATGATGTTGAT
97973706 TTCTGTTACC
Statistics
Matches: 83, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
117 83 1.00
ACGTcount: A:0.24, C:0.08, G:0.25, T:0.43
Consensus pattern (117 bp):
TGGTTAATTGTGATTTAGTATTGCAATTTCAATGCCAAAATGTAGGGTTTGTTTTGTCAATTTGT
GATGCGATAATGGTCCCGATGATGTTGATAAAACTGTTGTAAAATTTGTAGA
Found at i:97977584 original size:51 final size:51
Alignment explanation
Indices: 97977508--97977658 Score: 239
Period size: 51 Copynumber: 3.0 Consensus size: 51
97977498 GTGCAGCAGT
*
97977508 AACATTATCCAGTCCATCTGATGTTGCAAAATCACCAGCATATTCATTAGC
1 AACATTATCCACTCCATCTGATGTTGCAAAATCACCAGCATATTCATTAGC
* * *
97977559 AACATTATCCACTCCATCTGATGTTGCAAAATCACCAACATATTTATCAGC
1 AACATTATCCACTCCATCTGATGTTGCAAAATCACCAGCATATTCATTAGC
* * *
97977610 AACATTATCCACTCCATCTGACGCTACAAAATCACCAGCATATTCATTA
1 AACATTATCCACTCCATCTGATGTTGCAAAATCACCAGCATATTCATTA
97977659 CCAGCAACTT
Statistics
Matches: 90, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
51 90 1.00
ACGTcount: A:0.35, C:0.28, G:0.09, T:0.28
Consensus pattern (51 bp):
AACATTATCCACTCCATCTGATGTTGCAAAATCACCAGCATATTCATTAGC
Found at i:97977821 original size:33 final size:33
Alignment explanation
Indices: 97977784--97977853 Score: 79
Period size: 33 Copynumber: 2.1 Consensus size: 33
97977774 TATCAGCTTG
*
97977784 TACCTCTCCTACATCACCCTTC-CCACCAGATTC
1 TACCTCTCCTAAATCA-CCTTCACCACCAGATTC
* * * *
97977817 TACCTTTTCTAAATCATCTTCACCATCAGATTC
1 TACCTCTCCTAAATCACCTTCACCACCAGATTC
97977850 TACC
1 TACC
97977854 CCTTCATTAT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
32 4 0.13
33 27 0.87
ACGTcount: A:0.24, C:0.40, G:0.03, T:0.33
Consensus pattern (33 bp):
TACCTCTCCTAAATCACCTTCACCACCAGATTC
Found at i:97978910 original size:18 final size:16
Alignment explanation
Indices: 97978868--97978913 Score: 65
Period size: 16 Copynumber: 2.8 Consensus size: 16
97978858 GAATGCTAAC
*
97978868 GATTTAGGTATTTGAA
1 GATTTAGGGATTTGAA
97978884 GATTTAGGGATTTGAA
1 GATTTAGGGATTTGAA
97978900 GATTGTTAGGGATT
1 GA-T-TTAGGGATT
97978914 CAATGAAAGA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
16 17 0.63
17 1 0.04
18 9 0.33
ACGTcount: A:0.28, C:0.00, G:0.30, T:0.41
Consensus pattern (16 bp):
GATTTAGGGATTTGAA
Found at i:97986506 original size:38 final size:38
Alignment explanation
Indices: 97986464--97986539 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
97986454 GCGAAAGGAG
97986464 TTGTGCTTGAACTTGGTAGTTGGATCGGTAAGAAAAAA
1 TTGTGCTTGAACTTGGTAGTTGGATCGGTAAGAAAAAA
97986502 TTGTGCTTGAACTTGGTAGTTGGATCGGTAAGAAAAAA
1 TTGTGCTTGAACTTGGTAGTTGGATCGGTAAGAAAAAA
97986540 ATTAAGGTAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.32, C:0.08, G:0.29, T:0.32
Consensus pattern (38 bp):
TTGTGCTTGAACTTGGTAGTTGGATCGGTAAGAAAAAA
Found at i:97993089 original size:18 final size:19
Alignment explanation
Indices: 97993042--97993091 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 19
97993032 TAGTCTGTTT
97993042 AAACAA-AAGTTTAACATAG
1 AAACAATAA-TTTAACATAG
* *
97993061 TAACCATAATTTAACATA-
1 AAACAATAATTTAACATAG
97993079 AAACAATAATTTA
1 AAACAATAATTTA
97993092 CTCCTTCATT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
18 11 0.42
19 13 0.50
20 2 0.08
ACGTcount: A:0.56, C:0.12, G:0.04, T:0.28
Consensus pattern (19 bp):
AAACAATAATTTAACATAG
Found at i:97995717 original size:18 final size:17
Alignment explanation
Indices: 97995696--97995730 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
97995686 CTTCCATTTT
97995696 CTCTTAATTTTTCTTCTC
1 CTCTT-ATTTTTCTTCTC
*
97995714 CTCTTCTTTTTCTTCTC
1 CTCTTATTTTTCTTCTC
97995731 TGATTCTTCT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.06, C:0.31, G:0.00, T:0.63
Consensus pattern (17 bp):
CTCTTATTTTTCTTCTC
Found at i:97995737 original size:28 final size:27
Alignment explanation
Indices: 97995706--97995758 Score: 79
Period size: 28 Copynumber: 1.9 Consensus size: 27
97995696 CTCTTAATTT
*
97995706 TTCTTCTCCTCTTCTTTTTCTTCTCTGA
1 TTCTTCTCCTATTCTTTTT-TTCTCTGA
*
97995734 TTCTTCTCTTATTCTTTTTTTCTCT
1 TTCTTCTCCTATTCTTTTTTTCTCT
97995759 TCTTCTACTG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 6 0.26
28 17 0.74
ACGTcount: A:0.04, C:0.28, G:0.02, T:0.66
Consensus pattern (27 bp):
TTCTTCTCCTATTCTTTTTTTCTCTGA
Found at i:97996964 original size:121 final size:126
Alignment explanation
Indices: 97996699--97996925 Score: 329
Period size: 121 Copynumber: 1.8 Consensus size: 126
97996689 ATGGGGTTGG
* * *
97996699 ATATAATGATAATAATAATATTAAAGTAAAGTAAATAATAATACTATATATAAATATATATATGT
1 ATATAATGATAATATTAATATTAAAGTAAAGTAAAAAACAATACTATATATAAATATATATA-GT
* *
97996764 ATATAATAGAAATACACACTACTATATAATAATAATAATAAATATAGAAATACAAAAAGCAA
65 ATATAATAAAAATACACACTAATATATAATAATAATAATAAATATAGAAATACAAAAAGCAA
* *
97996826 ATATAATAAAAATATTAA-ATTAAAGT-AA-TAAAAAACAATACTATATATAAATATATATA-TA
1 ATATAATGATAATATTAATATTAAAGTAAAGTAAAAAACAATACTATATATAAATATATATAGTA
* *
97996887 TA-CATAAAAATATACACTAATATATAATAATAATAATAA
66 TATAATAAAAATACACACTAATATATAATAATAATAATAA
97996926 TAGTAATAGC
Statistics
Matches: 91, Mismatches: 9, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
121 33 0.36
122 4 0.04
124 29 0.32
125 2 0.02
126 8 0.09
127 15 0.16
ACGTcount: A:0.60, C:0.05, G:0.04, T:0.31
Consensus pattern (126 bp):
ATATAATGATAATATTAATATTAAAGTAAAGTAAAAAACAATACTATATATAAATATATATAGTA
TATAATAAAAATACACACTAATATATAATAATAATAATAAATATAGAAATACAAAAAGCAA
Found at i:97997141 original size:3 final size:3
Alignment explanation
Indices: 97997128--97997207 Score: 53
Period size: 3 Copynumber: 26.3 Consensus size: 3
97997118 GAGGGCATAT
97997128 ATA AT- ATA ATA AT- ATAA ATA ATA ATA TATA CATGA GA-A ATA ATA
1 ATA ATA ATA ATA ATA AT-A ATA ATA ATA -ATA -AT-A -ATA ATA ATA
* *
97997172 ATA ATA AT- ATAA ATA ATA GTA AAA ATA ATA A-A ATA A
1 ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA A
97997208 AAAAAATAAA
Statistics
Matches: 62, Mismatches: 6, Indels: 18
0.72 0.07 0.21
Matches are distributed among these distances:
2 9 0.15
3 42 0.68
4 9 0.15
5 2 0.03
ACGTcount: A:0.65, C:0.01, G:0.04, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:97997150 original size:12 final size:12
Alignment explanation
Indices: 97997126--97997208 Score: 71
Period size: 12 Copynumber: 6.6 Consensus size: 12
97997116 GAGAGGGCAT
97997126 ATATAATATAATA
1 ATATAA-ATAATA
97997139 ATATAAATAATA
1 ATATAAATAATA
97997151 ATATATACATGAGA-A
1 ATATA-A-AT-A-ATA
97997166 ATA-ATAATAATA
1 ATATA-AATAATA
97997178 ATATAAATAATA
1 ATATAAATAATA
* *
97997190 GTAAAAATAATA
1 ATATAAATAATA
*
97997202 AAATAAA
1 ATATAAA
97997209 AAAAATAAAA
Statistics
Matches: 59, Mismatches: 5, Indels: 13
0.77 0.06 0.17
Matches are distributed among these distances:
11 1 0.02
12 37 0.63
13 10 0.17
14 5 0.08
15 5 0.08
16 1 0.02
ACGTcount: A:0.65, C:0.01, G:0.04, T:0.30
Consensus pattern (12 bp):
ATATAAATAATA
Found at i:97997169 original size:21 final size:18
Alignment explanation
Indices: 97997128--97997189 Score: 72
Period size: 18 Copynumber: 3.3 Consensus size: 18
97997118 GAGGGCATAT
*
97997128 ATAAT-ATAATAATATAA
1 ATAATAATAATAATAGAA
97997145 ATAATAATATATACATGAGAA
1 ATAATAATA-ATA-AT-AGAA
*
97997166 ATAATAATAATAATATAA
1 ATAATAATAATAATAGAA
97997184 ATAATA
1 ATAATA
97997190 GTAAAAATAA
Statistics
Matches: 39, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
17 5 0.13
18 12 0.31
19 5 0.13
20 5 0.13
21 12 0.31
ACGTcount: A:0.63, C:0.02, G:0.03, T:0.32
Consensus pattern (18 bp):
ATAATAATAATAATAGAA
Found at i:97997198 original size:27 final size:27
Alignment explanation
Indices: 97997126--97997215 Score: 73
Period size: 27 Copynumber: 3.4 Consensus size: 27
97997116 GAGAGGGCAT
* *
97997126 ATATAATATAATAATATAAATAATAAT-
1 ATATAA-ATAATAGTAAAAATAATAATA
* *
97997153 ATATACAT--GAG-AAATAATAATAATA
1 ATATAAATAATAGTAAA-AATAATAATA
97997178 ATATAAATAATAGTAAAAATAATAA-A
1 ATATAAATAATAGTAAAAATAATAATA
* *
97997204 ATAAAAAAAATA
1 ATATAAATAATA
97997216 AAACAAAGCT
Statistics
Matches: 50, Mismatches: 8, Indels: 11
0.72 0.12 0.16
Matches are distributed among these distances:
23 2 0.04
24 10 0.20
25 7 0.14
26 13 0.26
27 15 0.30
28 3 0.06
ACGTcount: A:0.67, C:0.01, G:0.03, T:0.29
Consensus pattern (27 bp):
ATATAAATAATAGTAAAAATAATAATA
Found at i:97997617 original size:13 final size:12
Alignment explanation
Indices: 97997601--97997667 Score: 59
Period size: 13 Copynumber: 5.5 Consensus size: 12
97997591 TTTTAATGGA
97997601 GTGGTTTAGTAGG
1 GTGGTTTAGT-GG
97997614 GTGG-TT-G-GG
1 GTGGTTTAGTGG
97997623 GTGGTTTAGTGG
1 GTGGTTTAGTGG
**
97997635 AGTGGTTTAGTATA
1 -GTGGTTTAGT-GG
97997649 GTGGTTTAGTGG
1 GTGGTTTAGTGG
97997661 AGTGGTT
1 -GTGGTT
97997668 AGAGTGGTTT
Statistics
Matches: 44, Mismatches: 4, Indels: 12
0.73 0.07 0.20
Matches are distributed among these distances:
9 6 0.14
10 2 0.05
11 2 0.05
12 4 0.09
13 30 0.68
ACGTcount: A:0.13, C:0.00, G:0.46, T:0.40
Consensus pattern (12 bp):
GTGGTTTAGTGG
Found at i:97997688 original size:31 final size:31
Alignment explanation
Indices: 97997648--97997725 Score: 104
Period size: 31 Copynumber: 2.5 Consensus size: 31
97997638 GGTTTAGTAT
*
97997648 AGTGGTTTAGTGGAGTGGTT-AGAGTGGTTTG
1 AGTGGTTTAGTGGAGTGGTTGA-AGTGGTTGG
* * *
97997679 AGTGATTTAGTAGAGTTGTTGAAGTGGTTGG
1 AGTGGTTTAGTGGAGTGGTTGAAGTGGTTGG
97997710 AGTGGTTTAGTGGAGT
1 AGTGGTTTAGTGGAGT
97997726 AAAGATATTT
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
31 39 0.98
32 1 0.03
ACGTcount: A:0.19, C:0.00, G:0.42, T:0.38
Consensus pattern (31 bp):
AGTGGTTTAGTGGAGTGGTTGAAGTGGTTGG
Found at i:98001031 original size:49 final size:49
Alignment explanation
Indices: 98000954--98001051 Score: 187
Period size: 49 Copynumber: 2.0 Consensus size: 49
98000944 TGTTTCTGCT
*
98000954 TAGTGCTCGGATCTGAACAAACATCAACATTAGGAAGCAAGAACAAGTA
1 TAGTGCTCGGATCTGAACAAACAACAACATTAGGAAGCAAGAACAAGTA
98001003 TAGTGCTCGGATCTGAACAAACAACAACATTAGGAAGCAAGAACAAGTA
1 TAGTGCTCGGATCTGAACAAACAACAACATTAGGAAGCAAGAACAAGTA
98001052 CTACATGATA
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 48 1.00
ACGTcount: A:0.44, C:0.18, G:0.20, T:0.17
Consensus pattern (49 bp):
TAGTGCTCGGATCTGAACAAACAACAACATTAGGAAGCAAGAACAAGTA
Done.