Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01011772.1 Corchorus olitorius cultivar O-4 contig11805, whole genome shotgun sequence
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: 2434
ACGTcount: A:0.21, C:0.19, G:0.19, T:0.41
Found at i:527 original size:154 final size:154
Alignment explanation
Indices: 4--731 Score: 1208
Period size: 154 Copynumber: 4.7 Consensus size: 154
1 TTA
* ** * *
4 GGCCTTTCGGGGCCCATTAGTTCCGTTTTGAATCGTCTTCGATTTGGCAACCCTCGATGCTTTTC
1 GGCCTATCGGGGCCCATTAGTGACGTTTTGAATCGTCTTCGATTTGGCAAACCTCAATGCTTTTC
* * *
69 TTTCCATTGTTTATGGGCTAACTATAATCATTTTGCTAAGATTAGTCCACTGTGAAGTTTTTAAC
66 TTTCCATTGTTTATGGCCTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAAC
134 TCATTTGGAACACTTGTTATTTTG
131 TCATTTGGAACACTTGTTATTTTG
*
158 GGCCTATCGGGGCCCATTAGTGACGTTTTGAATCGTCTTCGATTTGGCAAACCTCAATGCTTTTT
1 GGCCTATCGGGGCCCATTAGTGACGTTTTGAATCGTCTTCGATTTGGCAAACCTCAATGCTTTTC
* *
223 TTTCGATTGTTTATGGCCTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAG-TTTTAGC
66 TTTCCATTGTTTATGGCCTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAAC
* *
287 TCATTTGAAACACCTT-TTATTATG
131 TCATTTGGAACA-CTTGTTATTTTG
*
311 GGCCTATCGGGGCCCATTAGTGACGTTTTGAATCGTCTTCGATTTGGCAAACCTCAATGCTTTTG
1 GGCCTATCGGGGCCCATTAGTGACGTTTTGAATCGTCTTCGATTTGGCAAACCTCAATGCTTTTC
*
376 TTTCCATTGTTTATGGCCTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAGC
66 TTTCCATTGTTTATGGCCTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAAC
*
441 TCATTTGGAACACTTGTTATTTTA
131 TCATTTGGAACACTTGTTATTTTG
* ** * *
465 GGCCTTTCGGGGCCCATTAGTTCCGTTTTGAATCGTCTTCGATTTGGCAACCCTCGATGCTTTTC
1 GGCCTATCGGGGCCCATTAGTGACGTTTTGAATCGTCTTCGATTTGGCAAACCTCAATGCTTTTC
* *
530 TTTCCATTGTTTATGGGCTAACTATAATCATTTTGGCTAAGATTAGTCCACTGTGAAGTTTTTAA
66 TTTCCATTGTTTATGGCCTAACTATAATCATTTTGG-TGAGATTAGTCCACTGTGAAGTTTTTAA
595 CTCATTTGGAACACTTGTTATTTTG
130 CTCATTTGGAACACTTGTTATTTTG
620 GGCCTATCGGGGCCCATTAGTGACGTTTTGAATCGTCTTCGATTTGGCAAACCTCAATGCTTTTC
1 GGCCTATCGGGGCCCATTAGTGACGTTTTGAATCGTCTTCGATTTGGCAAACCTCAATGCTTTTC
*
685 TTTCCATTGTTTATGGCCTTACTATAATCATTTTGGTGAGATTAGTC
66 TTTCCATTGTTTATGGCCTAACTATAATCATTTTGGTGAGATTAGTC
732 GACTATGGCC
Statistics
Matches: 534, Mismatches: 36, Indels: 8
0.92 0.06 0.01
Matches are distributed among these distances:
153 147 0.28
154 243 0.46
155 144 0.27
ACGTcount: A:0.20, C:0.19, G:0.20, T:0.41
Consensus pattern (154 bp):
GGCCTATCGGGGCCCATTAGTGACGTTTTGAATCGTCTTCGATTTGGCAAACCTCAATGCTTTTC
TTTCCATTGTTTATGGCCTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAAC
TCATTTGGAACACTTGTTATTTTG
Found at i:564 original size:307 final size:309
Alignment explanation
Indices: 4--731 Score: 1210
Period size: 307 Copynumber: 2.4 Consensus size: 309
1 TTA
* ** * *
4 GGCCTTTCGGGGCCCATTAGTTCCGTTTTGAATCGTCTTCGATTTGGCAACCCTCGATGCTTTTC
1 GGCCTATCGGGGCCCATTAGTGACGTTTTGAATCGTCTTCGATTTGGCAAACCTCAATGCTTTTC
* * *
69 TTTCCATTGTTTATGGGCTAACTATAATCATTTTGCTAAGATTAGTCCACTGTGAAGTTTTTAAC
66 TTTCCATTGTTTATGGCCTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAAC
*
134 TCATTTGGAACACTTGTTATTTTGGGCCTATCGGGGCCCATTAGTGACGTTTTGAATCGTCTTCG
131 TCATTTGGAACACTTGTTATTTTAGGCCTATCGGGGCCCATTAGTGACGTTTTGAATCGTCTTCG
* * *
199 ATTTGGCAAACCTCAATGCTTTTTTTTCGATTGTTTATGGCCTAACTATAATCATTTTGG-TGAG
196 ATTTGGCAAACCTCAATGCTTTTCTTTCCATTGTTTATGGCCTAACTATAATCATTTTGGCTAAG
*
263 ATTAGTCCACTGTGAAG-TTTTAGCTCATTTGAAACACCTT-TTATTATG
261 ATTAGTCCACTGTGAAGTTTTTAACTCATTTGAAACA-CTTGTTATTATG
*
311 GGCCTATCGGGGCCCATTAGTGACGTTTTGAATCGTCTTCGATTTGGCAAACCTCAATGCTTTTG
1 GGCCTATCGGGGCCCATTAGTGACGTTTTGAATCGTCTTCGATTTGGCAAACCTCAATGCTTTTC
*
376 TTTCCATTGTTTATGGCCTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAGC
66 TTTCCATTGTTTATGGCCTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAAC
* **
441 TCATTTGGAACACTTGTTATTTTAGGCCTTTCGGGGCCCATTAGTTCCGTTTTGAATCGTCTTCG
131 TCATTTGGAACACTTGTTATTTTAGGCCTATCGGGGCCCATTAGTGACGTTTTGAATCGTCTTCG
* * *
506 ATTTGGCAACCCTCGATGCTTTTCTTTCCATTGTTTATGGGCTAACTATAATCATTTTGGCTAAG
196 ATTTGGCAAACCTCAATGCTTTTCTTTCCATTGTTTATGGCCTAACTATAATCATTTTGGCTAAG
* *
571 ATTAGTCCACTGTGAAGTTTTTAACTCATTTGGAACACTTGTTATTTTG
261 ATTAGTCCACTGTGAAGTTTTTAACTCATTTGAAACACTTGTTATTATG
620 GGCCTATCGGGGCCCATTAGTGACGTTTTGAATCGTCTTCGATTTGGCAAACCTCAATGCTTTTC
1 GGCCTATCGGGGCCCATTAGTGACGTTTTGAATCGTCTTCGATTTGGCAAACCTCAATGCTTTTC
*
685 TTTCCATTGTTTATGGCCTTACTATAATCATTTTGGTGAGATTAGTC
66 TTTCCATTGTTTATGGCCTAACTATAATCATTTTGGTGAGATTAGTC
732 GACTATGGCC
Statistics
Matches: 393, Mismatches: 25, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
307 236 0.60
308 23 0.06
309 134 0.34
ACGTcount: A:0.20, C:0.19, G:0.20, T:0.41
Consensus pattern (309 bp):
GGCCTATCGGGGCCCATTAGTGACGTTTTGAATCGTCTTCGATTTGGCAAACCTCAATGCTTTTC
TTTCCATTGTTTATGGCCTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAAC
TCATTTGGAACACTTGTTATTTTAGGCCTATCGGGGCCCATTAGTGACGTTTTGAATCGTCTTCG
ATTTGGCAAACCTCAATGCTTTTCTTTCCATTGTTTATGGCCTAACTATAATCATTTTGGCTAAG
ATTAGTCCACTGTGAAGTTTTTAACTCATTTGAAACACTTGTTATTATG
Found at i:753 original size:39 final size:39
Alignment explanation
Indices: 696--777 Score: 146
Period size: 39 Copynumber: 2.1 Consensus size: 39
686 TTCCATTGTT
* *
696 TATGGCCTTACTATAATCATTTTGGTGAGATTAGTCGAC
1 TATGGCCTAACTACAATCATTTTGGTGAGATTAGTCGAC
735 TATGGCCTAACTACAATCATTTTGGTGAGATTAGTCGAC
1 TATGGCCTAACTACAATCATTTTGGTGAGATTAGTCGAC
774 TATG
1 TATG
778 AAGATTTTAG
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.27, C:0.16, G:0.21, T:0.37
Consensus pattern (39 bp):
TATGGCCTAACTACAATCATTTTGGTGAGATTAGTCGAC
Found at i:924 original size:191 final size:194
Alignment explanation
Indices: 541--926 Score: 616
Period size: 193 Copynumber: 2.0 Consensus size: 194
531 TTCCATTGTT
* * * * *
541 TATGGGCTAACTATAATCATTTTGGCTAAGATTAGTCCACTGTGAAGTTTTTAACTCATTTGGAA
1 TATGGCCTAACTACAATCATTTTGGCTAAGATTAGTCCACTATGAAGATTTTAACTCATTTGCAA
*
606 CACTTGTTATTTTGGGCCTATCGGGGCCCATTAGTGACGTTTTGAATCGTCTTCGATTTGGCAAA
66 CACTTATTATTTTGGGCCTATCGGGGCCCATTAGTGACGTTTTGAATCGTCTTCGATTTGGCAAA
* *
671 CCTCAATGCTTTTCTTTCCATTGTTTATGGCCTTACTATAATCATTTTGGTGAGATTAGTCGAC
131 ACTCAATGCTTTTCTTTCCATTGTTTATGGCCTAACTATAATCATTTTGGTGAGATTAGTCGAC
* * **
735 TATGGCCTAACTACAATCATTTTGG-TGAGATTAGTCGACTATGAAGATTTTAGTTCATTTGCAA
1 TATGGCCTAACTACAATCATTTTGGCTAAGATTAGTCCACTATGAAGATTTTAACTCATTTGCAA
** *
799 CACTTATTATTTTGGGCCTATCGGGGCCCATTAGTTCCG-TTTGAATTGTCTTCGATTTGGCAAA
66 CACTTATTATTTTGGGCCTATCGGGGCCCATTAGTGACGTTTTGAATCGTCTTCGATTTGGCAAA
863 ACTCAATGC-TTTCTTTCCATTGTTTATGGCCTAACTATAATCATTTTGGTGAGATTAGTCGAC
131 ACTCAATGCTTTTCTTTCCATTGTTTATGGCCTAACTATAATCATTTTGGTGAGATTAGTCGAC
926 T
1 T
927 GTGAAGTTTT
Statistics
Matches: 177, Mismatches: 15, Indels: 3
0.91 0.08 0.02
Matches are distributed among these distances:
191 54 0.31
192 32 0.18
193 68 0.38
194 23 0.13
ACGTcount: A:0.23, C:0.18, G:0.19, T:0.40
Consensus pattern (194 bp):
TATGGCCTAACTACAATCATTTTGGCTAAGATTAGTCCACTATGAAGATTTTAACTCATTTGCAA
CACTTATTATTTTGGGCCTATCGGGGCCCATTAGTGACGTTTTGAATCGTCTTCGATTTGGCAAA
ACTCAATGCTTTTCTTTCCATTGTTTATGGCCTAACTATAATCATTTTGGTGAGATTAGTCGAC
Found at i:1043 original size:347 final size:348
Alignment explanation
Indices: 387--1082 Score: 1121
Period size: 347 Copynumber: 2.0 Consensus size: 348
377 TTCCATTGTT
* * * *
387 TATGGCCTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAGCTCATTTGGAAC
1 TATGGCCTAACTACAATCATTTTGGTGAGATTAGTCCACTATGAAGATTTTAGCTCATTTGCAAC
* * **
452 ACTTGTTATTTTAGGCCTTTCGGGGCCCATTAGTTCCGTTTTGAATCGTCTTCGATTTGGCAACC
66 ACTTATTATTTTAGGCCTATCGGGGCCCATTAGTTCCGTTTTGAATCGTCTTCGATTTGGCAAAA
* *
517 CTCGATGCTTTTCTTTCCATTGTTTATGGGCTAACTATAATCATTTTGGCTAAGATTAGTCCACT
131 CTCAATGCTTTTCTTTCCATTGTTTATGGCCTAACTATAATCATTTTGGCTAAGATTAGTCCACT
*
582 GTGAAGTTTTTAACTCATTTGGAACACTTGTTATTTTGGGCCTATCGGGGCCCATTAGTGACGTT
196 GTGAAGTTTTTAACTCATTTGGAACACTTGTTATTTTGGACCTATCGGGGCCCATTAGTGACGTT
* * *
647 TTGAATCGTCTTCGATTTGGCAAACCTCAATGCTTTTCTTTCCATTGTTTATGGCCTTACTATAA
261 TGGAATCGTCTTCGATTTGGCAAACCTCAATGCTTTTCTTTCAATTGTTTATGGCCTAACTATAA
712 TCATTTTGGTGAGATTAGTCGAC
326 TCATTTTGGTGAGATTAGTCGAC
* *
735 TATGGCCTAACTACAATCATTTTGGTGAGATTAGTCGACTATGAAGATTTTAGTTCATTTGCAAC
1 TATGGCCTAACTACAATCATTTTGGTGAGATTAGTCCACTATGAAGATTTTAGCTCATTTGCAAC
* *
800 ACTTATTATTTTGGGCCTATCGGGGCCCATTAGTTCCG-TTTGAATTGTCTTCGATTTGGCAAAA
66 ACTTATTATTTTAGGCCTATCGGGGCCCATTAGTTCCGTTTTGAATCGTCTTCGATTTGGCAAAA
* *
864 CTCAATGC-TTTCTTTCCATTGTTTATGGCCTAACTATAATCATTTTGG-TGAGATTAGTCGACT
131 CTCAATGCTTTTCTTTCCATTGTTTATGGCCTAACTATAATCATTTTGGCTAAGATTAGTCCACT
* **
927 GTGAAGTTTTTAGCTCATTTGGAACACTTGTTTAGTTTTGGACCTATCGGGGCCCATTAGTTCCG
196 GTGAAGTTTTTAACTCATTTGGAACACTTG-TTA-TTTTGGACCTATCGGGGCCCATTAGTGACG
*
992 -TTGGAATCGTCTTCGGATTTGGCAAACTTCAATGCTTTTCTTTCAATTGTTTATGGCCTAACTA
259 TTTGGAATCGTCTTC-GATTTGGCAAACCTCAATGCTTTTCTTTCAATTGTTTATGGCCTAACTA
1056 TAATCATTTTGGTGAGATTAGTCGAC
323 TAATCATTTTGGTGAGATTAGTCGAC
1082 T
1 T
1083 GTGATTGTTT
Statistics
Matches: 321, Mismatches: 24, Indels: 7
0.91 0.07 0.02
Matches are distributed among these distances:
345 42 0.13
346 55 0.17
347 130 0.40
348 94 0.29
ACGTcount: A:0.22, C:0.18, G:0.20, T:0.40
Consensus pattern (348 bp):
TATGGCCTAACTACAATCATTTTGGTGAGATTAGTCCACTATGAAGATTTTAGCTCATTTGCAAC
ACTTATTATTTTAGGCCTATCGGGGCCCATTAGTTCCGTTTTGAATCGTCTTCGATTTGGCAAAA
CTCAATGCTTTTCTTTCCATTGTTTATGGCCTAACTATAATCATTTTGGCTAAGATTAGTCCACT
GTGAAGTTTTTAACTCATTTGGAACACTTGTTATTTTGGACCTATCGGGGCCCATTAGTGACGTT
TGGAATCGTCTTCGATTTGGCAAACCTCAATGCTTTTCTTTCAATTGTTTATGGCCTAACTATAA
TCATTTTGGTGAGATTAGTCGAC
Found at i:1353 original size:154 final size:154
Alignment explanation
Indices: 735--2434 Score: 2507
Period size: 154 Copynumber: 11.0 Consensus size: 154
725 ATTAGTCGAC
* * * * * *
735 TATGGCCTAACTACAATCATTTTGGTGAGATTAGTCGACTATGAAGATTTTAGTTCATTTGCAAC
1 TATGGCCTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAGCTCATTTGGAAC
* * **
800 ACTTATTATTTTGGGCCTATCGGGGCCCATTAGTTCCG-TTTGAATTGTCTTCGATTTGGCAAAA
66 ACTTGTTATTTTGGGCCTATCGGGGCCCATTAGTTCCGTTTTGAATCGTCTTCGATTTGGCAACC
864 CTCAATGC-TTTCTTTCCATTGTT
131 CTCAATGCTTTTCTTTCCATTGTT
*
887 TATGGCCTAACTATAATCATTTTGGTGAGATTAGTCGACTGTGAAGTTTTTAGCTCATTTGGAAC
1 TATGGCCTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAGCTCATTTGGAAC
* *
952 ACTTGTTTAGTTTTGGACCTATCGGGGCCCATTAGTTCCG-TTGGAATCGTCTTCGGATTTGGCA
66 ACTTG-TTA-TTTTGGGCCTATCGGGGCCCATTAGTTCCGTTTTGAATCGTCTTC-GATTTGGCA
* * *
1016 AACTTCAATGCTTTTCTTTCAATTGTT
128 ACCCTCAATGCTTTTCTTTCCATTGTT
* *
1043 TATGGCCTAACTATAATCATTTTGGTGAGATTAGTCGACTGTG-ATTGTTTTAGCTCATTTAGGA
1 TATGGCCTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGT-TTTTAGCTCATTT-GGA
* * *
1107 ACACTTGTTATTTTGGGCAGTATCGAGGACCATTAGTTCCGTTTTGAATCGTCTTCGATTTGGCA
64 ACACTTGTTATTTTGGGC-CTATCGGGGCCCATTAGTTCCGTTTTGAATCGTCTTCGATTTGGCA
*
1172 ACCCTCAATGCTTTTCGTTCCATTGTT
128 ACCCTCAATGCTTTTCTTTCCATTGTT
1199 TATGGCCTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAGCTCATTTGGAAC
1 TATGGCCTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAGCTCATTTGGAAC
* ** * * *
1264 ACTTGTTATTTTGGGCATATCAAGGACCATTAGTTCCATTTTGAATCGTCTTCGATTTGCCAACC
66 ACTTGTTATTTTGGGCCTATCGGGGCCCATTAGTTCCGTTTTGAATCGTCTTCGATTTGGCAACC
* *
1329 CTCAGTGCTTTTCTTTCCAATGTT
131 CTCAATGCTTTTCTTTCCATTGTT
*
1353 TATGGCCTAACTATAATCATTTTGGTGAGATTAGTCGACTGTGAAGTTTTTAGCTCATTTGGAAC
1 TATGGCCTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAGCTCATTTGGAAC
* *
1418 ACTTGTTATTTTGGGCATATCGAGG-CCATTAGTTCCGTTTTGAATCGTCTTCGATTTGGCAACC
66 ACTTGTTATTTTGGGCCTATCGGGGCCCATTAGTTCCGTTTTGAATCGTCTTCGATTTGGCAACC
* *
1482 TTCCAATGC-TTTCGTTCCATTGTT
131 CT-CAATGCTTTTCTTTCCATTGTT
* * * * * *
1506 TATGGCCTAACTATAATCATTTTGGTGAGATTAGTCCACTGTCAATTTTTTGGTTCATTAGAAAC
1 TATGGCCTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAGCTCATTTGGAAC
* * * ** *
1571 ACTTTTTATTTTGGGCCTATAGGGGTCCATTAGTGACGTTTTGAATCATCTTCGATTTGGCAACC
66 ACTTGTTATTTTGGGCCTATCGGGGCCCATTAGTTCCGTTTTGAATCGTCTTCGATTTGGCAACC
* * *
1636 ATCAATGCTTTTTTTTCCAATGTT
131 CTCAATGCTTTTCTTTCCATTGTT
* * * *
1660 TATGGCCTAACTATAATCAGTTTGGTAAGATTAGTCCACTTTGACGTTTTTAGCTCATTTGGAAC
1 TATGGCCTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAGCTCATTTGGAAC
*
1725 ACTTGTTATTTTGGGCCTATCGGGGCCCATTAGGTCCGTTTTGAATCGTCTTCGATTTGGCAACC
66 ACTTGTTATTTTGGGCCTATCGGGGCCCATTAGTTCCGTTTTGAATCGTCTTCGATTTGGCAACC
* *
1790 CTCATTGCTTTTCTTTCCAATGTT
131 CTCAATGCTTTTCTTTCCATTGTT
* * * * *
1814 TATAGCCTAACTATAATCATTTTGGTAAGATTAGTCCACTTTGATGTTTTTAGCTCCTTTGGAAC
1 TATGGCCTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAGCTCATTTGGAAC
1879 ACTTGTTATTTTGGGCCTATCGGGGCCCATTAGTTCCGTTTTGAATCGTCTTCGATTTGGCAACC
66 ACTTGTTATTTTGGGCCTATCGGGGCCCATTAGTTCCGTTTTGAATCGTCTTCGATTTGGCAACC
* * *
1944 CTCAATGCATTTCTTTCCAATGCT
131 CTCAATGCTTTTCTTTCCATTGTT
*
1968 TATGGCCTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGATGTTTTTAGCTCATTTGGAAC
1 TATGGCCTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAGCTCATTTGGAAC
* *
2033 ACTTGTTATTTTGGGCATATCGAGG-CCATTAGTTCCGTTTTGAATCGTCTTCGATTTGGCAACC
66 ACTTGTTATTTTGGGCCTATCGGGGCCCATTAGTTCCGTTTTGAATCGTCTTCGATTTGGCAACC
* *
2097 TTCAATGCTTTTCGTTCCATTGTT
131 CTCAATGCTTTTCTTTCCATTGTT
* * * * *
2121 TATGGCCTAACTATAATCATTTTGGTGAGATTAGTCCACTGTCAATTTTTTGGTTCATTAGGAAC
1 TATGGCCTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAGCTCATTTGGAAC
* * * *
2186 ACTTTTTATTTTGGGTCTATCGGGGCCCATTAGTGACC-TTTTGAATCATCTTCGATTTGGCAAC
66 ACTTGTTATTTTGGGCCTATCGGGGCCCATTAGT-TCCGTTTTGAATCGTCTTCGATTTGGCAAC
*
2250 CCTCAATGCTTTTCATTCCATTGTT
130 CCTCAATGCTTTTCTTTCCATTGTT
*
2275 TATGGCCTAACTATAATCATTTTGGTGAGATTAGTCCACTTTGAAGTTTTTAGCTCATTTGGAAC
1 TATGGCCTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAGCTCATTTGGAAC
* *
2340 CCTTGTTATTTTGGGCCTATCGGGGCCCATTAGGTCCGTTTTGAATCGTCTTCGATTTGGCAACC
66 ACTTGTTATTTTGGGCCTATCGGGGCCCATTAGTTCCGTTTTGAATCGTCTTCGATTTGGCAACC
* *
2405 CTCATTGCTTTTCGTTCCATTGTT
131 CTCAATGCTTTTCTTTCCATTGTT
2429 TATGGC
1 TATGGC
Statistics
Matches: 1409, Mismatches: 124, Indels: 28
0.90 0.08 0.02
Matches are distributed among these distances:
152 64 0.05
153 279 0.20
154 812 0.58
155 50 0.04
156 179 0.13
157 25 0.02
ACGTcount: A:0.21, C:0.19, G:0.19, T:0.41
Consensus pattern (154 bp):
TATGGCCTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAGCTCATTTGGAAC
ACTTGTTATTTTGGGCCTATCGGGGCCCATTAGTTCCGTTTTGAATCGTCTTCGATTTGGCAACC
CTCAATGCTTTTCTTTCCATTGTT
Found at i:1711 original size:461 final size:459
Alignment explanation
Indices: 735--2434 Score: 2553
Period size: 461 Copynumber: 3.7 Consensus size: 459
725 ATTAGTCGAC
* * * * * *
735 TATGGCCTAACTACAATCATTTTGGTGAGATTAGTCGACTATGAAGATTTTAGTTCATTTGCAAC
1 TATGGCCTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAGCTCATTTGGAAC
* * * **
800 ACTTATTATTTTGGGCCTATCGGGGCCCATTAGTTCCGTTTGAATTGTCTTCGATTTGGCAAAAC
66 ACTTGTTATTTTGGGCCTATCGGGGCCCATTAGTTCCTTTTGAATCGTCTTCGATTTGGCAACCC
* *
865 TCAATGC-TTTCTTTCCATTGTTTATGGCCTAACTATAATCATTTTGGTGAGATTAGTCGACTGT
131 TCAATGCTTTTCTTTCCAATGTTTATGGCCTAACTATAATCATTTTGGTGAGATTAGTCCACTGT
*
929 GAAGTTTTTAGCTCATTTGGAACACTTGTTTAGTTTTGGACCTATCGGGGCCCATTAGTTCCG-T
196 GAAGTTTTTAGCTCATTTGGAACACTTG-TTA-TTTTGGGCCTATCGGGGCCCATTAGTTCCGTT
* * * * *
993 TGGAATCGTCTTCGGATTTGGCAAACTTCAATGCTTTTCTTTCAATTGTTTATGGCCTAACTATA
259 TTGAATCGTCTTC-GATTTGGCAACCCTCAATGCTTTTCGTTCCATTGTTTATGGCCTAACTATA
*
1058 ATCATTTTGGTGAGATTAGTCGACTGTGATTGTTTTAGCTCATTTAGGAACACTTGTTATTTTGG
323 ATCATTTTGGTGAGATTAGTCCACTGTGATT-TTTTAGCTCA-TTAGGAACACTTGTTATTTTGG
*
1123 GCAGTATCGAGGACCATTAGTTCCGTTTTGAATCGTCTTCGATTTGGCAACCCTCAATGCTTTTC
386 GCA-TATCGAGG-CCATTAGTTCCGTTTTGAATCGTCTTCGATTTGGCAACCATCAATGCTTTTC
1188 GTTCCATTGTT
449 GTTCCATTGTT
1199 TATGGCCTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAGCTCATTTGGAAC
1 TATGGCCTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAGCTCATTTGGAAC
* ** * *
1264 ACTTGTTATTTTGGGCATATCAAGGACCATTAGTTCCATTTTGAATCGTCTTCGATTTGCCAACC
66 ACTTGTTATTTTGGGCCTATCGGGGCCCATTAGTTCC-TTTTGAATCGTCTTCGATTTGGCAACC
* *
1329 CTCAGTGCTTTTCTTTCCAATGTTTATGGCCTAACTATAATCATTTTGGTGAGATTAGTCGACTG
130 CTCAATGCTTTTCTTTCCAATGTTTATGGCCTAACTATAATCATTTTGGTGAGATTAGTCCACTG
* *
1394 TGAAGTTTTTAGCTCATTTGGAACACTTGTTATTTTGGGCATATCGAGG-CCATTAGTTCCGTTT
195 TGAAGTTTTTAGCTCATTTGGAACACTTGTTATTTTGGGCCTATCGGGGCCCATTAGTTCCGTTT
*
1458 TGAATCGTCTTCGATTTGGCAACCTTCCAATGC-TTTCGTTCCATTGTTTATGGCCTAACTATAA
260 TGAATCGTCTTCGATTTGGCAACCCT-CAATGCTTTTCGTTCCATTGTTTATGGCCTAACTATAA
* * * * *
1522 TCATTTTGGTGAGATTAGTCCACTGTCAATTTTTTGGTTCATTAGAAACACTTTTTATTTTGGGC
324 TCATTTTGGTGAGATTAGTCCACTGT-GATTTTTTAGCTCATTAGGAACACTTGTTATTTTGGGC
* * * ** * **
1587 CTATAGGGGTCCATTAGTGACGTTTTGAATCATCTTCGATTTGGCAACCATCAATGCTTTTTTTT
388 ATATCGAGG-CCATTAGTTCCGTTTTGAATCGTCTTCGATTTGGCAACCATCAATGCTTTTCGTT
*
1652 CCAATGTT
452 CCATTGTT
* * * *
1660 TATGGCCTAACTATAATCAGTTTGGTAAGATTAGTCCACTTTGACGTTTTTAGCTCATTTGGAAC
1 TATGGCCTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAGCTCATTTGGAAC
*
1725 ACTTGTTATTTTGGGCCTATCGGGGCCCATTAGGTCCGTTTTGAATCGTCTTCGATTTGGCAACC
66 ACTTGTTATTTTGGGCCTATCGGGGCCCATTAGTTCC-TTTTGAATCGTCTTCGATTTGGCAACC
* * * *
1790 CTCATTGCTTTTCTTTCCAATGTTTATAGCCTAACTATAATCATTTTGGTAAGATTAGTCCACTT
130 CTCAATGCTTTTCTTTCCAATGTTTATGGCCTAACTATAATCATTTTGGTGAGATTAGTCCACTG
* *
1855 TGATGTTTTTAGCTCCTTTGGAACACTTGTTATTTTGGGCCTATCGGGGCCCATTAGTTCCGTTT
195 TGAAGTTTTTAGCTCATTTGGAACACTTGTTATTTTGGGCCTATCGGGGCCCATTAGTTCCGTTT
* * * *
1920 TGAATCGTCTTCGATTTGGCAACCCTCAATGCATTTCTTTCCAATGCTTATGGCCTAACTATAAT
260 TGAATCGTCTTCGATTTGGCAACCCTCAATGCTTTTCGTTCCATTGTTTATGGCCTAACTATAAT
*
1985 CATTTTGGTGAGATTAGTCCACTGTGATGTTTTTAGCTCATTTGGAACACTTGTTATTTTGGGCA
325 CATTTTGGTGAGATTAGTCCACTGTGAT-TTTTTAGCTCATTAGGAACACTTGTTATTTTGGGCA
*
2050 TATCGAGGCCATTAGTTCCGTTTTGAATCGTCTTCGATTTGGCAACCTTCAATGCTTTTCGTTCC
389 TATCGAGGCCATTAGTTCCGTTTTGAATCGTCTTCGATTTGGCAACCATCAATGCTTTTCGTTCC
2115 ATTGTT
454 ATTGTT
* * * * *
2121 TATGGCCTAACTATAATCATTTTGGTGAGATTAGTCCACTGTCAATTTTTTGGTTCATTAGGAAC
1 TATGGCCTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAGCTCATTTGGAAC
* * * *
2186 ACTTTTTATTTTGGGTCTATCGGGGCCCATTAGTGACCTTTTGAATCATCTTCGATTTGGCAACC
66 ACTTGTTATTTTGGGCCTATCGGGGCCCATTAGT-TCCTTTTGAATCGTCTTCGATTTGGCAACC
* * *
2251 CTCAATGCTTTTCATTCCATTGTTTATGGCCTAACTATAATCATTTTGGTGAGATTAGTCCACTT
130 CTCAATGCTTTTCTTTCCAATGTTTATGGCCTAACTATAATCATTTTGGTGAGATTAGTCCACTG
* *
2316 TGAAGTTTTTAGCTCATTTGGAACCCTTGTTATTTTGGGCCTATCGGGGCCCATTAGGTCCGTTT
195 TGAAGTTTTTAGCTCATTTGGAACACTTGTTATTTTGGGCCTATCGGGGCCCATTAGTTCCGTTT
*
2381 TGAATCGTCTTCGATTTGGCAACCCTCATTGCTTTTCGTTCCATTGTTTATGGC
260 TGAATCGTCTTCGATTTGGCAACCCTCAATGCTTTTCGTTCCATTGTTTATGGC
Statistics
Matches: 1117, Mismatches: 110, Indels: 21
0.90 0.09 0.02
Matches are distributed among these distances:
461 633 0.57
462 154 0.14
463 87 0.08
464 127 0.11
465 32 0.03
466 84 0.08
ACGTcount: A:0.21, C:0.19, G:0.19, T:0.41
Consensus pattern (459 bp):
TATGGCCTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAGCTCATTTGGAAC
ACTTGTTATTTTGGGCCTATCGGGGCCCATTAGTTCCTTTTGAATCGTCTTCGATTTGGCAACCC
TCAATGCTTTTCTTTCCAATGTTTATGGCCTAACTATAATCATTTTGGTGAGATTAGTCCACTGT
GAAGTTTTTAGCTCATTTGGAACACTTGTTATTTTGGGCCTATCGGGGCCCATTAGTTCCGTTTT
GAATCGTCTTCGATTTGGCAACCCTCAATGCTTTTCGTTCCATTGTTTATGGCCTAACTATAATC
ATTTTGGTGAGATTAGTCCACTGTGATTTTTTAGCTCATTAGGAACACTTGTTATTTTGGGCATA
TCGAGGCCATTAGTTCCGTTTTGAATCGTCTTCGATTTGGCAACCATCAATGCTTTTCGTTCCAT
TGTT
Done.